genome.fa.s1279.2.7.7.80.10.50.1000.15.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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   

This is table  15  of  29  ( 3433 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)
3515182--3515209	14	2.0	14	100	0	56	42	0	7	50	1.30
3516260--3516298	19	2.1	19	85	9	53	76	0	0	23	0.78
3517461--3517507	14	3.3	14	77	11	51	72	2	0	25	0.96
3517568--3517977	38	11.0	38	83	4	496	42	9	4	44	1.56
3517830--3517889	13	4.7	13	72	12	52	41	10	6	41	1.65
3526100--3526245	73	2.0	73	98	0	283	30	23	5	40	1.77
3531737--3531802	32	2.1	31	83	8	80	71	0	6	22	1.08
3532866--3532895	2	15.5	2	93	6	53	53	0	0	46	1.00
3532883--3532924	15	2.9	14	80	13	50	59	4	0	35	1.19
3532919--3532986	35	1.9	35	87	0	100	41	2	4	51	1.37
3532953--3533166	39	5.7	37	80	11	213	41	7	5	45	1.55
3532926--3533153	111	2.0	111	81	8	266	40	7	5	47	1.53
3533121--3533247	49	2.7	47	86	6	161	49	9	3	37	1.51
3533085--3533247	39	3.7	45	80	11	160	48	9	3	38	1.53
3536871--3537031	31	5.2	31	82	6	186	13	25	30	30	1.94
3536881--3537031	61	2.5	62	84	5	200	13	25	30	30	1.94
3539506--3539653	31	4.8	31	73	3	91	16	27	27	29	1.97
3539506--3539652	62	2.4	62	83	0	168	17	27	26	29	1.97
3544128--3544288	31	5.2	30	77	12	148	11	22	32	32	1.90
3544126--3544293	61	2.7	62	83	4	196	11	24	32	32	1.90
3547892--3547957	21	3.2	20	77	8	71	30	6	9	54	1.56
3552150--3552183	17	1.9	18	94	5	61	32	2	0	64	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3552204--3552261	25	2.3	24	77	8	62	36	6	1	55	1.37
3552315--3552357	20	2.2	20	83	8	52	11	11	0	76	1.02
3552522--3552572	18	2.8	18	82	11	52	23	5	0	70	1.09
3561260--3561300	21	2.0	21	85	4	57	82	2	14	0	0.76
3564454--3564485	17	1.9	16	93	6	55	31	3	0	65	1.08
3564819--3564869	18	2.8	18	82	11	52	23	5	0	70	1.09
3565529--3566189	306	2.2	308	95	0	1191	30	12	12	44	1.78
3566145--3566238	49	1.9	49	100	0	188	31	14	13	39	1.86
3566691--3566775	36	2.4	37	90	5	124	34	23	16	25	1.95
3566703--3566775	36	2.1	35	94	2	128	35	23	16	24	1.95
3566785--3566854	35	2.0	35	82	0	86	31	21	21	25	1.98
3567115--3567151	6	6.5	6	87	9	51	43	0	0	56	0.99
3567119--3567164	11	4.1	11	83	5	65	39	0	0	60	0.97
3567115--3567162	23	2.1	23	92	3	80	39	0	0	60	0.97
3567405--3567454	25	2.0	25	100	0	100	36	20	28	16	1.93
3572008--3572046	21	1.9	20	84	5	51	30	17	0	51	1.46
3579466--3579723	89	2.9	89	84	4	313	36	19	17	26	1.94
3579476--3579753	89	3.1	87	76	14	246	38	18	17	25	1.93
3579972--3580004	17	1.9	17	93	0	57	33	0	0	66	0.92
3581143--3581177	2	17.5	2	100	0	70	51	0	0	48	1.00
3583590--3583636	20	2.3	20	82	10	60	44	6	0	48	1.28
3592037--3592088	23	2.6	18	74	25	59	32	7	17	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3598839--3598907	24	2.9	23	85	6	84	18	10	11	59	1.60
3599492--3599548	23	2.5	23	82	0	69	12	12	14	61	1.57
3604234--3604262	3	9.7	3	100	0	58	68	0	0	31	0.89
3610733--3610788	24	2.3	24	100	0	112	37	16	17	28	1.91
3620654--3620704	20	2.5	20	78	18	61	23	19	13	43	1.87
3621447--3621499	22	2.6	20	85	8	63	37	13	7	41	1.72
3621855--3621895	22	1.9	21	90	5	64	36	36	2	24	1.69
3622202--3622252	21	2.4	22	75	21	54	70	1	15	11	1.25
3625885--3625925	22	1.9	21	90	5	64	36	36	2	24	1.69
3626422--3626476	20	2.5	22	88	8	78	32	20	23	23	1.98
3631922--3631975	24	2.3	23	87	6	81	59	11	1	27	1.42
3634509--3634583	35	2.1	35	90	0	114	32	0	24	44	1.54
3637733--3637782	23	2.1	24	92	3	84	48	6	0	46	1.27
3638039--3638089	16	3.2	15	91	5	75	47	13	19	19	1.83
3639243--3639508	11	25.6	11	67	16	77	46	5	4	43	1.46
