genome.fa.s7957.2.7.7.80.10.50.1000.17.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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  17  of  43  ( 5063 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)
3301402--3301447	13	3.8	12	78	21	51	73	8	17	0	1.07
3301396--3301447	24	2.2	24	86	6	70	75	7	15	1	1.12
3303580--3303687	42	2.6	41	80	4	126	25	21	23	30	1.99
3304402--3304511	36	2.8	38	85	12	152	59	10	11	18	1.61
3306246--3306405	77	2.1	78	97	2	304	30	23	18	27	1.98
3306481--3306801	160	2.0	160	100	0	642	23	7	25	43	1.80
3307422--3307513	29	3.1	29	68	11	78	41	1	22	34	1.61
3307433--3307526	29	3.2	29	71	8	91	41	2	19	37	1.63
3307702--3307751	16	3.2	16	82	2	57	16	14	18	52	1.76
3309367--3309477	20	6.0	20	65	25	66	26	27	18	27	1.98
3309368--3309473	36	2.9	36	85	0	149	26	26	18	28	1.98
3310894--3310967	33	2.2	34	95	4	141	36	14	10	37	1.82
3318712--3319344	320	2.0	319	94	3	1120	35	21	11	31	1.90
3324607--3324642	15	2.4	15	90	0	54	61	2	27	8	1.39
3324834--3324891	13	4.7	13	73	16	52	31	1	41	25	1.66
3324777--3324892	35	3.3	35	90	1	178	34	3	37	25	1.73
3325367--3325413	22	2.2	22	85	11	62	21	25	23	29	1.99
3328123--3328154	16	1.9	17	93	6	57	37	0	31	31	1.58
3328859--3328974	35	3.3	35	90	1	187	31	3	37	26	1.73
3328916--3328973	13	4.7	13	68	12	50	29	1	41	27	1.66
3329532--3329578	22	2.2	22	85	11	62	21	25	23	29	1.99
3333537--3333569	16	2.0	17	94	5	59	42	0	24	33	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3335689--3335762	35	2.1	35	85	2	96	41	21	1	35	1.62
3336342--3336439	43	2.3	42	84	5	124	30	29	9	30	1.88
3337117--3337163	15	3.1	15	87	0	67	8	63	17	10	1.49
3339866--3339904	17	2.4	17	86	4	53	25	2	10	61	1.41
3343195--3343239	23	1.9	24	86	4	65	64	13	0	22	1.28
3344603--3344661	21	2.8	21	100	0	118	23	27	25	23	2.00
3344722--3344875	64	2.4	65	85	10	194	32	18	22	25	1.97
3345006--3345041	18	2.0	18	94	0	63	33	8	16	41	1.78
3345231--3345264	12	2.7	13	90	9	61	44	5	8	41	1.60
3345559--3345626	30	2.3	29	85	9	86	58	20	1	19	1.47
3347059--3347103	13	3.5	13	84	6	56	46	8	8	35	1.66
3347585--3347655	23	3.2	23	65	15	58	33	19	16	29	1.94
3347578--3347643	21	3.0	21	71	6	60	33	18	15	33	1.92
3347578--3347683	44	2.4	44	85	6	153	33	18	17	30	1.95
3351340--3351379	20	2.0	21	85	5	55	25	17	10	47	1.78
3353429--3353581	65	2.4	64	89	5	220	30	18	22	27	1.98
3357455--3357564	6	18.2	6	69	19	61	26	1	3	68	1.16
3361045--3361104	27	2.2	27	82	11	70	36	15	6	41	1.73
3361916--3361970	22	2.5	22	78	0	65	38	10	14	36	1.81
3368293--3368341	23	2.1	23	85	7	64	59	12	2	26	1.44
3371640--3371696	20	2.8	20	83	2	69	71	0	15	12	1.13
3371641--3371718	26	3.0	25	73	12	68	67	0	16	15	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3378522--3378570	23	2.1	23	85	7	64	59	12	2	26	1.44
3378870--3378899	12	2.5	12	94	0	51	0	36	0	63	0.95
3382413--3382453	20	2.1	19	95	4	73	78	14	7	0	0.96
3384038--3384105	26	2.7	26	76	19	72	42	2	4	50	1.37
3384031--3384090	25	2.5	23	75	19	59	43	3	5	48	1.41
3386434--3386461	14	2.0	14	100	0	56	28	21	35	14	1.92
3386405--3386467	32	2.0	32	83	0	81	26	19	33	20	1.96
3389168--3389218	20	2.5	20	87	12	70	33	19	23	23	1.97
3389846--3390152	45	6.8	46	86	5	405	40	10	19	29	1.84
3396997--3397123	63	2.0	63	100	0	254	39	20	17	22	1.92
3400367--3400438	26	2.8	26	78	17	71	44	2	1	51	1.24
3400546--3400571	3	8.7	3	100	0	52	30	0	0	69	0.89
3401169--3401197	15	1.9	15	100	0	58	41	3	0	55	1.17
3402217--3402286	2	35.0	2	100	0	140	50	0	0	50	1.00
3403405--3403446	22	1.9	22	90	9	68	71	4	4	19	1.22
