sallet_3.scaffold.fasta.s38.2.7.7.80.10.50.500.1.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: scaffold55
Parameters: 2 7 7 80 10 50 500
Length:  108205

Tables:   1   2   

This is table  1  of  2  ( 185 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10--99	6	14.0	6	85	13	99	0	0	46	53	1.00
7--90	14	6.1	14	91	6	136	0	0	48	51	1.00
10--99	20	4.6	20	85	9	123	0	0	46	53	1.00
7--99	40	2.4	40	92	3	154	0	0	47	52	1.00
2114--2385	145	1.9	146	92	0	465	25	33	18	22	1.96
2232--2336	51	2.1	51	87	0	147	26	31	20	20	1.98
2357--2463	41	2.5	43	76	11	130	28	34	14	22	1.94
2534--2560	10	2.7	10	100	0	54	11	29	37	22	1.89
2563--2587	10	2.5	10	100	0	50	8	60	20	12	1.57
3474--3512	18	2.2	18	85	0	51	7	20	43	28	1.79
3520--3554	12	2.9	12	91	0	52	0	20	48	31	1.50
3520--3553	15	2.3	15	100	0	68	0	20	47	32	1.51
4741--4782	11	4.0	11	81	9	52	30	47	0	21	1.51
5981--6020	17	2.3	18	91	4	64	22	17	45	15	1.85
6745--6785	13	3.2	13	85	0	55	24	63	2	9	1.37
10858--10921	13	5.0	13	79	7	51	14	31	17	37	1.89
10872--10916	13	3.5	13	84	3	56	8	35	20	35	1.84
11127--11175	13	3.8	13	81	5	64	36	44	4	14	1.64
11158--11210	23	2.3	23	76	0	61	37	50	3	7	1.49
11349--11394	18	2.6	18	85	0	65	30	58	0	10	1.32
11410--11450	7	5.1	8	80	19	50	12	60	0	26	1.31
11410--11450	16	2.5	17	85	14	52	12	60	0	26	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13746--13832	38	2.4	36	80	14	106	31	9	32	27	1.88
14012--14112	11	9.0	11	77	4	103	17	1	35	44	1.61
14047--14119	23	3.1	24	84	9	71	16	0	36	46	1.47
14023--14152	34	3.7	34	82	8	118	17	3	36	42	1.65
16587--16625	11	3.5	11	85	0	51	43	20	10	25	1.83
16746--16803	19	3.1	18	90	5	80	41	24	25	8	1.83
18526--18588	13	4.9	13	86	1	74	17	7	39	34	1.79
19360--19435	13	6.0	13	75	6	75	39	2	42	15	1.61
19579--19603	12	2.1	12	100	0	50	28	24	16	32	1.96
21355--21379	9	2.8	9	100	0	50	44	0	24	32	1.54
21655--21680	9	2.9	9	100	0	52	30	23	23	23	1.99
23491--23523	16	2.0	17	88	5	50	36	51	6	6	1.51
24432--24543	42	2.7	42	84	5	138	18	14	32	34	1.91
24857--24949	32	2.8	32	80	9	82	33	25	16	24	1.96
25162--25227	14	4.6	14	86	3	96	30	50	4	15	1.64
25162--25227	29	2.3	28	92	2	105	30	50	4	15	1.64
25459--25498	21	1.9	21	89	0	62	52	25	15	7	1.68
26200--26231	12	2.7	12	100	0	64	6	40	43	9	1.62
27343--27428	13	6.4	13	90	4	127	53	0	38	8	1.31
27292--27426	39	3.5	38	78	12	132	47	0	40	12	1.42
27888--27914	14	1.9	14	100	0	54	11	44	14	29	1.80
30064--30124	30	2.0	31	96	3	115	29	29	16	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30057--30190	34	4.0	35	83	11	154	34	34	11	20	1.88
30587--30649	14	4.6	14	80	11	58	7	22	34	34	1.83
30578--30649	27	2.6	27	84	4	99	6	25	33	34	1.83
31275--31328	8	6.9	8	85	10	67	12	11	29	46	1.77
31273--31328	16	3.6	16	85	4	78	12	10	30	46	1.76
31355--31431	16	4.8	16	100	0	154	31	11	31	25	1.92
31802--31920	17	7.1	17	80	1	116	11	22	23	42	1.87
31802--31865	32	1.9	34	90	6	105	6	23	29	40	1.79
31806--31933	17	7.6	17	79	1	80	13	21	21	43	1.86
32028--32110	42	1.9	45	90	7	136	24	37	19	19	1.94
33902--33937	11	3.3	11	96	0	63	8	16	52	22	1.70
36729--36790	21	3.0	20	83	6	79	45	35	17	1	1.59
36834--36895	21	3.1	21	90	6	94	12	43	19	24	1.86
36847--36899	21	2.5	21	96	0	97	11	39	18	30	1.86
