genome.fa.s4319.2.7.7.80.10.50.1000.5.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: scaffold287
Parameters: 2 7 7 80 10 50 1000
Length:  1864789

Tables:   1   2   3   4   5   6   7   

This is table  5  of  7  ( 730 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)
1026753--1026777	13	1.9	13	100	0	50	32	24	12	32	1.91
1027548--1027610	6	10.5	6	81	6	65	76	7	0	15	1.01
1029165--1029246	3	27.0	3	90	7	130	63	3	0	32	1.12
1029190--1029264	15	4.9	16	93	6	74	66	2	1	29	1.13
1029667--1029729	19	3.4	19	89	4	67	36	9	14	39	1.78
1029678--1029754	19	3.8	19	83	11	100	36	6	15	41	1.73
1030075--1030122	3	16.0	3	86	0	69	33	2	2	62	1.18
1032374--1032475	43	2.4	43	91	1	161	19	32	25	22	1.97
1033912--1033955	19	2.3	19	88	0	61	56	27	2	13	1.49
1047389--1047430	2	21.0	2	100	0	84	0	0	50	50	1.00
1048625--1048673	20	2.7	18	77	22	57	51	4	2	42	1.32
1050699--1050739	6	6.3	7	88	11	61	9	14	0	75	1.04
1052529--1052562	10	3.3	10	84	8	50	67	11	11	8	1.42
1052810--1052864	20	2.8	20	97	0	101	36	18	21	23	1.95
1061401--1061561	78	2.1	78	88	2	234	47	13	9	29	1.74
1071987--1072020	18	1.9	18	94	5	61	17	32	41	8	1.80
1076689--1076752	27	2.4	26	84	2	74	40	4	4	50	1.44
1076826--1076898	35	2.0	37	89	5	114	50	8	13	27	1.70
1091134--1091188	19	2.7	21	83	11	87	36	10	10	41	1.75
1091111--1091176	23	3.0	22	75	20	66	37	15	7	39	1.75
1102942--1103101	84	1.9	84	82	5	198	16	25	16	41	1.89
1102942--1103103	42	3.9	42	79	6	157	16	25	16	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103044--1103105	21	3.0	21	65	0	52	17	29	16	37	1.92
1108352--1108393	19	2.2	18	84	16	50	57	2	4	35	1.33
1110401--1110451	21	2.4	22	81	15	63	35	3	1	58	1.28
1110728--1110772	23	2.0	23	86	4	65	37	6	17	37	1.76
1110975--1111019	23	2.0	23	81	0	54	22	0	15	62	1.33
1111200--1111442	3	81.0	3	100	0	486	33	0	0	66	0.92
1112963--1113033	28	2.5	28	86	2	106	64	0	1	33	1.02
1115832--1115856	12	2.1	12	100	0	50	44	32	8	16	1.76
1116994--1117082	19	4.8	18	81	12	83	31	1	1	66	1.06
1116995--1117082	10	9.4	9	75	14	81	30	1	1	67	1.06
1120944--1121021	23	3.5	23	75	16	74	41	1	0	57	1.07
1123067--1123142	29	2.7	29	89	2	109	23	19	19	36	1.95
1131729--1131770	20	2.2	19	95	4	75	33	4	0	61	1.17
1131733--1131799	20	3.4	19	81	6	71	35	1	0	62	1.04
1131784--1131809	13	2.0	13	100	0	52	46	0	0	53	1.00
1131811--1131848	15	2.5	15	95	0	67	73	5	0	21	1.02
1131962--1132000	21	1.9	21	94	5	71	30	25	10	33	1.89
1132745--1132942	54	3.7	53	79	6	193	16	26	19	37	1.93
1132747--1133001	27	9.5	27	75	4	165	16	27	19	36	1.93
1132801--1133006	107	1.9	107	85	4	281	16	28	19	35	1.94
1134355--1134405	23	2.1	23	85	7	66	82	1	1	13	0.85
1134370--1134396	14	1.9	14	100	0	54	88	0	0	11	0.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134355--1134406	25	2.1	25	82	3	61	82	1	1	13	0.84
1134670--1134722	26	2.0	27	82	10	65	32	0	0	67	0.91
1142851--1142902	21	2.5	21	96	3	97	7	26	17	48	1.74
1145789--1145968	45	4.0	45	77	8	170	24	22	12	40	1.89
1146148--1146200	24	2.2	24	90	6	81	20	16	32	30	1.95
1150634--1150669	8	4.5	8	100	0	72	75	0	0	25	0.81
1152564--1152590	6	4.5	6	100	0	54	51	14	0	33	1.43
1170560--1170798	50	4.7	50	78	4	185	23	28	20	27	1.99
1176751--1176807	29	2.0	29	85	0	78	43	8	10	36	1.70
1180227--1180268	21	2.0	20	86	4	57	35	16	16	30	1.92
1180323--1180371	15	3.1	15	85	5	62	75	4	2	18	1.06
1180326--1180372	8	5.9	8	82	5	51	78	2	2	17	0.94
1180448--1180531	10	8.6	10	71	16	52	58	1	0	40	1.06
1180475--1180531	21	2.8	19	77	15	60	57	1	0	40	1.09
