genome.fa.s115.2.7.7.80.10.50.1000.4.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: Scaffold115
Parameters: 2 7 7 80 10 50 1000
Length:  1475684

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  4  of  10  ( 1122 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)
458475--458615	52	2.7	51	90	4	212	30	17	18	33	1.94
458604--458628	13	1.9	13	100	0	50	36	16	16	32	1.90
458693--458717	13	1.9	13	100	0	50	32	16	16	36	1.90
458671--458737	33	2.0	33	85	0	89	41	13	10	34	1.79
462875--462908	16	2.1	17	89	10	54	58	0	17	23	1.38
464305--464349	11	4.2	11	94	2	74	37	0	0	62	0.96
464314--464358	22	2.0	22	86	4	63	37	2	0	60	1.09
464441--464494	24	2.4	21	87	12	72	57	1	0	40	1.09
465059--465110	22	2.4	21	83	6	59	65	0	1	32	1.04
465079--465153	15	5.2	15	69	7	57	69	1	2	26	1.10
465999--466040	3	14.0	3	100	0	84	33	0	0	66	0.92
466234--466267	18	1.9	17	88	5	50	0	11	0	88	0.52
466228--466274	15	3.1	15	84	3	58	0	12	4	82	0.80
467130--467250	57	2.1	57	90	0	188	45	1	4	48	1.31
467238--467316	14	5.8	14	78	10	83	46	2	1	49	1.23
467224--467292	29	2.4	30	85	9	83	44	1	2	50	1.25
467291--467336	18	2.6	18	82	6	58	54	4	0	41	1.20
467280--467325	18	2.4	20	82	10	60	54	2	0	43	1.12
468346--468385	5	8.4	5	86	13	50	0	15	0	85	0.61
468346--468388	7	6.1	7	84	15	54	0	13	0	86	0.58
468354--468395	19	2.2	19	91	0	66	2	9	0	88	0.61
469627--469682	23	2.5	23	85	2	78	39	12	5	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469824--469874	23	2.2	24	86	10	70	31	3	13	50	1.60
472489--472542	24	2.4	24	84	9	69	50	0	5	44	1.25
473039--473072	16	2.1	16	88	5	50	35	0	0	64	0.94
474196--474250	23	2.4	23	93	0	92	41	7	29	21	1.80
474314--474354	21	2.0	21	90	0	64	80	2	14	2	0.92
479728--479764	17	2.1	18	90	5	58	43	0	2	54	1.14
479956--479985	15	2.0	15	93	0	51	53	3	0	43	1.17
480518--480560	15	2.9	15	80	19	54	27	0	0	72	0.85
481802--481851	26	1.9	26	84	8	66	40	0	0	60	0.97
481834--481901	20	3.6	19	75	20	63	36	1	0	61	1.05
482609--482647	2	20.0	2	84	5	53	51	2	0	46	1.14
483374--483449	28	2.7	28	97	0	143	35	26	11	26	1.91
485853--485896	14	3.1	14	80	0	52	52	6	0	40	1.28
486347--486410	17	3.8	17	67	24	55	35	0	3	60	1.12
486338--486419	32	2.5	31	81	13	94	37	0	2	59	1.11
486397--486441	13	3.5	13	82	8	56	33	0	0	66	0.92
486373--486458	32	2.5	34	76	19	88	33	0	1	65	1.01
486405--486451	20	2.3	21	85	10	62	31	0	0	68	0.90
486400--486455	11	5.0	11	77	16	53	32	0	0	67	0.91
486403--486458	22	2.5	22	83	13	71	32	0	0	67	0.91
486916--486953	13	3.2	12	85	7	51	55	0	5	39	1.23
486976--487022	22	2.0	24	88	8	71	42	4	4	48	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487310--487337	2	14.0	2	100	0	56	50	0	0	50	1.00
487449--487487	17	2.1	17	86	13	51	53	0	0	46	1.00
492782--492827	21	2.1	22	84	4	58	30	17	30	21	1.96
494709--494805	27	3.7	26	86	9	128	21	9	24	44	1.82
497046--497124	32	2.5	33	80	12	94	31	11	18	37	1.87
497110--497159	16	3.1	16	85	0	55	48	6	10	36	1.61
497124--497167	16	2.8	16	80	13	54	45	2	11	40	1.53
497854--497929	37	2.1	37	97	0	143	34	11	21	32	1.89
501122--501169	19	2.5	19	82	0	60	45	14	8	31	1.74
501717--501766	26	1.9	27	84	8	68	22	22	6	50	1.70
502074--502140	33	2.0	33	94	0	116	28	19	28	23	1.98
503492--503529	10	3.5	11	82	10	51	52	0	15	31	1.43
505710--505746	18	2.1	18	100	0	74	16	16	24	43	1.87
505706--505744	18	2.3	16	84	16	60	12	15	20	51	1.76
526827--526934	42	2.6	41	86	1	144	24	31	8	36	1.85
