sallet_3.scaffold.fasta.s64.2.7.7.80.10.50.500.1.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: scaffold46
Parameters: 2 7 7 80 10 50 500
Length:  327967

Tables:   1   2   

This is table  1  of  2  ( 143 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)
2150--2193	18	2.5	18	81	3	63	6	18	50	25	1.71
2274--2396	16	7.8	16	80	1	113	53	30	6	8	1.57
2271--2400	63	2.0	66	82	4	158	53	31	6	8	1.58
3863--3915	21	2.5	21	93	0	97	22	45	28	3	1.70
4403--4435	15	2.2	15	94	0	57	21	39	30	9	1.84
4848--4887	18	2.2	18	90	0	62	30	25	12	32	1.92
8482--8518	11	3.4	11	96	0	65	40	37	21	0	1.54
8601--8657	16	3.6	16	90	2	89	42	10	26	21	1.85
8862--8903	13	3.2	13	86	0	57	16	38	2	42	1.61
8944--8971	13	2.2	13	100	0	56	14	64	7	14	1.48
9575--9645	18	4.0	18	85	8	101	33	11	16	38	1.85
11921--11999	9	8.9	9	83	2	70	0	0	46	53	1.00
11933--12019	3	29.3	3	80	2	86	0	2	41	56	1.12
12238--12315	39	2.0	38	97	2	147	35	17	14	30	1.90
13834--13861	14	2.0	14	100	0	56	14	28	21	35	1.92
17400--17585	9	19.7	9	77	11	151	10	44	1	44	1.45
17400--17585	19	9.8	18	81	9	151	10	44	1	44	1.45
17400--17585	28	6.5	28	77	10	155	10	44	1	44	1.45
17481--17522	13	3.1	13	75	24	50	16	45	0	38	1.48
17514--17587	10	7.5	11	70	27	51	9	47	0	43	1.36
23214--23247	18	1.9	18	88	5	52	29	20	35	14	1.93
23802--23851	23	2.2	23	88	0	73	34	32	28	6	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23825--23892	28	2.4	28	92	0	109	39	30	22	7	1.81
28129--28214	16	5.5	16	82	10	99	16	48	5	29	1.69
30073--30118	23	2.0	23	95	0	83	41	21	6	30	1.78
34950--35012	11	5.8	11	84	3	65	3	55	0	41	1.16
35587--35611	11	2.3	11	100	0	50	28	48	16	8	1.74
36614--36654	21	2.0	21	90	0	64	31	46	7	14	1.72
38043--38076	15	2.3	15	94	0	59	26	17	55	0	1.42
38143--38184	6	7.5	6	79	15	54	21	47	30	0	1.51
38134--38196	15	4.4	15	82	11	78	23	46	28	1	1.62
38141--38195	27	2.0	27	92	0	92	23	47	27	1	1.62
38765--38795	14	2.2	14	94	0	53	19	0	61	19	1.35
38983--39050	15	4.6	16	75	15	56	14	35	25	25	1.94
38992--39047	7	7.7	7	76	11	51	14	32	26	26	1.95
38986--39047	22	2.8	22	82	4	72	14	33	25	25	1.94
39374--39434	22	2.7	22	78	12	70	55	0	39	4	1.21
39374--39434	12	5.5	11	84	9	70	55	0	39	4	1.21
39602--39683	9	8.9	9	86	4	110	31	12	35	20	1.90
40809--40868	21	2.8	20	79	18	68	20	30	0	50	1.49
40810--40855	11	4.2	11	91	8	76	17	28	0	54	1.43
40810--40868	12	5.5	10	88	12	66	20	28	0	50	1.48
41406--41441	15	2.5	15	95	4	65	30	63	0	5	1.17
41406--41446	15	2.9	14	89	10	50	29	65	0	4	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42579--42687	36	3.0	37	85	5	159	34	11	33	21	1.88
47458--47496	11	3.5	11	96	0	69	30	20	28	20	1.98
48841--48866	12	2.2	12	100	0	52	0	0	76	23	0.78
49764--49876	18	6.4	18	78	10	99	9	42	20	27	1.83
51647--51685	2	20.0	2	84	5	53	2	0	51	46	1.14
51823--51871	12	4.0	12	91	2	80	48	8	24	18	1.75
51823--51871	25	2.0	24	92	4	80	48	8	24	18	1.75
52163--52195	16	2.0	17	94	5	59	0	42	6	51	1.26
53852--53877	10	2.6	10	100	0	52	34	30	11	23	1.90
55351--55398	19	2.5	20	86	3	62	22	2	58	16	1.49
55370--55411	19	2.2	19	86	0	57	28	0	52	19	1.46
57005--57080	21	3.6	21	96	0	143	17	28	21	32	1.95
58835--58868	11	3.1	11	95	0	59	23	0	38	38	1.55
59083--59112	9	3.4	9	95	4	53	13	60	10	16	1.59
60892--60923	11	2.9	11	100	0	64	28	43	9	18	1.81
