genome.fa.s220.2.7.7.80.10.50.1000.5.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: Scaffold220
Parameters: 2 7 7 80 10 50 1000
Length:  3999181

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  5  of  19  ( 2201 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)
1057643--1057677	12	2.8	12	86	4	52	22	0	2	74	0.95
1069260--1069314	28	2.0	29	85	7	78	63	0	1	34	1.05
1069259--1069299	12	3.3	12	82	3	55	68	0	0	31	0.90
1069263--1069421	8	18.5	8	68	20	56	55	0	1	42	1.12
1069269--1069355	40	2.2	40	85	6	113	58	0	1	40	1.05
1069259--1069320	28	2.2	28	80	5	72	62	0	1	35	1.05
1069298--1069360	33	1.9	33	83	6	83	57	0	1	41	1.08
1069298--1069364	18	3.9	17	74	18	59	55	0	1	43	1.09
1075603--1075640	2	19.0	2	100	0	76	0	50	0	50	1.00
1075640--1075683	2	22.0	2	95	0	70	54	0	0	45	0.99
1076058--1076103	22	2.1	22	84	15	60	54	2	0	43	1.12
1076704--1076832	64	2.0	64	98	0	249	40	3	16	40	1.64
1083597--1083652	12	4.7	12	90	0	67	48	5	1	44	1.36
1083605--1083652	2	24.0	2	91	0	78	47	2	2	47	1.25
1091027--1091482	232	2.0	224	90	3	723	43	16	13	26	1.85
1092016--1092086	31	2.5	28	82	14	92	38	0	0	61	0.96
1092036--1092094	16	3.8	16	75	4	66	44	0	0	55	0.99
1092016--1092066	26	2.0	26	92	3	86	39	0	0	60	0.97
1092157--1092248	48	1.9	47	82	12	116	46	2	0	51	1.13
1092147--1092259	49	2.3	50	77	16	119	48	1	0	49	1.11
1092846--1092894	21	2.5	19	76	6	53	38	0	6	55	1.25
1099376--1099403	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103824--1103888	18	3.8	17	74	12	53	60	0	0	40	0.97
1105565--1105593	3	9.7	3	100	0	58	31	0	0	68	0.89
1105858--1105905	21	2.3	21	77	0	51	43	6	2	47	1.40
1106255--1106282	2	14.0	2	100	0	56	50	0	0	50	1.00
1107233--1107282	21	2.3	22	80	13	59	56	0	2	42	1.11
1128386--1128455	17	4.5	15	79	11	70	55	1	1	41	1.17
1133341--1133377	19	1.9	19	88	0	56	37	0	0	62	0.96
1134229--1134288	3	20.3	3	76	10	52	63	0	1	35	1.05
1134596--1134670	31	2.4	31	90	0	123	40	17	8	34	1.79
1134903--1135110	35	5.9	35	69	18	137	52	0	2	43	1.20
1134903--1135057	38	4.3	38	75	15	150	52	0	3	43	1.22
1135035--1135096	30	2.0	31	87	9	92	51	1	0	46	1.10
1134903--1135136	73	3.2	73	83	10	268	52	0	2	44	1.18
1135039--1135165	43	2.8	44	79	7	139	50	0	0	48	1.12
1135087--1135135	25	2.0	25	88	8	73	53	0	0	46	1.00
1135039--1135155	16	7.8	16	65	21	56	49	0	0	48	1.12
1135651--1135725	21	3.7	20	76	16	75	40	0	0	60	0.97
1135645--1135706	22	2.7	22	82	12	72	40	0	0	59	0.97
1135652--1135732	39	2.1	37	82	13	94	38	0	0	61	0.96
1135697--1135733	8	4.4	9	83	16	53	40	0	0	59	0.97
1136130--1136197	24	2.8	24	75	4	66	52	1	0	45	1.09
1137935--1137976	20	2.2	20	87	8	61	2	28	0	69	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144954--1144978	7	3.6	7	100	0	50	12	12	0	76	1.04
1148031--1148068	3	12.7	3	94	0	67	63	0	2	34	1.09
1148232--1148257	2	13.0	2	100	0	52	50	0	0	50	1.00
1151788--1151826	2	19.5	2	100	0	78	51	0	0	48	1.00
1151928--1151984	22	2.5	23	77	8	71	54	1	3	40	1.28
1152003--1152112	52	2.2	48	79	16	111	52	0	0	46	1.06
1152691--1152727	16	2.3	16	95	0	65	59	2	0	37	1.12
1157581--1157607	14	1.9	14	100	0	54	40	14	0	44	1.46
1158581--1158691	54	2.1	54	92	0	186	29	27	4	38	1.76
1160085--1160158	33	2.2	32	81	13	80	59	1	2	36	1.20
1170866--1170912	12	3.5	13	75	16	51	40	0	0	59	0.97
1171124--1171156	14	2.4	14	90	5	50	36	0	0	63	0.95
1171158--1171197	20	2.2	17	86	13	53	55	0	0	45	0.99
1176855--1176901	17	2.7	17	80	3	58	40	0	0	59	0.97
