genome.fa.s9585.2.7.7.80.10.50.1000.29.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  29  of  35  ( 4106 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)
6743585--6743670	43	2.0	43	100	0	172	23	11	18	46	1.82
6743585--6743649	21	3.0	22	72	4	78	21	10	20	47	1.80
6743698--6743746	19	2.6	19	93	0	80	57	10	2	30	1.43
6745536--6745601	33	2.0	33	90	0	105	22	48	0	28	1.51
6745634--6745677	21	2.1	21	91	0	70	15	31	11	40	1.83
6747889--6747931	20	2.3	18	85	14	61	20	16	11	51	1.75
6747894--6747940	20	2.4	19	82	10	67	19	17	10	53	1.72
6748075--6748121	20	2.3	20	89	10	78	19	17	8	55	1.67
6748170--6749097	229	4.1	229	95	2	1643	39	8	7	44	1.62
6748170--6749097	454	2.1	446	94	3	1619	39	8	7	44	1.62
6762000--6762067	26	2.6	26	92	0	118	29	32	17	20	1.96
6763056--6763096	21	2.0	21	85	9	57	24	31	31	12	1.92
6766605--6766733	45	2.9	45	86	0	177	36	12	27	24	1.91
6771726--6771763	18	2.1	18	90	0	58	15	42	13	28	1.85
6779004--6779416	221	1.9	217	90	4	668	30	12	16	40	1.85
6779847--6779904	17	3.4	17	92	0	98	34	31	5	29	1.79
6780491--6780531	18	2.3	18	87	4	57	29	7	2	60	1.36
6782844--6782928	35	2.5	33	78	14	91	25	8	10	55	1.62
6786501--6786561	20	2.9	21	85	7	70	16	26	32	24	1.96
6790339--6790378	21	1.9	21	85	10	55	35	10	2	52	1.48
6792215--6792251	19	1.9	19	88	0	56	27	21	29	21	1.99
6803009--6803136	63	2.0	65	96	3	242	53	17	6	21	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6804318--6804369	19	2.7	19	93	0	86	28	23	28	19	1.98
6805065--6805105	2	20.5	2	100	0	82	51	0	0	48	1.00
6805507--6805550	21	2.1	21	86	0	61	34	15	40	9	1.79
6806428--6806612	64	2.9	64	83	3	212	32	20	21	26	1.97
6807290--6807369	31	2.6	31	95	0	142	17	20	21	41	1.91
6809968--6810088	64	1.9	64	83	8	158	33	19	19	28	1.96
6810796--6810937	30	4.7	30	93	6	234	18	19	23	38	1.93
6811153--6811252	28	3.4	29	93	5	166	17	20	25	38	1.93
6819133--6819275	64	2.2	63	79	10	148	27	21	23	27	1.99
6819153--6819295	65	2.2	64	82	8	166	25	20	23	30	1.99
6819263--6819315	19	2.8	19	94	0	88	16	16	33	32	1.92
6826787--6826826	21	1.9	21	85	10	55	35	10	2	52	1.48
6830001--6830065	31	2.1	31	88	0	94	38	13	26	21	1.91
6831093--6831159	31	2.2	31	88	0	98	22	29	11	35	1.90
6835532--6835573	18	2.2	19	91	8	68	57	0	4	38	1.20
6837010--6837035	13	2.0	13	100	0	52	30	0	0	69	0.89
6840473--6840523	20	2.5	21	80	6	68	47	1	5	45	1.38
6840473--6840544	21	3.5	20	72	11	56	51	1	4	43	1.29
6843829--6844211	183	2.1	182	92	3	632	42	2	8	46	1.48
6844402--6844455	5	11.0	5	80	4	65	74	0	1	24	0.92
6844419--6844464	15	3.4	15	72	27	57	71	0	0	28	0.86
6845427--6846050	125	5.0	125	97	0	1164	17	11	26	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6845427--6846050	249	2.5	250	96	1	1164	17	11	26	44	1.83
6856071--6856150	29	2.8	29	96	0	142	31	36	25	7	1.84
6856499--6856590	21	4.3	21	78	5	103	19	27	25	28	1.99
6856961--6857000	21	1.9	21	89	0	62	25	0	17	57	1.40
6857486--6857543	17	3.2	17	71	19	55	43	0	10	46	1.38
6857505--6857547	23	2.0	23	81	9	54	41	0	9	48	1.35
6857717--6857759	16	2.7	15	82	7	50	51	4	2	41	1.35
6857740--6857831	31	3.5	26	69	22	66	47	6	3	42	1.45
6859227--6859279	23	2.4	21	84	6	61	37	1	1	58	1.20
6859239--6859278	17	2.4	17	86	0	62	40	0	0	60	0.97
6859250--6859333	21	3.9	22	72	17	77	39	4	5	50	1.48
6861631--6861670	21	1.9	21	100	0	80	57	15	0	27	1.38
6861755--6861812	29	2.1	27	81	18	66	44	10	0	44	1.38
6861863--6861927	28	2.3	29	82	10	82	46	15	1	36	1.55
6862338--6862421	29	2.9	28	87	7	114	17	29	28	23	1.97
6862502--6862590	29	3.1	29	93	0	160	17	40	25	15	1.90
