genome.fa.s65.2.7.7.80.10.50.1000.4.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: Scaffold65
Parameters: 2 7 7 80 10 50 1000
Length:  3097370

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  4  of  17  ( 1956 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)
600063--600097	17	2.1	17	89	10	54	34	0	0	65	0.93
600068--600139	25	2.7	26	82	8	83	44	0	0	55	0.99
603867--603901	2	17.5	2	100	0	70	48	0	0	51	1.00
605254--605288	2	17.5	2	100	0	70	51	0	0	48	1.00
606552--606593	19	2.2	20	82	4	50	28	2	9	59	1.41
607730--607775	16	2.8	17	77	12	51	52	0	2	45	1.13
607694--607781	32	2.8	32	80	10	85	55	0	3	40	1.16
607742--607796	28	1.9	28	82	10	67	56	3	0	40	1.17
609917--609977	24	2.5	22	82	12	59	45	0	0	54	1.00
610572--610627	16	3.4	17	78	12	62	82	3	1	12	0.88
610583--610615	15	2.3	15	94	5	59	87	0	0	12	0.53
610583--610615	7	4.6	7	92	7	57	87	0	0	12	0.53
610572--610642	26	2.8	25	81	8	72	78	5	4	11	1.05
612130--612163	2	17.0	2	93	0	50	55	0	0	44	0.99
613191--613336	18	7.6	19	67	19	63	60	0	1	37	1.10
613191--613337	5	30.6	5	66	21	66	59	0	1	38	1.11
613191--613353	28	5.7	29	70	23	98	60	0	1	38	1.09
613206--613356	61	2.6	61	76	11	145	58	0	1	39	1.11
613297--613343	23	2.0	23	91	0	76	61	0	0	38	0.96
614090--614139	15	3.3	15	88	5	73	60	0	0	40	0.97
614090--614151	31	2.0	31	83	0	79	61	1	0	37	1.06
614769--614817	19	2.5	19	78	18	55	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614766--614819	10	5.6	10	75	14	51	33	0	0	66	0.92
614767--614822	18	3.0	18	85	12	69	35	0	0	64	0.94
614766--614893	30	4.5	27	69	21	68	39	0	0	60	0.97
614794--614888	16	5.8	16	71	17	52	42	0	0	57	0.98
614861--614917	21	2.7	21	83	8	62	33	0	1	64	1.04
614873--614917	10	4.2	11	83	13	58	31	0	2	66	1.04
616534--616581	2	24.0	2	82	0	60	50	4	0	45	1.21
616803--616835	2	16.5	2	100	0	66	51	0	0	48	1.00
617318--617377	19	3.1	18	85	9	57	68	0	0	31	0.90
617333--617414	21	4.0	21	80	12	91	59	1	1	37	1.13
617329--617417	5	17.2	5	74	13	65	60	1	1	37	1.11
622300--622361	26	2.3	27	86	10	83	64	1	0	33	1.03
622322--622377	26	2.3	24	79	11	60	69	0	0	30	0.89
624248--624334	43	2.0	43	97	0	165	37	14	11	35	1.83
629681--629710	2	15.0	2	100	0	60	50	0	50	0	1.00
632239--632274	2	18.0	2	94	0	63	47	0	52	0	1.00
632560--632602	12	3.6	12	87	0	59	13	11	53	20	1.71
632581--632614	6	5.7	6	92	0	50	11	14	55	17	1.68
632569--632612	12	3.7	12	84	0	52	11	13	54	20	1.69
632560--632620	24	2.5	24	77	15	63	13	11	54	21	1.70
634594--634737	71	2.0	71	100	0	288	43	6	12	36	1.69
642805--642874	23	3.2	20	71	16	59	35	2	4	57	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642884--642984	11	9.8	10	68	20	57	37	1	9	50	1.47
642884--642980	20	4.8	19	76	16	79	36	2	10	51	1.48
642881--642984	41	2.6	41	80	4	113	38	2	9	49	1.51
642884--643042	21	7.7	19	72	12	93	34	3	8	54	1.46
642971--643063	42	2.2	42	81	9	109	32	4	4	59	1.37
642929--643063	21	6.5	21	73	8	71	31	3	7	57	1.44
643098--643147	22	2.3	22	86	3	66	32	4	14	50	1.61
644482--644510	2	14.5	2	100	0	58	48	0	0	51	1.00
645179--647467	418	5.4	425	77	10	1872	41	8	10	39	1.69
650374--650469	31	3.1	29	74	21	81	54	2	2	41	1.24
650571--650648	27	2.8	27	75	5	75	48	0	0	51	1.00
650577--650624	17	2.7	18	83	9	62	43	0	0	56	0.99
660454--660546	15	5.9	16	74	18	79	58	0	1	40	1.05
660453--660551	31	3.1	31	81	11	103	57	1	1	40	1.12
661763--661841	32	2.5	33	81	4	90	40	1	2	55	1.21
