genome.fa.s344.2.7.7.80.10.50.1000.7.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: Scaffold344
Parameters: 2 7 7 80 10 50 1000
Length:  1758742

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  7  of  11  ( 1257 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)
1056465--1056519	20	2.8	20	82	0	74	45	16	14	23	1.84
1056643--1056699	21	2.7	21	97	0	105	36	19	10	33	1.86
1057455--1058571	55	19.5	55	83	8	1119	25	20	27	26	1.99
1057455--1058578	171	6.5	166	84	7	1174	25	20	27	26	1.99
1058028--1058109	26	2.9	29	68	17	82	18	19	31	30	1.96
1059569--1059640	29	2.4	28	84	13	83	0	12	6	80	0.89
1059570--1059637	16	4.4	15	68	17	50	0	13	5	80	0.87
1072084--1072153	28	2.5	28	83	0	77	25	20	32	21	1.97
1072136--1072306	52	3.3	50	79	8	164	31	12	26	29	1.93
1072289--1072364	27	2.8	28	90	6	111	22	21	32	23	1.98
1072072--1072473	212	1.9	212	88	3	603	31	13	26	28	1.94
1074834--1074859	13	2.0	13	100	0	52	38	15	15	30	1.88
1074899--1074998	19	5.9	18	73	26	103	38	15	12	35	1.84
1074921--1074977	13	3.9	13	76	24	60	35	15	14	35	1.88
1074902--1074996	32	3.0	32	98	0	181	36	15	12	34	1.86
1075054--1075110	21	2.7	21	97	0	105	36	19	10	33	1.86
1077386--1077510	52	2.4	52	94	0	214	28	17	17	36	1.93
1077386--1077530	52	2.8	52	88	4	195	31	17	17	34	1.93
1077516--1077543	13	2.2	13	100	0	56	39	17	14	28	1.89
1077584--1077650	33	2.0	33	85	0	89	40	13	11	34	1.81
1083037--1083082	23	2.0	23	95	0	83	23	17	19	39	1.92
1085898--1086003	51	2.1	51	89	0	158	36	10	23	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1085947--1086231	79	3.6	79	80	7	319	35	12	23	28	1.92
1085860--1086093	130	1.8	130	85	1	335	36	14	22	26	1.92
1088903--1088959	21	2.8	21	89	2	80	40	29	10	19	1.85
1089333--1089381	21	2.3	20	83	10	62	46	18	10	24	1.79
1089700--1089813	59	1.9	59	85	3	158	50	6	11	32	1.63
1089854--1089908	22	2.5	23	79	5	60	50	9	7	32	1.61
1098321--1098345	6	4.2	6	100	0	50	16	0	0	84	0.63
1098334--1098375	20	2.0	20	86	4	57	35	16	0	47	1.47
1098712--1098765	16	3.4	16	70	10	56	46	18	12	22	1.83
1098705--1098765	32	1.9	32	96	0	113	45	18	13	22	1.83
1100683--1100713	15	2.1	15	100	0	62	32	22	19	25	1.97
1104451--1104565	51	2.3	51	90	4	180	28	15	13	42	1.84
1110690--1110744	3	18.3	3	96	0	101	65	0	0	34	0.93
1111881--1111929	20	2.4	20	86	10	64	30	24	10	34	1.89
1132011--1132148	51	2.7	51	87	0	204	43	13	15	27	1.84
1132761--1132999	29	8.1	29	79	5	212	27	30	15	26	1.96
1132756--1132999	87	2.8	87	77	4	247	26	30	15	27	1.96
1132963--1133071	32	3.5	32	79	8	109	31	28	13	26	1.94
1133004--1133312	92	3.3	92	84	0	357	28	25	18	27	1.98
1133421--1133575	58	2.7	57	78	3	159	23	24	16	35	1.95
1133549--1133928	52	7.4	52	77	8	305	25	21	14	37	1.92
1133549--1133914	104	3.6	102	80	4	371	25	21	13	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133584--1133905	156	2.1	156	84	3	416	26	21	13	39	1.90
1135034--1135093	30	2.0	30	96	0	111	26	25	23	25	2.00
1137186--1137404	96	2.3	97	82	7	259	29	21	10	39	1.86
1139020--1139059	16	2.5	16	83	0	53	55	5	0	40	1.22
1139078--1139168	14	6.5	14	70	13	53	58	2	0	39	1.10
1139078--1139162	28	3.1	27	78	11	100	57	2	0	40	1.11
1139139--1139173	16	2.2	16	89	0	52	65	5	0	28	1.15
1140243--1140276	17	1.9	18	94	5	61	44	0	0	55	0.99
1140481--1140523	18	2.3	19	84	8	52	30	6	0	62	1.21
1140584--1140643	22	2.6	22	79	10	59	36	5	1	56	1.31
1140598--1140643	23	1.9	24	82	8	58	32	6	2	58	1.36
1140960--1141026	10	7.2	10	73	18	56	61	1	0	37	1.05
1140957--1141035	20	4.2	19	75	22	69	59	1	0	39	1.06
