genome.fa.s9175.2.7.7.80.10.50.1000.20.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  20  of  51  ( 6037 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)
3870242--3870295	24	2.2	25	93	3	92	11	11	7	70	1.34
3874209--3874249	18	2.3	18	95	0	73	12	14	21	51	1.75
3876342--3876397	18	3.1	19	75	12	55	55	0	5	39	1.23
3876990--3877088	32	3.1	31	77	9	101	34	28	14	23	1.93
3880856--3880901	14	3.2	15	78	9	51	56	19	0	23	1.42
3880964--3881078	61	1.9	61	89	3	178	30	27	17	24	1.97
3881414--3881462	24	2.0	24	96	0	89	40	12	12	34	1.80
3882855--3882913	31	2.0	31	83	6	77	35	16	6	40	1.76
3882844--3882913	29	2.3	29	80	4	77	30	18	8	42	1.80
3884898--3884955	25	2.3	25	93	0	98	22	27	10	39	1.86
3887090--3887135	23	2.0	23	95	0	83	47	10	17	23	1.79
3887095--3887147	23	2.3	23	84	9	65	50	13	16	18	1.77
3887870--3887942	24	3.0	24	93	0	128	39	12	13	34	1.82
3889300--3889388	30	2.9	29	75	11	72	34	19	5	40	1.75
3891705--3891762	30	1.9	30	89	0	89	15	32	5	46	1.68
3907590--3907630	21	1.9	22	95	5	75	26	19	14	39	1.90
3911438--3911597	54	2.9	54	85	6	198	30	16	30	23	1.96
3915256--3915390	54	2.5	54	82	4	155	33	16	29	20	1.95
3920044--3920081	19	2.0	19	100	0	76	15	10	10	63	1.52
3923538--3923569	13	2.5	13	94	0	55	65	0	0	34	0.93
3923688--3923800	10	10.6	10	70	14	59	76	0	2	19	0.95
3923679--3923799	26	4.5	26	74	13	84	76	0	2	19	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3923732--3923819	26	3.3	26	77	4	88	78	2	4	14	1.01
3924588--3925086	85	5.9	85	83	1	626	25	18	21	34	1.96
3924594--3925106	167	3.0	168	84	3	654	25	18	21	35	1.95
3925259--3925566	124	2.5	124	94	0	517	24	14	25	36	1.93
3926676--3926861	95	2.0	95	86	4	259	31	17	17	33	1.94
3929378--3929514	12	12.1	12	69	20	57	76	0	3	18	0.98
3929366--3929512	51	3.0	47	73	18	122	74	0	4	20	1.05
3929394--3929512	32	3.7	31	75	13	107	77	0	4	18	0.93
3929451--3929497	13	3.8	13	78	16	55	82	0	0	17	0.66
3929383--3929498	18	6.4	19	71	18	79	77	0	3	18	0.91
3938691--3938731	21	2.0	21	90	4	66	17	9	34	39	1.82
3940964--3941031	30	2.3	30	89	0	100	45	10	27	16	1.79
3941780--3941836	30	1.9	30	85	7	80	38	7	21	33	1.80
3943409--3943517	40	2.7	40	95	0	191	23	15	26	33	1.95
3943622--3943733	46	2.5	46	86	5	158	39	8	23	28	1.85
3945687--3945727	18	2.3	18	91	0	64	19	21	19	39	1.93
3947745--3947870	45	2.8	45	85	2	164	28	18	10	42	1.83
3948081--3948298	45	4.8	45	84	3	233	29	22	11	37	1.88
3948471--3948525	22	2.7	20	86	10	83	25	29	14	30	1.95
3948471--3948684	97	2.2	94	84	4	268	25	25	16	32	1.96
3948471--3948711	95	2.5	95	82	7	260	25	26	17	31	1.97
3948944--3949283	170	2.0	170	98	0	662	35	20	5	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3968577--3968840	45	5.9	45	86	0	348	28	21	10	39	1.86
3968574--3968878	135	2.3	134	86	2	423	28	22	10	38	1.87
3969287--3969340	19	2.7	20	78	13	65	25	27	12	33	1.93
3969306--3969525	94	2.3	95	82	9	263	25	26	16	30	1.97
3973667--3973731	2	32.5	2	100	0	130	50	0	0	49	1.00
3973756--3973817	25	2.4	25	81	10	63	58	6	4	30	1.44
3973805--3973871	25	2.8	24	71	15	66	70	0	4	25	1.06
3973821--3973853	13	2.6	13	85	4	50	75	0	9	15	1.03
3974519--3974557	20	1.9	21	94	5	71	35	25	20	17	1.95
3975933--3976153	111	2.0	110	84	0	289	23	18	23	33	1.97
3977374--3977413	7	5.4	7	82	11	53	2	15	0	82	0.77
3977373--3977413	15	2.8	14	85	10	55	4	14	0	80	0.87
3992290--3992340	23	2.3	23	83	6	70	17	39	21	21	1.93
3992727--3992773	25	2.0	25	87	8	71	51	4	4	40	1.41
4002391--4002460	13	5.4	13	87	0	104	15	44	20	20	1.87
