genome.fa.s7923.2.7.7.80.10.50.1000.17.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  17  of  40  ( 4704 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)
3436134--3436165	15	2.1	15	94	0	55	12	15	12	59	1.61
3440029--3440090	32	1.9	32	90	0	97	43	17	19	19	1.88
3442415--3442466	22	2.4	22	86	0	77	34	15	17	32	1.91
3442841--3443610	113	6.8	113	91	1	1152	37	14	20	27	1.91
3443936--3443984	3	17.0	3	87	8	75	32	0	2	65	1.04
3444445--3444500	26	2.2	26	100	0	112	14	33	28	23	1.94
3445458--3445514	29	1.9	30	82	10	73	28	7	3	61	1.39
3445603--3445641	2	20.0	2	94	5	71	51	0	0	48	1.00
3448836--3449166	74	4.5	74	92	1	531	33	14	13	38	1.85
3455836--3455871	18	2.0	18	89	10	56	33	0	8	58	1.28
3465480--3465543	21	3.0	21	81	4	65	25	35	23	15	1.94
3466250--3466293	21	2.1	21	86	0	61	31	40	0	27	1.56
3466242--3466275	12	2.8	12	100	0	68	26	50	0	23	1.50
3467760--3467845	34	2.3	38	76	21	108	33	1	31	33	1.66
3467782--3467851	34	2.1	34	97	0	131	38	0	27	34	1.57
3469194--3469290	37	2.6	37	75	10	101	28	2	5	63	1.27
3469198--3469253	20	2.8	20	71	10	51	33	1	1	62	1.16
3473254--3473295	20	2.2	19	86	4	57	38	0	4	57	1.20
3499498--3499523	12	2.2	12	100	0	52	23	0	53	23	1.46
3500189--3500261	22	3.3	22	74	11	67	15	21	41	21	1.90
3510037--3510111	21	3.7	20	80	7	71	57	1	1	40	1.16
3510037--3510111	20	3.7	21	80	7	75	57	1	1	40	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3510862--3510932	36	2.0	36	91	0	115	29	21	23	25	1.99
3515337--3515412	36	2.1	36	85	0	98	35	19	19	25	1.95
3517461--3517488	10	2.8	10	100	0	56	10	21	50	17	1.77
3519371--3519580	41	5.1	41	91	0	339	15	19	24	41	1.89
3519481--3519542	20	3.0	20	66	13	54	17	17	22	41	1.90
3520375--3520402	5	5.6	5	100	0	56	0	39	21	39	1.54
3520375--3520408	15	2.3	15	89	0	50	0	35	26	38	1.57
3520406--3520458	27	2.0	27	100	0	106	11	16	41	30	1.84
3520536--3520649	20	5.6	20	69	15	90	40	25	21	12	1.88
3520556--3520626	21	3.4	21	69	18	67	38	26	19	15	1.92
3520533--3520674	41	3.5	41	92	3	216	38	25	20	15	1.92
3521723--3521783	22	2.8	21	87	9	86	21	44	11	22	1.84
3521872--3521921	9	5.4	9	95	4	91	20	0	0	80	0.72
3521871--3521921	19	2.7	19	96	3	95	19	0	0	80	0.71
3522203--3522270	19	3.5	19	89	2	91	11	16	19	52	1.73
3522197--3522284	19	4.5	19	81	4	77	12	15	18	53	1.73
3524367--3524463	21	4.6	21	77	2	97	22	32	19	24	1.97
3524365--3524483	42	2.8	42	83	0	139	21	34	19	25	1.96
3524369--3524483	21	5.5	21	76	4	88	20	34	20	24	1.96
3525829--3525977	64	2.3	64	92	0	244	28	1	17	52	1.53
3526289--3526324	18	2.0	18	94	0	63	16	2	25	55	1.55
3527494--3527530	18	2.1	18	89	0	56	51	10	5	32	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3527913--3527962	25	2.0	25	92	0	82	46	22	6	26	1.74
3528357--3528392	18	2.0	18	88	0	54	22	2	19	55	1.56
3530663--3530716	24	2.2	24	93	0	90	40	20	18	20	1.91
3530663--3530730	24	2.8	24	84	0	64	38	20	17	23	1.93
3531589--3531723	21	6.7	21	79	9	93	34	17	23	24	1.96
3534810--3534927	59	2.0	60	83	1	148	35	9	15	39	1.79
3539350--3539415	33	2.0	32	85	8	89	27	4	9	59	1.48
3548366--3548418	22	2.4	22	96	0	97	52	1	0	45	1.11
3548534--3549502	485	2.0	487	93	2	1662	33	17	10	39	1.83
3549884--3549941	30	2.0	29	86	10	82	32	24	5	37	1.77
3550532--3550637	48	2.2	48	77	14	112	50	1	0	47	1.18
3550752--3550988	18	13.0	18	65	25	67	48	0	1	48	1.17
3550777--3550834	17	3.3	17	75	13	55	48	1	0	50	1.11
3550903--3550969	23	2.9	23	80	10	82	47	0	1	50	1.10
3550873--3550986	29	3.9	29	76	12	99	50	0	1	48	1.11
