genome.fa.s31.2.7.7.80.10.50.1000.7.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: Scaffold31
Parameters: 2 7 7 80 10 50 1000
Length:  2401195

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

This is table  7  of  16  ( 1858 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)
916733--916888	40	3.8	39	77	13	129	85	8	3	2	0.81
916733--916891	22	7.2	21	76	11	131	84	8	4	2	0.83
918332--918802	30	15.9	29	76	10	339	29	28	16	25	1.97
918394--918446	27	2.0	27	92	0	88	33	33	16	15	1.90
918328--918739	121	3.5	119	76	7	363	29	28	16	25	1.97
918544--918801	88	3.0	88	90	5	382	31	29	17	21	1.96
918807--918896	43	2.1	43	91	0	144	26	25	17	30	1.98
918850--918987	52	2.6	53	82	3	161	23	25	16	34	1.96
920274--920325	20	2.5	21	81	12	63	38	9	19	32	1.84
920940--920964	13	1.9	13	100	0	50	36	16	16	32	1.90
921027--921051	13	1.9	13	100	0	50	32	16	16	36	1.90
921060--921240	52	3.5	52	98	0	344	34	19	17	28	1.95
924864--924917	20	2.7	20	91	5	83	37	18	12	31	1.89
924946--925014	20	3.8	20	75	25	89	33	18	14	33	1.91
924967--925057	13	8.0	13	69	28	82	37	15	15	31	1.89
924947--925057	33	3.4	33	94	1	188	36	16	15	32	1.90
924947--925077	33	4.0	32	89	2	145	33	16	17	32	1.92
925631--925672	22	1.9	22	90	0	66	23	33	4	38	1.76
927554--927578	13	1.9	13	100	0	50	32	16	16	36	1.90
933754--933803	20	2.5	20	87	6	66	40	20	12	28	1.87
933832--933887	19	2.9	19	89	2	76	35	16	16	32	1.90
933872--933897	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)
934522--934557	12	3.0	12	91	0	54	33	33	2	30	1.72
939160--939354	100	1.9	101	84	7	263	29	22	10	38	1.87
943344--944267	107	8.7	107	79	7	760	38	13	9	38	1.77
947019--947193	89	2.0	89	100	0	350	33	17	7	42	1.77
949916--949941	13	2.0	13	100	0	52	38	15	15	30	1.88
951348--951404	20	2.8	20	81	0	60	40	14	14	31	1.85
951390--951418	13	2.2	13	100	0	58	31	17	13	37	1.89
951406--951458	20	2.6	21	84	3	72	39	15	16	28	1.89
957617--957655	13	3.0	13	92	0	69	35	15	17	30	1.91
959517--959560	21	2.0	21	86	4	61	36	2	29	31	1.70
960070--960126	20	2.8	20	83	0	69	38	14	15	31	1.87
960212--960237	13	2.0	13	100	0	52	30	15	15	38	1.88
964284--964608	55	5.9	55	90	4	496	21	21	28	28	1.99
965613--965673	1	61.0	1	73	0	50	0	3	9	86	0.67
965608--965670	11	5.2	12	81	12	67	0	6	9	84	0.79
965613--965673	19	3.3	18	84	6	77	0	3	9	86	0.67
965616--965674	16	3.8	15	80	13	66	0	3	11	84	0.73
975981--976005	4	6.2	4	100	0	50	76	0	0	24	0.80
978086--978287	79	2.6	79	85	6	241	29	16	28	25	1.97
978165--978364	107	1.9	108	85	3	278	28	15	29	27	1.96
978239--978315	28	2.8	28	85	0	91	22	19	35	23	1.96
978299--978431	52	2.6	51	80	3	167	31	11	26	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980792--980817	13	2.0	13	100	0	52	38	15	15	30	1.88
980861--980912	13	3.5	13	73	26	50	36	17	13	32	1.89
980869--980954	19	4.7	19	72	20	76	37	16	12	33	1.87
980861--980933	32	2.3	32	97	0	137	35	17	12	34	1.88
980990--981047	21	2.7	22	81	7	75	32	15	15	36	1.89
984746--984778	2	16.5	2	100	0	66	48	0	0	51	1.00
985124--985427	102	2.9	105	78	9	234	37	7	14	40	1.74
985186--985632	108	4.3	101	76	10	303	39	6	12	40	1.71
985258--985560	108	2.9	105	82	7	332	38	5	12	42	1.68
985841--985869	2	14.5	2	100	0	58	48	0	0	51	1.00
987792--987846	23	2.3	24	78	9	69	58	0	0	41	0.98
992035--992088	20	2.7	20	88	2	72	38	11	16	33	1.84
992147--992221	21	3.6	21	85	1	98	28	13	17	41	1.87
993725--993764	21	1.9	21	85	10	55	37	7	2	52	1.43