4002391--4002460	26	2.7	26	97	0	131	15	44	20	20	1.87
4003892--4003944	26	2.0	26	82	7	63	35	16	18	28	1.93
4004918--4005033	24	4.8	24	85	6	146	25	15	18	40	1.90
4007157--4007181	13	1.9	13	100	0	50	16	48	16	20	1.82
4009640--4009755	24	4.8	24	84	6	137	26	15	18	39	1.90
4012139--4012254	24	4.8	24	84	6	146	25	17	18	38	1.92
4014373--4014437	31	2.1	31	88	0	94	18	46	18	16	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4014395--4014431	18	2.1	18	89	0	56	18	45	21	13	1.84
4014408--4014437	13	2.3	13	94	0	51	16	43	23	16	1.87
4016904--4017019	24	4.8	24	86	6	155	25	16	18	38	1.92
4021735--4021772	18	2.2	17	90	4	58	78	5	10	5	1.06
4022665--4022704	20	2.0	21	95	5	73	35	30	20	15	1.93
4023244--4023300	2	30.0	2	74	22	52	47	1	1	49	1.22
4025273--4025344	31	2.3	31	82	0	90	30	12	8	48	1.70
4026841--4026876	18	1.9	19	88	5	56	44	5	0	50	1.25
4028973--4029005	9	3.3	10	91	8	50	45	0	3	51	1.16
4030956--4030987	16	2.0	16	93	0	55	43	0	3	53	1.16
4035447--4035479	16	1.9	18	88	11	52	60	3	0	36	1.12
4039632--4039680	21	2.3	21	82	0	62	20	38	30	10	1.86
4052081--4052152	7	10.3	7	81	0	72	45	30	0	23	1.53
4052278--4052326	20	2.5	20	100	0	98	18	22	24	34	1.96
4052792--4052819	2	14.0	2	100	0	56	50	0	0	50	1.00
4057287--4057343	25	2.3	25	90	3	89	43	1	24	29	1.64
4057570--4057705	39	3.6	39	81	7	158	50	11	21	16	1.76
4057570--4057630	18	3.1	20	66	20	56	54	6	19	19	1.66
4057626--4057686	19	3.3	19	69	28	58	54	14	21	9	1.69
4058157--4058252	48	2.0	48	100	0	192	33	20	16	29	1.95
4059358--4059410	2	26.5	2	100	0	106	49	0	0	50	1.00
4059745--4060236	138	3.5	139	81	5	519	27	12	12	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4060602--4060650	3	16.7	3	95	4	91	67	0	0	32	0.91
4078378--4078413	17	2.1	17	94	0	63	30	13	11	44	1.79
4078914--4078984	36	2.0	36	85	0	97	26	18	9	45	1.81
4081468--4081532	19	3.5	19	78	16	57	40	1	0	58	1.07
4081990--4082031	3	14.0	3	94	0	75	0	33	2	64	1.07
4100303--4100343	8	5.2	8	82	5	57	34	0	29	36	1.58
4100426--4100754	128	2.6	127	96	0	597	21	24	20	32	1.98
4100868--4100897	14	2.1	14	93	0	51	30	0	10	60	1.30
4101006--4101112	34	3.1	34	82	0	133	35	4	3	56	1.38
4101636--4101705	21	3.3	20	86	5	95	20	25	35	18	1.95
4101709--4101756	21	2.3	21	88	0	69	20	12	41	25	1.87
4103284--4103337	17	3.2	17	78	2	56	59	3	0	37	1.15
4103478--4103536	19	3.3	19	70	18	63	59	0	0	40	0.97
4103478--4103566	34	2.7	31	82	6	97	58	1	0	40	1.05
4103516--4103553	15	2.5	15	83	12	51	60	0	0	39	0.97
4105303--4105342	17	2.4	17	100	0	80	10	47	20	22	1.79
4108423--4108559	67	2.0	68	94	1	240	33	13	16	35	1.89
4114066--4114112	18	2.6	18	96	0	85	21	25	17	36	1.94
4114386--4114560	90	2.0	89	93	1	296	45	6	10	36	1.66
4121174--4121351	90	2.0	90	93	0	302	44	6	11	37	1.67
4125927--4125985	21	2.7	22	76	5	75	22	25	20	32	1.98
4125970--4126100	20	6.6	20	89	3	122	30	22	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4126912--4126965	24	2.2	24	93	0	90	20	18	20	40	1.91
4127155--4127191	14	2.6	14	91	4	56	51	21	21	5	1.68
4129223--4129257	18	1.9	18	94	0	61	54	22	2	20	1.58
4129317--4129586	140	1.9	140	95	0	486	28	12	14	43	1.82
4129557--4129787	20	11.9	20	81	7	269	32	21	18	26	1.97
4129826--4129883	20	2.9	20	84	0	80	12	17	25	44	1.83
4131447--4131558	42	2.7	42	76	2	118	23	18	36	21	1.95
4132054--4132130	20	3.8	20	92	0	118	41	20	18	19	1.90
4132175--4132216	20	2.1	20	90	0	66	26	19	21	33	1.97
4132364--4132431	18	3.8	18	100	0	136	41	5	20	32	1.76

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