Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold45
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 47595
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Found at i:166 original size:11 final size:11
Alignment explanation
Indices: 130--169 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
120 AGAAGAGAAA
130 AGGAGGGGGAG
1 AGGAGGGGGAG
* * *
141 AGGATGGTGAA
1 AGGAGGGGGAG
152 AGGAGGGGGAG
1 AGGAGGGGGAG
163 AGGAGGG
1 AGGAGGG
170 AGTACGCGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.65, T:0.05
Consensus pattern (11 bp):
AGGAGGGGGAG
Left flanking sequence: Indices 1 -- 129
CGGCACCGGGAGGGTGTTGCTCTTGGTGTACCCCATTAGTGATGTGATGCCCGCGCGTAAACAAA
AATGGAGGGGGGGGGGAGGAGGGAGTGCGAGAGGAGAGAGGGGGAGGAGAAAAGAGAAGAGAAA
Right flanking sequence: Indices 170 -- 669
AGTACGCGGTGAGGAGGTTGGGAGTTAGGTGGTGGTTATGGCAATTGAGTTGGTGTGGGTGGTGT
GTGTGTTTGGGTGTGAGTTTTTCACTATGATCTGTGCGAGTGTAGTAGAGATGGAGGCACAGGAG
GGCATTGAAATGAGTAAGTGAGGTGTAGTTTGGTGTTAGAGGTGGTTTTGGATGTGGTGTTGGGT
GGTGTTGGGTGTTAGTTGGTGGTGTTGAGGTAGTGGTGAAATTTGTGTAAGATGGTTGACTGAGA
TTATGGTTGTTTCATGACACCATGATTCAATCACTACATCCGATAGGGTACACTGTTTATTAACC
GAAAGTAGACACAGGCCAACACGGACTGTGCCGTAAAATAACGTCACGTGTTTGTGACCTAGAAA
GGGTGGATCACCCACATCGCTTCAGCGCCGTAACGCACTGGTCAGCCTCAACCCACTGTATAAGC
TCAATTGATCAGACTTTGGTGTTTCAGAGTAGGACTTCCACACTC
Found at i:368 original size:10 final size:10
Alignment explanation
Indices: 330--391 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
320 AGGTGTAGTT
330 TGGTGTTAGAGG
1 TGGTGTT-G-GG
*
342 TGGTTTTGGATG
1 TGGTGTTGG--G
354 TGGTGTTGGG
1 TGGTGTTGGG
364 TGGTGTTGGG
1 TGGTGTTGGG
*
374 TGTTAGTT-GG
1 TGGT-GTTGGG
384 TGGTGTTG
1 TGGTGTTG
392 AGGTAGTGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 3 0.07
10 20 0.48
11 4 0.10
12 15 0.36
ACGTcount: A:0.06, C:0.00, G:0.50, T:0.44
Consensus pattern (10 bp):
TGGTGTTGGG
Left flanking sequence: Indices 1 -- 329
CGGCACCGGGAGGGTGTTGCTCTTGGTGTACCCCATTAGTGATGTGATGCCCGCGCGTAAACAAA
AATGGAGGGGGGGGGGAGGAGGGAGTGCGAGAGGAGAGAGGGGGAGGAGAAAAGAGAAGAGAAAA
GGAGGGGGAGAGGATGGTGAAAGGAGGGGGAGAGGAGGGAGTACGCGGTGAGGAGGTTGGGAGTT
AGGTGGTGGTTATGGCAATTGAGTTGGTGTGGGTGGTGTGTGTGTTTGGGTGTGAGTTTTTCACT
ATGATCTGTGCGAGTGTAGTAGAGATGGAGGCACAGGAGGGCATTGAAATGAGTAAGTGAGGTGT
AGTT
Right flanking sequence: Indices 392 -- 891
AGGTAGTGGTGAAATTTGTGTAAGATGGTTGACTGAGATTATGGTTGTTTCATGACACCATGATT
CAATCACTACATCCGATAGGGTACACTGTTTATTAACCGAAAGTAGACACAGGCCAACACGGACT
GTGCCGTAAAATAACGTCACGTGTTTGTGACCTAGAAAGGGTGGATCACCCACATCGCTTCAGCG
CCGTAACGCACTGGTCAGCCTCAACCCACTGTATAAGCTCAATTGATCAGACTTTGGTGTTTCAG
AGTAGGACTTCCACACTCAAAAACTGATAGATTTCACGGGATTATTTACACCTTTTATACCCTGC
AATTGCTCAATCGAGGCTGAGATAGGGCCAACCGGGAAAGTCTCTCGATTGGGATACCCGGGCTT
AGCGTACCCCACGCTGGCTGACCAGAGCATTGTGTGCCAAGCCCAGTTTGACGTGCTTGATTGGC
TCCACCGTCTAAGCCGAGTACTTGGGACTGTAACTTCAAAGCCTA
Found at i:2935 original size:13 final size:13
Alignment explanation
Indices: 2907--2976 Score: 77
Period size: 13 Copynumber: 5.2 Consensus size: 13
2897 CAGAAGTAGC
*
2907 AGCATAGTCGGGAG
1 AGCATAG-CCGGAG
*
2921 AGCATGGCCGGAG
1 AGCATAGCCGGAG
2934 AGCATAGCCGGAG
1 AGCATAGCCGGAG
2947 AGCATAGCCGCAGAG
1 AGCATAGCCG--GAG
* *
2962 AACATAGCCGAAG
1 AGCATAGCCGGAG
2975 AG
1 AG
2977 AAGCATTGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
13 30 0.62
14 6 0.12
15 12 0.25
ACGTcount: A:0.33, C:0.21, G:0.37, T:0.09
Consensus pattern (13 bp):
AGCATAGCCGGAG
Left flanking sequence: Indices 2407 -- 2906
GTGGAAGAACTACCAGGAGAAGCAGATGAATGCGGCCGCGAAGCAGCAGCGCGAGGCCAACGAGA
AGATGGTGGCGGCGGCGCAGAGCGAGGGCAAGGCCCAGTTCTTGGACCCGTTGGCCGAGGAGCCG
GCGATCGTCAAGCCGCCGTTGGTGACGACGCCGTGCTGTCCCGACTTGGCGCTGGCGAAGAAGCT
CAAGAACGTGTACTACAACCAGCTCGACTTGGAGCAGACGCTCATCGAGCTGGACTTCAACTGTC
CCAACTGCGGGTCCGAGGACGTTTTTATTGATCTGTTGGTGCCGGCGAAGGAGGTGGAGGCCGAG
CTCGACGAGTGGGTGGCGGCGAAGCACAAGGAGTTGGGGCTTGTCGACAACAAGCGCCCGTTGGA
GGACAGCGACGAGCCCGAGGCCAAGCGGCAGAAGCCGGAGTTTGTCAACCAGATGCCGTTCATGC
CGTTCCCGATGTTTATGCCGCCGCCACCGCCGTTTCAGAAGTAGC
Right flanking sequence: Indices 2977 -- 3476
AAGCATTGTCCTGGCGAGGAGGTCCAAAGATTATAGAGATATAGGTTACCGGGGCCAGGGTCCAC
GGATACGAGTTAATGGAAAGCAAGGTAAATCGATGAAAGGGGGAATGGAAAGGGAGTATGGCTCA
GCTGGTTTTATGAAGGTTACGGCTGAATGAACAGGTTGAAGTTTTCAATCAACGAACTGGTCCTA
AGTATGCAATTAAAGAGATTGAAAAAGTTAATAAATATAACGCAAATCTTTGGAAAAATAGTGCT
TTAATTCAACGAACTGGGGTTTATTATAGCTGGTTGATCAGCTAATAGTATAATTCTATATTGGT
AAAATAGTGGGAGAGACCTTCTGGAAGTCTACTAGGCTCCGAGTTTTTTGGGACTGTCCACGCAA
TGGTATAGAAACAGCAATTGTAGGAGCTTCTCGTCACTAGCTCCCTAGCTTGATTTTCCACTTTG
ATCTACCACTTTGAGATAAAAGATATATCACAATTCCCAAAGATT
Found at i:2967 original size:15 final size:14
Alignment explanation
Indices: 2927--2978 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
2917 GGAGAGCATG
*
2927 GCCG-GAGAGCATA
1 GCCGAGAGAACATA
*
2940 GCCG-GAGAGCATA
1 GCCGAGAGAACATA
2953 GCCGCAGAGAACATA
1 GCCG-AGAGAACATA
2968 GCCGAAGAGAA
1 GCCG-AGAGAA
2979 GCATTGTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
13 17 0.49
15 18 0.51
ACGTcount: A:0.37, C:0.23, G:0.35, T:0.06
Consensus pattern (14 bp):
GCCGAGAGAACATA
Left flanking sequence: Indices 2427 -- 2926
AGCAGATGAATGCGGCCGCGAAGCAGCAGCGCGAGGCCAACGAGAAGATGGTGGCGGCGGCGCAG
AGCGAGGGCAAGGCCCAGTTCTTGGACCCGTTGGCCGAGGAGCCGGCGATCGTCAAGCCGCCGTT
GGTGACGACGCCGTGCTGTCCCGACTTGGCGCTGGCGAAGAAGCTCAAGAACGTGTACTACAACC
AGCTCGACTTGGAGCAGACGCTCATCGAGCTGGACTTCAACTGTCCCAACTGCGGGTCCGAGGAC
GTTTTTATTGATCTGTTGGTGCCGGCGAAGGAGGTGGAGGCCGAGCTCGACGAGTGGGTGGCGGC
GAAGCACAAGGAGTTGGGGCTTGTCGACAACAAGCGCCCGTTGGAGGACAGCGACGAGCCCGAGG
CCAAGCGGCAGAAGCCGGAGTTTGTCAACCAGATGCCGTTCATGCCGTTCCCGATGTTTATGCCG
CCGCCACCGCCGTTTCAGAAGTAGCAGCATAGTCGGGAGAGCATG
Right flanking sequence: Indices 2979 -- 3478
GCATTGTCCTGGCGAGGAGGTCCAAAGATTATAGAGATATAGGTTACCGGGGCCAGGGTCCACGG
ATACGAGTTAATGGAAAGCAAGGTAAATCGATGAAAGGGGGAATGGAAAGGGAGTATGGCTCAGC
TGGTTTTATGAAGGTTACGGCTGAATGAACAGGTTGAAGTTTTCAATCAACGAACTGGTCCTAAG
TATGCAATTAAAGAGATTGAAAAAGTTAATAAATATAACGCAAATCTTTGGAAAAATAGTGCTTT
AATTCAACGAACTGGGGTTTATTATAGCTGGTTGATCAGCTAATAGTATAATTCTATATTGGTAA
AATAGTGGGAGAGACCTTCTGGAAGTCTACTAGGCTCCGAGTTTTTTGGGACTGTCCACGCAATG
GTATAGAAACAGCAATTGTAGGAGCTTCTCGTCACTAGCTCCCTAGCTTGATTTTCCACTTTGAT
CTACCACTTTGAGATAAAAGATATATCACAATTCCCAAAGATTAG
Found at i:2971 original size:28 final size:26
Alignment explanation
Indices: 2917--2976 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
2907 AGCATAGTCG
* *
2917 GGAGAGCATGGCCGGAGAGCATAGCC
1 GGAGAGCATAGCCGGAGAACATAGCC
2943 GGAGAGCATAGCCGCAGAGAACATAGCC
1 GGAGAGCATAGCCG--GAGAACATAGCC
*
2971 GAAGAG
1 GGAGAG
2977 AAGCATTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.45
28 16 0.55
ACGTcount: A:0.33, C:0.22, G:0.38, T:0.07
Consensus pattern (26 bp):
GGAGAGCATAGCCGGAGAACATAGCC
Left flanking sequence: Indices 2417 -- 2916
TACCAGGAGAAGCAGATGAATGCGGCCGCGAAGCAGCAGCGCGAGGCCAACGAGAAGATGGTGGC
GGCGGCGCAGAGCGAGGGCAAGGCCCAGTTCTTGGACCCGTTGGCCGAGGAGCCGGCGATCGTCA
AGCCGCCGTTGGTGACGACGCCGTGCTGTCCCGACTTGGCGCTGGCGAAGAAGCTCAAGAACGTG
TACTACAACCAGCTCGACTTGGAGCAGACGCTCATCGAGCTGGACTTCAACTGTCCCAACTGCGG
GTCCGAGGACGTTTTTATTGATCTGTTGGTGCCGGCGAAGGAGGTGGAGGCCGAGCTCGACGAGT
GGGTGGCGGCGAAGCACAAGGAGTTGGGGCTTGTCGACAACAAGCGCCCGTTGGAGGACAGCGAC
GAGCCCGAGGCCAAGCGGCAGAAGCCGGAGTTTGTCAACCAGATGCCGTTCATGCCGTTCCCGAT
GTTTATGCCGCCGCCACCGCCGTTTCAGAAGTAGCAGCATAGTCG
Right flanking sequence: Indices 2977 -- 3476