996059--996306	123	2.0	123	96	0	460	38	10	9	41	1.72
1000692--1000734	17	2.5	17	84	3	50	37	0	2	60	1.10
1000998--1001107	55	2.0	55	98	0	211	26	21	19	32	1.97
1002122--1002151	2	15.0	2	100	0	60	50	0	0	50	1.00
1002396--1002435	2	20.5	2	84	5	55	47	2	0	50	1.14
1004875--1004943	16	4.4	16	75	3	68	30	8	5	55	1.54
1006629--1006802	79	2.2	79	83	5	210	35	10	12	40	1.78
1007432--1007464	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1007804--1007834	2	15.5	2	100	0	62	48	0	0	51	1.00
1008700--1008727	2	14.0	2	100	0	56	50	0	0	50	1.00
1010673--1010712	2	20.5	2	89	5	55	52	5	0	42	1.23
1010668--1010705	18	2.1	18	100	0	76	50	10	0	39	1.37
1012049--1012086	17	2.1	18	85	9	51	63	0	5	31	1.17
1015031--1015155	32	3.8	33	76	13	116	38	1	0	60	1.07
1015488--1015516	13	2.1	14	93	6	51	34	0	0	65	0.93
1015639--1015665	13	2.1	13	100	0	54	37	29	0	33	1.58
1018641--1018677	15	2.5	15	100	0	74	29	27	8	35	1.85
1021520--1022961	342	4.3	325	83	8	1575	44	13	8	33	1.74
1022442--1022492	19	2.6	19	85	11	68	58	1	7	31	1.37
1021520--1022961	667	2.1	663	85	6	1908	44	13	8	33	1.74
1023070--1023114	19	2.4	19	80	0	54	55	4	8	31	1.51
1022358--1023590	622	2.0	619	84	5	1635	43	12	9	34	1.75
1022981--1023627	339	1.9	336	83	6	842	44	11	9	34	1.74
1024482--1024516	17	1.9	19	88	11	56	28	8	0	62	1.24
1024828--1024867	20	2.0	21	85	5	55	67	0	2	30	1.04
1025527--1025620	16	6.3	15	71	19	63	47	0	1	51	1.07
1025557--1025613	29	2.0	29	86	6	82	49	0	0	50	1.00
1025568--1025640	37	1.9	38	81	13	89	52	0	0	47	1.00
1026095--1026143	18	2.7	18	82	14	64	73	2	0	24	0.94
1028189--1028214	12	2.2	12	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)
1029200--1029248	19	2.5	20	80	6	55	55	6	0	38	1.25
1037805--1037947	45	3.3	45	66	21	117	43	6	5	44	1.53
1038204--1038258	26	2.1	26	82	0	65	45	3	1	49	1.30
1038295--1038349	27	2.1	26	83	12	69	43	1	0	54	1.10
1038309--1038360	27	1.9	27	88	7	79	46	1	0	51	1.12
1038877--1038913	18	2.1	18	90	5	58	43	0	0	56	0.99
1038875--1038914	17	2.4	16	84	12	53	45	0	0	55	0.99
1039581--1039665	32	2.7	32	74	17	86	41	1	0	57	1.06
1039826--1039872	19	2.5	19	80	13	53	40	0	0	59	0.97
1039808--1039918	55	2.0	56	82	8	138	35	0	0	63	1.00
1039823--1039918	16	6.1	17	70	26	61	34	0	0	65	0.93
1039824--1039918	28	3.5	27	79	14	90	33	0	0	66	0.92
1039856--1039921	26	2.7	25	81	9	82	31	0	0	68	0.90
1048061--1048085	2	12.5	2	100	0	50	48	0	0	52	1.00
1051596--1051627	11	2.9	11	95	0	55	34	28	9	28	1.88
1053095--1053119	2	12.5	2	100	0	50	52	0	0	48	1.00
1056478--1056507	2	15.5	2	93	6	53	46	0	0	53	1.00
1056915--1056991	38	2.0	40	84	7	104	37	1	1	59	1.14
1056934--1057016	38	2.2	38	82	4	96	40	1	1	56	1.15
1058842--1058902	30	2.0	30	87	6	88	57	0	0	42	0.98
1058856--1058889	13	2.5	14	90	4	52	58	0	0	41	0.98
1063568--1064111	271	2.0	271	97	0	1027	34	18	18	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070319--1070359	18	2.3	18	87	4	57	24	0	12	63	1.28
1070896--1070929	12	2.8	12	81	0	50	52	2	0	44	1.16
1071128--1071179	17	3.1	17	88	2	79	36	0	1	61	1.07
1071713--1071746	12	2.8	12	81	0	50	52	2	0	44	1.16
1071768--1071804	18	2.1	17	90	10	56	70	5	0	24	1.08
1073402--1073457	21	2.6	21	72	13	60	48	0	0	51	1.00
1087976--1088078	34	3.1	34	65	18	97	47	7	32	12	1.70
1088010--1088114	33	3.2	33	64	17	90	46	7	29	16	1.74
1087971--1088119	67	2.2	67	97	0	280	47	8	29	14	1.73
1088875--1088909	2	18.0	2	94	5	63	48	0	0	51	1.00

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