genome.fa.s8094.2.7.7.80.10.50.1000.32.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  32  of  43  ( 5090 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)
6881927--6881974	19	2.5	19	100	0	96	27	12	33	27	1.92
6882388--6883045	55	11.9	55	87	2	908	35	11	17	36	1.85
6884200--6884240	19	2.2	19	86	0	55	29	19	14	36	1.92
6890389--6891010	55	11.4	54	84	4	741	28	17	18	35	1.94
6890389--6891010	165	3.8	165	86	3	817	28	17	18	35	1.94
6891352--6891405	22	2.7	19	82	8	63	31	18	16	33	1.93
6893345--6893388	22	2.0	22	86	4	63	77	2	0	20	0.88
6893696--6893920	9	25.7	9	66	16	62	38	2	0	58	1.16
6893692--6893754	26	2.4	27	79	15	78	39	0	0	60	0.97
6893833--6893931	16	6.1	16	76	11	85	34	2	1	62	1.13
6897502--6897572	29	2.4	29	79	9	74	33	15	15	35	1.89
6902959--6903103	66	2.2	66	96	2	265	39	24	6	28	1.81
6903093--6903130	20	1.9	20	94	0	67	21	23	10	44	1.83
6903622--6903661	20	2.0	20	85	5	53	47	10	10	32	1.70
6903528--6903909	193	2.0	193	88	1	568	40	10	14	34	1.81
6909247--6909300	21	2.6	21	100	0	108	40	9	16	33	1.80
6910149--6910190	2	21.0	2	100	0	84	50	0	0	50	1.00
6914745--6914823	23	3.3	23	82	5	86	18	22	25	32	1.97
6915594--6915634	22	1.9	22	90	5	66	19	24	31	24	1.98
6917097--6917137	20	2.1	19	86	4	55	19	0	12	68	1.21
6918239--6918268	2	15.0	2	100	0	60	50	0	0	50	1.00
6919748--6919863	42	2.8	42	84	6	157	31	19	16	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6919767--6919867	42	2.4	42	93	0	166	28	16	17	36	1.92
6922443--6922662	42	5.2	42	83	1	271	25	22	20	31	1.98
6925331--6925382	21	2.5	21	81	3	61	38	19	25	17	1.93
6925371--6925484	20	5.7	20	81	6	104	31	24	18	25	1.97
6925368--6925484	61	1.9	61	83	0	153	33	23	17	24	1.97
6926035--6926078	19	2.3	19	92	0	70	47	27	15	9	1.76
6926074--6926219	19	8.1	19	71	17	114	13	23	19	43	1.86
6926074--6926190	52	2.2	52	89	1	171	12	23	22	41	1.88
6926129--6926194	33	2.0	34	93	3	116	13	25	22	37	1.91
6928365--6928431	21	3.2	21	66	6	55	23	35	20	19	1.95
6928313--6928431	42	2.8	42	81	5	107	22	36	18	22	1.95
6929185--6929228	22	2.0	22	95	0	79	20	13	43	22	1.87
6929417--6929468	20	2.6	20	93	0	86	25	21	28	25	1.99
6929477--6929530	20	2.7	20	94	0	90	27	18	24	29	1.98
6929399--6929533	61	2.2	61	83	0	180	24	17	24	34	1.96
6929416--6929551	61	2.2	61	80	2	148	23	19	24	32	1.98
6929601--6929641	21	2.0	21	85	0	55	34	29	17	19	1.94
6930980--6931014	3	11.7	3	88	11	54	65	0	0	34	0.93
6930977--6931018	13	3.5	13	87	12	63	64	0	0	35	0.94
6937111--6937158	21	2.3	21	92	0	78	29	18	10	41	1.84
6937956--6938010	24	2.2	26	78	15	62	52	1	1	43	1.22
6938058--6938086	8	3.8	8	90	9	51	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6938058--6938090	15	2.3	14	94	5	57	48	0	0	51	1.00
6940859--6941043	90	2.1	89	95	1	334	28	10	30	30	1.91
6941204--6941253	21	2.3	21	96	3	91	58	12	0	30	1.34
6941324--6941443	34	3.3	35	64	23	86	55	5	5	33	1.45
6941320--6941455	73	1.9	73	96	0	254	51	5	6	36	1.50
6942799--6942851	22	2.4	21	74	17	54	35	7	0	56	1.28
6943300--6943338	17	2.4	17	95	4	71	51	5	0	43	1.24
6947976--6948081	41	2.6	41	92	0	176	19	17	21	40	1.91
6948008--6948075	20	3.3	20	71	4	73	14	20	25	39	1.91
6947985--6948058	21	3.6	21	68	3	69	21	16	25	36	1.94
6948211--6948244	6	6.0	6	96	3	54	29	52	17	0	1.45
6949104--6949140	6	6.2	6	100	0	74	32	0	32	35	1.58
6949217--6949264	19	2.5	19	96	0	87	39	18	22	18	1.92
6949824--6949950	63	2.0	63	92	3	211	37	12	3	46	1.58
6952866--6952896	12	2.5	13	89	10	55	61	0	0	38	0.96
6954312--6954390	38	2.1	38	80	7	88	44	2	3	49	1.34