38493--38596	9	11.6	9	90	8	140	27	5	44	22	1.75
38653--38690	9	4.1	9	90	6	58	47	13	31	7	1.71
38653--38690	19	2.1	19	90	5	60	47	13	31	7	1.71
38908--38962	16	3.4	17	75	9	62	45	29	10	14	1.79
39811--39859	12	4.1	12	82	10	64	18	8	55	18	1.67
39805--39856	24	2.2	23	89	3	77	17	7	55	19	1.65
45350--45446	46	2.2	44	84	3	122	44	0	39	16	1.48
45350--45446	22	4.3	22	72	16	74	44	0	39	16	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45416--45517	24	4.4	24	75	9	95	49	0	37	13	1.43
45416--45543	47	2.8	48	81	9	142	46	0	38	14	1.45
45803--45859	18	3.2	18	89	0	87	15	14	50	19	1.77
45848--45892	19	2.3	19	96	3	81	15	11	46	26	1.79
46934--46973	11	3.5	11	96	3	71	30	20	42	7	1.79
47850--47903	5	10.0	5	83	15	63	5	20	55	18	1.62
47841--47903	11	5.7	11	87	7	83	6	20	53	19	1.66
48258--48305	22	2.2	22	96	0	87	10	27	14	47	1.76
48390--48479	18	5.0	18	85	12	114	5	31	35	27	1.80
48394--48459	33	2.0	33	96	0	123	4	33	36	25	1.77
48560--48683	15	8.3	15	87	1	151	23	40	4	32	1.73
48560--48683	30	4.2	30	85	2	169	23	40	4	32	1.73
48560--48668	44	2.5	44	86	1	146	23	40	3	32	1.72
48568--48685	59	2.0	59	89	0	182	22	42	3	32	1.70
49323--49348	11	2.4	11	100	0	52	42	11	38	7	1.70
49404--49477	7	10.7	7	76	2	69	18	0	43	37	1.51
49408--49462	14	3.9	14	92	0	83	18	0	40	41	1.50
50417--50452	11	3.3	11	96	0	63	13	50	16	19	1.79
50407--50463	22	2.6	22	81	8	64	19	45	12	22	1.83
50489--50553	22	3.0	22	86	6	87	10	58	1	29	1.41
51394--51434	11	3.5	11	93	6	64	29	51	19	0	1.47
51394--51439	6	7.7	6	83	16	60	30	50	19	0	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51396--51429	17	2.1	16	94	5	59	26	52	20	0	1.46
51617--51688	13	5.8	12	79	8	81	26	31	13	27	1.94
51610--51688	25	3.2	25	94	3	133	27	32	13	25	1.94
51805--51846	21	2.0	21	95	4	77	19	47	9	23	1.78
52744--52800	21	2.7	21	86	0	78	12	40	33	14	1.83
52828--52853	6	4.3	6	100	0	52	0	53	30	15	1.42
52859--52883	9	2.8	9	100	0	50	0	56	32	12	1.36
52809--52883	30	2.6	27	74	17	69	2	54	28	14	1.54
52923--52990	12	5.9	12	80	13	81	17	52	20	8	1.71
52941--53011	33	2.2	33	92	5	117	19	56	19	4	1.58
52935--52995	21	2.8	21	80	16	70	16	55	21	6	1.63
53876--53940	21	3.1	21	97	0	121	6	36	24	32	1.80
54519--54557	16	2.4	16	91	8	62	12	7	25	53	1.65
54844--54874	12	2.6	12	94	0	53	9	32	25	32	1.88
55176--55256	10	8.0	11	76	15	59	64	9	12	13	1.50
55210--55260	11	4.8	11	92	7	88	68	9	5	15	1.36
55210--55260	21	2.4	21	90	9	86	68	9	5	15	1.36
55605--55646	12	3.6	12	87	6	59	38	16	35	9	1.81
56234--56285	19	2.7	19	77	11	61	36	26	13	23	1.92
56273--56325	19	2.9	18	81	15	72	33	32	13	20	1.91
56273--56358	37	2.4	35	80	7	84	31	31	17	19	1.95
56702--56753	12	4.6	12	83	13	65	9	53	21	15	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56714--56753	21	1.9	21	94	0	71	10	55	22	12	1.67
57677--57737	27	2.2	28	94	2	106	6	26	47	19	1.74
57731--57813	16	5.1	16	95	2	148	18	32	31	18	1.94
57922--58026	26	3.8	27	91	6	149	27	36	12	23	1.91
58527--58610	23	3.6	23	88	3	114	14	33	14	38	1.86
58504--58640	23	5.8	25	79	13	105	11	37	15	35	1.84
58598--58653	26	2.2	26	90	0	85	7	42	17	32	1.77
59449--59502	25	2.2	24	83	3	63	16	11	31	40	1.84
59593--59651	22	2.7	22	86	0	91	37	18	22	22	1.94
59854--59912	30	2.0	30	82	0	73	38	32	8	20	1.83

Tables:   1   2