AAGCATTGTCCTGGCGAGGAGGTCCAAAGATTATAGAGATATAGGTTACCGGGGCCAGGGTCCAC
GGATACGAGTTAATGGAAAGCAAGGTAAATCGATGAAAGGGGGAATGGAAAGGGAGTATGGCTCA
GCTGGTTTTATGAAGGTTACGGCTGAATGAACAGGTTGAAGTTTTCAATCAACGAACTGGTCCTA
AGTATGCAATTAAAGAGATTGAAAAAGTTAATAAATATAACGCAAATCTTTGGAAAAATAGTGCT
TTAATTCAACGAACTGGGGTTTATTATAGCTGGTTGATCAGCTAATAGTATAATTCTATATTGGT
AAAATAGTGGGAGAGACCTTCTGGAAGTCTACTAGGCTCCGAGTTTTTTGGGACTGTCCACGCAA
TGGTATAGAAACAGCAATTGTAGGAGCTTCTCGTCACTAGCTCCCTAGCTTGATTTTCCACTTTG
ATCTACCACTTTGAGATAAAAGATATATCACAATTCCCAAAGATT
Found at i:7260 original size:20 final size:20
Alignment explanation
Indices: 7195--7260 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
7185 CCATGCTCAT
* *
7195 TTTGACAATCTTTGCTCACA
1 TTTGAGAATCTCTGCTCACA
* *
7215 TTTGATAATCTCTGCTCGCA
1 TTTGAGAATCTCTGCTCACA
*
7235 TTTGAGAATCTCTGTTCACA
1 TTTGAGAATCTCTGCTCACA
*
7255 TATGAG
1 TTTGAG
7261 CTCTTTACTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (20 bp):
TTTGAGAATCTCTGCTCACA
Left flanking sequence: Indices 6695 -- 7194
TGTTTGACAATCTTTCGATTTCGGTTGGGATGATGAGATTGACTTTCAAAATGACAAGCATATGT
CTGAACTTCATTGATTAACCCACTGTCATGACTGACCTCTCACCGAAATTGGGATATTGGCAAAC
CCGCCACTCGAATGACCGCTCCGCGCCTCCAGGGCTCGTGGTGGTCATTTTGGTGGCGGATGATT
GTTAATGATGACTTACCACATTTATCACGACGGTCTACTGTGGCTAGGACTGTTACTCCTAGCTG
TTGATGATACAAATGGCTTTACCGGCCGTGGTTCCTGAACAACAATCGATGCCGTACGGCCCAAC
TAGGGCCGGGGGGGTAGGCGCTCCCCCAGCTGTAGTAGGGTTTCTATGATGACTTTATACCACTT
GAGAGGAGCACTGCGAAGAATCTCAAAAAATTCGATTTGCATGTCAGTCTGAGGAACATCTGTAA
GAGGGGAAGGGATCTTAGTAGGGTGAGGACCTTTTCCATGCTCAT
Right flanking sequence: Indices 7261 -- 7760
CTCTTTACTCAAATCCGTAAAGACCTTCCTGTTAAGGTAACCGAATCCTGCCCCTTACATACCAC
AGTTCTCGGGTCCTGAGAAGGACAGGCCACGTGTGACTGAAACCGAAAGGTCTTAAGGGCCATAT
GGATCGTGCCTCTTCTTCACATCCGCCTACTTGGGTGGTAGAGCTCAATCTCTAGCGATCTTCAT
GGATCTCACTCTAATCGCAAATATGCGAAAGCTAGCGAAATTAGCTCCTTTTCGTTTTTAAATCT
GTGATTACGTGATGATCCACAAAACGTGCCCACGTACAATAAACACGGCTTACGCTATCTTCACA
GCAACGGCCTATTGTTCTCGTGGTCGATCGGATCCGAACTTCCTAATTGGAAAGAGTTCCACAAT
AAATGGTAGCATGAGTAATTTGCAGCCGTATAAAACCGGCCTATTTTGGCCTTGTAGGTATGTTT
CTGTTGGATTCTGAGCTTGCTGAGTGGTTTACCCAGCCTTGGGTA
Found at i:10425 original size:15 final size:15
Alignment explanation
Indices: 10405--10435 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10395 GTTGAGTGAA
10405 AGCACACATAACAGT
1 AGCACACATAACAGT
10420 AGCACACATAACAGT
1 AGCACACATAACAGT
10435 A
1 A
10436 AACCACTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (15 bp):
AGCACACATAACAGT
Left flanking sequence: Indices 9905 -- 10404
CTAACTTCGTCGATGCCCTCGTTGGAGCTGAACAACAGGAGGTCGTCAATAATTTTGGCCACCAA
TTGGAACTCCTGCCACAACTGTACCAACTTTTGTTGGGCCTCGGGGGTGTCCTGGCGTCCCAGGG
GGTGGTTGACCACCAGGTTGAACGCACCGGTGTCCCGCTTGAACCGCTGGCCCACGGTAAGATTC
TCGAGTCCGTCCATGGTTGCGGATTGAACGCGCGCACCGAATTAATGTATAAGGAGATGGAAGGG
AGCGGAAGTGGACGGAAGAGAAGAGATGGTGAGAGGTGGGGGAGACGAAGGAGAAGAAGGAGAGG
ACTGGATCGTGGGGGGATGATACATTGGTAGCTACTGTGCTGCAACTTACCTGATTGGGACGAGA
TACCTCTGGGACATATACTGTTTACCTTAGGTTTGTTAGTGTGGTAGTATTTTGGGAAAAGTGAA
AAATATCCCGGTCTAGACCCAATAGACCAAACTGTGTTGAGTGAA
Right flanking sequence: Indices 10436 -- 10935
AACCACTCCACTGACAACACTAACAACTCTTACTACACCACGCCTCCTACCTTCTAAACCGCCCC
TTCTTCCTCCCCTCACGTGCTCCTCACGTGCTAGATTATAAATAGTTTTTCGACGGAAACCACCA
GCGCCACCATGTCAACCACCTCCTACTACGAGCTCTACCGGCGGCTGACGGTCGGGGCCACCCTC
ACGGACGCGCTCGACACCCTCATCTCCGACGAGAAAATCCAGCCCCAGTTAGCAATTCGCATTTT
GCAGAACTTCGACCGCATCATCTCCGAGCAGTTGAAGCAGGACGCGGGGATTGCCAAGCTGAGAC
TCACGTTCAAGGGCAACTTGGACACCTACCGGTTCTGTGACGACGTGTGGACGTTCATCATCAAG
AAGGTTGTCATCAAAATGACCGACTCCCTGGGGGAGGGTCTGGCGGTGGACAACGAGATCATGGT
GGACAAGTTCAAGATCGTCGCGTGCAACTCGCGCAAGGCCAGTGA
Found at i:11129 original size:30 final size:31
Alignment explanation
Indices: 11076--11144 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 31
11066 TGGGAGGGGC
* *
11076 CAATTGGCCTGGTGGGTGGGTTTCAGTCAGG
1 CAATTGGCCCGGTGGGTGGGTTTCAATCAGG
11107 CAATTGGCCCGGTGGG-GGGTTTCAATCAGG
1 CAATTGGCCCGGTGGGTGGGTTTCAATCAGG
11137 CAATTGGC
1 CAATTGGC
11145 GTAGAAGGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 21 0.58
31 15 0.42
ACGTcount: A:0.16, C:0.19, G:0.39, T:0.26
Consensus pattern (31 bp):
CAATTGGCCCGGTGGGTGGGTTTCAATCAGG
Left flanking sequence: Indices 10576 -- 11075
GTCAACCACCTCCTACTACGAGCTCTACCGGCGGCTGACGGTCGGGGCCACCCTCACGGACGCGC
TCGACACCCTCATCTCCGACGAGAAAATCCAGCCCCAGTTAGCAATTCGCATTTTGCAGAACTTC
GACCGCATCATCTCCGAGCAGTTGAAGCAGGACGCGGGGATTGCCAAGCTGAGACTCACGTTCAA
GGGCAACTTGGACACCTACCGGTTCTGTGACGACGTGTGGACGTTCATCATCAAGAAGGTTGTCA
TCAAAATGACCGACTCCCTGGGGGAGGGTCTGGCGGTGGACAACGAGATCATGGTGGACAAGTTC
AAGATCGTCGCGTGCAACTCGCGCAAGGCCAGTGAGCAATAATGATAATGATAATGAAAATGGTA
GATCCAGGTGGGTCATTCGGTCTCGATTGGGAAGCTGCACCTCCATTGCATGTAAACAAGTAATA
TAATAAAATTGACGAGGAAGAGTGTAGTTGGGTGGTGGGAGGGGC
Right flanking sequence: Indices 11145 -- 11644
GTAGAAGGCGGGTATTTGCGCGTATAGGCGCGAATTGGGTGACCTTATGCTAGTTGTGAACACTT
GCAGTGTACACGAGCTACACTACGTTGTAAGATCGGTGTAGGATCGGAGAATGTAAATTTGTCAA
TTGAGAAGCATTGTGTGTCACTGTTGAATCTGAGCAAGCATTGCTCCATCTCCAATGCACTGTGG
ACACAACCCTCTACACTAATCCTCTATTGTTCTACTAACCAAGTGACTCTACTTTTAACCAAGTT
ATCTCTACTTTGACCCGTCACTAAACTGGATCACCGCCCACTTGCCCAGCGCCGTCCAGAAGTAC
CCGGGCTGGTCCCCGTTGGTCATCGCCTCGTACTCCTTGCATAACTCCTCGTTCTTGCCCTCGGG
CAACCCCACCACCACGTCGGCCTTACACGTCCGCAACGTCAACACCGGCAACTGCGAACGTGCCA
AGTCCTGGATCGCCTCGGTGAAAGGGGTGGTTTCCGGCCACTCAC
Found at i:11400 original size:20 final size:21
Alignment explanation
Indices: 11375--11415 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
11365 ATTGTTCTAC
11375 TAACCAAGTGA-CTCTACTTT
1 TAACCAAGTGATCTCTACTTT
*
11395 TAACCAAGTTATCTCTACTTT
1 TAACCAAGTGATCTCTACTTT
11416 GACCCGTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.39
Consensus pattern (21 bp):
TAACCAAGTGATCTCTACTTT
Left flanking sequence: Indices 10875 -- 11374
ACAACGAGATCATGGTGGACAAGTTCAAGATCGTCGCGTGCAACTCGCGCAAGGCCAGTGAGCAA
TAATGATAATGATAATGAAAATGGTAGATCCAGGTGGGTCATTCGGTCTCGATTGGGAAGCTGCA
CCTCCATTGCATGTAAACAAGTAATATAATAAAATTGACGAGGAAGAGTGTAGTTGGGTGGTGGG
AGGGGCCAATTGGCCTGGTGGGTGGGTTTCAGTCAGGCAATTGGCCCGGTGGGGGGTTTCAATCA
GGCAATTGGCGTAGAAGGCGGGTATTTGCGCGTATAGGCGCGAATTGGGTGACCTTATGCTAGTT
GTGAACACTTGCAGTGTACACGAGCTACACTACGTTGTAAGATCGGTGTAGGATCGGAGAATGTA
AATTTGTCAATTGAGAAGCATTGTGTGTCACTGTTGAATCTGAGCAAGCATTGCTCCATCTCCAA
TGCACTGTGGACACAACCCTCTACACTAATCCTCTATTGTTCTAC
Right flanking sequence: Indices 11416 -- 11915
GACCCGTCACTAAACTGGATCACCGCCCACTTGCCCAGCGCCGTCCAGAAGTACCCGGGCTGGTC
CCCGTTGGTCATCGCCTCGTACTCCTTGCATAACTCCTCGTTCTTGCCCTCGGGCAACCCCACCA
CCACGTCGGCCTTACACGTCCGCAACGTCAACACCGGCAACTGCGAACGTGCCAAGTCCTGGATC
GCCTCGGTGAAAGGGGTGGTTTCCGGCCACTCACAGTCGCCGGTCAACTTTCTGTAGTTCAAATC
GCCCTTGAAGATGATAAGGTCGGACTTTCTAAGGGTGTCTGAGAGCCCGGGCACCTCGCCAAGCT
TCCAGAAGTTGTGCTCCAGGGTCCAGAACGGGTGGTGGTCCACTCTGATGGCCCCCGAGCCAAAG
TAGTCCTTGAGCGTGGCGTGGAGCTTCTTGAACTCGTCGTCCTGGGCGTCGAAGAACCCGGGCTC
CACCAACTGCGCCAACAACTGGTCCACGTCCTTGGGCATGGTGTC
Found at i:12773 original size:12 final size:12
Alignment explanation
Indices: 12756--12780 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12746 GAAAAAGGAA
12756 GAAGAGTTACTG
1 GAAGAGTTACTG
12768 GAAGAGTTACTG
1 GAAGAGTTACTG
12780 G
1 G
12781 TAGTGAACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (12 bp):
GAAGAGTTACTG
Left flanking sequence: Indices 12256 -- 12755
