genome.fa.s119.2.7.7.80.10.50.1000.7.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: Scaffold119
Parameters: 2 7 7 80 10 50 1000
Length:  3173904

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  7  of  20  ( 2346 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)
1023602--1023677	38	2.0	38	89	5	118	43	13	10	32	1.78
1023768--1023810	8	5.2	8	80	5	50	2	18	0	79	0.85
1024929--1025465	28	18.5	28	76	9	296	25	15	27	30	1.96
1025087--1025426	57	5.9	56	80	8	285	24	15	28	31	1.96
1025102--1025463	58	6.3	56	79	5	289	25	15	27	31	1.96
1025111--1025405	88	3.4	85	79	8	267	23	15	28	31	1.96
1026769--1026803	10	3.6	10	84	7	54	0	0	17	82	0.66
1026770--1026803	9	3.7	9	84	7	50	0	0	17	82	0.67
1037870--1037907	13	2.9	13	84	0	58	31	10	15	42	1.81
1044053--1044119	33	2.0	33	86	11	93	32	16	13	37	1.88
1046819--1046868	25	2.0	25	96	0	91	32	14	24	30	1.94
1049445--1049482	17	2.2	17	90	0	58	42	18	5	34	1.73
1051066--1051106	15	2.7	16	75	24	52	65	0	0	34	0.93
1051066--1051109	16	2.8	17	74	19	51	65	0	0	34	0.93
1051237--1051280	16	2.8	16	85	0	61	9	11	27	52	1.67
1052082--1052118	18	2.0	19	89	5	58	35	5	8	51	1.55
1052466--1052495	16	1.9	15	93	6	51	26	16	3	53	1.59
1053954--1054053	27	3.8	27	81	5	89	26	10	18	46	1.80
1059420--1059484	19	3.8	18	73	24	68	30	12	16	40	1.86
1059441--1059470	13	2.2	14	94	5	53	33	13	16	36	1.88
1059422--1059492	32	2.2	32	94	0	124	30	12	18	38	1.88
1059565--1059658	46	2.0	46	95	0	170	36	18	18	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063341--1063412	27	2.7	27	91	0	108	26	8	18	47	1.76
1063401--1063461	25	2.5	24	84	10	70	32	8	13	45	1.72
1068517--1068592	12	6.3	12	71	6	55	7	9	0	82	0.83
1068515--1068591	35	2.3	34	81	4	93	7	11	0	80	0.90
1068505--1068592	34	2.5	35	81	9	108	9	11	0	79	0.93
1075926--1075970	21	2.1	22	83	4	56	55	11	8	24	1.63
1077953--1078000	22	2.1	23	88	3	71	37	6	0	56	1.25
1078731--1078766	2	18.5	2	94	5	65	0	50	0	50	1.00
1079873--1079917	23	2.0	23	86	0	63	46	4	2	46	1.35
1082908--1082952	24	1.9	24	86	4	65	44	2	2	51	1.26
1082936--1082970	12	3.2	11	88	11	54	62	0	0	37	0.95
1083205--1083286	25	3.3	24	72	16	62	41	2	1	54	1.21
1084557--1084583	4	6.8	4	100	0	54	0	22	0	77	0.76
1088643--1088686	3	14.7	3	100	0	88	34	0	0	65	0.93
1091357--1091387	16	1.9	16	93	0	53	45	9	0	45	1.36
1091382--1091425	23	1.9	23	86	9	63	52	18	4	25	1.64
1092156--1092191	2	18.0	2	100	0	72	50	0	0	50	1.00
1092678--1092719	22	1.9	22	90	9	68	38	0	0	61	0.96
1099583--1099609	2	13.5	2	100	0	54	51	0	0	48	1.00
1099903--1099936	2	17.0	2	93	0	59	50	2	0	47	1.16
1100298--1100340	14	3.3	13	81	9	52	62	2	0	34	1.08
1102726--1102763	2	19.5	2	94	5	69	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103269--1103300	2	16.0	2	100	0	64	50	0	0	50	1.00
1108530--1108563	2	17.0	2	93	0	59	47	0	2	50	1.16
1109545--1109591	22	2.2	21	85	11	60	51	8	0	40	1.33
1109801--1109848	25	1.9	25	82	0	60	54	4	8	33	1.50
1111600--1111655	23	2.4	22	91	8	76	19	21	3	55	1.58
1111610--1111655	23	2.0	23	100	0	92	17	17	4	60	1.51
1112173--1112221	2	24.5	2	82	0	62	48	4	0	46	1.20
1114756--1114807	24	2.4	22	84	12	63	63	7	1	26	1.32
1117314--1117364	16	3.1	16	81	13	52	68	0	5	25	1.12
1117449--1117510	30	2.1	30	100	0	124	45	16	9	29	1.79
1122923--1122948	13	2.0	13	100	0	52	30	15	15	38	1.88
1122902--1122966	32	2.0	33	93	6	114	27	12	15	44	1.82
1122902--1122966	19	3.6	19	73	26	70	27	12	15	44	1.82
1123018--1123073	20	2.8	20	89	5	78	28	17	16	37	1.91
1125719--1125898	32	5.6	31	78	6	146	12	17	28	42	1.85