661788--661860	38	1.9	37	86	13	105	39	0	0	60	0.97
661854--661908	17	3.2	16	76	16	56	29	5	0	65	1.15
662324--662382	28	2.1	29	83	3	75	67	0	0	32	0.91
662724--662853	20	6.7	20	65	21	71	60	0	0	39	0.97
662729--662784	17	3.1	17	79	20	60	66	0	0	33	0.92
662727--662833	17	6.6	17	67	25	56	61	0	0	38	0.96
662722--662834	44	2.7	41	81	15	126	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662774--662822	24	2.0	26	88	8	75	57	0	0	42	0.99
663121--663218	14	6.9	15	67	23	52	47	0	0	52	1.00
663163--663232	30	2.4	29	83	11	81	50	0	0	50	1.00
663811--663865	8	6.6	8	84	15	76	67	0	0	32	0.91
665699--665731	2	16.5	2	100	0	66	48	0	0	51	1.00
666458--666500	22	2.0	22	100	0	86	41	23	13	20	1.88
666749--666773	3	8.3	3	100	0	50	32	0	0	68	0.90
668076--668124	21	2.3	21	86	6	64	36	0	16	46	1.47
675695--675823	11	11.9	11	65	21	58	37	0	1	61	1.06
675708--675786	32	2.5	30	84	11	104	40	0	0	59	0.97
675734--675785	25	2.1	25	82	13	63	38	0	0	61	0.96
675732--675783	16	3.2	16	70	20	54	40	0	0	59	0.97
678254--678308	20	2.8	18	84	13	65	7	5	7	80	1.04
678464--678509	20	2.3	20	96	0	83	58	0	0	41	0.98
678471--678507	10	3.5	11	78	14	51	62	0	0	37	0.96
678579--678630	27	1.9	27	84	7	70	36	1	1	59	1.19
681564--681766	99	2.1	99	100	0	406	31	17	19	32	1.95
681904--682762	433	2.0	430	94	1	1515	24	16	17	41	1.89
683507--684073	285	2.0	282	96	1	1044	29	12	19	38	1.89
686023--686060	2	19.0	2	100	0	76	50	50	0	0	1.00
688391--688418	14	2.0	14	100	0	56	14	42	0	42	1.45
687835--688990	582	2.0	582	100	0	2312	26	13	18	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
694747--694787	2	20.5	2	94	0	73	0	53	0	46	1.00
1019197--1019227	2	15.5	2	100	0	62	0	48	0	51	1.00
1020705--1021163	241	1.9	242	89	4	712	24	16	12	46	1.81
1033290--1033340	14	3.6	14	78	19	61	62	0	0	37	0.95
1039168--1039206	13	2.8	14	84	7	53	28	2	0	69	1.02
1045401--1045512	58	1.9	57	87	1	161	26	14	20	38	1.91
1055652--1055697	23	2.0	22	95	4	83	19	0	8	71	1.11
1055962--1056417	240	1.9	239	89	3	711	23	16	13	46	1.83
1056833--1056873	17	2.4	17	83	4	55	14	21	2	60	1.45
1060022--1060069	22	2.4	20	78	18	55	22	8	10	58	1.58
1060315--1060392	29	2.6	30	80	11	81	48	1	5	44	1.32
1061807--1061931	66	1.9	66	80	9	148	28	23	26	22	1.99
1073594--1073679	45	1.9	45	85	4	120	47	0	6	45	1.29
1074129--1074164	17	2.1	18	89	5	56	41	0	0	58	0.98
1074369--1074451	42	2.0	42	95	0	148	28	27	21	21	1.99
1076514--1076594	40	2.1	39	95	2	144	39	11	12	37	1.78
1077010--1077074	32	2.0	32	100	0	130	7	24	9	58	1.55
1077387--1077462	34	2.2	34	82	13	86	46	0	3	50	1.20
1078276--1078315	16	2.6	16	88	4	64	60	5	0	35	1.19
1078448--1078490	16	2.6	16	78	14	52	46	0	0	53	1.00
1079042--1079074	2	16.5	2	100	0	66	51	0	48	0	1.00
1079168--1079214	3	15.7	3	95	0	67	59	34	6	0	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1083263--1083366	52	2.0	52	100	0	208	48	7	23	21	1.75
1087796--1087823	2	14.0	2	100	0	56	50	0	0	50	1.00
1090908--1090985	2	39.0	2	92	0	129	47	48	0	3	1.20
1094378--1094443	3	22.0	3	87	0	51	10	34	1	53	1.45
1095860--1095919	28	2.1	29	82	14	72	30	13	8	48	1.71
1095954--1096005	17	3.2	17	82	15	58	65	0	0	34	0.93
1097662--1097695	17	1.9	18	94	5	61	32	0	0	67	0.91
1097662--1097713	17	3.2	17	82	15	58	34	0	0	65	0.93
1100059--1100096	17	2.2	17	100	0	76	42	0	7	50	1.31
1103487--1103523	18	2.0	19	89	5	58	32	5	2	59	1.34

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17