1140962--1141024	27	2.3	28	83	5	76	61	1	0	36	1.05
1140970--1141031	19	3.2	19	77	11	63	61	1	0	37	1.06
1141019--1141063	16	2.9	15	90	3	63	48	0	2	48	1.13
1142043--1142082	2	20.0	2	100	0	80	50	0	0	50	1.00
1145141--1145185	11	4.1	11	80	11	56	37	0	2	60	1.09
1145146--1145186	22	1.9	21	95	5	73	36	0	2	60	1.10
1145812--1145872	2	30.5	2	85	9	63	42	1	6	49	1.38
1153628--1154134	27	18.4	27	82	5	523	24	31	14	29	1.95
1154015--1154180	82	2.0	81	90	1	260	28	24	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1153988--1154209	109	2.0	109	86	0	309	28	26	15	30	1.96
1153628--1154209	27	21.2	27	80	7	467	25	30	14	29	1.95
1154052--1154599	28	19.5	28	80	7	506	29	28	17	24	1.97
1155801--1155853	20	2.6	21	87	3	72	39	13	16	30	1.87
1159986--1160016	15	2.1	15	93	0	53	48	16	22	12	1.80
1162240--1162285	21	2.2	20	81	11	58	32	19	4	43	1.71
1167598--1167772	97	1.8	97	81	3	219	29	28	12	30	1.92
1169262--1169382	60	2.0	60	85	0	161	33	31	1	33	1.68
1177487--1177517	2	15.5	2	100	0	62	48	0	0	51	1.00
1181553--1181591	21	1.9	20	84	5	51	74	5	10	10	1.21
1183758--1183788	2	16.0	2	93	6	55	51	0	0	48	1.00
1184329--1184384	26	2.2	26	84	9	71	48	0	1	50	1.11
1185504--1185558	25	2.2	25	84	9	69	56	10	5	27	1.56
1185635--1185674	20	2.0	19	90	9	62	40	10	0	50	1.36
1186471--1186528	21	2.6	22	74	17	57	24	1	3	70	1.12
1194709--1194757	16	3.0	18	77	16	54	46	2	4	46	1.33
1194730--1194763	15	2.2	16	89	5	52	41	2	0	55	1.15
1194754--1194813	17	3.3	18	84	11	61	48	3	0	48	1.18
1195953--1195986	2	17.0	2	100	0	68	50	0	0	50	1.00
1196460--1196488	2	14.5	2	100	0	58	51	0	0	48	1.00
1208599--1208644	13	3.8	12	80	19	51	60	2	0	36	1.09
1208596--1208658	23	2.7	23	87	0	81	57	4	1	36	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208837--1208864	1	28.0	1	100	0	56	0	0	0	100	0.00
1210034--1210071	16	2.4	16	86	8	51	39	7	2	50	1.46
1210131--1210175	17	2.5	18	85	7	56	66	2	2	28	1.15
1210849--1210888	21	1.9	21	85	10	55	45	5	2	47	1.38
1210913--1211000	46	2.0	43	83	12	110	35	11	6	46	1.66
1211504--1211544	7	5.6	7	85	8	55	60	0	0	39	0.96
1211879--1211918	15	2.7	15	92	3	64	25	10	2	62	1.39
1213565--1213616	21	2.4	21	84	9	61	63	0	1	34	1.06
1213565--1213678	9	11.7	10	72	19	64	57	0	0	41	1.11
1213556--1213713	59	2.7	60	70	19	136	60	1	0	37	1.10
1213565--1213680	6	17.3	7	65	21	52	57	0	0	40	1.10
1215438--1215491	22	2.5	22	85	11	67	75	5	3	14	1.12
1223868--1223932	32	2.0	33	87	3	96	40	15	15	29	1.88
1223887--1223913	13	2.1	13	100	0	54	40	14	14	29	1.86
1224458--1224514	26	2.0	28	80	12	64	43	12	8	35	1.73
1224860--1224916	30	1.9	30	85	7	80	54	12	5	28	1.59
1225841--1226536	41	17.0	40	67	13	128	46	11	22	19	1.81
1225845--1226086	82	3.0	83	79	2	247	46	12	22	18	1.83
1226428--1226557	41	3.2	40	75	9	127	46	10	22	20	1.81
1227165--1227203	20	2.0	20	90	5	62	48	12	7	30	1.69
1227263--1227299	2	18.5	2	100	0	74	51	0	0	48	1.00
1231509--1231549	21	2.0	21	85	9	57	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1232947--1232984	15	2.4	16	82	8	51	76	7	0	15	1.01
1234909--1234949	20	2.0	20	90	9	66	63	0	0	36	0.95
1237198--1237259	20	3.0	20	83	4	88	51	14	0	33	1.43
1237198--1237251	21	2.7	20	88	5	81	55	14	0	29	1.40
1237440--1237473	2	17.0	2	100	0	68	50	0	0	50	1.00
1238480--1238512	13	2.6	13	90	4	50	33	0	0	66	0.92
1238506--1238570	23	2.8	23	82	11	80	50	3	1	44	1.26
1238828--1238869	3	14.0	3	100	0	84	66	0	0	33	0.92
1244473--1244555	40	2.0	41	84	15	111	44	1	7	46	1.38
1254389--1254440	20	2.6	20	81	0	59	40	17	5	36	1.73

Tables:   1   2   3   4   5   6   7   8   9   10   11