genome.fa.s851.2.7.7.80.10.50.1000.20.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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  20  of  31  ( 3618 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)
4849236--4849303	3	22.7	3	88	5	102	67	1	0	30	0.99
4852705--4852761	26	2.2	26	78	6	62	29	8	0	61	1.26
4852720--4852798	11	6.7	11	70	17	52	21	5	0	73	1.02
4852743--4852806	22	3.1	21	82	10	62	18	4	0	76	0.95
4852770--4852806	4	9.8	4	82	11	51	21	2	0	75	0.92
4852764--4852806	11	4.3	10	80	19	54	20	2	0	76	0.89
4855096--4855127	13	2.5	13	94	0	55	25	12	25	37	1.91
4856666--4856697	13	2.5	13	94	0	55	25	12	25	37	1.91
4860492--4860558	14	4.1	15	73	25	55	46	1	5	46	1.36
4860543--4860598	26	2.1	27	86	3	78	39	3	3	53	1.36
4860619--4860656	14	2.6	15	83	8	60	44	0	2	52	1.14
4861894--4861935	20	2.2	19	87	12	59	50	2	0	47	1.14
4863165--4863199	12	3.0	11	88	12	52	62	0	0	37	0.95
4863164--4863202	15	2.7	15	81	18	55	58	0	0	41	0.98
4863422--4863555	35	3.9	35	92	2	218	29	18	18	33	1.95
4863625--4863714	35	2.6	34	91	7	137	26	23	20	30	1.98
4863461--4863803	164	2.1	164	89	3	512	28	18	17	35	1.94
4863858--4863921	20	3.2	20	84	0	83	37	17	18	26	1.93
4867128--4867460	166	2.0	167	98	1	643	25	15	16	41	1.88
4870117--4870199	41	2.0	43	83	4	107	27	22	13	36	1.92
4871155--4871200	20	2.4	20	86	13	62	50	2	0	47	1.13
4872381--4872419	15	2.7	15	81	18	55	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4873107--4873165	25	2.3	27	80	14	70	49	5	3	42	1.41
4873275--4873321	2	24.0	2	95	4	87	48	0	0	51	1.00
4873321--4873355	2	17.5	2	100	0	70	51	0	48	0	1.00
4884720--4884756	3	12.3	3	94	0	65	2	32	0	64	1.07
4900292--4900404	39	2.9	39	90	0	172	35	3	15	46	1.63
4900354--4900455	51	2.0	51	86	3	143	35	4	12	47	1.63
4910102--4910141	21	1.9	21	94	0	71	30	12	30	27	1.93
4913922--4913995	24	3.1	24	96	0	130	33	12	12	41	1.79
4915758--4915813	23	2.4	23	90	0	85	46	19	8	25	1.79
4915954--4916028	3	24.3	3	71	10	53	38	4	0	57	1.18
4915954--4916003	19	2.7	18	96	3	91	38	4	0	58	1.17
4915954--4916028	34	2.1	37	82	7	93	38	4	0	57	1.18
4916402--4916447	12	3.6	12	88	8	56	45	19	34	0	1.51
4917681--4917720	21	1.9	21	85	10	55	47	2	0	50	1.14
4918366--4918432	28	2.7	24	72	18	57	29	4	1	64	1.22
4918349--4918418	28	2.5	30	82	13	78	32	4	1	61	1.24
4925840--4925980	75	1.9	75	86	2	203	34	13	20	31	1.91
4926749--4927071	76	4.3	76	91	0	515	26	18	22	33	1.97
4926977--4927239	118	2.2	116	91	2	429	30	20	20	27	1.98
4927495--4927555	3	20.0	3	73	9	52	39	3	0	57	1.15
4930107--4930135	9	3.3	9	90	9	51	79	0	0	20	0.74
4930107--4930136	8	3.6	8	95	4	51	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4932228--4932372	61	2.3	64	86	5	206	26	28	17	27	1.97
4933838--4933895	31	1.9	30	86	10	82	31	24	6	37	1.82
4938679--4938719	7	5.9	7	100	0	82	12	58	0	29	1.34
4943943--4943999	28	2.0	29	82	3	71	26	5	3	64	1.30
4957324--4957441	61	1.9	61	94	0	209	17	12	11	57	1.64
4959344--4959441	20	4.9	20	89	0	124	28	23	21	26	1.99
4959335--4959448	40	2.8	40	80	5	131	28	21	21	28	1.99
4959335--4959448	60	1.9	60	83	0	147	28	21	21	28	1.99
4959627--4959670	22	2.0	22	90	0	70	22	38	15	22	1.92
4960051--4960157	20	5.4	20	84	3	110	14	15	22	46	1.83
4960121--4960164	20	2.2	20	91	0	70	11	13	20	54	1.69
4962032--4962099	20	3.4	20	89	0	100	33	25	19	22	1.97
4962142--4962197	20	2.8	20	86	0	67	19	14	25	41	1.89
4962698--4962802	21	5.0	21	73	0	93	21	34	19	24	1.96
4964193--4964254	14	4.3	14	77	6	61	38	0	14	46	1.45