1176863--1176892	11	2.6	12	94	5	53	50	0	0	50	1.00
1176863--1176892	6	5.2	6	92	8	53	50	0	0	50	1.00
1193676--1193719	2	22.0	2	100	0	88	50	0	0	50	1.00
1193834--1193859	13	2.0	13	100	0	52	69	0	7	23	1.14
1193855--1193897	13	3.2	13	78	12	50	55	0	0	44	0.99
1196059--1196087	2	14.5	2	100	0	58	0	48	0	51	1.00
1196532--1196577	24	1.9	24	81	0	56	32	13	6	47	1.68
1201976--1202005	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213508--1213559	2	26.0	2	100	0	104	0	50	0	50	1.00
1213577--1213606	2	15.5	2	93	6	53	53	0	0	46	1.00
1213731--1213779	22	2.2	23	85	3	64	55	2	0	42	1.11
1213800--1213847	18	2.9	16	73	11	51	47	0	0	52	1.00
1213867--1213910	22	2.0	22	100	0	88	18	9	9	63	1.49
1214789--1214830	12	3.6	12	77	6	50	38	0	0	61	0.96
1215081--1215112	2	16.0	2	93	0	55	53	0	0	46	1.00
1216925--1217000	29	2.7	28	76	13	75	51	0	1	47	1.09
1219016--1219047	2	16.0	2	100	0	64	50	0	0	50	1.00
1219740--1219799	23	2.6	22	74	7	57	28	0	1	70	0.97
1220277--1220311	18	1.9	18	100	0	70	42	17	11	28	1.83
1228408--1228434	13	2.1	13	100	0	54	51	7	7	33	1.58
1228472--1228519	13	3.7	13	78	10	53	58	10	2	29	1.43
1230002--1230029	7	4.0	7	100	0	56	57	0	28	14	1.38
1230729--1230754	2	13.0	2	100	0	52	50	0	0	50	1.00
1232391--1232424	2	17.0	2	100	0	68	50	0	0	50	1.00
1233002--1233029	3	9.3	3	100	0	56	67	0	0	32	0.91
1233632--1233666	2	18.0	2	94	5	63	51	0	0	48	1.00
1236329--1236463	45	3.0	45	93	0	189	28	24	9	37	1.87
1239333--1239809	162	3.0	160	94	3	824	36	19	15	28	1.93
1242027--1242056	2	15.0	2	92	0	51	46	0	0	53	1.00
1254831--1254878	24	2.0	23	84	11	62	6	6	12	75	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1269608--1269876	144	1.9	143	80	0	322	32	20	15	30	1.94
1273970--1274002	2	16.5	2	100	0	66	51	0	0	48	1.00
1274797--1274825	2	14.5	2	100	0	58	51	0	0	48	1.00
1278882--1278916	2	17.5	2	93	0	61	48	0	2	48	1.16
1281743--1281863	63	1.9	63	87	0	179	43	9	19	28	1.81
1283463--1283541	38	2.1	38	83	11	99	55	0	0	44	0.99
1284083--1284137	22	2.6	21	78	13	60	56	1	0	41	1.10
1284103--1284168	16	4.1	16	78	13	64	57	0	0	42	0.98
1293052--1293092	21	2.0	21	85	0	55	12	31	34	21	1.91
1293904--1293946	19	2.3	19	80	8	52	39	9	9	41	1.69
1298390--1298423	3	11.3	3	100	0	68	32	0	0	67	0.91
1305097--1305150	24	2.4	22	81	9	65	53	0	1	44	1.11
1305119--1305162	17	2.6	17	78	3	54	56	0	0	43	0.99
1305087--1305172	24	4.1	20	73	18	59	59	0	1	39	1.05
1305120--1305173	17	3.4	16	74	20	51	57	0	0	42	0.98
1306810--1306846	3	12.0	3	88	5	56	35	2	0	62	1.10
1309523--1309577	17	3.3	16	76	14	58	43	0	1	54	1.10
1309514--1309567	18	3.1	18	73	13	58	50	0	1	48	1.11
1309521--1309577	15	3.5	15	71	17	51	43	0	1	54	1.10
1309512--1309593	34	2.4	35	82	12	98	51	0	1	47	1.08
1310418--1310472	22	2.7	19	77	20	58	50	1	0	47	1.11
1310567--1310607	20	2.1	20	86	4	57	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1319495--1319609	14	8.4	14	66	23	57	54	0	1	43	1.10
1319545--1319639	28	3.3	27	72	22	77	54	1	0	44	1.07
1319488--1319579	37	2.4	39	85	12	120	55	0	2	42	1.12
1319559--1319637	18	4.6	18	73	19	53	53	1	0	45	1.08
1319590--1319673	23	3.4	23	78	12	78	55	2	1	40	1.20
1319666--1319697	17	1.9	16	93	6	55	71	0	0	28	0.86
1320801--1320836	3	12.0	3	100	0	72	33	0	0	66	0.92
1321107--1321138	7	4.6	7	100	0	64	15	43	0	40	1.47
1322645--1322670	2	13.0	2	100	0	52	50	0	50	0	1.00
1324257--1324348	24	3.9	23	79	12	87	65	0	3	31	1.09

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19