genome.fa.s7984.2.7.7.80.10.50.1000.33.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  33  of  65  ( 7696 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)
6679938--6679984	2	23.5	2	100	0	94	48	0	0	51	1.00
6679944--6680028	28	3.0	27	78	13	75	35	0	2	62	1.08
6679984--6680107	6	19.2	6	72	18	63	17	3	3	75	1.07
6680099--6680167	25	2.6	27	80	13	72	14	10	1	73	1.15
6690397--6690425	12	2.5	12	94	5	51	82	0	17	0	0.66
6693333--6693365	2	16.5	2	100	0	66	48	0	0	51	1.00
6693383--6693443	27	2.3	27	82	0	77	11	1	8	78	1.02
6693371--6693443	21	3.5	21	76	12	71	13	1	6	78	1.02
6693383--6693459	27	2.8	25	77	11	73	14	2	6	76	1.09
6694975--6695055	35	2.3	36	91	2	128	43	23	0	33	1.54
6694975--6695072	36	2.8	34	80	11	90	42	26	1	29	1.62
6695555--6695853	148	2.0	148	87	2	431	47	8	6	37	1.59
6696017--6696096	35	2.3	35	88	0	115	31	1	23	43	1.62
6697029--6697054	2	13.0	2	100	0	52	50	0	50	0	1.00
6697814--6697856	20	2.2	20	100	0	86	65	16	13	4	1.43
6697818--6697868	20	2.6	20	87	9	70	68	9	13	7	1.38
6703006--6703032	6	4.5	6	100	0	54	33	18	48	0	1.49
6706482--6706535	19	2.7	20	78	16	58	25	25	20	27	1.99
6706559--6706612	21	2.5	21	84	3	72	24	31	16	27	1.96
6708468--6708540	20	3.5	20	72	7	74	31	17	16	34	1.93
6708487--6708562	22	3.5	22	73	7	84	32	15	17	34	1.91
6708468--6708563	42	2.3	42	100	0	192	31	17	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6715728--6715778	20	2.5	20	81	12	61	27	15	31	25	1.96
6718648--6718715	23	3.0	23	80	0	82	23	16	25	35	1.95
6718640--6718739	46	2.1	47	85	8	134	21	19	23	37	1.95
6718710--6718763	24	2.2	24	90	0	81	18	20	22	38	1.93
6719739--6719781	20	2.2	20	86	0	59	27	13	23	34	1.93
6735838--6735900	23	2.7	23	82	0	81	22	17	25	34	1.95
6735897--6735946	24	2.1	24	88	0	73	20	24	26	30	1.98
6737854--6737918	3	21.7	3	96	0	121	69	0	30	0	0.89
6746461--6746510	18	2.6	19	78	15	59	24	24	18	34	1.96
6749625--6749943	163	2.0	163	85	1	442	27	7	12	52	1.65
6757581--6757654	36	2.1	36	100	0	148	35	5	17	41	1.72
6758253--6758302	19	2.5	21	72	27	54	32	0	4	64	1.12
6758273--6758337	34	1.9	34	90	6	105	26	6	3	64	1.32
6759819--6759864	20	2.3	20	92	0	74	30	23	13	32	1.93
6759861--6759898	20	1.9	20	84	10	51	28	28	10	31	1.90
6759917--6759987	20	3.6	19	78	14	72	22	18	26	32	1.97
6772707--6772754	21	2.3	21	82	10	55	50	0	4	45	1.21
6772742--6772822	15	5.4	15	69	16	60	46	2	0	50	1.14
6772708--6772804	43	2.3	42	84	5	126	48	1	2	48	1.20
6772785--6772822	18	2.2	18	90	4	60	44	2	0	52	1.14
6772723--6772836	60	1.9	61	90	5	187	48	1	0	49	1.17
6775057--6775087	3	10.0	3	93	6	53	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6775057--6775088	13	2.5	13	95	5	57	68	0	0	31	0.90
6776392--6776448	31	1.9	29	86	10	80	35	12	8	43	1.73
6779013--6779156	43	3.4	42	73	14	118	22	18	8	50	1.73
6779236--6779366	42	3.1	43	81	5	142	26	18	4	50	1.66
6797438--6797469	11	2.8	11	95	4	55	62	0	0	37	0.95
6799073--6799133	23	2.7	23	84	0	86	27	26	26	19	1.99
6805991--6806051	23	2.7	23	84	0	86	27	26	26	19	1.99
6806739--6806791	19	2.8	19	91	0	79	26	20	15	37	1.92
6808013--6808300	2	149.0	2	73	18	229	47	2	4	45	1.37
6808654--6808768	44	2.6	45	87	1	151	45	9	19	26	1.80
6809212--6809258	20	2.4	19	80	13	60	25	27	2	44	1.65
6809265--6809331	19	3.5	20	73	20	63	31	34	0	34	1.58
6809285--6809318	18	1.9	18	88	5	52	32	38	0	29	1.58
6810006--6810051	2	23.0	2	100	0	92	50	0	0	50	1.00
6810210--6810254	13	3.4	13	77	17	56	46	0	6	46	1.29
6813746--6813780	17	2.1	17	88	0	52	17	25	31	25	1.97