TCCATCCCCTTGGTCTCCTCCAACGAGTTCACGTGTTTGGCGAGCTCGTGGACTCCTGCCTGCAG
CAGCTTGAACGTGGAGTGCTTGAGAGCCTCGAAGATGTCTACGTTGGCGGCAAGACGCAAGTTGA
TGGCCTCGATCATCTGGTACAAGTGGCACTCCAAGTACAACCACGGGCCCGTTTGCCAAGTCATG
GGCAGCAATTGCGCAAGCGACTCGTTGTAGCTGGTCAATTGGCTGTTCTGGGCAATCTCGTCTTT
GGTAAACGGCTTTACTTCGTCGTCGTTGTTGATGGCATCGAGAATGTCCTGGAGACCCCGGGTGA
ACTCGGCCCGGGACGCCTCGGGAACCAACTTGGACACGTCTTCGAGGGCCCCCTGGAGAATCTTG
GGCCACCGCGAGCGCGCGGTGGAGTACCCGAACAGCTTGGGGTCAGAGTTGAGGTAGACTGGGGG
AACAGGCATGGGAGGGTATCTGGTGCGAATAGCAAGAAAAAGGAA
Right flanking sequence: Indices 12781 -- 13280
TAGTGAACACAAAAAGGTAGGGAGAGATGACTACAGAGCGGTGGGTGATGGGTGGGTGGTCTGGA
ATGAGTGTTTATATCGTGGGGTTATTGAGACATTTGCGTGGTCACTGCTGTTTTATTAGGGAACA
CATGGGGTGCGAGCGATTGTCAAGGCCTGAACAAGTATCAACGCCAAGATGGGAATTAGACGAGA
AAGGCGTAGAAGTATAATGTCAGCTTATCGAGAAAGGTCTGAGAAAGGTCAGCGAAAGGTCAGCG
AAAGGTATATAAGAATAGTCTTTGGTTGAAGTAGGTGTTTTTCCAAAATATCAGCTTCACGTTAA
CCATAGAGGAACCAAGGTAAAACCCGACCCCACAAAATTACTAACAAAGGCAAAACTAGGACAAA
TCCTCGCCAACCACCCTATCCAAAACACGATACCCATCTTTGAACCCCAAAACACCCCGTTTTTC
CCCTCCCACCCGCCTAACCACTATAGTAAATTTTCGCAACCATCA
Found at i:13021 original size:11 final size:11
Alignment explanation
Indices: 13005--13046 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
12995 TCAGCTTATC
*
13005 GAGAAAGGTCT
1 GAGAAAGGTCA
13016 GAGAAAGGTCA
1 GAGAAAGGTCA
*
13027 GCGAAAGGTCA
1 GAGAAAGGTCA
*
13038 GCGAAAGGT
1 GAGAAAGGT
13047 ATATAAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (11 bp):
GAGAAAGGTCA
Left flanking sequence: Indices 12505 -- 13004
ATCTCGTCTTTGGTAAACGGCTTTACTTCGTCGTCGTTGTTGATGGCATCGAGAATGTCCTGGAG
ACCCCGGGTGAACTCGGCCCGGGACGCCTCGGGAACCAACTTGGACACGTCTTCGAGGGCCCCCT
GGAGAATCTTGGGCCACCGCGAGCGCGCGGTGGAGTACCCGAACAGCTTGGGGTCAGAGTTGAGG
TAGACTGGGGGAACAGGCATGGGAGGGTATCTGGTGCGAATAGCAAGAAAAAGGAAGAAGAGTTA
CTGGAAGAGTTACTGGTAGTGAACACAAAAAGGTAGGGAGAGATGACTACAGAGCGGTGGGTGAT
GGGTGGGTGGTCTGGAATGAGTGTTTATATCGTGGGGTTATTGAGACATTTGCGTGGTCACTGCT
GTTTTATTAGGGAACACATGGGGTGCGAGCGATTGTCAAGGCCTGAACAAGTATCAACGCCAAGA
TGGGAATTAGACGAGAAAGGCGTAGAAGTATAATGTCAGCTTATC
Right flanking sequence: Indices 13047 -- 13546
ATATAAGAATAGTCTTTGGTTGAAGTAGGTGTTTTTCCAAAATATCAGCTTCACGTTAACCATAG
AGGAACCAAGGTAAAACCCGACCCCACAAAATTACTAACAAAGGCAAAACTAGGACAAATCCTCG
CCAACCACCCTATCCAAAACACGATACCCATCTTTGAACCCCAAAACACCCCGTTTTTCCCCTCC
CACCCGCCTAACCACTATAGTAAATTTTCGCAACCATCACACGATGGCCCACGACTGTCAACGCG
CAAAGAAGCCTTGAGTCTAAGACCCGATAAGCGTTCTTCTGACAGTGACAGCTCGCCAAACTAGA
AAGCCACCACAAGTGACCACGAAAGGCATAACAAACCTCACTATACCACTCCAAATGAACGCTCA
CTGGCTCTTTTTTCTACACTCGTTAATTTTTCACATATATTGCCTCTCCCTTCTATATTACTTTC
ATTAATGTACACACTGCTTAGTAAAAAGTGGTGGGAGCCTTGGCG
Found at i:20653 original size:21 final size:20
Alignment explanation
Indices: 20629--20689 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
20619 AACTCAATGG
*
20629 CACCACCGCCAGCCCCCAAC
1 CACCCCCGCCAGCCCCCAAC
* *
20649 ACACCCCCACCAGCTCCCCAGC
1 -CACCCCCGCCAGC-CCCCAAC
*
20671 CACCCCCGTC-GCCCCCAAC
1 CACCCCCGCCAGCCCCCAAC
20690 GCTTCTCCCC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 19 0.58
22 6 0.18
ACGTcount: A:0.21, C:0.66, G:0.10, T:0.03
Consensus pattern (20 bp):
CACCCCCGCCAGCCCCCAAC
Left flanking sequence: Indices 20129 -- 20628
TGTTAGATAGTAGGAGGGTTGAGAGATGGTGGGTCAGAGGGGATTGTCAGAGACTTTTGGCACTT
CTCAGACGAATATCTGGTTAGGAGGCAAACGGAAGGGTTGAAAGTAACAGGAGACACAGTAAAGA
TAGGTACACAGAGAATACAGAGTTCAGCCATCATTTTGTGAGCCTGGTGAACTGGTTATTCACAG
AGCAAATGAGTTGTTCAAATGAGTTGGTTGCAGATCTAGTGCGTAAGCCTTATCCTTAACTCCAG
GCTTTAGTTCGATCTGAAAACTTCCACCTTCCCTGATTAGCCCTTCCCAGCTTCACCAATAGATC
TCAAACATACCATTCTCCACCCCTAATCTCCCTCTGATCCCTTCCTTGTTCCCTCACTTCTTCCT
CCTTCTTCCTCCTTGCTCCACGTTACCCGCGCATAGCCGGAACCGGCCTTCCACAGGCGGGAACC
ACCGCCCCCACCACCACTGCCCACCACCACCTACCAACTCAATGG
Right flanking sequence: Indices 20690 -- 21189
GCTTCTCCCCCTCGGCAGCGCCCGCTTGCTTCCCCGTGTTCCTGCACCGAGCCCGGATCTACCCC
ACAGTAAAACCCTCCTCACCACATTCTTCCACCCAATGTCATTCGGAAAGAAAGCCGCTGAACGC
TTGGCCAACAAGATCATCCTCATCACCGGGGCCTCGCTGGGCATCGGCGAGGCCACTGCCCAGGA
GTTTGCCCGTGCTGCCAACGGCAACGTGCTGCTCATTTTGGCAGCTCGTCGGGAGGAGAAGTTGA
GAAACGTGTCGGAAGAGCTCAGAAAGGAGTTTCCCCTGTTGAAGATCCACACCCTGAAGCTTGAT
GTGACCCAGAAGGACACCATCCAGCCGTTCTTGAGCTCGCTTCCCAAGGAATTCGCCGACATCGA
CATTTTGATCAACAACGCTGGCAAGGCGCTTGGCCGGTCTTCGGTGGGCGAGATTGACGCTGACG
ACATGGCTGGCATGATGGACACCAACGTCACTGGCCTCATCAACA
Found at i:21625 original size:2 final size:2
Alignment explanation
Indices: 21618--21642 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21608 GATAGAGTGG
21618 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
21643 GTTGTGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Left flanking sequence: Indices 21118 -- 21617
CTTCGGTGGGCGAGATTGACGCTGACGACATGGCTGGCATGATGGACACCAACGTCACTGGCCTC
ATCAACATGACCCAAGCGGTGTTGCCCCTTTTCAAGCTGAAGAACGCCGGTGACATTGTCAACAT
GGGCTCTGTGGCTGGTAAGGACCCCTACCCCGGTGGGGCGGTCTACTGCGCGTCCAAGGCCGCGG
TCAACTTCTTCTCGCACTGCTTGCGCAAGGAGTTGATCAACACGGGCATCCGGGTGATGGAGATC
TGCCCTGGTGCTGTCAAGACCGAGTTCTCGTTGGTGCGGTTCCACGGGGACGCTGACGCGGCAGA
GAAGGTGTACGACGGCACCACCCCGTTGGAGGCGCTGGACATTGCCGAGCTCATCGTGTTTGGGT
GCTCGCGTCGGGCCAACACCGTGGTTGCGGAGACGTTAGTGTTCCCCTCGCACCAGGCTCTGGGC
AACCACATCTTTAGAAGATCGTAATAGATGTTAGAGATAGAGTGG
Right flanking sequence: Indices 21643 -- 22142
GTTGTGGAAATGTAGTGGAAATGCTCGTATTTATACCGTGTGGGTTTTGTAGTGGAATTGCTCGT
GTTTCTATCGTGCGACCTTTGTGGGCCCAATGCGGTTAGAGAGCCAAGCGAAGGAATCGTAAACA
GTGTGAAGCAGTCGTCTAATTGGGGTGATGATGAAAGAAATGATGGTGAAGGGATGAGGATGCAA
GGAATGATGGTGGAAGGGATGAAGTGGTGGTCATGTTTTGTATTGGGATTCGATTAAGCTTCGAG
TGAAGAGTCATACTAAGCACCGGTCTAAAGTGAGTACTTCGGAGATGTGTCGTACTTCAAATCGT
ATTCCGAAGAAGGTCTTCAATTCCTTCAACACGGTTGGATTACCCGTCTGATTACTAACACCCGG
CTCAGAAACGTCGATCTTGGGGCTTAGACCATCTGAACGACCTGCCACGTTCAGCCGGTCCAGGT
CTAGACCAGGACCACTCAGTCTACCCCGCCACCTGGTGATGACAC
Found at i:21839 original size:15 final size:15
Alignment explanation
Indices: 21812--21859 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
21802 GATGAAAGAA
21812 ATGATGGTG-AAGGG
1 ATGATGGTGCAAGGG
*
21826 ATGA-GGATGCAAGGA
1 ATGATGG-TGCAAGGG
*
21841 ATGATGGTGGAAGGG
1 ATGATGGTGCAAGGG
21856 ATGA
1 ATGA
21860 AGTGGTGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 2 0.07
14 6 0.21
15 18 0.64
16 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.46, T:0.19
Consensus pattern (15 bp):
ATGATGGTGCAAGGG
Left flanking sequence: Indices 21312 -- 21811
GTCAACTTCTTCTCGCACTGCTTGCGCAAGGAGTTGATCAACACGGGCATCCGGGTGATGGAGAT
CTGCCCTGGTGCTGTCAAGACCGAGTTCTCGTTGGTGCGGTTCCACGGGGACGCTGACGCGGCAG
AGAAGGTGTACGACGGCACCACCCCGTTGGAGGCGCTGGACATTGCCGAGCTCATCGTGTTTGGG
TGCTCGCGTCGGGCCAACACCGTGGTTGCGGAGACGTTAGTGTTCCCCTCGCACCAGGCTCTGGG
CAACCACATCTTTAGAAGATCGTAATAGATGTTAGAGATAGAGTGGGAGAGAGAGAGAGAGAGAG
AGAGAGGTTGTGGAAATGTAGTGGAAATGCTCGTATTTATACCGTGTGGGTTTTGTAGTGGAATT
GCTCGTGTTTCTATCGTGCGACCTTTGTGGGCCCAATGCGGTTAGAGAGCCAAGCGAAGGAATCG
TAAACAGTGTGAAGCAGTCGTCTAATTGGGGTGATGATGAAAGAA
Right flanking sequence: Indices 21860 -- 22359
AGTGGTGGTCATGTTTTGTATTGGGATTCGATTAAGCTTCGAGTGAAGAGTCATACTAAGCACCG
GTCTAAAGTGAGTACTTCGGAGATGTGTCGTACTTCAAATCGTATTCCGAAGAAGGTCTTCAATT
CCTTCAACACGGTTGGATTACCCGTCTGATTACTAACACCCGGCTCAGAAACGTCGATCTTGGGG
CTTAGACCATCTGAACGACCTGCCACGTTCAGCCGGTCCAGGTCTAGACCAGGACCACTCAGTCT
ACCCCGCCACCTGGTGATGACACATTGCAACCAGACCTTCCCCTTTGGGACACACCCGAAGTTGC
GTACCATCGCCACATACGACCTTAATAAGCCCCAACCAACTAGCCCAGTGGCGGTAGCTACATAA