3403658--3403707	26	1.9	26	91	0	82	26	24	20	30	1.98
3403984--3404011	2	14.0	2	100	0	56	50	0	0	50	1.00
3405992--3406047	2	28.0	2	100	0	112	50	0	0	50	1.00
3406258--3406291	18	2.0	17	88	11	52	64	0	14	20	1.28
3407433--3407482	26	1.9	26	91	0	82	26	24	20	30	1.98
3407759--3407786	2	14.0	2	100	0	56	50	0	0	50	1.00
3409770--3409830	2	30.5	2	100	0	122	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3411204--3411253	26	1.9	26	91	0	82	26	24	20	30	1.98
3411526--3411559	2	17.0	2	100	0	68	50	0	0	50	1.00
3416714--3416757	22	2.0	22	100	0	88	45	9	9	36	1.68
3420164--3420197	16	2.1	16	88	0	50	61	5	2	29	1.34
3420208--3420263	15	3.7	15	75	13	53	76	7	1	14	1.07
3420500--3420768	110	2.4	110	86	5	357	45	12	15	26	1.82
3420493--3420798	110	2.8	109	84	8	353	47	12	15	25	1.80
3422006--3422149	59	2.4	59	87	0	198	27	15	29	27	1.96
3422167--3422849	116	5.8	116	82	5	802	36	16	16	30	1.91
3422167--3422849	40	17.5	39	84	3	813	36	16	16	30	1.91
3423100--3423404	52	5.7	52	71	11	238	41	19	8	30	1.81
3423099--3423411	109	2.9	110	82	3	364	41	18	8	30	1.81
3423673--3423729	2	28.5	2	100	0	114	50	0	0	49	1.00
3425535--3425622	42	2.1	42	85	8	117	2	25	2	70	1.10
3425547--3425633	21	4.2	21	86	2	115	2	26	1	70	1.07
3429247--3429564	108	2.9	109	85	6	385	33	16	21	28	1.95
3429493--3429612	48	2.5	47	83	4	134	40	15	17	26	1.90
3429384--3429684	160	1.9	153	85	6	415	34	15	20	28	1.94
3429539--3429841	113	2.7	112	83	6	371	30	15	24	29	1.95
3429740--3430125	134	2.9	134	78	9	376	28	17	24	29	1.97
3430012--3430776	111	6.9	113	84	5	957	31	15	24	28	1.96
3437534--3437570	15	2.5	15	90	0	56	5	67	16	10	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3437709--3437774	28	2.4	28	94	0	114	21	36	7	34	1.82
3441939--3441977	3	13.3	3	86	5	53	35	25	0	38	1.56
3441976--3442022	3	15.3	3	95	4	85	34	0	2	63	1.06
3442175--3442222	3	16.0	3	100	0	96	33	0	0	66	0.92
3442550--3442594	2	22.5	2	100	0	90	48	0	0	51	1.00
3445062--3445111	23	2.2	23	82	7	57	40	10	14	36	1.79
3445220--3445279	23	2.6	23	83	0	75	40	10	16	33	1.82
3445379--3445424	23	2.0	24	82	4	58	30	13	21	34	1.91
3444903--3445424	158	3.3	158	89	2	764	41	11	12	34	1.80
3445538--3445784	75	3.4	73	86	3	327	41	14	12	32	1.82
3445865--3446217	112	3.2	112	89	0	546	44	12	13	29	1.81
3446113--3446307	90	2.2	91	91	0	311	44	14	13	27	1.83
3446204--3446417	111	1.9	111	89	0	331	43	14	13	28	1.84
3446001--3446417	201	2.1	203	91	2	671	44	13	13	28	1.82
3447013--3447042	7	4.3	7	95	0	51	60	0	0	40	0.97
3447169--3447251	19	4.2	19	70	11	69	25	3	15	55	1.57
3456085--3456129	2	22.5	2	100	0	90	48	0	0	51	1.00
3457707--3457735	13	2.1	14	93	6	51	31	6	0	62	1.22
3463033--3463664	38	15.9	38	78	13	527	46	4	6	42	1.49
3463034--3463659	40	15.8	40	78	13	525	46	4	6	42	1.49
3463393--3463613	112	1.9	110	84	11	275	47	4	6	41	1.49
3463282--3463614	122	2.8	110	81	11	305	48	4	6	41	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3463630--3463685	25	2.5	22	77	11	60	48	0	7	44	1.30
3463492--3463685	85	2.2	88	77	19	228	50	2	6	41	1.41
3463604--3463719	60	1.9	60	84	6	155	47	0	6	45	1.33
3465083--3465123	16	2.5	17	84	4	57	24	0	0	75	0.80
3465087--3465120	13	2.6	13	95	0	59	23	0	0	76	0.79
3465705--3465745	21	1.9	21	85	5	55	51	4	7	36	1.51
3470610--3471074	233	2.0	232	99	0	921	51	16	11	20	1.75
3472526--3472826	44	6.9	43	68	10	135	28	19	21	30	1.98
3472180--3472831	131	5.0	132	83	4	774	28	18	21	31	1.97
3472666--3472825	87	1.8	86	81	1	194	29	21	21	27	1.99

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