6817928--6817998	21	3.6	21	71	19	62	53	1	2	42	1.24
6817994--6818041	13	3.3	15	82	14	64	37	8	0	54	1.31
6817994--6818029	14	2.6	14	86	13	56	36	8	0	55	1.30
6818006--6818063	22	2.6	22	83	5	64	37	13	0	48	1.43
6818506--6818582	6	12.8	6	90	0	100	0	12	50	36	1.41
6818583--6818621	6	6.3	6	82	5	51	35	0	15	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6819317--6819362	24	1.9	24	86	8	67	50	0	13	36	1.41
6825306--6825330	9	2.8	9	100	0	50	28	0	0	72	0.86
6828207--6828414	22	9.2	22	72	19	74	51	0	9	38	1.40
6828227--6828287	2	30.0	2	77	9	61	52	0	4	42	1.23
6828184--6828497	20	15.6	19	68	17	108	50	2	7	39	1.44
6828175--6828290	23	5.3	23	71	20	97	54	0	7	37	1.35
6828224--6828401	8	23.1	8	69	26	102	51	0	8	38	1.38
6828342--6828414	21	3.4	21	87	7	103	53	0	9	36	1.34
6828320--6828414	43	2.3	42	85	10	124	54	0	8	36	1.31
6828313--6828401	30	3.0	31	77	14	98	55	0	7	37	1.29
6828534--6828706	8	22.1	8	69	25	88	37	9	1	52	1.41
6828522--6828590	21	3.3	20	86	9	86	40	5	0	53	1.25
6828526--6828606	30	2.7	30	78	16	80	38	6	0	55	1.25
6828634--6829647	2	509.0	2	64	21	165	45	4	4	45	1.43
6828642--6828681	17	2.4	16	80	12	53	40	5	2	52	1.37
6828390--6828708	125	2.7	119	80	13	304	41	7	3	47	1.48
6828873--6828934	21	3.0	19	73	15	52	53	0	4	41	1.22
6829098--6829220	15	7.9	16	72	21	93	38	5	2	53	1.38
6829155--6829649	11	46.2	11	64	20	90	46	4	3	45	1.40
6829114--6829312	17	11.4	17	67	23	69	42	4	2	50	1.34
6829278--6829643	20	17.9	19	71	16	191	46	4	3	44	1.42
6829433--6829649	9	24.2	9	68	20	93	47	4	2	45	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6834749--6834816	33	2.2	28	72	22	64	39	17	17	25	1.91
6841588--6841628	11	3.8	10	87	9	55	41	0	2	56	1.13
6841624--6841709	3	28.7	3	90	0	136	61	0	3	34	1.13
6842031--6842928	113	7.9	112	89	5	1313	29	18	13	37	1.90
6842031--6842928	229	4.0	227	92	2	1400	29	18	13	37	1.90
6843653--6844278	83	7.5	83	94	1	1067	37	21	12	28	1.90
6845432--6845482	1	51.0	1	80	0	57	0	9	0	90	0.46
6845431--6845491	7	9.3	7	79	13	67	0	14	0	85	0.60
6845432--6845494	9	7.1	9	85	1	65	0	14	0	85	0.59
6845432--6845485	18	3.0	18	88	0	81	0	11	0	88	0.50
6845439--6845489	11	5.0	10	86	13	61	0	11	0	88	0.52
6856140--6856208	24	2.9	23	82	6	84	59	1	1	37	1.15
6856140--6856207	23	2.9	23	78	10	59	60	1	1	36	1.15
6858306--6858346	11	3.8	10	87	9	55	41	0	2	56	1.13
6858342--6858427	3	28.7	3	90	0	136	61	0	2	36	1.09
6862479--6862673	108	1.8	108	93	2	338	20	30	15	33	1.94
6863685--6863746	31	2.0	31	90	0	97	54	1	0	43	1.09
6864750--6864806	21	2.7	21	86	0	69	54	1	1	42	1.21
6864916--6864966	12	4.2	12	75	9	59	56	0	1	41	1.10
6864901--6864958	21	2.8	20	75	17	55	55	0	1	43	1.10
6867669--6867848	65	2.8	65	82	7	206	29	24	19	26	1.98
6867800--6867848	19	2.6	19	84	9	57	24	28	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6876372--6876531	65	2.5	64	82	5	171	31	22	19	26	1.98
6880926--6880961	19	1.9	19	88	5	56	55	13	5	25	1.60
6886006--6886072	13	5.6	13	66	20	56	46	0	22	31	1.52
6886001--6886072	23	3.1	23	93	0	126	45	0	23	30	1.53
6887803--6887852	21	2.4	22	80	16	61	24	24	26	26	2.00
6887916--6888071	64	2.5	63	91	5	253	30	17	22	30	1.96
6890718--6890813	44	2.2	44	85	12	128	28	20	22	28	1.99
6890715--6890800	24	3.8	22	75	18	88	27	22	22	27	1.99
6897325--6897399	28	2.6	28	91	2	114	13	6	49	30	1.67
6897881--6898070	95	2.0	93	94	2	335	28	18	23	28	1.98

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   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65