ACAACTACATAAACAACAACCCTCTACCTTTCTCAACAATAATGGCTTCCATCACTCTCTACGCA
CTCACCACTCCCAACGGCTACCGGGTCAGCACCTACTTGACCGCG
Found at i:21843 original size:29 final size:30
Alignment explanation
Indices: 21802--21859 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
21792 TTGGGGTGAT
21802 GATGAAAGAAATGATGGT-GAAGGGATGAG
1 GATGAAAGAAATGATGGTGGAAGGGATGAG
* *
21831 GATGCAAGGAATGATGGTGGAAGGGATGA
1 GATGAAAGAAATGATGGTGGAAGGGATGA
21860 AGTGGTGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.43, T:0.17
Consensus pattern (30 bp):
GATGAAAGAAATGATGGTGGAAGGGATGAG
Left flanking sequence: Indices 21302 -- 21801
CAAGGCCGCGGTCAACTTCTTCTCGCACTGCTTGCGCAAGGAGTTGATCAACACGGGCATCCGGG
TGATGGAGATCTGCCCTGGTGCTGTCAAGACCGAGTTCTCGTTGGTGCGGTTCCACGGGGACGCT
GACGCGGCAGAGAAGGTGTACGACGGCACCACCCCGTTGGAGGCGCTGGACATTGCCGAGCTCAT
CGTGTTTGGGTGCTCGCGTCGGGCCAACACCGTGGTTGCGGAGACGTTAGTGTTCCCCTCGCACC
AGGCTCTGGGCAACCACATCTTTAGAAGATCGTAATAGATGTTAGAGATAGAGTGGGAGAGAGAG
AGAGAGAGAGAGAGAGGTTGTGGAAATGTAGTGGAAATGCTCGTATTTATACCGTGTGGGTTTTG
TAGTGGAATTGCTCGTGTTTCTATCGTGCGACCTTTGTGGGCCCAATGCGGTTAGAGAGCCAAGC
GAAGGAATCGTAAACAGTGTGAAGCAGTCGTCTAATTGGGGTGAT
Right flanking sequence: Indices 21860 -- 22359
AGTGGTGGTCATGTTTTGTATTGGGATTCGATTAAGCTTCGAGTGAAGAGTCATACTAAGCACCG
GTCTAAAGTGAGTACTTCGGAGATGTGTCGTACTTCAAATCGTATTCCGAAGAAGGTCTTCAATT
CCTTCAACACGGTTGGATTACCCGTCTGATTACTAACACCCGGCTCAGAAACGTCGATCTTGGGG
CTTAGACCATCTGAACGACCTGCCACGTTCAGCCGGTCCAGGTCTAGACCAGGACCACTCAGTCT
ACCCCGCCACCTGGTGATGACACATTGCAACCAGACCTTCCCCTTTGGGACACACCCGAAGTTGC
GTACCATCGCCACATACGACCTTAATAAGCCCCAACCAACTAGCCCAGTGGCGGTAGCTACATAA
ACAACTACATAAACAACAACCCTCTACCTTTCTCAACAATAATGGCTTCCATCACTCTCTACGCA
CTCACCACTCCCAACGGCTACCGGGTCAGCACCTACTTGACCGCG
Found at i:22259 original size:12 final size:12
Alignment explanation
Indices: 22242--22266 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22232 GTGGCGGTAG
22242 CTACATAAACAA
1 CTACATAAACAA
22254 CTACATAAACAA
1 CTACATAAACAA
22266 C
1 C
22267 AACCCTCTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (12 bp):
CTACATAAACAA
Left flanking sequence: Indices 21742 -- 22241
GTTAGAGAGCCAAGCGAAGGAATCGTAAACAGTGTGAAGCAGTCGTCTAATTGGGGTGATGATGA
AAGAAATGATGGTGAAGGGATGAGGATGCAAGGAATGATGGTGGAAGGGATGAAGTGGTGGTCAT
GTTTTGTATTGGGATTCGATTAAGCTTCGAGTGAAGAGTCATACTAAGCACCGGTCTAAAGTGAG
TACTTCGGAGATGTGTCGTACTTCAAATCGTATTCCGAAGAAGGTCTTCAATTCCTTCAACACGG
TTGGATTACCCGTCTGATTACTAACACCCGGCTCAGAAACGTCGATCTTGGGGCTTAGACCATCT
GAACGACCTGCCACGTTCAGCCGGTCCAGGTCTAGACCAGGACCACTCAGTCTACCCCGCCACCT
GGTGATGACACATTGCAACCAGACCTTCCCCTTTGGGACACACCCGAAGTTGCGTACCATCGCCA
CATACGACCTTAATAAGCCCCAACCAACTAGCCCAGTGGCGGTAG
Right flanking sequence: Indices 22267 -- 22766
AACCCTCTACCTTTCTCAACAATAATGGCTTCCATCACTCTCTACGCACTCACCACTCCCAACGG
CTACCGGGTCAGCACCTACTTGACCGCGCTCGGGCTCCCCTTTGACTACGTCAAGGTGGACATTC
GCAAGAACGAGCACAAGCTGCCGGAGTTTTTGAAATTGAACCCCAACGGACGCATCCCCACGTTG
GTGGACCGGTCCACTGGGGTCACCATCTCGCAGACGGCCGCGATCTTGATGTATCTCGCCGAGAC
GTACGACCAGGAGCGCCAGTGGAGTTACGCGCCCGGTACCACGGAGTACTGGCAGCTGCTTGAGA
TCTTGATGCTCTCTGTGGGCGAACAGGACCCGATCCAGGGCGAGGCCAACCACTACAAGTTGTAT
GCCTCCGAGCGGGTCCAGTACGGCTTAGACCGGTACACAAACGACACGAAGCGTATTTACGGGGT
GTTGGAGAGCTACTTGAAGCGCAACGCACACGGACCGTACTTTGT
Found at i:26847 original size:11 final size:11
Alignment explanation
Indices: 26827--26880 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
26817 CATACAAGTT
*
26827 GGAAAACTTCC
1 GGAAACCTTCC
*
26838 AGAAACCTT-C
1 GGAAACCTTCC
26848 GGAAACCTTCC
1 GGAAACCTTCC
*
26859 GGAAACCTTCT
1 GGAAACCTTCC
26870 GGAAACCTTCC
1 GGAAACCTTCC
26881 CACTCCCTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 9 0.24
11 28 0.76
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (11 bp):
GGAAACCTTCC
Left flanking sequence: Indices 26327 -- 26826
GGTGATCAAGGGCGAGGGGAGAACAAGGGGCGAAGGGTGGGGAAGGGTGGGGGGGGGGGGGGCTT
GAGGGGTTTACAGGTGGCGGGTAAGAAGGAAAATGGCGGTTGTTTCTGGTTTTGTAAGGTGCTGG
GTGGTTTACGCCTGGCTGCAAATCGATGGTACTAAGGGATTGCGAGACAAATACCAATAGAGAAA
TGAAAAATACCGGAAACGAGACCAACTATTCCAAGCAAGAAACTTAATCGTCTCCAATCAGTTAC
TTGTCGCCATCACGCGTTGGTTATGGGTGACTGCAAATTGCCAAAAAGTTCACATTGGCCAGGTG
ATTAATTGAACAGTAACAAATGAGTAATACCAATGACCACGGCACATAAGCCTTCATGAAGCAAA
GTCCCAATAGATTCTACAGGAATACTTCATGATATCACCTGGTTTAAATGGCTGCAAATTGCCAA
ATTGAAAGAGTAGGCTAACTCGTAAACATCATAAGCATACAAGTT
Right flanking sequence: Indices 26881 -- 27380
CACTCCCTTCTACAACCCTGTAGTAACCCCGACCCCTACAAACCCTGTCTTTTCAGCTGTATTGC
TGCTATAAATGCCAGGTGCTGGCTAATATACATTAATCACAACGACTGGAACTCGTCGTTGTTCG
AGTTGACATTGGCATAGCGGAACTTGTTGTCGTCGGCCTCCTGGGGCGCAGCCACCGCCTCCTTG
GCCTCCTTCTGCTGCGGCGGCTTCTTGCCGTACCCGTTCAGCTGGGTCTTTTCGTTCTTCTCCTT
CAACAACCCCACCTTCTCGTTCATGACAATGGCAAGCTCCTGTAATCGGGTGCGCTGGGGCTCGT
TCAGGGTGAAGATGATGAAGTCGCCGTCCACGCGCGCCGCCAACTGGTCGCCCACCATCGCCCCC
ACGATCTCGTCCACCTGGGCCCGCGGCAAGTCAAAGATCGTCGCCAACTTGCTGATCAGCAACTT
GGTGTAGATGGTGCGGTAGGTGAACACGTAGGTGCGCAACCCCTC
Found at i:26857 original size:21 final size:22
Alignment explanation
Indices: 26826--26880 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
26816 GCATACAAGT
*
26826 TGGAAAACTTCCAGAAACCTTC
1 TGGAAACCTTCCAGAAACCTTC
*
26848 -GGAAACCTTCCGGAAACCTTC
1 TGGAAACCTTCCAGAAACCTTC
26869 TGGAAACCTTCC
1 TGGAAACCTTCC
26881 CACTCCCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (22 bp):
TGGAAACCTTCCAGAAACCTTC
Left flanking sequence: Indices 26326 -- 26825
GGGTGATCAAGGGCGAGGGGAGAACAAGGGGCGAAGGGTGGGGAAGGGTGGGGGGGGGGGGGGCT
TGAGGGGTTTACAGGTGGCGGGTAAGAAGGAAAATGGCGGTTGTTTCTGGTTTTGTAAGGTGCTG
GGTGGTTTACGCCTGGCTGCAAATCGATGGTACTAAGGGATTGCGAGACAAATACCAATAGAGAA
ATGAAAAATACCGGAAACGAGACCAACTATTCCAAGCAAGAAACTTAATCGTCTCCAATCAGTTA
CTTGTCGCCATCACGCGTTGGTTATGGGTGACTGCAAATTGCCAAAAAGTTCACATTGGCCAGGT
GATTAATTGAACAGTAACAAATGAGTAATACCAATGACCACGGCACATAAGCCTTCATGAAGCAA
AGTCCCAATAGATTCTACAGGAATACTTCATGATATCACCTGGTTTAAATGGCTGCAAATTGCCA
AATTGAAAGAGTAGGCTAACTCGTAAACATCATAAGCATACAAGT
Right flanking sequence: Indices 26881 -- 27380
CACTCCCTTCTACAACCCTGTAGTAACCCCGACCCCTACAAACCCTGTCTTTTCAGCTGTATTGC
TGCTATAAATGCCAGGTGCTGGCTAATATACATTAATCACAACGACTGGAACTCGTCGTTGTTCG
AGTTGACATTGGCATAGCGGAACTTGTTGTCGTCGGCCTCCTGGGGCGCAGCCACCGCCTCCTTG
GCCTCCTTCTGCTGCGGCGGCTTCTTGCCGTACCCGTTCAGCTGGGTCTTTTCGTTCTTCTCCTT
CAACAACCCCACCTTCTCGTTCATGACAATGGCAAGCTCCTGTAATCGGGTGCGCTGGGGCTCGT
TCAGGGTGAAGATGATGAAGTCGCCGTCCACGCGCGCCGCCAACTGGTCGCCCACCATCGCCCCC
ACGATCTCGTCCACCTGGGCCCGCGGCAAGTCAAAGATCGTCGCCAACTTGCTGATCAGCAACTT
GGTGTAGATGGTGCGGTAGGTGAACACGTAGGTGCGCAACCCCTC
Found at i:29600 original size:10 final size:11
Alignment explanation
Indices: 29585--29613 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
29575 TTTTAGAAAT
29585 GGTTGTGGT-G
1 GGTTGTGGTGG
29595 GGTTGTGGTGG
1 GGTTGTGGTGG
29606 GGTTGTGG
1 GGTTGTGG
29614 GTGTCTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.62, T:0.38
Consensus pattern (11 bp):
GGTTGTGGTGG
Left flanking sequence: Indices 29085 -- 29584
CTGCCTGCGGGCCACGTTGATCAGCTCGGCCACCGCCTTGATTTCGTCGGCAAGCTTGTCCTTGG
CCGAGCGCACCGCCTGGCGGCCCTCGTCGTCGGAGTCCAGGTCGCCACCCGCCCCCTTCAAGAAT
TGCTTCTTGAGAAAGTAGGCCGGGCCCAGCGCCCGGAACCCGTCGTCGTCCAGGGAGTCCAGGTC
GGAGTCGTCGTCCAGCGAGGGGAAGTCCAGGTCGGAGTCGTCGGACAGCGACAACAACTCCTCCT
CGGACGTGGAAAGAAGGTCTTCCTCTTCACTGGACGAGTCCAGGTACCCGCTAACAAAGAATCGG
GACATTACTGAAAAATTTTCAATAGTGAGTGGTGAAAAAAGGTTAGGGAAAAACGAGATGGGTGG