6864859--6864902	21	2.0	22	91	4	72	31	29	25	13	1.94
6865710--6865767	20	2.7	20	86	10	71	24	22	24	29	1.99
6870127--6870464	169	2.0	167	93	6	585	34	15	26	23	1.94
6870927--6870958	16	1.9	16	93	6	55	12	12	21	53	1.71
6875909--6875940	2	16.0	2	100	0	64	50	0	0	50	1.00
6881658--6881779	38	3.4	36	84	7	151	46	5	6	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6881876--6881943	15	4.6	14	74	17	57	25	1	2	70	1.09
6881977--6882536	84	6.7	84	83	4	652	30	25	20	23	1.99
6881977--6882561	249	2.3	247	83	4	762	30	25	20	23	1.98
6881979--6882610	165	3.8	165	84	4	779	30	25	20	24	1.99
6883234--6883313	40	2.0	40	95	0	142	47	2	7	42	1.45
6883442--6883509	15	4.6	14	74	17	57	25	1	2	70	1.09
6889959--6890774	165	4.9	165	85	2	1044	30	24	20	23	1.99
6889959--6890704	84	9.0	84	82	5	827	30	24	20	23	1.99
6889959--6890704	334	2.2	333	85	2	1070	30	24	20	23	1.99
6891405--6891484	40	2.0	40	95	0	142	47	2	7	42	1.45
6891607--6891674	15	4.6	14	74	17	57	25	1	2	70	1.09
6894548--6894686	45	3.2	45	76	16	123	56	2	14	25	1.52
6894548--6894713	87	1.9	90	82	6	214	54	4	15	25	1.61
6894580--6894713	45	3.0	42	74	14	126	52	5	15	26	1.64
6900982--6901110	60	2.1	60	81	7	145	31	14	17	37	1.90
6902124--6902159	19	1.9	18	88	5	54	50	0	0	50	1.00
6909816--6909857	22	1.9	23	85	9	61	45	0	2	52	1.13
6911362--6911388	6	4.5	6	100	0	54	51	29	0	18	1.46
6920571--6920713	31	4.6	31	90	0	214	25	15	6	53	1.65
6922530--6922851	42	7.7	41	88	2	391	37	22	19	20	1.94
6922530--6922788	63	4.1	63	80	13	325	38	22	19	20	1.93
6929026--6929084	28	2.3	26	83	13	77	35	1	3	59	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6931639--6931870	117	2.0	116	92	2	385	38	22	11	27	1.89
6932419--6932648	115	2.0	115	100	0	460	41	23	13	21	1.88
6936585--6936641	26	2.2	26	96	0	105	42	8	14	35	1.76
6937797--6937880	29	2.9	30	87	8	120	47	14	0	38	1.44
6937797--6937898	29	3.5	28	84	12	118	50	14	0	35	1.44
6937908--6937978	28	2.5	29	93	2	117	42	14	2	40	1.60
6938548--6938606	20	3.0	20	85	9	68	27	5	8	59	1.48
6938605--6938702	2	49.5	2	97	2	189	50	0	0	50	1.00
6940670--6940792	43	2.9	43	97	0	228	23	21	24	30	1.99
6940670--6940839	86	2.0	86	81	4	200	26	20	24	29	1.99
6940995--6941053	21	2.8	21	84	0	73	55	20	5	18	1.61
6943832--6944177	41	8.4	41	80	6	301	33	17	18	30	1.94
6943860--6944220	82	4.4	82	79	4	338	35	16	16	31	1.92
6943832--6944255	123	3.5	121	78	6	408	33	16	17	32	1.93
6944104--6944220	40	2.9	40	78	6	101	39	18	11	30	1.86
6944730--6944761	15	2.1	15	100	0	64	43	12	25	18	1.85
6946093--6946135	19	2.3	18	84	11	52	72	0	2	25	0.97
6951965--6952052	18	4.5	19	71	21	58	64	3	3	28	1.25
6951997--6952051	18	3.1	18	72	12	60	65	3	1	29	1.20
6953134--6953163	2	15.5	2	93	6	53	50	0	0	50	1.00
6953662--6954316	36	18.5	36	74	12	516	41	13	19	26	1.88
6953892--6953956	21	3.4	21	68	24	70	41	12	21	24	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6953697--6954151	174	2.6	174	93	0	759	41	13	19	25	1.88
6954113--6954193	42	1.9	42	97	0	153	46	11	18	23	1.81
6954077--6954227	78	1.9	79	86	1	214	44	12	20	22	1.85
6953662--6954315	216	3.1	210	84	7	704	41	13	19	26	1.88
6954827--6954864	18	2.1	18	90	0	58	36	7	0	55	1.29
6955118--6955175	23	2.5	23	91	0	89	25	25	27	20	1.99
6960046--6960083	18	2.1	18	90	0	58	36	7	0	55	1.29
6960208--6960246	2	19.5	2	100	0	78	48	0	0	51	1.00
6960369--6960414	23	2.0	23	95	0	83	28	26	23	21	1.99
6962874--6962981	36	2.9	37	82	4	130	40	13	18	26	1.88

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