6954457--6954519	27	2.3	28	88	2	101	44	4	4	46	1.45
6954486--6954649	39	4.2	39	77	12	165	46	5	1	45	1.36
6954631--6954661	2	15.5	2	100	0	62	48	0	0	51	1.00
6955050--6956076	85	12.4	83	79	5	995	24	19	24	31	1.98
6955050--6956082	250	4.1	250	89	0	1552	24	19	24	31	1.98
6959173--6959329	29	4.9	30	74	18	115	43	5	5	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6959264--6959329	28	2.3	30	84	5	100	43	4	4	46	1.44
6959296--6959468	41	4.4	38	79	13	174	47	5	2	44	1.39
6959238--6959367	65	2.0	65	83	3	163	46	6	3	43	1.44
6959296--6959468	39	4.4	40	81	10	173	47	5	2	44	1.39
6961404--6961476	37	2.0	37	88	0	110	35	2	8	53	1.45
6961674--6962210	197	2.7	197	81	4	627	48	9	5	36	1.59
6964671--6965512	157	5.3	157	81	5	922	27	18	5	48	1.70
6964775--6965421	323	2.0	320	86	2	884	27	18	5	49	1.68
6978433--6978462	16	1.9	16	93	6	53	63	0	0	36	0.95
6978428--6978460	17	1.9	17	88	11	50	63	0	0	36	0.95
6980417--6980457	15	2.8	15	85	3	57	58	9	7	24	1.55
6987715--6987740	13	2.0	13	100	0	52	30	23	23	23	1.99
6993557--6993615	17	3.5	17	97	0	109	16	25	28	28	1.97
6993658--6993701	12	3.9	11	82	14	54	54	2	0	43	1.12
6993995--6994025	2	15.5	2	93	0	53	54	0	0	45	0.99
6993995--6994029	12	2.9	12	95	0	61	57	0	0	42	0.99
7000017--7000054	16	2.2	18	86	9	53	31	7	7	52	1.59
7000066--7000111	24	2.0	23	86	4	65	41	2	10	45	1.51
7000080--7000164	35	2.4	36	88	2	118	44	2	8	44	1.46
7000078--7000217	36	3.9	35	80	5	136	42	4	8	45	1.54
7000299--7000456	21	7.8	20	72	7	86	38	25	17	18	1.92
7000423--7000577	40	3.8	40	82	4	186	37	26	18	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7000423--7000576	20	7.7	20	80	7	168	37	26	18	18	1.93
7000959--7001029	33	2.2	33	92	0	115	11	22	18	47	1.80
7001121--7001195	19	3.9	19	84	3	96	44	21	22	12	1.85
7001221--7001318	19	5.7	19	70	22	90	10	23	22	43	1.83
7001243--7001332	14	5.7	14	72	23	72	8	24	23	43	1.82
7001226--7001340	33	3.5	33	97	0	221	9	23	20	46	1.80
7003039--7003288	93	2.7	93	98	0	484	23	13	18	44	1.85
7003529--7003564	14	2.6	14	95	0	63	33	0	22	44	1.53
7003671--7003820	19	8.4	19	82	14	203	46	17	22	14	1.84
7003689--7003839	33	4.4	33	72	18	137	44	17	24	13	1.85
7003671--7003839	52	3.2	52	98	0	320	44	17	24	13	1.85
7003829--7004017	19	10.7	19	77	17	210	15	20	17	46	1.85
7003829--7004031	52	3.9	52	85	10	272	14	21	18	45	1.85
7003886--7004031	33	4.2	33	81	13	195	13	21	18	46	1.83
7006461--7006507	24	2.0	24	87	8	69	38	21	14	25	1.92
7007189--7007478	20	14.5	20	88	1	321	20	17	25	37	1.94
7007465--7007547	21	4.0	21	73	6	78	25	16	24	33	1.96
7007445--7007543	42	2.4	43	77	11	100	21	18	23	37	1.94
7007696--7007776	3	25.7	3	78	9	81	28	3	0	67	1.07
7007704--7007776	13	5.8	13	84	7	71	27	4	0	68	1.07
7007716--7007780	25	2.8	22	82	13	85	26	3	0	70	1.01
7008202--7008241	14	2.9	14	92	0	62	62	32	0	5	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7008814--7009214	85	4.8	84	87	1	570	34	21	19	25	1.96
7008811--7009214	168	2.4	168	87	2	587	34	21	19	25	1.96
7009758--7009807	25	1.9	27	84	8	68	26	2	10	62	1.38
7009831--7009878	24	2.0	23	84	4	60	41	0	12	45	1.42
7009923--7009999	3	25.7	3	77	15	70	29	5	0	64	1.15
7009949--7010000	16	3.4	16	86	7	72	28	3	0	67	1.08
7010835--7011236	85	4.8	85	82	3	488	34	20	17	26	1.95
7010835--7011236	168	2.4	166	84	2	516	34	20	17	26	1.95
7011784--7011835	25	2.0	27	88	7	81	26	1	5	65	1.26
7011857--7011922	23	2.8	24	83	4	89	39	1	9	50	1.44

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   32   
          33   34   35   36   37   38   39   40   41   42   43