AGGAAAGAAGGAAGGGAGTGAGATGGGGACGAGATGGGGGTGGGAGGGGATGGGAGAGGGTTACG
GGGGCGCGAGGATAGTAGGGAAAGGGTGTAATGTGTTTTAGAAAT
Right flanking sequence: Indices 29614 -- 30113
GTGTCTCACTGTGGTGATGTAGTCAGCCGCAGGGAATGGAGGGGAAAGAGATGAAGAAGAGATGA
AGAAGAAATGGAAAAAGAGGTGATAAGAATAATAACGGAGGGCTTAGGGTGGGTATGTAGCGTTG
GGGTTTATACAAGAGACATGGGTGTTGTGAGGGTACGAGGTTTAGGGCTGTGAAATGATTGTCTT
GGTCGTGTTTTGTGTGGTTGCTCAGAACCGTGGTGCGATTTGCCACCAGCGATTGGGGAGCGGGG
AGGAGAAAGAGGCCGTGTTTGTGGGTCGTAGGAAAGAAACGGGGCGGGTTCTAGTTCGGAAACGC
GTTGGTTGGGGTTTTTACTGGCATTGGGGGGTACAGCCCACCATGCAGCATTACGCTAATCCAGG
AATGATAAGCAGAAGATCAGAGGGTTGCGGAAAAGGAGAAATCCTTAGAAGTAGCTTGATAATAG
TCTTTCGGTCGTATTTGTTAGTCTTCAGCTCCTTTTGGTTCTTAC
Found at i:29675 original size:11 final size:11
Alignment explanation
Indices: 29659--29684 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
29649 ATGGAGGGGA
29659 AAGAGATGAAG
1 AAGAGATGAAG
29670 AAGAGATGAAG
1 AAGAGATGAAG
29681 AAGA
1 AAGA
29685 AATGGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.35, T:0.08
Consensus pattern (11 bp):
AAGAGATGAAG
Left flanking sequence: Indices 29159 -- 29658
CCGCCTGGCGGCCCTCGTCGTCGGAGTCCAGGTCGCCACCCGCCCCCTTCAAGAATTGCTTCTTG
AGAAAGTAGGCCGGGCCCAGCGCCCGGAACCCGTCGTCGTCCAGGGAGTCCAGGTCGGAGTCGTC
GTCCAGCGAGGGGAAGTCCAGGTCGGAGTCGTCGGACAGCGACAACAACTCCTCCTCGGACGTGG
AAAGAAGGTCTTCCTCTTCACTGGACGAGTCCAGGTACCCGCTAACAAAGAATCGGGACATTACT
GAAAAATTTTCAATAGTGAGTGGTGAAAAAAGGTTAGGGAAAAACGAGATGGGTGGAGGAAAGAA
GGAAGGGAGTGAGATGGGGACGAGATGGGGGTGGGAGGGGATGGGAGAGGGTTACGGGGGCGCGA
GGATAGTAGGGAAAGGGTGTAATGTGTTTTAGAAATGGTTGTGGTGGGTTGTGGTGGGGTTGTGG
GTGTCTCACTGTGGTGATGTAGTCAGCCGCAGGGAATGGAGGGGA
Right flanking sequence: Indices 29685 -- 30184
AATGGAAAAAGAGGTGATAAGAATAATAACGGAGGGCTTAGGGTGGGTATGTAGCGTTGGGGTTT
ATACAAGAGACATGGGTGTTGTGAGGGTACGAGGTTTAGGGCTGTGAAATGATTGTCTTGGTCGT
GTTTTGTGTGGTTGCTCAGAACCGTGGTGCGATTTGCCACCAGCGATTGGGGAGCGGGGAGGAGA
AAGAGGCCGTGTTTGTGGGTCGTAGGAAAGAAACGGGGCGGGTTCTAGTTCGGAAACGCGTTGGT
TGGGGTTTTTACTGGCATTGGGGGGTACAGCCCACCATGCAGCATTACGCTAATCCAGGAATGAT
AAGCAGAAGATCAGAGGGTTGCGGAAAAGGAGAAATCCTTAGAAGTAGCTTGATAATAGTCTTTC
GGTCGTATTTGTTAGTCTTCAGCTCCTTTTGGTTCTTACTGATTCATGCTTGTTCTTACTGTTTC
CCACTGGGTCTCTTCCCTTGGTCCTTCCCTGCACACAGCCACCCA
Found at i:35114 original size:12 final size:11
Alignment explanation
Indices: 35097--35158 Score: 69
Period size: 12 Copynumber: 5.7 Consensus size: 11
35087 TGCGGCGAAC
35097 GCCGGTGCAAAT
1 GCCGGTGC-AAT
35109 GCCGGTGCAGAT
1 GCCGGTGCA-AT
35121 GCCGGTGC--T
1 GCCGGTGCAAT
35130 GCCGGTGC--T
1 GCCGGTGCAAT
35139 GCCGGTGCAAAT
1 GCCGGTGC-AAT
35151 GCCGGTGC
1 GCCGGTGC
35159 TGCTGGTACG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
9 18 0.39
11 1 0.02
12 27 0.59
ACGTcount: A:0.13, C:0.29, G:0.40, T:0.18
Consensus pattern (11 bp):
GCCGGTGCAAT
Left flanking sequence: Indices 34597 -- 35096
CCGCCTGCTAACCCCGGAATGTCGGCAAAAGCCCTGACACCTGCAGGACCTCCAAAATTTACGCA
CGGAAGCAGACGAAATCTCGGTTGGATCAAAGCAGAGCGAACATGGTCAAGGACACCACATACTA
CGACCTCTTGGAGGTCGAGGTCACCGCCACCGACGCCCAGTTGAAGAAGGCGTACCGCAAGATGG
CTATCAAGTGGCACCCTGACAAGAACGCCAACGACCCCAAGGCCGGAGAACACTTCCAGATGGTG
GGAGAGGCCTACGGCGTGTTGAAGGACCCCGAACAACGGAAGCTCTACGACGAAGTGGGCGTGGA
GGGGATGAAGGAGCAGGCGAACCCGGAAACCCAGGTGGACCCTGCCGAGATGTTTGCCCAGATCT
TTGGCGGCGAGCTGTTTGAGCTGTGGATTGGCGAGTTGTCGATGTTCAAGGACATGCTGAAGACC
GCAGACATTATGGAGGAAGAGGAGGAGAAGGAAGGTGCGGCGAAC
Right flanking sequence: Indices 35159 -- 35658
TGCTGGTACGGCCAGCACCAGCGAAGCAGACAAGGTGGCCGACCAGGTCAGCGACCTCCACGTGT
CGCACCCCGCCGAGCTGGCTGCGCTGAAGACCCTGGGCCCCGCTCTCACATCGGAGGAGATCAAC
AAGAAGAAGAAACAGAAGGTGCTGCGCGAGCAACGCGAGAAGATGATGCAGTTGCACGAGGAAAT
GCGCCAGGAGAAGCTCAAACGGGTGGCTGCCTTGCTGAAGACGCTTCTTGGCCGCCTCGACAAGT
ACCGCGAGGCCCAGCACGCCGGGCCCGAGGCCGTCAACCTCTACACCCAGAAACTCGACACCGAG
CTCCAGGAGATGAAGGAGGAGCTGTTCGGGCTCCAGTTGCTCCATCTCATTGGCCAGATCTACAC
CAACCAAGCCCACGCCGCCATCAACCTGGCCAAGACGTTTGGGGTGCTGAAGATCTACCTGAGTG
TCAAGGGCAAGACCACCACTGTGCGCAACGGTTTCTCGATTCTCA
Found at i:35134 original size:9 final size:9
Alignment explanation
Indices: 35120--35161 Score: 57
Period size: 9 Copynumber: 4.3 Consensus size: 9
35110 CCGGTGCAGA
35120 TGCCGGTGC
1 TGCCGGTGC
35129 TGCCGGTGC
1 TGCCGGTGC
35138 TGCCGGTGC
1 TGCCGGTGC
35147 AAATGCCGGTGC
1 ---TGCCGGTGC
35159 TGC
1 TGC
35162 TGGTACGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 21 0.70
12 9 0.30
ACGTcount: A:0.07, C:0.31, G:0.40, T:0.21
Consensus pattern (9 bp):
TGCCGGTGC
Left flanking sequence: Indices 34620 -- 35119
GGCAAAAGCCCTGACACCTGCAGGACCTCCAAAATTTACGCACGGAAGCAGACGAAATCTCGGTT
GGATCAAAGCAGAGCGAACATGGTCAAGGACACCACATACTACGACCTCTTGGAGGTCGAGGTCA
CCGCCACCGACGCCCAGTTGAAGAAGGCGTACCGCAAGATGGCTATCAAGTGGCACCCTGACAAG
AACGCCAACGACCCCAAGGCCGGAGAACACTTCCAGATGGTGGGAGAGGCCTACGGCGTGTTGAA
GGACCCCGAACAACGGAAGCTCTACGACGAAGTGGGCGTGGAGGGGATGAAGGAGCAGGCGAACC
CGGAAACCCAGGTGGACCCTGCCGAGATGTTTGCCCAGATCTTTGGCGGCGAGCTGTTTGAGCTG
TGGATTGGCGAGTTGTCGATGTTCAAGGACATGCTGAAGACCGCAGACATTATGGAGGAAGAGGA
GGAGAAGGAAGGTGCGGCGAACGCCGGTGCAAATGCCGGTGCAGA
Right flanking sequence: Indices 35162 -- 35661
TGGTACGGCCAGCACCAGCGAAGCAGACAAGGTGGCCGACCAGGTCAGCGACCTCCACGTGTCGC
ACCCCGCCGAGCTGGCTGCGCTGAAGACCCTGGGCCCCGCTCTCACATCGGAGGAGATCAACAAG
AAGAAGAAACAGAAGGTGCTGCGCGAGCAACGCGAGAAGATGATGCAGTTGCACGAGGAAATGCG
CCAGGAGAAGCTCAAACGGGTGGCTGCCTTGCTGAAGACGCTTCTTGGCCGCCTCGACAAGTACC
GCGAGGCCCAGCACGCCGGGCCCGAGGCCGTCAACCTCTACACCCAGAAACTCGACACCGAGCTC
CAGGAGATGAAGGAGGAGCTGTTCGGGCTCCAGTTGCTCCATCTCATTGGCCAGATCTACACCAA
CCAAGCCCACGCCGCCATCAACCTGGCCAAGACGTTTGGGGTGCTGAAGATCTACCTGAGTGTCA
AGGGCAAGACCACCACTGTGCGCAACGGTTTCTCGATTCTCAAGA
Found at i:36038 original size:9 final size:9
Alignment explanation
Indices: 36024--36048 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36014 TGCCACCGCC
36024 AAGAAGCTG
1 AAGAAGCTG
36033 AAGAAGCTG
1 AAGAAGCTG
36042 AAGAAGC
1 AAGAAGC
36049 GCAACATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.32, T:0.08
Consensus pattern (9 bp):
AAGAAGCTG
Left flanking sequence: Indices 35524 -- 36023
TCCATCTCATTGGCCAGATCTACACCAACCAAGCCCACGCCGCCATCAACCTGGCCAAGACGTTT
GGGGTGCTGAAGATCTACCTGAGTGTCAAGGGCAAGACCACCACTGTGCGCAACGGTTTCTCGAT
TCTCAAGACCGCTCTCAACGCCCAGACTGCGCTCGAGGAGATGACCCGCGAACAGGAGGCGATTG
CGCTCGCCGAGGAGGCCGGGGTCGAGCTCTCGGACGAGGTGCGCTACCGCCAGGCGGAGATGGAG
CGGACGATCATGGGCAAGTTCTTGGCCACCGCGTGGGCGCTGTCCAAGTACGAGGTCACCGACGT
GTTGACCAAGGTCGCCGACACCTTGGTCAAGGACAAGGAGGTGCCCAAGAAGGAGCGGTTGGCGC
GGGCCGAGGCGTTGTTGTGGCTCGGTAAGCACCTCCTGAAGGTGCAGCGCACCGCCCAAGAGGAG
GAAGAGGCACGGATCTTTGAGGAGATGGTGGCTGATGCCACCGCC
Right flanking sequence: Indices 36049 -- 36548
GCAACATCAACCCCGAGGAGCTTAATATGTTTATGGAGGCCGAGGAGGAGAAGGAGCGGGCGGGA
TAGATTTACGGTAGTAATGGGACATAAGAATAGGCATGTGTAGGTGGGAGGAACCCACAGCAGGT
GGAGATAGAGAATGGGCAACGTCCAGAACGTCCAGAGCCCAGGATTCAAGAGGGTTGATCGTTAA
GCTCAACCACAATGGTATCAGAACAGAGATAACCTACTATCCGTCGAAATATATCGTGAATGTGC
TTCGAATACAAATATTTATCACTTTAATCCTTTAATGTCTTGATAATCTCCTTGGCGAGCTTGGA
CAAGGCCTCGTTCTCGTGGTCCTTAAACTCGGACACGGTCTCGAGCAACCGCTTCGAGTCGTCGT
CCAGCACCGCCTGCTGCACCTTGTCGCTGGAGGCCCTCACCTTAGCCACCGACAACACCAGGTCA
AGCGCTGCCTCCAAGTCTGCAAGGTACACCTCGTCAGAATCCTCG
Found at i:43959 original size:15 final size:15
Alignment explanation
Indices: 43939--43968 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43929 CTAAATCGTG
43939 TTCAGGCTAACGAAT
1 TTCAGGCTAACGAAT
