genome.fa.s412.2.7.7.80.10.50.1000.7.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   

This is table  7  of  32  ( 3728 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)
1096705--1096930	23	9.8	24	71	20	164	62	0	3	34	1.12
1096706--1096924	90	2.4	88	82	8	230	62	0	3	34	1.13
1096877--1096934	13	4.4	13	76	23	59	60	0	0	39	0.97
1097655--1097718	17	3.6	18	75	12	60	50	0	0	50	1.00
1098212--1098237	4	6.5	4	100	0	52	76	0	0	23	0.78
1098434--1098489	11	5.7	10	78	17	55	35	0	0	64	0.94
1098424--1098483	30	2.0	30	84	9	79	38	0	0	61	0.96
1099320--1099386	16	3.9	16	74	14	62	31	0	1	67	1.00
1099339--1099395	23	2.4	23	85	11	71	38	0	1	59	1.08
1101992--1102026	2	17.5	2	100	0	70	51	0	0	48	1.00
1102995--1103070	16	4.7	16	70	15	66	34	0	7	57	1.28
1103330--1103381	14	3.6	14	87	5	77	63	0	0	36	0.95
1103330--1103381	21	2.4	22	78	12	63	63	0	0	36	0.95
1103330--1103382	7	7.2	8	73	26	55	62	0	0	37	0.96
1103640--1103696	31	2.0	28	83	13	71	35	17	5	42	1.72
1104205--1104285	31	2.5	33	80	13	96	44	0	0	55	0.99
1104205--1104285	32	2.5	32	84	13	105	44	0	0	55	0.99
1104270--1104299	6	5.2	6	92	8	53	30	0	0	70	0.88
1104270--1104299	11	2.6	12	89	10	53	30	0	0	70	0.88
1104266--1104307	17	2.5	17	85	14	68	30	0	0	69	0.89
1104454--1104481	3	9.3	3	100	0	56	32	0	0	67	0.91
1104701--1104759	27	2.3	27	82	8	70	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1104719--1104778	23	2.7	23	79	7	61	58	1	0	40	1.08
1104875--1104917	18	2.3	19	84	8	61	62	0	0	37	0.95
1104894--1104947	27	2.0	26	82	10	65	51	1	0	46	1.11
1104921--1104980	17	3.4	17	73	17	50	48	1	0	50	1.11
1106582--1106612	13	2.4	13	94	0	53	61	0	0	38	0.96
1108800--1108880	27	3.1	27	72	22	75	43	0	0	56	0.99
1108817--1108891	24	2.9	26	75	13	75	42	0	0	57	0.98
1110125--1110257	30	4.5	30	86	3	162	5	30	23	41	1.76
1110146--1110257	59	1.9	59	85	3	154	5	30	23	41	1.76
1110146--1110275	30	4.4	29	84	7	145	4	29	24	41	1.75
1110672--1110706	2	17.5	2	100	0	70	51	48	0	0	1.00
1111899--1111990	30	3.0	30	68	25	84	36	16	7	39	1.77
1112316--1112343	2	14.0	2	100	0	56	50	0	50	0	1.00
1113345--1113383	21	1.9	21	89	5	62	33	17	7	41	1.79
1114702--1114837	17	8.1	17	65	25	67	58	0	0	41	1.03
1114731--1114807	11	7.0	11	73	17	54	59	1	0	38	1.06
1114702--1114759	27	2.2	26	85	14	75	62	0	0	37	0.96
1114704--1114819	31	3.6	32	75	15	89	59	0	0	39	1.03
1114744--1114809	15	4.4	15	73	17	57	60	1	0	37	1.06
1114792--1114843	17	2.9	18	80	8	61	50	0	0	50	1.00
1114951--1115080	65	2.0	64	93	1	224	30	23	13	33	1.93
1116045--1116096	20	2.6	19	79	8	68	40	1	0	57	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1116424--1116449	13	2.0	13	100	0	52	84	0	0	15	0.62
1116588--1116635	14	3.4	14	82	11	62	50	0	0	50	1.00
1116583--1116622	13	3.0	13	82	7	53	52	0	0	47	1.00
1116765--1116822	17	3.5	17	71	15	50	58	0	0	41	0.98
1116768--1116851	28	3.0	28	81	8	75	54	0	1	44	1.07
1117011--1117053	20	2.2	20	86	0	59	37	4	2	55	1.33
1117188--1117247	25	2.4	25	94	5	104	18	3	16	61	1.47
1118626--1118672	11	4.0	12	78	13	53	38	0	0	61	0.96
1118780--1118808	5	6.0	5	92	8	51	62	0	0	37	0.96
1119241--1119303	14	4.6	14	71	28	55	60	0	1	38	1.07
1119243--1119407	11	16.7	10	68	15	51	58	0	0	41	1.03
1119230--1119406	25	7.0	24	68	21	87	57	0	1	41	1.06
1119236--1119327	27	3.4	27	81	14	84	56	0	1	42	1.06
1119269--1119373	17	6.2	16	67	21	63	57	0	0	42	0.99
1119236--1119417	26	6.8	27	69	23	111	57	0	0	41	1.03