530422--530454	13	2.5	13	95	0	57	30	9	21	39	1.84
538204--538254	14	3.5	15	73	7	52	66	1	1	29	1.13
539503--539568	19	3.8	19	77	22	90	33	12	18	36	1.88
539504--539566	32	2.0	32	100	0	126	33	12	19	34	1.89
539523--539547	13	1.9	13	100	0	50	36	16	16	32	1.90
539610--539637	13	2.2	13	100	0	56	28	14	17	39	1.89
539643--539769	53	2.4	53	96	1	229	37	18	18	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540624--540662	20	2.0	20	84	0	51	25	15	10	48	1.76
544373--544402	11	2.7	11	100	0	60	16	30	10	43	1.81
549258--549331	28	2.6	29	85	4	89	27	18	29	24	1.98
549319--549430	51	2.2	51	87	3	154	31	13	25	30	1.93
549367--549540	79	2.2	79	89	2	260	31	14	25	27	1.95
549492--549568	28	2.7	30	78	7	90	27	19	31	22	1.98
549176--549666	237	2.1	239	88	0	725	32	13	26	27	1.94
549552--549731	51	3.5	51	78	8	190	33	10	27	28	1.90
550203--550241	20	2.0	19	95	5	69	35	23	10	30	1.88
550265--550315	21	2.5	21	81	9	61	39	17	15	27	1.90
550357--550407	20	2.6	20	81	3	59	41	19	9	29	1.84
558911--558949	20	2.0	19	95	5	69	35	23	10	30	1.88
558959--558983	13	1.9	13	100	0	50	32	16	16	36	1.90
562892--562992	42	2.4	43	80	6	107	47	10	23	17	1.79
563017--563237	122	1.8	121	90	2	354	28	19	27	24	1.99
563017--563250	61	3.9	62	81	7	293	30	19	26	23	1.98
563067--563567	196	2.4	200	86	8	656	27	19	28	24	1.98
563253--563439	61	3.1	59	82	9	216	27	18	28	25	1.98
564541--564621	1	81.0	1	72	0	54	3	3	7	85	0.83
564531--564566	12	3.1	12	88	8	56	0	16	0	83	0.65
564531--564621	23	4.0	22	77	8	76	3	6	6	83	0.90
564541--564621	18	4.5	17	74	18	65	3	3	7	85	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574463--574495	4	8.2	4	100	0	66	75	0	0	24	0.80
579465--579517	16	3.2	17	81	2	56	86	3	5	3	0.77
580594--581123	61	8.5	61	84	6	663	24	25	18	30	1.98
580590--581123	123	4.3	122	86	5	691	24	26	18	30	1.98
581087--581367	41	6.8	41	68	19	147	22	22	12	43	1.86
581406--581479	37	2.0	38	83	2	96	21	28	10	39	1.87
581426--581722	84	3.5	87	79	5	320	19	23	12	45	1.84
581036--581663	310	2.0	313	90	2	978	22	23	13	40	1.89
581426--581756	41	7.8	42	73	9	242	19	23	12	44	1.85
581426--581759	84	3.9	84	78	8	295	19	23	12	44	1.85
584425--584546	51	2.4	51	84	2	174	29	27	12	30	1.93
584589--584737	77	1.9	77	82	4	183	27	26	11	34	1.91
584699--584887	79	2.4	79	77	5	186	28	22	13	34	1.93
586270--586920	328	2.0	328	88	1	957	37	15	17	29	1.90
588239--588282	15	2.9	15	96	0	79	34	15	11	38	1.84
594053--594078	13	2.0	13	100	0	52	38	15	15	30	1.88
594035--594098	32	2.0	33	90	3	103	42	15	14	28	1.86
600243--600280	13	2.9	13	88	0	58	34	15	15	34	1.90
600392--600437	21	2.2	20	81	11	58	32	19	4	43	1.71
602093--602183	39	2.3	40	77	9	96	35	5	24	35	1.79
602827--602852	13	2.0	13	100	0	52	38	15	15	30	1.88
602809--602872	32	2.0	33	90	3	103	42	15	14	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
615601--615637	8	4.4	8	87	12	56	83	0	5	10	0.79
616883--617384	28	17.5	28	80	7	438	27	31	17	22	1.97
616885--617302	118	3.6	119	83	4	432	27	31	18	22	1.97
618343--618482	51	2.7	51	85	0	181	29	15	8	47	1.74
619359--619397	20	2.1	19	85	9	53	23	17	10	48	1.78
625556--625612	20	2.8	20	89	0	78	47	12	12	28	1.77
626554--627034	85	5.6	83	81	9	526	23	18	30	28	1.98
626514--627308	28	26.8	29	82	8	602	22	18	29	29	1.97
626503--627350	64	14.2	64	81	8	454	22	18	29	29	1.97
626800--627350	32	18.1	32	82	5	458	20	18	29	30	1.96

Tables:   1   2   3   4   5   6   7   8   9   10