1125741--1125901	16	10.1	16	73	10	96	11	16	29	42	1.84
1125740--1125888	64	2.3	64	83	2	174	12	16	28	42	1.85
1127047--1127080	2	17.5	2	87	6	52	47	0	0	52	1.00
1127047--1127083	12	3.2	12	92	3	58	45	0	0	54	1.00
1129185--1129240	20	2.7	21	88	5	87	28	16	14	41	1.87
1133479--1133521	21	2.0	22	86	4	61	46	0	0	53	1.00
1135046--1135081	2	19.0	2	88	11	58	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)
1135362--1135393	2	16.0	2	100	0	64	50	0	0	50	1.00
1136863--1136918	20	2.8	19	89	5	76	39	14	16	30	1.88
1136969--1137020	19	2.7	20	87	6	79	38	19	13	28	1.89
1143313--1143358	21	2.2	20	81	11	58	32	19	4	43	1.71
1145758--1145783	13	2.0	13	100	0	52	38	15	15	30	1.88
1145740--1145803	32	2.0	33	90	3	103	39	18	14	28	1.90
1150456--1150506	20	2.5	20	80	0	57	31	15	17	35	1.92
1157159--1157287	52	2.5	52	89	5	215	27	19	17	35	1.94
1157365--1157467	32	3.2	32	94	0	179	35	16	13	33	1.88
1157392--1157448	13	3.9	13	74	24	51	33	15	14	36	1.88
1157405--1157468	19	3.7	19	76	23	86	35	18	12	32	1.89
1167492--1167517	13	2.0	13	100	0	52	38	15	15	30	1.88
1167474--1167538	32	2.0	32	87	6	94	40	18	13	27	1.89
1169488--1169547	8	8.0	7	77	18	59	1	18	0	80	0.80
1169488--1169547	14	4.5	13	78	17	54	1	18	0	80	0.80
1169488--1169549	23	2.8	21	80	9	70	1	19	0	79	0.82
1169657--1169708	23	2.2	22	80	16	52	5	17	0	76	0.97
1169673--1169714	10	4.2	10	84	6	50	2	16	0	80	0.81
1170171--1170567	166	2.4	165	79	5	395	48	7	12	31	1.67
1176951--1176975	13	1.9	13	100	0	50	76	0	0	24	0.80
1177017--1177471	158	2.9	156	85	4	589	29	24	9	36	1.88
1177040--1177471	79	5.5	77	81	6	476	29	23	10	36	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180597--1180666	20	3.6	19	77	9	70	38	17	14	30	1.89
1180762--1180816	21	2.5	22	94	5	103	27	23	10	38	1.88
1180873--1180911	13	3.0	13	88	0	60	33	15	15	35	1.89
1180979--1181026	20	2.4	21	72	10	55	29	12	20	37	1.90
1186575--1186658	19	4.7	19	70	18	72	38	19	15	27	1.91
1186604--1186673	32	2.2	32	94	0	122	41	20	12	25	1.88
1187393--1187492	42	2.4	42	94	1	173	28	20	4	48	1.67
1188596--1188677	28	2.9	28	80	7	96	26	17	31	24	1.97
1188660--1188830	51	3.3	51	79	4	198	32	11	26	29	1.92
1188813--1188888	27	2.8	28	88	6	102	21	21	34	23	1.97
1192477--1192551	33	2.3	32	79	9	80	38	1	21	38	1.62
1192523--1192570	21	2.3	20	79	10	53	39	0	20	39	1.53
1198965--1198991	13	2.1	13	100	0	54	40	14	14	29	1.86
1204329--1204392	33	2.0	33	87	3	94	42	15	14	28	1.86
1206404--1206448	19	2.4	19	81	7	56	71	4	6	17	1.25
1212389--1212432	20	2.1	22	91	8	74	43	2	22	31	1.66
1213223--1213248	13	2.0	13	100	0	52	30	15	15	38	1.88
1217903--1217933	15	2.1	15	93	0	53	12	22	16	48	1.80
1219740--1219784	21	2.1	21	84	8	56	22	20	4	53	1.63
1221649--1221674	13	2.0	13	100	0	52	30	15	15	38	1.88
1221713--1221765	20	2.6	21	87	3	72	30	16	13	39	1.87
1222630--1222655	13	2.0	13	100	0	52	38	15	15	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1222612--1222675	33	2.0	33	90	3	103	42	17	14	26	1.87
1224185--1224521	32	10.5	32	77	5	304	33	29	15	21	1.94
1227409--1227899	79	6.2	80	80	6	511	28	23	12	36	1.90
1227409--1227943	158	3.4	156	81	7	602	28	23	11	36	1.90
1227409--1227899	237	2.1	237	82	6	595	28	23	12	36	1.90
1230272--1230348	21	3.7	21	78	3	84	36	14	15	33	1.88
1230384--1230451	19	3.9	19	70	21	67	33	10	14	41	1.80
1230386--1230448	32	2.0	32	90	0	99	33	11	15	39	1.83
1230471--1230525	20	2.8	20	82	0	74	23	14	16	45	1.84
1232980--1233049	27	2.5	28	86	11	92	22	32	22	21	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20