genome.fa.s4.2.7.7.80.10.50.1000.22.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: Scaffold4
Parameters: 2 7 7 80 10 50 1000
Length:  5986281

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   

This is table  22  of  31  ( 3628 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)
4713348--4713390	4	10.8	4	94	0	77	27	0	20	51	1.48
4714692--4714740	22	2.1	24	85	7	66	26	6	4	63	1.36
4726217--4726316	50	2.0	50	98	0	191	39	14	21	26	1.91
4728139--4728233	49	2.0	48	93	2	163	44	7	9	38	1.65
4729698--4729744	21	2.1	22	84	7	60	59	0	0	40	0.97
4729706--4729765	21	2.9	21	74	16	63	55	1	0	43	1.10
4731379--4731436	22	2.6	22	86	5	73	60	0	0	39	0.97
4731545--4731577	16	2.0	17	88	5	50	57	9	0	33	1.30
4732941--4732987	24	1.9	25	86	4	69	31	0	6	61	1.21
4732956--4732999	17	2.6	18	82	10	56	36	0	2	61	1.09
4732956--4733020	18	3.7	18	81	6	62	35	3	1	60	1.22
4744164--4744196	2	16.5	2	100	0	66	48	0	0	51	1.00
4748047--4748075	2	14.5	2	100	0	58	0	51	0	48	1.00
4750453--4750493	18	2.3	18	87	8	57	65	0	0	34	0.93
4750558--4750590	12	2.6	13	80	9	50	66	0	0	33	0.92
4750543--4750591	18	2.8	17	84	9	62	63	0	2	34	1.06
4750543--4750590	25	2.0	24	87	4	69	64	0	2	33	1.05
4750959--4751016	29	2.0	29	100	0	116	48	3	31	17	1.64
4752436--4752488	21	2.6	19	78	21	63	43	0	1	54	1.11
4752879--4752956	22	3.8	21	72	19	58	55	1	0	43	1.08
4752958--4753004	11	4.1	11	79	15	51	34	0	0	65	0.93
4752947--4753003	5	11.2	5	80	12	55	36	1	0	61	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4752946--4753002	18	3.2	18	76	20	66	38	1	0	59	1.08
4753552--4753676	64	1.9	66	85	3	173	50	4	1	44	1.30
4754127--4754311	106	1.8	100	84	9	255	55	2	2	40	1.24
4754130--4754296	52	3.2	53	79	10	191	55	1	1	40	1.21
4754447--4754488	22	1.9	22	85	0	57	42	9	7	40	1.65
4754487--4754532	22	2.1	22	88	8	67	41	10	0	47	1.38
4754700--4754817	54	2.2	55	83	7	143	36	3	4	55	1.36
4755156--4755208	22	2.4	21	81	6	52	47	3	5	43	1.45
4755304--4755477	53	3.3	53	82	5	201	43	0	4	52	1.24
4755302--4755474	52	3.3	54	83	6	212	42	0	4	52	1.24
4755472--4755509	9	4.3	9	83	3	51	50	0	0	50	1.00
4755756--4755800	2	22.5	2	90	0	72	46	0	4	48	1.22
4756049--4756168	51	2.3	52	87	4	163	41	2	3	52	1.31
4756106--4756167	17	3.6	18	74	18	51	40	0	1	58	1.08
4757284--4757342	19	2.9	21	80	14	70	54	0	0	45	0.99
4757627--4757686	11	5.5	11	79	13	61	38	0	0	61	0.96
4757625--4757672	12	4.0	12	81	10	53	41	0	0	58	0.98
4758260--4758307	18	2.8	17	77	22	55	56	0	2	41	1.11
4758545--4758578	17	2.0	17	94	0	59	26	5	5	61	1.42
4758816--4758872	30	1.9	30	85	7	80	42	1	0	56	1.10
4761146--4761200	26	2.1	26	86	0	74	43	7	10	38	1.68
4765372--4765418	16	2.8	17	74	9	51	46	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4765397--4765435	15	2.6	15	83	0	51	43	0	2	53	1.14
4765704--4765751	22	2.2	22	81	7	53	62	0	0	37	0.95
4766154--4766195	17	2.6	17	81	7	52	50	0	0	50	1.00
4766110--4766205	21	4.6	21	67	14	65	45	1	1	52	1.14
4767586--4767629	9	4.7	9	80	8	52	56	2	0	40	1.11
4767935--4767973	19	2.1	19	90	0	60	48	0	0	51	1.00
4768609--4768635	3	9.0	3	100	0	54	33	0	0	66	0.92
4769946--4769993	24	1.9	26	87	8	73	43	0	0	56	0.99
4769952--4770009	26	2.3	24	80	11	62	50	0	0	50	1.00
4769995--4770051	28	2.0	28	86	0	78	54	3	0	42	1.17
4771904--4771932	14	2.1	14	100	0	58	0	0	6	93	0.36
4772092--4772139	19	2.5	19	80	6	53	62	0	0	37	0.95
4772376--4772413	19	2.1	19	85	5	51	34	0	2	63	1.09
4772428--4772453	2	13.0	2	100	0	52	50	0	0	50	1.00
