genome.fa.s5.2.7.7.80.10.50.1000.8.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: Scaffold5
Parameters: 2 7 7 80 10 50 1000
Length:  1536239

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

This is table  8  of  14  ( 1571 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)
955794--955880	21	4.2	20	71	18	63	55	1	0	43	1.07
956032--956104	27	2.7	26	80	6	74	56	4	0	39	1.19
957194--957245	23	2.4	23	87	9	74	57	0	1	40	1.10
958620--958660	2	20.5	2	94	0	73	51	0	0	48	1.00
958934--958981	24	2.0	24	83	0	60	54	0	2	43	1.12
959706--959758	25	2.1	25	82	6	63	56	0	1	41	1.10
960596--960629	18	1.9	18	88	5	52	32	0	0	67	0.91
960607--960647	11	3.8	11	84	15	59	36	0	0	63	0.95
960817--960892	26	3.1	23	75	17	73	47	1	0	51	1.09
960243--961067	412	2.0	414	89	3	1273	41	8	4	44	1.57
961020--961063	22	2.0	22	86	8	63	36	0	0	63	0.95
961049--961094	21	2.4	20	86	13	62	43	2	0	54	1.12
961027--961119	43	2.2	43	81	12	106	38	3	0	58	1.15
962712--962765	21	2.5	22	81	3	56	51	0	0	48	1.00
962787--962819	16	2.0	17	94	5	59	54	0	0	45	0.99
963203--963242	11	3.3	13	80	20	59	32	0	0	67	0.91
963744--963768	3	8.3	3	100	0	50	68	0	32	0	0.90
963894--963969	2	39.5	2	84	7	86	43	2	3	50	1.34
964361--964416	25	2.2	26	84	6	71	50	1	1	46	1.22
964509--964563	25	2.3	23	79	17	58	60	7	0	32	1.24
964927--964958	11	2.9	11	100	0	64	37	0	0	62	0.95
964927--964961	5	6.6	5	87	12	52	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
964930--964971	16	2.5	17	88	11	61	38	0	0	61	0.96
965086--965152	20	3.7	19	72	27	65	49	0	0	50	1.00
965114--965179	32	2.1	31	91	2	105	48	0	0	51	1.00
965114--965179	16	4.2	16	74	14	57	48	0	0	51	1.00
966145--966263	49	2.5	49	84	8	140	45	15	3	36	1.62
966815--966873	6	10.0	6	75	17	61	61	0	0	38	0.96
966815--966873	17	3.4	17	79	13	66	61	0	0	38	0.96
967457--967487	15	2.0	16	93	6	55	54	6	6	32	1.51
967543--967582	22	1.9	20	90	10	62	35	0	2	62	1.09
968422--968450	15	2.0	15	93	6	51	41	0	0	58	0.98
968840--968892	24	2.2	24	82	0	61	35	0	1	62	1.06
968840--968892	16	3.3	16	81	0	52	35	0	1	62	1.06
968863--968894	16	2.0	16	93	0	55	28	0	0	71	0.86
968908--968941	17	1.9	18	88	5	52	29	0	0	70	0.87
969178--969231	20	2.7	19	83	13	65	64	3	0	31	1.11
969191--969231	20	2.1	20	90	4	66	63	4	0	31	1.15
969592--969661	21	3.1	21	82	13	77	42	0	0	57	0.99
969668--969707	19	2.0	21	85	9	57	50	0	0	50	1.00
969668--969710	18	2.2	21	84	12	56	53	0	0	46	1.00
969703--969773	10	7.0	10	77	13	56	66	1	0	32	1.01
969708--969771	21	3.0	22	76	15	64	67	1	0	31	1.00
969734--969785	15	3.5	15	80	19	56	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969723--969783	20	3.3	19	80	13	65	65	0	0	34	0.93
969719--969800	24	3.6	23	76	14	73	64	2	0	32	1.07
969747--969794	11	4.7	10	85	14	55	60	2	0	37	1.09
971730--971784	24	2.2	25	87	3	76	54	0	0	45	0.99
972135--972273	11	13.4	11	67	18	57	33	0	3	63	1.12
972141--972179	16	2.4	16	87	8	53	33	0	0	66	0.92
972142--972240	27	3.6	27	71	18	78	37	0	2	60	1.08
972206--972264	22	2.7	22	82	12	68	28	0	1	69	0.98
972204--972274	16	4.7	15	80	15	67	29	0	2	67	1.05
973454--973490	4	9.2	4	100	0	74	75	0	0	24	0.80
974197--974229	2	16.5	2	100	0	66	48	0	0	51	1.00
976002--976059	11	5.7	10	84	12	66	36	1	0	62	1.06
976002--976059	20	2.9	21	80	15	68	36	1	0	62	1.06
984488--984520	5	6.6	5	92	0	57	78	0	0	21	0.75
989035--989074	19	2.0	19	85	9	53	67	0	2	30	1.04