3639243--3639326	22	3.9	22	80	9	93	48	5	2	42	1.40
3639243--3639508	20	13.4	20	73	16	173	46	5	4	43	1.46
3639246--3639389	2	72.0	2	65	22	54	46	4	2	46	1.36
3639269--3639468	74	2.6	73	77	12	181	45	6	4	44	1.47
3639660--3639722	22	2.8	22	87	2	81	49	9	4	36	1.57
3639733--3639774	20	2.1	20	90	0	66	40	9	9	40	1.70
3639806--3639975	2	81.0	2	65	21	55	46	7	2	42	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3639806--3639975	7	27.0	6	66	19	55	46	7	2	42	1.47
3639640--3639827	101	1.9	101	81	8	231	44	8	6	40	1.60
3639823--3639871	15	3.4	15	83	8	66	46	10	0	42	1.37
3639793--3639855	11	5.5	11	75	14	56	47	9	1	41	1.45
3639823--3639914	13	6.7	13	71	11	76	47	8	2	41	1.46
3640022--3640076	18	3.1	18	81	5	58	41	7	5	45	1.55
3640040--3640079	18	2.1	20	90	9	66	40	7	5	47	1.54
3639757--3640170	227	1.8	224	79	14	470	44	7	5	42	1.55
3640155--3640227	25	2.8	26	89	6	121	47	4	0	47	1.21
3641393--3643593	732	3.0	732	98	0	4267	40	15	15	28	1.88
3644611--3644649	14	2.8	14	84	0	51	23	35	17	23	1.95
3644651--3644711	14	4.5	13	78	8	68	16	19	24	39	1.92
3647703--3647740	14	2.7	14	91	0	58	15	21	18	44	1.86
3650218--3650420	103	2.0	101	88	3	300	33	28	3	33	1.74
3650354--3650553	112	1.8	111	81	5	253	34	26	4	35	1.77
3650740--3650773	12	2.8	12	86	0	50	47	41	5	5	1.52
3650740--3650791	18	2.9	18	76	0	50	42	44	7	5	1.57
3653307--3653394	20	4.4	20	86	0	122	18	9	13	59	1.60
3653294--3653394	40	2.5	40	81	0	130	16	9	14	58	1.62
3654067--3654119	27	2.0	25	86	13	72	54	0	3	41	1.18
3654105--3654144	19	2.1	19	85	0	53	60	0	10	30	1.30
3654281--3654311	16	1.9	16	100	0	62	41	12	19	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3655413--3655442	15	1.9	16	93	6	53	33	0	13	53	1.40
3673576--3673632	14	3.9	15	71	28	52	61	1	1	35	1.17
3674269--3674335	31	2.2	31	86	5	91	32	19	11	35	1.88
3675396--3675504	51	2.1	51	91	0	173	29	13	11	45	1.78
3681717--3683162	615	2.4	608	87	4	2073	39	14	12	33	1.83
3685151--3685535	196	2.0	197	99	0	763	25	20	16	36	1.93
3692428--3692522	22	4.3	22	100	0	190	50	0	17	31	1.47
3695255--3695429	90	2.0	89	90	1	278	36	12	6	44	1.68
3699800--3699850	14	3.6	14	76	10	50	52	5	3	37	1.44
3701402--3701447	18	2.6	18	86	3	58	28	28	4	39	1.76
3701934--3701972	21	1.9	19	90	10	60	17	23	5	53	1.63
3704142--3704172	2	15.5	2	100	0	62	51	0	0	48	1.00
3708614--3708667	15	3.7	15	78	11	58	24	3	0	72	1.01
3711624--3711662	17	2.4	16	82	4	51	74	7	10	7	1.22
3713124--3713164	20	2.0	20	90	0	64	19	17	19	43	1.88
3718658--3718682	12	2.1	12	100	0	50	8	52	0	40	1.31
3721500--3721538	13	3.0	13	96	0	69	41	7	28	23	1.82
3729960--3730075	36	3.2	35	81	7	108	48	6	15	29	1.71
3730400--3730706	116	2.7	116	85	3	413	25	19	17	38	1.93
3731208--3731241	17	2.0	17	100	0	68	41	11	23	23	1.87
3731272--3731395	20	6.0	21	68	14	62	32	21	17	28	1.96
3731279--3731484	42	5.0	42	74	12	158	33	18	18	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3731278--3731484	82	2.5	83	83	5	249	32	18	18	29	1.95
3735069--3735143	6	11.8	6	78	13	62	50	12	18	18	1.77
3735075--3735108	7	5.1	7	89	10	54	55	14	14	14	1.69
3735075--3735108	13	2.6	13	100	0	68	55	14	14	14	1.69
3735703--3735735	16	2.0	17	94	5	59	21	36	12	30	1.90
3743632--3743701	34	2.1	32	84	5	86	24	30	14	31	1.94
3744068--3744137	20	3.5	20	94	0	113	31	21	30	17	1.96
3744386--3744425	21	1.9	21	84	0	53	52	10	7	30	1.62
3746074--3746102	15	2.0	15	93	6	51	6	37	0	55	1.27
3750011--3750102	24	3.8	25	84	4	109	53	16	13	17	1.73

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