4772593--4772623	13	2.4	13	94	0	53	45	3	0	51	1.17
4773561--4773633	22	3.5	21	80	12	89	46	0	0	53	1.00
4774428--4774485	19	2.8	21	76	15	66	46	0	1	51	1.11
4775049--4775094	2	23.5	2	95	4	85	52	0	0	47	1.00
4777405--4777468	32	1.9	34	84	12	89	54	1	0	43	1.09
4777758--4777809	2	26.0	2	100	0	104	50	0	50	0	1.00
4780635--4780672	16	2.2	18	86	9	53	71	0	5	23	1.07
4781171--4781210	3	13.3	3	94	0	71	35	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4785368--4785490	64	1.9	64	90	6	196	38	4	1	56	1.28
4785443--4785480	15	2.6	14	84	8	58	44	0	0	55	0.99
4785962--4785999	20	1.9	20	94	0	67	50	10	2	36	1.51
4790140--4790186	2	23.5	2	100	0	94	0	48	0	51	1.00
4792825--4792866	20	2.1	20	86	0	57	33	4	0	61	1.17
4793206--4793247	3	14.0	3	100	0	84	33	0	0	66	0.92
4793398--4793441	6	7.3	6	94	0	79	52	13	0	34	1.41
4794091--4794116	3	8.7	3	100	0	52	65	0	0	34	0.93
4794085--4794211	64	2.0	63	87	1	182	48	7	6	37	1.56
4795117--4795161	2	22.5	2	90	0	72	46	0	4	48	1.22
4795635--4795663	15	1.9	15	100	0	58	55	0	0	44	0.99
4795638--4795664	13	2.1	13	100	0	54	55	0	0	44	0.99
4795771--4795809	4	9.8	4	94	0	69	25	2	23	48	1.63
4796362--4796392	2	15.5	2	100	0	62	48	0	51	0	1.00
4796787--4796822	2	17.5	2	94	5	63	2	47	0	50	1.15
4797199--4797273	11	6.9	11	73	23	61	36	1	0	62	1.04
4797199--4797274	24	3.5	20	77	19	73	36	1	0	61	1.04
4797589--4797665	17	4.8	16	68	9	57	66	3	5	24	1.30
4797710--4797793	36	2.4	34	82	11	91	58	4	1	35	1.27
4798796--4798859	32	1.9	34	87	6	96	50	0	9	40	1.35
4799081--4799124	2	22.0	2	100	0	88	50	0	0	50	1.00
4799794--4799828	17	2.1	17	89	5	54	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4803059--4803331	110	2.5	110	81	3	307	34	15	14	35	1.89
4803059--4803363	110	2.8	110	80	5	251	32	16	16	35	1.91
4803279--4803659	100	3.8	100	82	4	437	32	16	16	34	1.92
4805120--4805177	8	7.9	8	75	21	56	58	0	0	41	0.98
4805117--4805167	14	3.6	14	94	5	86	58	0	0	41	0.98
4805110--4805191	28	3.1	27	81	14	84	56	0	1	42	1.07
4805117--4805184	14	4.9	13	87	7	82	57	0	0	42	0.98
4805246--4805285	16	2.5	16	87	0	53	60	2	0	37	1.11
4807290--4807351	22	2.8	23	79	13	67	58	0	0	41	0.98
4807317--4807359	22	2.0	22	90	0	68	65	2	0	32	1.06
4807559--4807619	14	4.6	14	71	19	58	57	0	1	40	1.08
4807624--4807687	26	2.5	26	85	5	78	62	0	0	37	0.95
4807882--4807944	21	3.0	21	79	4	65	44	0	0	55	0.99
4808939--4808992	22	2.6	22	80	13	62	40	0	0	59	0.98
4811188--4811252	12	5.5	12	78	8	71	69	1	1	27	1.07
4811209--4811252	23	1.9	23	90	0	70	72	2	0	25	0.96
4811284--4811368	37	2.4	35	83	11	95	58	4	0	36	1.19
4813341--4813392	16	3.2	16	78	5	59	63	1	3	30	1.23
4813347--4813394	17	2.9	17	76	14	55	60	2	4	33	1.27
4815428--4815697	110	2.5	110	82	3	330	35	16	12	35	1.86
4815648--4816012	100	3.7	100	79	5	353	36	15	12	35	1.86
4815648--4816012	99	3.7	99	77	8	339	36	15	12	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4815648--4816012	200	1.8	200	82	5	468	36	15	12	35	1.86
4817523--4817565	14	3.0	14	80	6	50	53	0	2	44	1.13
4817541--4817602	14	4.5	13	82	9	70	59	0	0	40	0.97
4817593--4817660	25	2.7	25	73	11	66	54	1	1	42	1.18
4817587--4817672	26	3.4	25	71	15	70	53	1	1	44	1.15
4819285--4819366	37	2.2	37	84	0	101	25	15	24	34	1.95
4824029--4824110	37	2.2	37	93	0	137	25	20	23	30	1.99
4825078--4825126	22	2.1	24	85	7	66	51	0	0	48	1.00
4825358--4825418	14	4.6	14	72	22	51	55	0	1	42	1.09
4825426--4825478	26	2.1	25	85	3	70	58	0	0	41	0.98

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