genome.fa.s9643.2.7.7.80.10.50.1000.36.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  36  of  41  ( 4862 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)
7779580--7779647	19	3.8	19	85	12	92	14	22	16	47	1.82
7779764--7779800	14	2.6	14	86	0	56	48	21	0	29	1.50
7781668--7781734	19	3.5	19	81	4	80	38	23	22	14	1.92
7781723--7781780	14	3.9	14	79	16	71	48	25	17	8	1.75
7781707--7781785	32	2.4	33	93	2	133	48	24	17	10	1.78
7781814--7781871	14	3.9	14	77	16	62	12	17	22	48	1.80
7781797--7781887	32	2.8	33	93	3	157	13	18	20	47	1.82
7781872--7781926	20	2.8	19	83	8	65	16	23	23	36	1.94
7782407--7782451	18	2.5	18	88	0	72	13	15	44	26	1.83
7783770--7783808	20	2.0	20	89	0	60	51	20	15	12	1.76
7784302--7784395	20	4.7	20	80	2	89	23	18	24	34	1.96
7784282--7784396	20	5.7	20	78	5	88	23	17	23	35	1.95
7784385--7784477	20	4.5	21	75	4	91	18	24	17	39	1.91
7784324--7784458	41	3.3	41	81	4	130	20	21	20	38	1.94
7784385--7784473	41	2.2	41	97	0	169	17	24	15	41	1.89
7786358--7786410	24	2.2	24	100	0	106	28	20	13	37	1.90
7788478--7788555	39	2.0	39	100	0	156	25	12	15	46	1.81
7788480--7788565	39	2.2	39	93	4	147	26	12	17	43	1.85
7791744--7791772	2	14.5	2	100	0	58	48	0	0	51	1.00
7794238--7795820	228	6.9	226	85	3	1616	22	24	23	28	1.99
7794238--7795821	684	2.3	681	83	4	1884	22	24	23	28	1.99
7797973--7798022	26	2.0	26	84	11	68	36	4	12	48	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7798660--7798712	12	4.4	12	87	0	70	9	15	50	24	1.73
7799493--7800567	228	4.7	228	88	1	1341	21	26	24	28	1.99
7801978--7802036	30	2.0	30	86	6	84	37	6	20	35	1.79
7804256--7804374	46	2.6	45	85	6	161	43	6	20	29	1.77
7806554--7806587	18	1.9	17	88	5	50	5	14	2	76	1.09
7806541--7806588	24	2.0	24	84	8	62	6	16	2	75	1.11
7819672--7819732	26	2.3	25	81	13	61	65	1	8	24	1.29
7820005--7820030	10	2.6	10	100	0	52	11	19	19	50	1.77
7820042--7820074	16	2.1	16	100	0	66	57	24	12	6	1.57
7820137--7820209	10	7.7	10	70	25	52	56	21	12	9	1.64
7820141--7820203	15	4.1	16	91	4	103	55	23	12	7	1.63
7820951--7821006	14	4.3	14	76	17	66	53	23	12	10	1.69
7820931--7821005	24	3.1	24	86	3	98	56	20	10	13	1.66
7823366--7823584	5	43.6	5	86	13	301	60	0	0	39	0.97
7823366--7823584	121	1.8	120	93	6	381	60	0	0	39	0.97
7825816--7825868	10	5.6	10	70	20	51	56	20	13	9	1.64
7825819--7825855	16	2.3	16	95	0	65	56	21	13	8	1.63
7826608--7826666	14	4.6	14	76	20	65	59	18	11	10	1.60
7826618--7826670	23	2.2	24	90	3	81	58	20	13	7	1.59
7827797--7827909	20	5.7	20	79	6	104	32	26	16	23	1.96
7827795--7827923	40	3.2	40	80	6	154	35	25	15	23	1.94
7828096--7828139	22	2.0	22	95	0	79	20	45	15	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7828162--7828228	33	2.0	33	94	5	118	52	25	8	13	1.69
7828623--7828677	25	2.2	24	78	15	58	20	9	18	52	1.71
7830189--7830548	183	2.0	177	94	5	625	27	14	16	41	1.86
7830538--7830593	20	2.8	20	81	2	69	39	21	23	16	1.92
7830566--7830658	33	2.8	34	93	1	161	48	20	18	12	1.80
7830566--7830663	19	5.6	19	71	20	97	46	20	19	13	1.83
7830675--7830732	14	3.9	14	75	16	62	10	15	24	50	1.75
7830670--7830748	32	2.4	33	91	2	133	11	17	22	48	1.79
7830691--7830748	18	3.4	18	68	22	61	13	17	20	48	1.81
7832732--7832802	18	4.5	15	74	19	56	47	18	21	12	1.81
7832744--7832795	18	2.9	18	91	0	86	50	15	21	13	1.78
7832834--7832921	20	4.4	20	80	5	115	15	21	23	38	1.92
7832814--7832901	40	2.4	36	83	12	108	15	20	21	42	1.89
7833130--7833177	20	2.5	19	80	6	69	22	18	22	35	1.96
7833205--7833256	20	2.5	21	87	3	70	21	23	17	38	1.93