1119283--1119364	32	2.5	32	81	13	87	53	0	0	46	1.00
1119365--1119409	17	2.6	17	89	0	63	64	0	0	35	0.94
1119418--1119491	23	3.2	23	69	16	62	48	0	0	51	1.00
1121392--1121823	217	2.0	216	85	3	587	39	18	13	28	1.89
1122763--1122841	38	2.1	38	97	0	149	26	16	31	25	1.96
1125622--1125695	37	2.0	37	91	0	121	24	20	25	29	1.99
1125659--1125754	50	1.9	50	89	0	147	29	16	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130126--1130307	50	3.6	50	91	0	283	29	19	19	31	1.96
1134780--1134850	35	2.0	35	97	0	133	23	15	16	43	1.87
1139859--1139892	18	1.9	18	88	5	52	35	0	5	58	1.22
1141082--1141111	7	4.4	7	91	8	53	40	0	0	60	0.97
1141082--1141111	13	2.2	14	94	5	53	40	0	0	60	0.97
1141145--1141185	10	4.0	10	81	6	55	68	0	0	31	0.90
1147527--1147560	18	1.9	18	88	5	52	58	2	0	38	1.13
1148286--1148312	13	2.1	13	100	0	54	29	14	14	40	1.86
1148296--1148352	19	2.9	19	86	2	78	33	17	15	33	1.92
1148402--1148426	13	1.9	13	100	0	50	32	20	16	32	1.94
1148382--1148447	33	2.0	34	91	8	109	34	13	21	30	1.92
1149297--1149350	22	2.4	22	81	6	63	42	0	1	55	1.10
1149739--1149775	8	4.6	8	90	9	58	64	0	0	35	0.94
1149739--1149785	17	2.8	16	87	12	67	61	0	0	38	0.96
1149746--1149789	9	4.8	9	81	15	54	59	0	0	40	0.98
1150396--1150423	7	4.0	7	100	0	56	71	0	0	28	0.86
1150825--1150863	20	2.0	20	84	0	51	64	10	2	23	1.37
1150916--1150940	8	3.1	8	100	0	50	36	0	0	64	0.94
1150943--1150995	17	2.9	17	80	8	52	50	3	0	45	1.19
1163313--1163351	13	3.1	13	77	7	53	33	0	2	64	1.08
1163313--1163380	26	2.6	26	88	4	93	38	0	2	58	1.13
1163427--1163490	33	2.0	32	87	3	92	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)
1166586--1166626	21	2.0	21	90	9	66	63	0	0	36	0.95
1166604--1166664	19	3.3	18	74	19	54	55	0	1	42	1.09
1166794--1166839	19	2.4	20	82	7	60	43	0	0	56	0.99
1167995--1168019	11	2.3	11	100	0	50	52	0	0	48	1.00
1170848--1170877	12	2.6	11	90	10	51	66	0	0	33	0.92
1170953--1171002	18	2.5	20	81	15	59	40	0	0	60	0.97
1170961--1171020	22	2.9	21	76	13	70	40	0	0	60	0.97
1171646--1171684	21	1.9	20	85	15	53	64	0	0	35	0.94
1172875--1172913	17	2.3	17	81	0	51	38	0	0	61	0.96
1173121--1173161	22	2.0	20	90	9	64	53	4	0	41	1.22
1173433--1173457	12	2.1	12	100	0	50	64	0	0	36	0.94
1173620--1173654	18	1.9	18	94	0	61	54	0	0	45	0.99
1179269--1179314	6	7.7	6	90	0	56	52	2	6	39	1.40
1179267--1179314	18	2.7	18	90	0	69	52	2	6	39	1.39
1179803--1179838	3	12.0	3	100	0	72	66	0	0	33	0.92
1180109--1180193	33	2.6	33	77	9	84	57	0	2	40	1.11
1180135--1180220	26	3.2	26	71	16	70	60	0	2	37	1.10
1180187--1180226	19	2.0	20	86	13	57	67	0	0	32	0.91
1180186--1180233	24	2.0	24	84	8	62	64	2	0	33	1.05
1182027--1182064	2	19.0	2	100	0	76	50	0	0	50	1.00
1182463--1182493	15	2.1	15	93	0	53	58	6	0	35	1.24
1182818--1182859	22	2.0	21	86	9	59	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182818--1182878	20	3.0	20	82	4	59	44	1	0	54	1.10
1182815--1182921	33	3.3	30	75	22	85	41	0	0	57	1.05
1182912--1182940	14	2.0	15	93	6	51	24	0	0	75	0.80
1183380--1183433	26	2.1	26	82	6	65	46	9	1	42	1.46
1183558--1183615	29	2.0	30	86	10	84	22	3	1	72	1.09
1185227--1185271	20	2.2	21	84	11	58	48	0	0	51	1.00
1188452--1188524	7	9.2	8	72	15	55	38	1	1	58	1.15
1188461--1188530	23	3.2	21	80	13	70	37	1	1	60	1.15
1188481--1188542	28	2.2	27	80	11	72	43	0	0	56	0.99
1188773--1188805	16	2.0	17	94	5	59	39	0	0	60	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32