989052--989156	12	8.3	12	67	18	54	60	0	2	36	1.18
989086--989155	8	8.4	8	73	14	52	58	1	1	38	1.16
989071--989159	37	2.3	39	78	18	89	57	1	2	39	1.19
989307--989400	6	15.3	6	75	18	79	61	1	0	37	1.03
989326--989405	8	9.0	8	73	24	63	61	1	0	37	1.04
989396--989458	31	2.0	31	87	6	92	50	7	3	38	1.47
990238--990289	18	3.0	18	83	10	65	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990249--990311	29	2.2	29	88	5	92	57	0	0	42	0.99
990671--990737	21	3.4	21	74	12	61	55	0	0	44	0.99
992193--992226	6	5.7	6	96	0	50	41	0	8	50	1.34
992510--992543	16	2.1	16	100	0	68	41	0	5	52	1.25
992614--992647	2	17.5	2	87	6	52	44	0	2	52	1.16
994574--994608	18	1.9	18	88	0	52	65	2	0	31	1.07
994930--994979	20	2.5	20	90	0	82	40	2	6	52	1.38
995070--995122	22	2.3	23	75	18	58	52	0	0	47	1.00
996358--996397	21	1.9	21	84	0	53	42	2	0	55	1.13
996358--996417	30	2.0	29	84	15	79	41	1	0	56	1.09
997809--997845	3	12.3	3	100	0	74	67	0	0	32	0.91
1001612--1001669	30	1.9	30	89	0	89	56	0	3	39	1.16
1001720--1001781	31	2.0	30	82	17	74	48	1	0	50	1.10
1002163--1002335	8	21.4	8	67	22	51	57	0	1	40	1.10
1002160--1002346	24	7.8	25	63	23	73	57	0	1	40	1.10
1002160--1002234	14	5.3	15	76	10	68	58	0	1	40	1.06
1002170--1002228	2	31.0	2	75	16	54	55	0	1	42	1.09
1002204--1002370	29	5.8	29	64	20	57	57	0	1	40	1.11
1002163--1002257	42	2.2	41	83	10	120	53	0	2	44	1.12
1002160--1002370	6	35.3	6	69	23	65	57	0	0	40	1.09
1002270--1002332	15	4.1	15	73	16	58	65	0	0	34	0.93
1002274--1002368	48	2.0	46	82	11	113	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002332--1002399	24	2.8	23	76	13	66	54	0	0	45	0.99
1002182--1002402	20	11.1	20	66	24	71	57	0	0	41	1.09
1002283--1002372	43	2.2	39	84	13	112	62	0	0	37	0.96
1002583--1002630	22	2.2	22	100	0	96	47	8	4	39	1.53
1004789--1004826	13	2.7	14	80	12	51	36	0	0	63	0.95
1004978--1005156	22	8.6	20	64	21	57	38	1	1	58	1.15
1005006--1005068	22	3.0	21	79	13	67	46	1	0	52	1.10
1005032--1005093	31	1.9	33	87	6	92	43	1	0	54	1.09
1005030--1005083	15	3.6	15	76	16	58	46	1	0	51	1.11
1005073--1005156	28	3.1	27	81	11	75	33	1	2	63	1.15
1005100--1005152	15	3.2	16	78	10	63	32	0	0	67	0.91
1005104--1005171	30	2.2	30	82	14	86	36	1	0	61	1.05
1005419--1005467	25	1.9	25	83	4	62	53	0	0	46	1.00
1005921--1005981	17	3.6	16	78	12	68	50	0	0	49	1.00
1006607--1006653	18	2.6	18	83	10	51	36	2	0	61	1.08
1015712--1015798	42	2.1	42	95	0	156	49	8	8	34	1.62
1017282--1017355	23	3.1	24	74	20	75	48	1	5	44	1.34
1025317--1025378	21	3.0	21	81	6	65	30	1	0	67	1.00
1025643--1025707	30	2.2	29	83	2	76	70	3	1	24	1.10
1026544--1026610	17	3.5	20	76	17	63	44	1	1	52	1.19
1026856--1026907	16	3.3	17	79	12	58	46	0	0	53	1.00
1028030--1028085	11	5.1	11	81	14	62	32	1	0	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1028029--1028077	16	2.9	18	77	20	52	32	2	0	65	1.04
1029730--1029776	2	23.5	2	100	0	94	51	0	0	48	1.00
1034537--1034582	17	2.8	16	80	9	56	56	0	0	43	0.99
1034780--1034812	16	2.1	16	88	5	50	30	3	9	57	1.45
1035122--1035162	19	2.3	19	83	8	50	60	4	0	34	1.18
1037757--1037797	3	13.7	3	100	0	82	68	0	0	31	0.90
1038635--1038685	2	25.5	2	100	0	102	50	0	0	49	1.00
1040396--1040440	17	2.7	16	83	16	56	62	0	0	37	0.96
1041762--1041806	2	22.5	2	100	0	90	0	48	0	51	1.00
1041807--1041834	2	14.0	2	100	0	56	50	0	0	50	1.00

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