*
43954 TTCAGGCTACCGAAT
1 TTCAGGCTAACGAAT
43969 CCAGGCTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (15 bp):
TTCAGGCTAACGAAT
Left flanking sequence: Indices 43439 -- 43938
CAACGTCAACACGTTAGTCAAAAAGATCGACAATTTGTACGCCATTGAGACGGTGGACCTGTTGA
AGAAGGCCAAGAAGGCCAACAACACCCGCAAGGAGATGGGCGCCGCCAAGATCAAGGTGTTTTTG
CAGTACAACACCAGCGGAGAGGCCCAGAAGGCCGGGTTTGGCCTGGTGGACGAGGTGGCAGAGTG
TGCCCAGTGGTTGTTGCTGGAGGAGGCACTGGCGCTAGAGCTCGAGGGGCTCATGACCATTGGCT
CGTTTGCCGAGTCCACCTCCGACGAGGAGAACAAGGACTTTGCTACGCTTGTAGACGTCAAGAAG
CAGCTTGACGAGAAGTTGGGCACGAGCTTGACGCTCTCGATGGGGATGTCGCACGACTACGTGAC
TGCCATTGGCCAGGGGAGCACCAACGTGCGGGTGGGCTCGTCGATCTTCGGTGCTAGACCCCCCA
AGAACTAGAGTCTAGATTCATGGACTAAAGCGATACTAAATCGTG
Right flanking sequence: Indices 43969 -- 44468
CCAGGCTACAAAATTCACAATAATCGAACAATATATCAAATAAATAGGAATAACAACTTAAACAA
GGATAACAGCCTCAAACAAGGCTTTTGATGGCTTTAATGGCTTCAACAAGGCTTTAGGCCAGGAC
CGAAAATGACGCTAAAATGCGAAAATCAGGCAAAAAGTACAGAAACAAGGAGAACGAGCGCAGAG
AGCTTGGACACAGAATTATTCGTGGCGCTCGCCTCGGAAAGGATCGACGGGGCTGCCGAAGACCC
CCCGGTGGGCTGGCTGGTCACAGTGGTGACAGCGACAGAACCGGGATGCACGGTCACAACATTAC
CAGACGCGTCGGTGGTTACACCAGAAACAGGGTGTTCCAGAGGGTTGGGGGCGTTGGTGACCACA
GAAGTAGTAGAAACCAACACGCCCTTTTCGTCGGTGGTGACGTCCACGATGCCCTTGGCGGTAGT
GGTCTTGCCGTCGGTATCCGTGGTGGTGACCATGGTGGTGGCCTG
Found at i:44829 original size:21 final size:21
Alignment explanation
Indices: 44803--44848 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
44793 GGTAGTCCAG
44803 GTGGTGGGCTCCACAGGG-GTA
1 GTGGTGGGCTCCAC-GGGAGTA
44824 GTGGTGGGCTCCACGGGAGTA
1 GTGGTGGGCTCCACGGGAGTA
44845 GTGG
1 GTGG
44849 GGAGTGTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.13, C:0.17, G:0.50, T:0.20
Consensus pattern (21 bp):
GTGGTGGGCTCCACGGGAGTA
Left flanking sequence: Indices 44303 -- 44802
CGGTGGTTACACCAGAAACAGGGTGTTCCAGAGGGTTGGGGGCGTTGGTGACCACAGAAGTAGTA
GAAACCAACACGCCCTTTTCGTCGGTGGTGACGTCCACGATGCCCTTGGCGGTAGTGGTCTTGCC
GTCGGTATCCGTGGTGGTGACCATGGTGGTGGCCTGGGAGCACAGCACGCAAAGCTCGCGCGTTC
TCGTAGATACCTTGCCATCGGAGTTGGTGACAACCTCGACGATCCCTGTCTGGGTGGCGGGCTTA
CCGTCCTTGGTCGTGGGGTAGGTGACCGTCGACGGGGCCACGTAGGTGGTGGTGGCCACCACGCC
GTCCGTGTCGGTCACCACGTCCACGATGCCCGACCGAGTCACGGAGCTGCCACGGGAGTCGGTGG
TGACCCACGACGTGGGTGTTCTCGTGGCGAAGGTTGACGTCACACCACCAGTGCGGTCGACGATG
CCAGAGTACGTCGCTGAACTGCCCTTAGAGTCAGTGGTAGTCCAG
Right flanking sequence: Indices 44849 -- 45348
GGAGTGTCGAAATCACACCGCCAGTGCGGTCGACTATTCCAGAATACGTCGCGGAAGTGCCGTCG
GAGCCAGTGGTCCACGTAGAAACAGTGCCCGTTGCCAGAGGCAACACAGACGTCAGACCCTTGGT
CCGGTCAACGATACCCGTGTTGGTAACCACGCCACCAGTGGGGTCGGTCGTAACCCAGGTGGTCG
TCTCGCCAGTGGCTCGAGAGAACGTCGACGTCAGACCCTTGGTCCGGTCCACAATGCCAGAGTTA
GTGAGCACACCGCCAGTGGGGTCGGTGGTGGTCCACGTTGTAGCACTCTCGGGAGAGAGCGTGGA
CGTCGAGACGAGCGTTGCCGTTGTCACATCCACAATACCGGATCCAGTAGTGGTGCTGCCCTTCG
GGTCAGTGGTGGTCCATGTAGTGAGGCTACCCGCGGGGAACGTCGAGGTTGAAGTGGTCAACGAC
CCGTGTGTGTCTGTGATAACCGCAACAAGTCCCGAGCCCGTCAGC
Found at i:45470 original size:123 final size:124
Alignment explanation
Indices: 45242--46279 Score: 534
Period size: 123 Copynumber: 8.2 Consensus size: 124
45232 CCCTTCGGGT
* * * * * *
45242 CAGTGGTGGTCCATGTAGTGAG-GCTACCCGCGGGGAACGTCGAGGTTGAAGTGGTCAACGACCC
1 CAGTGGTGGTCCAAGTGGTGAGAAC-ACCAGAGGGGAAAGTCGAGGTTGAAGTGGTCAACGACCC
** * * * * * * *
45306 GTGTGTGTCTGTGATAACCGCAACAA-GTCC-CGAGCCCGTCAGCAAGTTGCCGTTGGAGTC
65 GTCAGTGTCGGTGGTAACAGCAACAATG-CCAC-TGCCAGTCAGCAAATTACCGTTGGAGTC
* *
45366 C-GTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTGGAGGTTGAAGTAGTCAACGACCCG
1 CAGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTCGAGGTTGAAGTGGTCAACGACCCG
* * * *
45430 TCAGTGTCGGTGGTCACATCAACAATGCCACTGCCAGTCAGCAAATTACCGTCGGTG-C
66 TCAGTGTCGGTGGTAACAGCAACAATGCCACTGCCAGTCAGCAAATTACCGTTGGAGTC
* * ** * *
45488 CAGTGGTGGTCCAGGTGGTG-GCCTTATCAGAAGAAGAGCCCGGAATGGTCGAGGTAGAAGTGGT
1 CAGTGGTGGTCCAAGTGGTGAG----AACACCAG-AG-G---GGAA-AGTCGAGGTTGAAGTGGT
* ** * * * * * * * *
45552 CAACGATCCGTGTGTGTCAGTGATAACCGCGACAAT-CCCCGAGCCCGTCAGCAAATTACCATTG
56 CAACGACCCGTCAGTGTCGGTGGTAACAGCAACAATGCCAC-TGCCAGTCAGCAAATTACCGTTG
*
45616 GAATC
120 GAGTC
* * * *
45621 C-GTGGTGGTCCAAGTGGTAAGAACACCAGAGGGGTAAGTGGAAGTTGAAGTGGTCAACGACCCG
1 CAGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTCGAGGTTGAAGTGGTCAACGACCCG
* * * * * * ** * *
45685 TCAGTGTCGGTGGTCACATCAACGATACCACTACCAGTCAGGAGCTGACCG-TCG-GTAC
66 TCAGTGTCGGTGGTAACAGCAACAATGCCACTGCCAGTCAGCAAATTACCGTTGGAGT-C
* * * * ** * * *
45743 CGGTGTTGGTCCAGGTGGTG-GCCTTATCAGAAGAAGAGCCCGGAATGGTCGAGGTAGACGTGGT
1 CAGTGGTGGTCCAAGTGGTGAG----AACACCAG-AG-G---GGAA-AGTCGAGGTTGAAGTGGT
* ** * * * *
45807 CAACGATCCGTGTGTGTCTGTGATAACCGCAACAA-GCC-CTGAGCCAGTCAGCAAATTACCATT
56 CAACGACCCGTCAGTGTCGGTGGTAACAGCAACAATGCCACT--GCCAGTCAGCAAATTACCGTT
45870 GGAGTC
119 GGAGTC
* * *
45876 C-GTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGTAAGTGGAAGTTGAAGTGGTCAACGACCCG
1 CAGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTCGAGGTTGAAGTGGTCAACGACCCG
* * ** * * * ** * * *
45940 TCAGTGTCGGTGGTCACATCAATGATACCACTACCAGTCAGGAGCTGACCGTCGGTG-C
66 TCAGTGTCGGTGGTAACAGCAACAATGCCACTGCCAGTCAGCAAATTACCGTTGGAGTC
* * *
45998 CAGTGGTGGTCCAGGTGGTG-G-CCTTATCGTCGGTTGAAGAAGAGCCCGGAATGGTCGAGGTTG
1 CAGTGGTGGTCCAAGTGGTGAGAAC--A-C--C------AG-AG-G---GGAA-AGTCGAGGTTG
* * ** * * * * * * *
46061 AGGTGGTCAACGAACCGTTTGCGTCAGTGGTAACCGCAACAAT-CCCCGAGCCCGTCAGCAAGTT
49 AAGTGGTCAACGACCCGTCAGTGTCGGTGGTAACAGCAACAATGCCAC-TGCCAGTCAGCAAATT
*
46125 GCCGTTGGAGTC
113 ACCGTTGGAGTC
* * * *
46137 C-GTGGTGGTCCAAGTGGTGAGGACACCAGAGGGGAAAGTGGACGTCGAAGTGGTCAACGACCCG
1 CAGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTCGAGGTTGAAGTGGTCAACGACCCG
* * * * *
46201 TCAGTGTCGGTGGTCACATCAACGATGCCACTACCAGTCAGCAAATTACCG-TCG-GTAC
66 TCAGTGTCGGTGGTAACAGCAACAATGCCACTGCCAGTCAGCAAATTACCGTTGGAGT-C
*
46259 CGGTGGTGGTCCAAGTGGTGA
1 CAGTGGTGGTCCAAGTGGTGA
46280 CGATCGTGCT
Statistics
Matches: 666, Mismatches: 186, Indels: 125
0.68 0.19 0.13
Matches are distributed among these distances:
121 4 0.01
122 15 0.02
123 324 0.49
124 23 0.03
125 2 0.00
126 11 0.02
127 7 0.01
128 8 0.01
129 12 0.02
130 2 0.00
131 12 0.02
132 147 0.22
133 10 0.02
134 3 0.00
135 1 0.00
137 7 0.01
138 74 0.11
139 3 0.00
140 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (124 bp):
CAGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTCGAGGTTGAAGTGGTCAACGACCCG
TCAGTGTCGGTGGTAACAGCAACAATGCCACTGCCAGTCAGCAAATTACCGTTGGAGTC
Left flanking sequence: Indices 44742 -- 45241
AGTGCGGTCGACGATGCCAGAGTACGTCGCTGAACTGCCCTTAGAGTCAGTGGTAGTCCAGGTGG
TGGGCTCCACAGGGGTAGTGGTGGGCTCCACGGGAGTAGTGGGGAGTGTCGAAATCACACCGCCA
GTGCGGTCGACTATTCCAGAATACGTCGCGGAAGTGCCGTCGGAGCCAGTGGTCCACGTAGAAAC
AGTGCCCGTTGCCAGAGGCAACACAGACGTCAGACCCTTGGTCCGGTCAACGATACCCGTGTTGG
TAACCACGCCACCAGTGGGGTCGGTCGTAACCCAGGTGGTCGTCTCGCCAGTGGCTCGAGAGAAC
GTCGACGTCAGACCCTTGGTCCGGTCCACAATGCCAGAGTTAGTGAGCACACCGCCAGTGGGGTC
GGTGGTGGTCCACGTTGTAGCACTCTCGGGAGAGAGCGTGGACGTCGAGACGAGCGTTGCCGTTG
TCACATCCACAATACCGGATCCAGTAGTGGTGCTGCCCTTCGGGT
Right flanking sequence: Indices 46280 -- 46779
CGATCGTGCTATCAGAACTCTTCAAAGACTGTTCGGAACCAGTTGTCGTGGGTTCAACAGTGTTT
TCGACACCACTCTCCAGCAAAGTGGCGGCAGTATCAGGGAAAGTCGACGTCGATGTCGACGCTAA
ACCGGCCGAGTCAGTTGTGACAGCTACAATACCAGAGTGGATTAAGGTTTTACCCTGTGCATCGA
CTGTAGTCCACGTTGTAAGGATCGCTACAGGTGGCATTGAAGTTGGCAGCGTAATGGTGACGCTC