7833448--7833481	12	2.9	12	86	4	52	17	41	5	35	1.74
7833925--7833977	24	2.3	23	84	9	72	22	13	20	43	1.86
7834153--7834186	12	2.8	12	95	0	59	70	0	26	2	1.01
7836450--7836543	33	2.8	33	96	0	170	44	19	23	12	1.85
7836450--7836547	19	5.7	19	68	22	81	44	19	23	12	1.84
7836558--7836614	14	3.7	14	75	20	60	8	24	22	43	1.81
7836547--7836632	33	2.6	33	96	1	156	11	22	19	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7836572--7836632	19	3.5	19	72	21	69	11	22	21	44	1.84
7838091--7838184	42	2.2	42	81	7	102	21	20	34	24	1.97
7838430--7838611	89	2.0	89	92	5	303	46	19	12	21	1.83
7840278--7840409	19	7.1	19	78	13	132	45	20	21	12	1.83
7840278--7840404	33	3.4	36	80	9	118	46	20	21	11	1.82
7840405--7840452	20	2.4	21	90	10	75	10	16	22	50	1.76
7840967--7841078	20	5.6	20	82	4	73	20	20	21	37	1.94
7840985--7841078	41	2.3	40	87	1	125	19	21	20	39	1.93
7841075--7841130	20	2.7	21	77	5	60	44	16	19	19	1.87
7841191--7841243	21	2.5	22	78	6	65	35	18	24	20	1.95
7846079--7846116	19	2.0	20	85	10	53	31	0	7	60	1.25
7850870--7851004	68	2.0	68	100	0	270	28	19	11	40	1.87
7850879--7851020	68	2.1	67	92	1	187	29	20	9	40	1.85
7855331--7855465	68	2.0	68	94	0	234	30	17	11	40	1.85
7857366--7857413	22	2.2	22	96	0	87	35	20	20	22	1.96
7858514--7858559	23	2.0	23	83	12	58	47	19	0	32	1.50
7864833--7864859	2	13.5	2	100	0	54	48	0	0	51	1.00
7865925--7866020	35	2.6	35	86	6	120	38	14	14	32	1.87
7866365--7866407	18	2.5	17	85	7	61	25	4	2	67	1.22
7866364--7866486	58	2.1	54	78	17	131	33	4	1	60	1.25
7866902--7866935	2	17.0	2	93	0	59	47	0	0	52	1.00
7870670--7870724	22	2.5	23	82	8	69	78	5	16	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7870674--7870737	21	3.2	19	79	12	65	78	7	12	1	1.03
7871373--7871423	22	2.3	22	96	0	93	35	27	11	25	1.91
7872216--7872320	36	2.9	37	91	1	158	24	23	12	39	1.89
7872352--7872422	37	1.9	37	85	5	99	26	19	14	39	1.90
7872251--7872691	102	4.3	102	95	0	783	29	19	13	37	1.90
7872438--7872524	37	2.4	37	88	1	122	25	20	13	40	1.89
7872540--7872626	37	2.4	37	88	1	122	25	20	13	40	1.89
7872576--7872756	65	2.8	65	93	0	308	30	20	12	36	1.89
7872474--7872782	167	1.8	168	93	0	539	30	20	12	37	1.89
7873281--7874249	203	4.7	205	83	7	1046	32	24	21	21	1.98
7873302--7874252	109	9.1	104	77	10	740	32	24	21	21	1.98
7874717--7874812	35	2.6	35	86	6	120	38	14	14	32	1.87
7875157--7875196	18	2.3	18	83	8	57	25	5	2	67	1.23
7875690--7875729	2	20.0	2	94	0	71	47	0	0	52	1.00
7877704--7877759	15	3.6	15	76	9	58	42	10	12	33	1.77
7877707--7877757	17	3.1	17	75	11	52	43	9	9	37	1.71
7877927--7877979	21	2.5	21	93	0	88	32	28	18	20	1.97
7878175--7878229	13	4.2	13	75	13	58	49	12	3	34	1.59
7878215--7878313	33	3.0	33	94	1	164	45	15	7	32	1.73
7878308--7878347	21	1.9	21	94	0	71	47	7	15	30	1.72
7880682--7880719	19	2.0	19	90	10	60	42	21	21	15	1.89
7883561--7883632	22	3.2	22	77	13	58	41	2	1	54	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7883594--7883649	27	2.1	26	84	15	71	41	3	0	55	1.17
7883608--7883656	25	2.0	25	84	8	64	42	4	0	53	1.20
7887351--7887397	21	2.2	21	100	0	94	23	19	25	31	1.98
7887427--7887602	62	2.8	62	87	3	255	25	22	19	32	1.97
7887404--7887625	21	10.7	21	76	3	135	27	21	19	30	1.98
7888272--7888358	31	2.8	31	84	6	106	43	0	2	54	1.13
7888296--7888359	19	3.2	20	79	14	71	46	0	0	53	1.00
7889076--7889123	22	2.2	22	85	7	62	60	2	2	35	1.20
7897861--7897923	33	1.9	33	100	0	126	38	28	14	19	1.90
7902486--7902591	35	2.9	37	73	18	98	36	20	14	28	1.92

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