63294--63398	8	12.8	8	96	3	183	40	11	36	12	1.79
63403--63462	24	2.5	25	76	17	65	35	21	23	20	1.96
66703--66740	20	2.0	20	85	10	53	21	10	42	26	1.85
67513--67556	11	4.0	11	84	0	52	13	40	9	36	1.76
67512--67555	22	2.0	22	86	8	63	11	40	9	38	1.73
68692--68727	13	2.8	13	91	0	63	27	41	13	16	1.87
68828--68864	9	4.0	9	96	3	65	21	56	0	21	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69691--69774	18	4.7	18	95	0	150	32	26	21	20	1.98
75449--75481	10	3.4	10	87	4	50	36	57	6	0	1.23
79866--79920	25	2.2	26	83	3	67	30	25	10	32	1.90
82436--82463	11	2.5	11	100	0	56	14	46	39	0	1.44
84324--84366	17	2.4	18	88	3	61	30	20	30	18	1.97
87344--87401	11	5.0	11	84	12	80	12	0	50	37	1.40
87640--87677	19	2.0	20	89	5	60	10	28	31	28	1.90
91071--91175	33	3.2	32	86	6	138	13	19	40	27	1.88
91256--91348	17	5.6	17	80	12	95	15	31	33	20	1.93
91296--91324	13	2.2	13	100	0	58	10	37	37	13	1.79
91650--91690	20	2.0	21	85	4	57	7	43	21	26	1.79
95875--95919	8	5.5	8	92	5	63	20	51	0	28	1.48
100591--100636	21	2.2	21	84	0	56	10	21	50	17	1.77
100599--100639	21	2.0	21	90	0	64	12	19	46	21	1.82
100608--100651	21	2.1	21	86	0	61	9	15	47	27	1.76
102375--102459	26	3.1	27	74	5	73	22	41	5	30	1.77
109825--109864	12	3.3	12	85	0	53	5	12	32	50	1.62
113941--114031	6	15.7	6	90	6	134	0	0	45	54	0.99
116085--116148	12	5.4	12	90	3	94	39	56	3	1	1.25
116085--116151	4	17.0	4	71	3	55	40	55	2	1	1.24
117605--117635	8	3.9	8	95	0	53	19	3	38	38	1.68
117757--117820	16	4.0	16	77	0	65	35	9	35	18	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
117778--117826	16	3.1	16	75	0	53	32	10	36	20	1.86
119791--119821	13	2.4	13	94	0	53	32	9	41	16	1.80
123605--123684	41	2.0	40	85	4	108	17	10	47	25	1.78
136142--136194	14	3.9	14	92	2	90	32	7	54	5	1.52
141962--142033	22	3.3	22	84	0	99	22	13	40	23	1.90
143133--143169	13	2.9	12	92	8	56	24	35	0	40	1.55
143251--143286	15	2.3	16	90	4	56	22	44	0	33	1.53
148352--148406	15	3.7	15	92	0	83	27	49	1	21	1.60
148940--148973	14	2.4	14	95	0	59	14	64	0	20	1.28
155401--155510	11	9.7	11	80	4	85	28	21	20	30	1.98
155460--155536	22	3.3	23	80	3	84	24	29	12	32	1.93
155539--155598	22	2.7	23	84	7	79	20	25	16	38	1.93
155679--155717	13	3.1	13	92	3	53	20	25	17	35	1.95
155685--155717	13	2.5	13	100	0	66	21	21	15	42	1.89
156722--156754	14	2.4	14	100	0	66	21	45	12	21	1.84
156783--156836	12	4.5	12	84	9	74	31	40	7	20	1.80
157953--157982	12	2.5	12	94	0	51	23	23	13	40	1.90
168197--168253	18	3.2	18	97	0	105	5	26	43	24	1.75
171198--171241	15	3.1	15	84	15	58	2	25	4	68	1.20
171205--171301	24	3.9	24	76	11	79	1	32	4	61	1.21
171180--171336	51	3.1	49	81	9	163	1	34	3	61	1.20
171159--171322	42	3.9	42	75	11	156	1	33	3	61	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
171159--171343	9	21.2	9	79	10	161	1	34	3	61	1.19
182553--182612	30	2.0	30	90	6	95	16	40	31	11	1.85
189386--189410	9	2.8	9	100	0	50	12	28	48	12	1.76
189600--189689	36	2.5	36	90	0	135	24	33	26	15	1.95
189679--189739	12	5.1	12	95	0	104	31	26	34	8	1.86
190163--190197	2	17.5	2	93	0	61	0	45	0	54	0.99
196773--196849	27	2.9	27	86	0	109	9	51	3	35	1.52
208583--208651	33	2.1	33	83	0	84	26	26	33	14	1.94
210645--210710	24	2.8	24	80	0	87	22	43	28	4	1.73
210657--210695	12	3.2	12	85	0	60	25	43	23	7	1.80

Tables:   1   2