genome.fa.s8364.2.7.7.80.10.50.1000.15.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  15  of  27  ( 3136 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)
3443712--3443773	24	2.5	25	94	5	108	41	4	11	41	1.62
3447241--3447275	3	11.7	3	100	0	70	31	0	0	68	0.90
3447255--3447447	96	2.0	96	98	0	377	34	13	9	42	1.77
3447616--3449106	4	373.8	4	96	1	2697	48	24	1	25	1.60
3450784--3450897	51	2.3	50	87	1	156	16	35	31	16	1.92
3451021--3451055	10	3.5	10	85	14	54	34	25	0	40	1.56
3451024--3451062	10	3.6	12	80	19	50	28	25	0	46	1.53
3451185--3451405	110	2.0	111	90	0	354	36	8	8	46	1.64
3457128--3457248	51	2.4	51	83	5	147	18	30	33	17	1.94
3457237--3457263	14	1.9	14	100	0	54	7	14	66	11	1.43
3464400--3464446	22	2.1	22	84	0	58	65	4	29	0	1.11
3468151--3468210	3	20.0	3	86	6	86	38	0	0	61	0.96
3469591--3469625	17	2.1	17	88	0	52	45	2	0	51	1.16
3469930--3469977	19	2.3	22	86	10	66	43	6	4	45	1.48
3470366--3470402	17	2.2	17	90	9	58	27	2	0	70	1.01
3481060--3481137	19	3.8	20	83	11	97	83	1	14	1	0.78
3481060--3481137	10	7.6	10	80	9	86	83	1	14	1	0.78
3481059--3481127	22	3.2	21	84	11	95	84	1	13	1	0.77
3481054--3481139	15	5.3	15	74	20	66	82	1	15	1	0.79
3481833--3482172	114	3.0	114	90	0	509	34	15	17	31	1.92
3482865--3483420	113	4.9	113	95	0	941	37	13	18	30	1.90
3483689--3483740	3	16.0	3	96	4	68	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3487672--3487712	16	2.5	17	84	7	59	65	0	2	31	1.05
3488808--3488872	16	3.9	16	72	16	60	69	1	0	29	0.98
3493445--3493587	70	2.0	70	98	0	277	39	22	11	27	1.88
3497653--3497737	30	2.8	29	75	10	82	38	8	12	40	1.74
3498133--3498171	14	2.6	15	84	12	53	48	2	5	43	1.38
3498118--3498265	78	1.9	75	87	4	215	43	4	10	41	1.57
3498132--3498305	37	4.6	37	77	14	149	45	5	7	41	1.54
3498232--3498365	61	2.2	61	94	0	232	45	5	6	42	1.53
3498267--3498326	26	2.4	26	86	8	81	48	5	5	41	1.47
3498355--3498391	14	2.6	14	100	0	74	35	5	13	45	1.66
3498461--3498525	12	5.2	13	76	12	57	33	1	1	63	1.13
3498470--3498516	21	2.2	22	85	11	62	34	0	2	63	1.06
3499761--3499804	19	2.4	19	88	3	63	15	6	0	77	0.97
3499843--3499949	36	3.2	32	73	15	90	17	11	0	70	1.22
3501108--3501181	22	3.5	20	76	10	60	24	8	6	60	1.49
3503568--3503619	26	2.0	26	85	7	70	25	5	11	57	1.55
3503610--3503654	23	2.0	23	81	0	54	26	13	13	46	1.80
3505190--3505290	21	5.2	21	65	26	78	29	4	11	53	1.58
3505175--3505340	38	4.4	38	96	1	289	32	4	9	54	1.51
3511457--3511488	13	2.3	15	89	10	50	46	0	0	53	1.00
3511826--3511866	20	2.0	20	100	0	82	19	14	29	36	1.92
3513576--3513628	18	2.9	18	80	5	54	32	49	9	9	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3520726--3520823	21	4.8	20	76	6	79	38	22	17	21	1.93
3520790--3520984	20	9.8	20	82	5	216	35	24	20	20	1.96
3521641--3521687	24	2.0	24	87	8	69	25	14	21	38	1.92
3521992--3522150	19	8.6	19	82	7	175	45	23	18	11	1.82
3521992--3522145	52	2.8	55	87	5	197	46	24	18	11	1.81
3522146--3522274	19	7.3	18	72	17	94	8	18	26	46	1.77
3522162--3522218	14	3.7	14	77	20	60	8	21	24	45	1.80
3522146--3522234	33	2.7	33	94	0	151	7	20	25	46	1.77
3522322--3522882	93	6.1	93	99	0	1099	45	19	12	21	1.83
3522322--3522882	185	3.0	186	98	0	1099	45	19	12	21	1.83
3524571--3524635	21	3.1	21	72	12	71	47	15	24	12	1.79
3524620--3524676	14	3.7	14	75	20	60	43	22	24	8	1.81
3524571--3524692	33	3.5	33	86	10	147	45	18	23	11	1.82
3524634--3524697	18	3.7	19	72	21	68	43	21	23	10	1.84
3524723--3524759	19	1.9	19	100	0	74	10	21	18	48	1.78