4964375--4964426	20	2.6	20	96	0	95	48	23	23	5	1.72
4964420--4964462	20	2.2	20	83	4	52	25	20	25	27	1.99
4964474--4964714	20	12.9	20	71	16	160	25	17	21	34	1.96
4964433--4964578	41	3.8	41	73	11	119	21	20	23	34	1.97
4964551--4964706	54	2.9	54	84	2	224	24	16	23	35	1.95
4964688--4964954	140	1.9	140	98	0	516	42	15	13	28	1.85
4965009--4965049	18	2.3	18	86	0	64	17	2	29	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4967148--4967197	21	2.4	21	82	0	64	22	14	32	32	1.93
4967606--4967722	21	5.6	20	75	11	101	23	35	18	23	1.96
4967599--4967709	42	2.6	42	80	5	134	22	37	17	22	1.94
4969038--4969185	63	2.3	64	91	1	235	29	1	16	53	1.51
4969253--4969313	20	3.0	20	73	0	68	31	18	24	26	1.97
4969341--4969397	29	2.0	29	96	0	105	36	24	14	24	1.92
4969568--4969603	18	2.0	18	94	0	63	16	2	25	55	1.55
4970625--4970661	18	2.1	18	89	0	56	51	10	5	32	1.60
4971047--4971096	25	2.0	25	92	0	82	44	20	8	28	1.79
4971175--4971235	29	2.1	29	90	0	95	24	16	26	32	1.96
4971480--4971515	18	2.0	18	94	0	63	19	2	22	55	1.56
4973592--4973659	24	2.8	24	77	0	73	39	22	16	22	1.92
4974388--4974427	16	2.5	17	84	12	57	65	0	5	30	1.14
4974565--4974672	20	5.4	20	73	17	66	35	12	22	29	1.91
4974647--4974724	40	1.9	41	84	7	106	32	15	21	30	1.94
4974689--4974727	20	2.0	20	89	0	60	30	15	20	33	1.94
4974765--4974803	20	1.9	21	94	5	71	30	10	23	35	1.88
4974984--4975072	2	45.0	2	82	14	114	49	1	3	46	1.26
4975124--4975163	14	2.8	15	81	11	57	52	27	0	20	1.46
4975278--4975351	37	2.1	36	87	5	105	40	8	10	40	1.70
4975353--4975384	2	15.5	2	93	6	55	46	0	3	50	1.17
4975473--4975516	13	3.4	13	87	12	72	54	29	0	15	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4975596--4975687	20	4.8	19	74	21	77	42	7	7	42	1.62
4975612--4975659	18	2.8	18	84	12	66	43	6	8	41	1.60
4975587--4975641	20	2.6	21	85	8	67	41	5	10	41	1.63
4975601--4975687	37	2.3	36	78	13	86	43	8	5	42	1.58
4975728--4975782	21	2.6	21	79	0	74	38	9	7	45	1.64
4975794--4975945	31	4.8	30	74	18	121	40	2	4	52	1.36
4975790--4976015	65	3.7	61	73	18	175	43	2	3	50	1.33
4975794--4976049	96	2.6	99	80	14	255	44	1	3	50	1.29
4975825--4976047	34	6.6	33	69	23	110	45	1	2	50	1.24
4975984--4976058	15	4.8	15	78	16	73	49	0	1	49	1.09
4975990--4976047	28	2.1	27	90	9	91	50	0	0	50	1.00
4975934--4976068	14	9.5	14	69	23	63	51	0	1	45	1.15
4975954--4976068	28	4.0	28	74	20	80	51	0	1	46	1.17
4975853--4976049	103	1.9	102	84	10	262	46	1	2	50	1.22
4976787--4976914	30	4.2	29	71	15	87	45	39	3	11	1.59
4976831--4976880	17	3.0	17	85	11	68	46	42	6	6	1.53
4977140--4977477	102	3.3	102	89	0	525	21	9	18	50	1.75
4980129--4980167	11	3.5	11	89	6	60	41	0	2	56	1.13
4980411--4980457	14	3.7	14	71	26	50	51	4	0	44	1.21
4980409--4980458	23	2.1	24	96	3	93	48	4	0	48	1.20
4983214--4983267	20	2.7	20	83	8	65	33	14	29	22	1.94
4983683--4983851	55	3.0	55	92	1	266	34	12	21	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4983704--4983903	55	3.6	55	87	4	253	36	11	18	33	1.87
4993906--4993954	24	2.0	24	100	0	98	32	20	22	24	1.98
4994108--4994565	45	10.2	45	91	0	736	36	11	23	27	1.90
5005448--5005496	15	3.3	15	91	0	80	12	63	18	6	1.48
5005435--5005494	26	2.3	26	88	5	86	13	63	16	6	1.50
5006666--5006969	43	7.1	42	74	13	149	24	17	6	50	1.70
5006664--5006884	43	5.1	44	73	15	176	24	14	6	54	1.63
5006741--5006972	43	5.4	42	76	13	170	23	20	6	48	1.73
5006797--5006864	21	3.3	21	70	12	68	26	11	10	51	1.70
5009202--5009277	29	2.5	31	80	15	81	48	0	0	51	1.00

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