3550943--3550988	21	2.1	23	88	8	69	52	0	2	45	1.13
3550960--3551022	23	2.6	24	78	19	60	47	0	1	50	1.10
3550870--3551005	21	6.6	21	70	18	56	49	0	1	49	1.10
3552013--3552114	35	2.9	36	88	5	145	44	18	3	33	1.68
3556484--3556592	35	3.0	36	90	5	166	44	19	4	31	1.70
3556524--3556584	21	3.2	21	63	29	55	42	21	3	32	1.69
3557006--3557151	70	2.1	69	84	3	186	50	5	8	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3557360--3557516	2	80.0	2	71	10	110	47	3	5	44	1.41
3558061--3558204	78	1.8	78	89	0	225	42	8	4	44	1.56
3559740--3559848	54	2.0	54	96	0	200	33	14	30	22	1.94
3564657--3564757	31	3.2	32	77	6	100	32	18	15	32	1.93
3565706--3565859	64	2.4	64	76	12	147	26	20	20	33	1.97
3568878--3569031	30	5.0	30	87	5	202	24	16	14	44	1.85
3569234--3569282	25	2.0	24	84	4	62	51	4	4	40	1.40
3570249--3570317	33	2.1	33	84	10	88	49	0	1	49	1.09
3570264--3570336	24	2.9	25	75	17	71	52	0	1	46	1.09
3571233--3571278	23	2.0	23	100	0	92	47	8	8	34	1.65
3572863--3572908	3	16.0	3	91	8	69	69	0	2	28	1.00
3576241--3576296	16	3.3	16	73	16	51	55	3	3	37	1.35
3576229--3576311	35	2.3	35	86	8	114	59	2	2	36	1.24
3579244--3579367	62	2.0	61	98	1	239	28	16	26	29	1.97
3581261--3581378	41	2.9	41	86	3	150	38	17	12	30	1.87
3582901--3582952	21	2.4	21	78	21	54	46	1	0	51	1.12
3582934--3582999	23	3.0	21	85	10	80	39	4	1	54	1.30
3582975--3583032	16	3.3	19	70	25	54	44	0	1	53	1.10
3582980--3583032	15	3.3	15	78	19	61	45	0	1	52	1.11
3594980--3595004	12	2.1	12	100	0	50	76	24	0	0	0.80
3596119--3596175	5	11.0	5	75	14	53	75	1	5	17	1.07
3596117--3596182	31	2.1	32	83	8	82	75	1	6	16	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3596270--3596324	2	28.5	2	85	7	78	49	0	3	47	1.19
3598090--3598297	111	1.9	111	86	2	301	21	17	24	37	1.94
3599381--3599410	15	1.9	16	93	6	53	3	16	0	80	0.85
3599448--3599493	16	2.8	18	75	18	55	0	13	6	80	0.89
3607380--3607418	20	2.0	20	94	0	69	28	25	15	30	1.96
3612317--3612393	34	2.3	32	79	16	77	49	1	1	48	1.17
3613871--3614058	100	1.9	99	87	3	279	44	17	4	32	1.70
3614490--3614555	15	4.4	15	78	0	69	42	6	13	37	1.69
3614507--3614571	30	2.2	29	88	2	94	43	6	15	35	1.72
3614507--3614571	15	4.4	15	75	7	62	43	6	15	35	1.72
3614981--3615166	28	7.1	26	68	25	74	51	1	0	47	1.12
3614988--3615066	28	2.7	29	80	17	85	54	1	0	44	1.08
3615080--3615135	18	3.2	18	72	10	53	51	0	1	46	1.11
3615102--3615158	21	2.9	21	82	14	61	54	0	0	45	0.99
3615278--3615329	27	1.9	27	88	0	77	38	17	13	30	1.88
3615399--3615531	42	3.3	39	79	13	144	48	17	15	19	1.82
3615438--3615513	38	2.0	38	89	5	118	51	17	13	18	1.76
3615851--3615888	14	2.6	15	83	8	51	57	0	0	42	0.98
3618724--3618975	72	3.5	71	79	7	247	41	3	10	44	1.56
3618724--3619035	37	8.4	36	75	9	216	42	4	9	42	1.59
3619033--3619090	3	19.3	3	86	13	84	31	1	0	67	1.01
3619035--3619091	29	2.0	29	93	6	100	29	1	0	68	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3619124--3619173	18	2.8	18	90	0	73	34	36	12	18	1.87
3619239--3619283	20	2.2	20	96	0	81	13	28	40	17	1.88
3622506--3622557	22	2.5	20	79	11	59	3	13	46	36	1.62
3622506--3622541	18	2.0	18	88	0	54	2	13	47	36	1.58
3622570--3622672	53	1.9	53	90	0	161	42	10	14	32	1.80
3627367--3627419	19	2.8	19	97	0	97	33	32	13	20	1.91
3627387--3627530	65	2.2	65	83	2	173	30	23	19	26	1.98
3635374--3635408	12	2.8	13	91	4	54	45	11	0	42	1.40
3635755--3635915	65	2.5	65	82	4	182	31	21	18	28	1.97
3635974--3636028	21	2.6	21	97	0	101	25	25	27	21	2.00

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