GCATCCGGGATGGTGGACGTTGAAGTCACCAACGACCCGTCTGAGTCAGTGGTGACATCAACAAT
GCCAGACCCCGTTGAGAGGTTACCGTCAGTGTCAGTAGTGGTCCAAGAATGCACTTCAGAGTTTG
TGGAAGCATTGATACCACCCTCTACACCGTCACCCGAGGACTCAGGAATGGTCGAAGTCGTGGTT
GTCTCGGAGCCTTCAGAGTCGGTCGTCACGTCAACAATACCAGAG
Found at i:46199 original size:261 final size:255
Alignment explanation
Indices: 45280--46278 Score: 1478
Period size: 255 Copynumber: 3.9 Consensus size: 255
45270 CGCGGGGAAC
* * *
45280 GTCGAGGTTGAAGTGGTCAACGACCCGTGTGTGTCTGTGATAACCGCAACAAGT-CCCGAGCCCG
1 GTCGAGGTAGAAGTGGTCAACGATCCGTGTGTGTCAGTGATAACCGCAACAA-TCCCCGAGCCCG
* * * *
45344 TCAGCAAGTTGCCGTTGGAGTCCGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTGGAG
65 TCAGCAAATTACCATTGGAGTCCGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTGGAA
* * * *
45409 GTTGAAGTAGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACAATGCCACTGCCAGTCAGCAA
130 GTTGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACGATACCACTACCAGTCAGCAA
* *
45474 ATTACCGTCGGTGCCAGTGGTGGTCCAGGTGGTGGCCTTATCAGAAGAAGAGCCCGGAATG
195 ATGACCGTCGGTACCAGTGGTGGTCCAGGTGGTGGCCTTATCAGAAGAAGAGCCCGGAATG
*
45535 GTCGAGGTAGAAGTGGTCAACGATCCGTGTGTGTCAGTGATAACCGCGACAATCCCCGAGCCCGT
1 GTCGAGGTAGAAGTGGTCAACGATCCGTGTGTGTCAGTGATAACCGCAACAATCCCCGAGCCCGT
* * *
45600 CAGCAAATTACCATTGGAATCCGTGGTGGTCCAAGTGGTAAGAACACCAGAGGGGTAAGTGGAAG
66 CAGCAAATTACCATTGGAGTCCGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTGGAAG
* **
45665 TTGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACGATACCACTACCAGTCAGGAGC
131 TTGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACGATACCACTACCAGTCAGCAAA
* *
45730 TGACCGTCGGTACCGGTGTTGGTCCAGGTGGTGGCCTTATCAGAAGAAGAGCCCGGAATG
196 TGACCGTCGGTACCAGTGGTGGTCCAGGTGGTGGCCTTATCAGAAGAAGAGCCCGGAATG
* * * * *
45790 GTCGAGGTAGACGTGGTCAACGATCCGTGTGTGTCTGTGATAACCGCAACAAGCCCTGAGCCAGT
1 GTCGAGGTAGAAGTGGTCAACGATCCGTGTGTGTCAGTGATAACCGCAACAATCCCCGAGCCCGT
*
45855 CAGCAAATTACCATTGGAGTCCGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGTAAGTGGAAG
66 CAGCAAATTACCATTGGAGTCCGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTGGAAG
* * **
45920 TTGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAATGATACCACTACCAGTCAGGAGC
131 TTGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACGATACCACTACCAGTCAGCAAA
* *
45985 TGACCGTCGGTGCCAGTGGTGGTCCAGGTGGTGGCCTTATCGTCGGTTGAAGAAGAGCCCGGAAT
196 TGACCGTCGGTACCAGTGGTGGTCCAGGTGGTGGCCTTA---TC---AGAAGAAGAGCCCGGAAT
46050 G
255 G
* * * * * *
46051 GTCGAGGTTGAGGTGGTCAACGAACCGTTTGCGTCAGTGGTAACCGCAACAATCCCCGAGCCCGT
1 GTCGAGGTAGAAGTGGTCAACGATCCGTGTGTGTCAGTGATAACCGCAACAATCCCCGAGCCCGT
* * * * *
46116 CAGCAAGTTGCCGTTGGAGTCCGTGGTGGTCCAAGTGGTGAGGACACCAGAGGGGAAAGTGGACG
66 CAGCAAATTACCATTGGAGTCCGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTGGAAG
* *
46181 TCGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACGATGCCACTACCAGTCAGCAAA
131 TTGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACGATACCACTACCAGTCAGCAAA
* * *
46246 TTACCGTCGGTACCGGTGGTGGTCCAAGTGGTG
196 TGACCGTCGGTACCAGTGGTGGTCCAGGTGGTG
46279 ACGATCGTGC
Statistics
Matches: 676, Mismatches: 61, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
254 1 0.00
255 453 0.67
258 2 0.00
261 220 0.33
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (255 bp):
GTCGAGGTAGAAGTGGTCAACGATCCGTGTGTGTCAGTGATAACCGCAACAATCCCCGAGCCCGT
CAGCAAATTACCATTGGAGTCCGTGGTGGTCCAAGTGGTGAGAACACCAGAGGGGAAAGTGGAAG
TTGAAGTGGTCAACGACCCGTCAGTGTCGGTGGTCACATCAACGATACCACTACCAGTCAGCAAA
TGACCGTCGGTACCAGTGGTGGTCCAGGTGGTGGCCTTATCAGAAGAAGAGCCCGGAATG
Left flanking sequence: Indices 44780 -- 45279
CCTTAGAGTCAGTGGTAGTCCAGGTGGTGGGCTCCACAGGGGTAGTGGTGGGCTCCACGGGAGTA
GTGGGGAGTGTCGAAATCACACCGCCAGTGCGGTCGACTATTCCAGAATACGTCGCGGAAGTGCC
GTCGGAGCCAGTGGTCCACGTAGAAACAGTGCCCGTTGCCAGAGGCAACACAGACGTCAGACCCT
TGGTCCGGTCAACGATACCCGTGTTGGTAACCACGCCACCAGTGGGGTCGGTCGTAACCCAGGTG
GTCGTCTCGCCAGTGGCTCGAGAGAACGTCGACGTCAGACCCTTGGTCCGGTCCACAATGCCAGA
GTTAGTGAGCACACCGCCAGTGGGGTCGGTGGTGGTCCACGTTGTAGCACTCTCGGGAGAGAGCG
TGGACGTCGAGACGAGCGTTGCCGTTGTCACATCCACAATACCGGATCCAGTAGTGGTGCTGCCC
TTCGGGTCAGTGGTGGTCCATGTAGTGAGGCTACCCGCGGGGAAC
Right flanking sequence: Indices 46279 -- 46778
ACGATCGTGCTATCAGAACTCTTCAAAGACTGTTCGGAACCAGTTGTCGTGGGTTCAACAGTGTT
TTCGACACCACTCTCCAGCAAAGTGGCGGCAGTATCAGGGAAAGTCGACGTCGATGTCGACGCTA
AACCGGCCGAGTCAGTTGTGACAGCTACAATACCAGAGTGGATTAAGGTTTTACCCTGTGCATCG
ACTGTAGTCCACGTTGTAAGGATCGCTACAGGTGGCATTGAAGTTGGCAGCGTAATGGTGACGCT
CGCATCCGGGATGGTGGACGTTGAAGTCACCAACGACCCGTCTGAGTCAGTGGTGACATCAACAA
TGCCAGACCCCGTTGAGAGGTTACCGTCAGTGTCAGTAGTGGTCCAAGAATGCACTTCAGAGTTT
GTGGAAGCATTGATACCACCCTCTACACCGTCACCCGAGGACTCAGGAATGGTCGAAGTCGTGGT
TGTCTCGGAGCCTTCAGAGTCGGTCGTCACGTCAACAATACCAGA
Found at i:46978 original size:147 final size:144
Alignment explanation
Indices: 46711--47595 Score: 876
Period size: 147 Copynumber: 6.1 Consensus size: 144
46701 ACCCGAGGAC
* * * * * * *
46711 TCAGGAATG-GTCGAAGTCGTGGTTGTCTCGGAGCCTTCAGAGTCGGTCGTCACGTCAACAATAC
1 TCAGGAA-GAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAACAATGC
* * * * * * * ** * * * *
46775 CAGAGCCAGTAGACGTACT-CCCTTCAGTGTCGGTAGTGGTCCAGGTAGTGACACTCTCTTCAAT
65 CAGAACCAATGGAAGTACTACCC-TCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCATC---
46839 GGAAGAAGGCTCCGAAGAT
126 GGAAGAAGGCTCCGAAGAT
* *
46858 TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCCGTGGTGACATCAACAATGCC
1 TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAACAATGCC
* * * * * *
46923 AGAACCAACGGAAGTACTACCCTCGGTGTCGGTGGAAGTCCACGTGGTGACACTCTCGTCTGAAG
66 AGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCATCGGAAG
* **
46988 AAGAACTGTTTGAAGAT
131 AAG-GC--TCCGAAGAT
* * * *
47005 TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCCTCAGAGTCCGTGGTGACATCAACGAT-CC
1 TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAACAATGCC
*
47069 TAGAACCAATGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCATCAGCG
66 -AGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCAT---CG
* *
47134 GATG-AGGACTCCGAAGTT
127 GAAGAAGG-CTCCGAAGAT
* * * * *
47152 TCAGGGAGAGTCGAAGTTGAGGTCGTCTCCGAGCCCTCAGAGTCAGTCGTCACATCAACAATGCC
1 TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAACAATGCC
* * * *
47217 AGAACCAATGGAAGTACTACCTTCAGTGTCAGTGGAAGTCCAAGTGGTGACACTCTCGTCGG-A-
66 AGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCATCGGAAG
** **
47280 ACCG-TTGGAAGAT
131 AAGGCTCCGAAGAT
* * * * *
47293 TCAGGAAGGGTCGAAGTCGAGGTTGTCTCGGAGCCTTCAGAGTCAGTTGTCACGTCAACAATGCC
1 TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAACAATGCC
* * *
47358 AGAACCAACGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAGGTGGTAACACTCTCATCGG-A-
66 AGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCATCGGAAG
** **
47421 ACCG-TTGGAAG-T
131 AAGGCTCCGAAGAT
* * * * *
47433 CTCAGGAAGGGTCGAAGTTGAGGTCGTCTCAGAGCCTTCAGAGTCGGTGGTGACATCAACAATAC
1 -TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAACAATGC
*
47498 CAGAACCAATGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCATCAGCG
65 CAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCAT---CG
* *
47563 GATG-AGGACTCCGAAGTT
127 GAAGAAGG-CTCCGAAGAT
*
47581 TCAGGGAGAGTCGAA
1 TCAGGAAGAGTCGAA
Statistics
Matches: 629, Mismatches: 88, Indels: 42
0.83 0.12 0.06
Matches are distributed among these distances:
140 1 0.00