1187153--1187205	10	5.4	10	88	4	72	75	1	7	15	1.11
1187147--1187188	10	3.9	11	87	9	52	71	0	9	19	1.13
1187153--1187205	19	2.7	19	85	2	70	75	1	7	15	1.11
1188394--1188465	33	2.2	33	87	5	101	54	6	27	11	1.61
1197553--1197614	29	2.3	27	83	8	72	54	14	19	11	1.69
1199827--1199889	13	4.8	13	88	0	99	30	6	22	41	1.78
1209022--1209064	17	2.5	17	78	10	52	44	0	30	25	1.55
1209345--1209436	30	3.1	29	83	12	114	39	3	38	19	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210555--1210590	17	2.1	18	89	5	56	52	16	8	22	1.70
1211045--1211092	15	3.2	15	82	5	53	60	2	4	33	1.27
1213298--1213331	16	2.1	16	94	0	59	50	5	2	41	1.42
1216440--1216492	18	2.9	18	85	0	79	35	15	35	13	1.86
1216440--1216483	9	4.9	9	91	0	70	36	18	34	11	1.86
1218797--1218930	44	3.0	44	77	7	112	30	20	15	32	1.94
1219248--1219580	89	3.8	89	88	4	474	26	21	23	28	1.99
1219248--1219580	177	1.9	178	89	1	517	26	21	23	28	1.99
1219507--1219650	70	2.1	70	83	0	180	27	21	25	25	1.99
1219420--1219738	159	2.0	159	87	0	458	26	22	24	27	2.00
1219581--1219942	89	4.1	89	86	1	492	25	21	22	29	1.99
1219248--1219900	337	1.9	336	88	2	979	26	22	23	28	1.99
1219758--1219895	44	3.1	44	67	15	113	23	23	24	28	2.00
1219581--1219999	178	2.4	177	83	4	459	26	21	22	29	1.99
1221143--1221264	42	2.9	42	81	4	147	27	32	13	27	1.93
1232136--1232171	17	2.1	18	89	5	56	52	16	8	22	1.70
1237471--1237580	40	2.8	40	79	9	125	48	9	22	20	1.77
1248001--1248065	20	3.3	19	73	16	60	60	1	1	36	1.16
1249456--1249493	18	2.2	18	86	9	53	68	0	7	23	1.16
1250101--1250153	23	2.3	24	74	9	56	30	7	11	50	1.65
1252637--1252705	21	3.4	20	76	9	77	59	0	2	37	1.12
1272855--1272893	15	2.5	15	91	4	60	51	0	5	43	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281767--1281939	45	3.8	45	80	3	170	20	21	16	41	1.90
1283325--1283377	16	3.3	16	86	0	79	39	5	26	28	1.79
1288643--1288698	29	1.9	29	85	7	78	28	8	3	58	1.45
1289785--1289856	34	2.1	34	100	0	144	34	9	25	30	1.88
1295036--1295078	18	2.2	20	84	8	54	46	18	18	16	1.84
1295401--1295467	25	2.7	26	80	15	70	43	2	4	49	1.38
1295447--1295512	30	2.2	29	92	5	114	37	4	3	54	1.36
1299006--1299043	13	2.8	14	80	19	53	65	5	5	23	1.34
1299555--1299611	25	2.3	25	84	6	71	68	3	1	26	1.15
1299576--1299637	25	2.5	25	82	12	74	66	3	1	29	1.17
1301544--1301766	44	5.0	45	61	8	125	24	24	22	28	2.00
1301533--1301845	88	3.6	88	88	0	455	24	23	23	28	1.99
1301616--1301835	44	5.0	44	65	10	144	25	24	22	27	2.00
1301826--1302682	44	19.4	43	72	10	436	28	24	16	29	1.96
1301837--1302683	133	6.4	133	93	1	1283	28	25	16	30	1.96
1304002--1304033	16	2.0	16	100	0	64	12	0	6	81	0.87
1304788--1304848	26	2.3	26	83	5	70	57	4	14	22	1.57
1308531--1308567	13	2.7	14	84	16	51	67	5	2	24	1.25
1314186--1314243	24	2.4	23	83	13	64	65	3	1	29	1.19
1317445--1317592	59	2.5	59	77	14	153	54	3	1	41	1.26
1317556--1317596	18	2.4	17	84	8	55	58	0	2	39	1.11
1327965--1327994	15	2.0	15	100	0	60	33	33	13	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1340449--1340930	236	2.0	236	93	0	813	29	14	22	34	1.94
1350621--1350652	16	1.9	17	93	6	57	37	21	0	40	1.54
1350771--1350941	43	4.0	42	80	6	157	32	28	17	21	1.96
1364838--1364871	17	2.0	17	88	0	50	23	23	11	41	1.87
1379028--1379064	11	3.1	13	81	18	53	62	0	0	37	0.96
1389574--1389605	6	5.3	6	100	0	64	15	34	0	50	1.45
1390374--1390444	34	2.0	34	83	5	88	57	2	4	35	1.33
1391357--1391410	19	2.8	18	83	8	63	22	5	1	70	1.18
1393826--1394267	27	16.4	27	84	5	547	42	18	20	18	1.89
1412057--1412088	15	2.1	15	100	0	64	31	0	6	62	1.20

Tables:   1   2   3   4   5   6   7