3524716--3524811	21	4.8	20	80	6	113	12	22	17	46	1.82
3524720--3524812	41	2.3	40	86	1	123	11	23	18	46	1.82
3524891--3524961	33	2.2	33	92	0	115	47	18	22	11	1.80
3525143--3525197	22	2.5	22	75	0	65	21	16	38	23	1.93
3525344--3525537	60	3.2	60	84	0	253	18	19	26	36	1.94
3525344--3525537	20	9.6	20	83	5	221	18	19	26	36	1.94
3525524--3525606	21	4.0	21	71	6	69	25	15	24	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3526786--3526848	27	2.3	27	83	10	74	31	17	4	46	1.69
3526886--3526940	27	2.0	28	89	7	85	38	1	9	50	1.45
3533833--3533880	2	24.0	2	100	0	96	50	0	0	50	1.00
3538143--3538418	138	2.0	138	97	0	525	51	17	16	14	1.77
3538672--3538712	20	2.0	20	86	9	57	75	0	2	21	0.92
3539793--3539985	30	6.4	30	99	0	377	32	23	19	23	1.98
3539793--3540010	90	2.4	90	94	0	364	33	24	19	22	1.97
3539971--3540063	31	3.0	31	79	3	98	34	21	17	26	1.95
3540238--3540262	4	6.2	4	100	0	50	48	24	0	28	1.52
3542255--3542316	2	31.0	2	100	0	124	50	0	0	50	1.00
3544872--3544969	32	3.1	32	88	2	135	40	18	13	27	1.88
3548446--3548474	2	14.5	2	100	0	58	48	0	0	51	1.00
3548605--3548641	2	18.5	2	100	0	74	51	0	0	48	1.00
3555506--3555611	43	2.5	43	93	0	185	30	30	8	31	1.87
3564999--3565037	21	1.9	21	89	5	62	28	0	25	46	1.53
3572768--3572865	33	2.9	33	79	7	117	11	15	24	48	1.77
3572769--3572878	33	3.3	33	74	5	107	10	16	24	48	1.78
3576963--3577008	22	2.1	22	91	0	74	32	17	13	36	1.88
3578176--3578238	30	2.1	29	82	11	74	47	11	4	36	1.60
3578521--3578563	19	2.3	19	84	8	52	53	2	0	44	1.13
3578701--3578790	15	5.9	15	71	19	62	46	1	0	52	1.07
3578733--3578790	29	2.0	30	86	10	84	44	1	0	53	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3584623--3584661	21	1.9	20	89	5	60	46	23	7	23	1.78
3584622--3584666	21	2.2	20	80	7	56	46	20	8	24	1.78
3584813--3584851	21	1.9	20	89	5	60	46	23	7	23	1.78
3584812--3584856	21	2.2	20	80	7	56	46	20	8	24	1.78
3584573--3584952	190	2.0	190	100	0	760	36	17	18	26	1.93
3597244--3597286	21	2.2	20	87	8	61	27	6	4	60	1.43
3601898--3602016	50	2.5	47	78	12	127	71	9	2	16	1.23
3609511--3609596	42	2.0	42	95	0	154	25	46	13	13	1.81
3609580--3609662	29	2.9	29	83	3	96	22	38	22	15	1.92
3609705--3609764	24	2.5	24	97	2	113	25	26	23	25	2.00
3610619--3610662	17	2.6	17	80	16	56	40	0	11	47	1.39
3610644--3610688	21	2.2	21	84	4	56	35	0	8	55	1.31
3613734--3613765	10	3.2	10	90	0	55	25	9	9	56	1.61
3613776--3613863	21	4.3	21	63	13	58	43	0	12	44	1.42
3613767--3614019	60	4.2	60	95	1	456	41	0	12	46	1.41
3613966--3614043	21	3.5	22	77	16	63	38	1	11	48	1.48
3613987--3614034	14	3.6	14	81	16	66	35	0	16	47	1.47
3614108--3614299	21	9.2	20	65	19	65	42	0	10	46	1.42
3614101--3614137	11	3.1	12	88	11	58	48	0	10	40	1.38
3614119--3614221	35	3.2	34	64	25	89	42	0	9	47	1.36
3614108--3614400	60	5.2	60	73	17	239	41	0	10	47	1.42
3614192--3614290	46	2.1	47	92	1	164	42	1	9	47	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3614192--3614265	22	3.3	22	70	20	71	44	0	8	47	1.32
3614204--3614292	25	3.9	23	72	21	80	40	1	10	48	1.44
3614357--3614400	21	2.0	22	87	12	65	40	2	4	52	1.34
3614377--3614414	14	2.7	14	91	0	58	36	0	13	50	1.42
3616626--3616656	15	2.1	14	94	5	53	54	6	0	38	1.26
3616836--3616964	43	3.1	41	68	15	102	45	12	0	41	1.42
3616829--3616919	45	2.0	47	85	8	125	46	13	0	40	1.43
3617111--3617157	14	3.5	13	77	11	51	2	40	0	57	1.11
3617154--3617235	26	3.1	27	83	15	100	9	35	8	46	1.68
3617164--3617241	26	3.0	26	90	1	111	11	34	7	46	1.69

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