141 244 0.39
143 1 0.00
144 13 0.02
145 2 0.00
146 3 0.00
147 352 0.56
148 6 0.01
149 3 0.00
150 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (144 bp):
TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAACAATGCC
AGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCATCGGAAG
AAGGCTCCGAAGAT
Left flanking sequence: Indices 46211 -- 46710
TGGTCACATCAACGATGCCACTACCAGTCAGCAAATTACCGTCGGTACCGGTGGTGGTCCAAGTG
GTGACGATCGTGCTATCAGAACTCTTCAAAGACTGTTCGGAACCAGTTGTCGTGGGTTCAACAGT
GTTTTCGACACCACTCTCCAGCAAAGTGGCGGCAGTATCAGGGAAAGTCGACGTCGATGTCGACG
CTAAACCGGCCGAGTCAGTTGTGACAGCTACAATACCAGAGTGGATTAAGGTTTTACCCTGTGCA
TCGACTGTAGTCCACGTTGTAAGGATCGCTACAGGTGGCATTGAAGTTGGCAGCGTAATGGTGAC
GCTCGCATCCGGGATGGTGGACGTTGAAGTCACCAACGACCCGTCTGAGTCAGTGGTGACATCAA
CAATGCCAGACCCCGTTGAGAGGTTACCGTCAGTGTCAGTAGTGGTCCAAGAATGCACTTCAGAG
TTTGTGGAAGCATTGATACCACCCTCTACACCGTCACCCGAGGAC
Right flanking sequence: None
Found at i:47254 original size:294 final size:281
Alignment explanation
Indices: 46848--47555 Score: 959
Period size: 288 Copynumber: 2.5 Consensus size: 281
46838 TGGAAGAAGG
* * *
46848 CTCCGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCCGTGGTGACAT
1 CTCCGAAGTTTCAGGAAGAGTCGAAGTTGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTGACAT
* * *
46913 CAACAATGCCAGAACCAACGGAAGTACTACCCTCGGTGTCGGTGGAAGTCCACGTGGTGACACTC
66 CAACAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTGACACTC
* *
46978 TCGTCTGAAGAAGAACTGTTTGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCCTC
131 TCGTC----G--GAACCGTTGGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCCTC
* * * *
47043 AGAGTCCGTGGTGACATCAACGAT-CCTAGAACCAATGGAAGTGCTACCCTCGGTGTCAGTGGAA
190 AGAGTCAGTGGTCACATCAACAATGCC-AGAACCAACGGAAGTGCTACCCTCGGTGTCAGTGGAA
47107 GTCCAAGTGGTAACACTCTCATCAGCGGATGAGGA
254 GTCCAAGTGGTAACACTCTCAT---CGGA--A--A
* * * * *
47142 CTCCGAAGTTTCAGGGAGAGTCGAAGTTGAGGTCGTCTCCGAGCCCTCAGAGTCAGTCGTCACAT
1 CTCCGAAGTTTCAGGAAGAGTCGAAGTTGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTGACAT
* *
47207 CAACAATGCCAGAACCAATGGAAGTACTACCTTCAGTGTCAGTGGAAGTCCAAGTGGTGACACTC
66 CAACAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTGACACTC
* * * *
47272 TCGTCGGAACCGTTGGAAGATTCAGGAAGGGTCGAAGTCGAGGTTGTCTCGGAGCCTTCAGAGTC
131 TCGTCGGAACCGTTGGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCCTCAGAGTC
* * *
47337 AGTTGTCACGTCAACAATGCCAGAACCAACGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAGG
196 AGTGGTCACATCAACAATGCCAGAACCAACGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAAG
*
47402 TGGTAACACTCTCATCGGAAC
261 TGGTAACACTCTCATCGGAAA
** * * *
47423 CGTTGGAAGTCTCAGGAAGGGTCGAAGTTGAGGTCGTCTCAGAGCCTTCAGAGTCGGTGGTGACA
1 C-TCCGAAGTTTCAGGAAGAGTCGAAGTTGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTGACA
* * *
47488 TCAACAATACCAGAACCAATGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACT
65 TCAACAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTGACACT
47553 CTC
130 CTC
47556 ATCAGCGGAT
Statistics
Matches: 370, Mismatches: 42, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
281 1 0.00
282 116 0.31
283 1 0.00
285 4 0.01
288 123 0.33
289 2 0.01
290 1 0.00
294 122 0.33
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (281 bp):
CTCCGAAGTTTCAGGAAGAGTCGAAGTTGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTGACAT
CAACAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTGACACTC
TCGTCGGAACCGTTGGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCCTCAGAGTC
AGTGGTCACATCAACAATGCCAGAACCAACGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAAG
TGGTAACACTCTCATCGGAAA
Left flanking sequence: Indices 46348 -- 46847
ACACCACTCTCCAGCAAAGTGGCGGCAGTATCAGGGAAAGTCGACGTCGATGTCGACGCTAAACC
GGCCGAGTCAGTTGTGACAGCTACAATACCAGAGTGGATTAAGGTTTTACCCTGTGCATCGACTG
TAGTCCACGTTGTAAGGATCGCTACAGGTGGCATTGAAGTTGGCAGCGTAATGGTGACGCTCGCA
TCCGGGATGGTGGACGTTGAAGTCACCAACGACCCGTCTGAGTCAGTGGTGACATCAACAATGCC
AGACCCCGTTGAGAGGTTACCGTCAGTGTCAGTAGTGGTCCAAGAATGCACTTCAGAGTTTGTGG
AAGCATTGATACCACCCTCTACACCGTCACCCGAGGACTCAGGAATGGTCGAAGTCGTGGTTGTC
TCGGAGCCTTCAGAGTCGGTCGTCACGTCAACAATACCAGAGCCAGTAGACGTACTCCCTTCAGT
GTCGGTAGTGGTCCAGGTAGTGACACTCTCTTCAATGGAAGAAGG
Right flanking sequence: Indices 47556 -- 47595
ATCAGCGGATGAGGACTCCGAAGTTTCAGGGAGAGTCGAA
Found at i:47354 original size:141 final size:141
Alignment explanation
Indices: 46851--47558 Score: 882
Period size: 141 Copynumber: 4.9 Consensus size: 141
46841 AAGAAGGCTC
* *
46851 CGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCCGTGGTGACATCAA
1 CGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAA
* * * * *
46916 CAATGCCAGAACCAACGGAAGTACTACCCTCGGTGTCGGTGGAAGTCCACGTGGTGACACTCTCG
66 CAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCA
*
46981 TCTGAAGAAGAACTGTT
131 TC----G--GAACCGTT
* * * *
46998 TGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCCTCAGAGTCCGTGGTGACATCAA
1 CGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAA
* *
47063 CGAT-CCTAGAACCAATGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTC
66 CAATGCC-AGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTC
* *
47127 ATCAGCGGATGA-GGACTC
130 AT---CGGA--ACCG--TT
* * * * * *
47145 CGAAGTTTCAGGGAGAGTCGAAGTTGAGGTCGTCTCCGAGCCCTCAGAGTCAGTCGTCACATCAA
1 CGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAA
* * * *
47210 CAATGCCAGAACCAATGGAAGTACTACCTTCAGTGTCAGTGGAAGTCCAAGTGGTGACACTCTCG
66 CAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCA
47275 TCGGAACCGTT
131 TCGGAACCGTT
* * * * * *
47286 GGAAGATTCAGGAAGGGTCGAAGTCGAGGTTGTCTCGGAGCCTTCAGAGTCAGTTGTCACGTCAA
1 CGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAA
* * *
47351 CAATGCCAGAACCAACGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAGGTGGTAACACTCTCA
66 CAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCA
47416 TCGGAACCGTT
131 TCGGAACCGTT
* * * * *
47427 GGAAG-TCTCAGGAAGGGTCGAAGTTGAGGTCGTCTCAGAGCCTTCAGAGTCGGTGGTGACATCA
1 CGAAGAT-TCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCA
* *
47491 ACAATACCAGAACCAATGGAAGTGCTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTC
65 ACAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTC
47556 ATC
130 ATC
47559 AGCGGATGAG
Statistics
Matches: 496, Mismatches: 54, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
140 1 0.00
141 245 0.49
142 1 0.00
143 1 0.00
144 6 0.01
145 1 0.00
146 4 0.01
147 234 0.47
148 2 0.00
150 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (141 bp):
CGAAGATTCAGGAAGAGTCGAAGTCGAGGTCGTCTCAGAGCCTTCAGAGTCAGTGGTCACATCAA
CAATGCCAGAACCAATGGAAGTACTACCCTCGGTGTCAGTGGAAGTCCAAGTGGTAACACTCTCA
TCGGAACCGTT
Left flanking sequence: Indices 46351 -- 46850
CCACTCTCCAGCAAAGTGGCGGCAGTATCAGGGAAAGTCGACGTCGATGTCGACGCTAAACCGGC
CGAGTCAGTTGTGACAGCTACAATACCAGAGTGGATTAAGGTTTTACCCTGTGCATCGACTGTAG
TCCACGTTGTAAGGATCGCTACAGGTGGCATTGAAGTTGGCAGCGTAATGGTGACGCTCGCATCC
GGGATGGTGGACGTTGAAGTCACCAACGACCCGTCTGAGTCAGTGGTGACATCAACAATGCCAGA
CCCCGTTGAGAGGTTACCGTCAGTGTCAGTAGTGGTCCAAGAATGCACTTCAGAGTTTGTGGAAG
CATTGATACCACCCTCTACACCGTCACCCGAGGACTCAGGAATGGTCGAAGTCGTGGTTGTCTCG
GAGCCTTCAGAGTCGGTCGTCACGTCAACAATACCAGAGCCAGTAGACGTACTCCCTTCAGTGTC
GGTAGTGGTCCAGGTAGTGACACTCTCTTCAATGGAAGAAGGCTC
Right flanking sequence: Indices 47559 -- 47595
AGCGGATGAGGACTCCGAAGTTTCAGGGAGAGTCGAA
Done.