genome.fa.s7999.2.7.7.80.10.50.1000.14.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  14  of  50  ( 5918 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)
3700199--3700233	12	3.0	12	91	4	54	37	0	0	62	0.95
3702468--3702568	33	3.1	30	82	13	112	29	13	17	38	1.89
3702488--3702568	33	2.5	33	97	0	153	29	13	16	40	1.86
3703348--3703384	17	2.2	17	100	0	74	24	16	32	27	1.96
3703363--3703458	24	4.1	24	85	4	133	25	27	22	25	2.00
3705619--3705668	25	1.9	27	88	8	77	50	2	22	26	1.60
3711292--3711343	20	2.6	20	100	0	104	25	28	19	26	1.98
3719862--3719941	40	2.0	40	85	4	108	25	27	21	26	1.99
3726997--3727121	61	2.1	60	87	1	178	53	6	3	36	1.43
3726941--3727200	140	1.9	140	87	0	387	53	7	3	35	1.48
3727055--3727218	79	2.1	80	83	2	206	54	7	4	32	1.49
3727054--3727309	75	3.4	74	80	6	244	53	6	4	35	1.47
3727858--3727894	13	2.8	13	91	0	56	48	16	0	35	1.46
3731331--3731727	215	1.8	215	97	0	758	22	11	21	44	1.84
3738156--3738216	20	3.0	21	76	9	63	54	1	0	44	1.10
3738240--3738296	21	2.5	22	77	20	64	50	0	1	47	1.11
3738239--3738286	24	2.0	25	91	4	80	52	0	2	45	1.12
3738246--3738296	24	2.3	22	86	10	68	52	0	1	45	1.12
3738388--3738424	2	19.0	2	84	15	51	48	0	2	48	1.15
3738396--3738430	17	2.1	17	100	0	70	48	0	5	45	1.26
3739118--3739187	36	1.9	36	94	0	122	41	12	11	34	1.79
3739732--3739781	19	2.8	18	90	6	75	44	2	0	54	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3739738--3739841	22	4.0	26	70	21	67	35	1	1	60	1.19
3739732--3739780	2	26.5	2	80	15	61	44	2	0	53	1.12
3739763--3739835	31	2.4	32	78	17	75	31	1	2	64	1.16
3739808--3739918	53	2.3	45	77	18	116	22	1	0	74	0.96
3739751--3739882	24	5.4	23	69	20	72	31	1	1	65	1.10
3739849--3739917	33	2.1	33	83	5	86	20	1	0	78	0.83
3739986--3740010	9	2.8	9	100	0	50	40	0	0	60	0.97
3741841--3741881	15	2.7	15	82	17	50	21	9	2	65	1.34
3742712--3742896	95	2.0	94	86	3	264	34	18	17	29	1.94
3744046--3744737	165	4.2	165	88	1	1032	30	25	19	24	1.98
3744046--3744719	84	8.2	82	74	7	578	30	25	19	24	1.98
3744046--3744737	328	2.1	329	91	0	1125	30	25	19	24	1.98
3747639--3747689	5	10.2	5	79	12	52	74	3	1	19	1.07
3750640--3750702	16	4.0	16	75	17	60	65	1	0	33	1.03
3750694--3750733	16	2.3	18	91	8	66	67	5	0	27	1.11
3750997--3751022	13	2.0	13	100	0	52	53	7	15	23	1.67
3753083--3753179	20	4.8	20	78	7	97	20	12	22	44	1.85
3753135--3753186	27	1.9	27	92	0	86	25	11	21	42	1.86
3755401--3755471	24	3.0	24	91	0	115	35	15	21	28	1.94
3755430--3755480	24	2.1	24	88	0	75	37	19	17	25	1.94
3756386--3756468	20	4.2	20	72	6	69	39	12	20	27	1.88
3756431--3756510	42	2.0	42	87	5	119	37	11	21	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3756503--3756593	20	4.6	19	78	11	94	24	13	27	35	1.92
3756440--3756593	82	1.9	79	81	9	186	29	12	24	33	1.92
3756914--3756944	2	15.5	2	100	0	62	48	0	0	51	1.00
3778816--3778859	21	2.1	21	84	12	56	27	2	0	70	0.99
3780511--3780717	76	2.8	75	83	5	258	30	1	12	55	1.45
3781293--3781326	17	2.0	17	88	0	50	23	0	2	73	0.97
3781380--3781444	30	2.2	29	83	2	85	27	1	0	70	0.96
3789578--3789815	83	2.9	84	82	5	243	32	15	17	34	1.91
3789927--3790005	39	2.0	39	82	4	97	29	20	18	31	1.97
3789992--3790115	41	3.0	41	87	0	167	27	18	17	36	1.94
3803862--3804031	91	1.9	91	87	2	252	27	13	11	47	1.77
3807728--3807758	15	2.1	15	93	0	53	51	0	0	48	1.00
3807786--3807939	82	1.9	82	85	5	213	29	17	20	32	1.95
3807911--3807962	13	4.0	13	84	0	77	34	19	21	25	1.96
3807793--3807961	82	2.1	82	79	4	180	28	18	20	31	1.97
3810861--3810897	18	2.1	18	100	0	74	21	21	24	32	1.98
3817879--3817918	17	2.4	17	86	0	53	32	15	12	40	1.84
3821513--3821552	17	2.4	17	86	0	53	32	15	12	40	1.84
3823416--3823486	30	2.3	30	90	2	115	42	11	2	43	1.55
3827256--3827326	33	2.2	33	97	0	133	43	9	12	33	1.76
3831680--3831732	22	2.6	20	77	19	56	50	0	3	45	1.19
3831680--3831728	20	2.3	21	82	6	55	48	0	2	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3834140--3834189	16	3.1	16	78	18	59	72	2	0	26	0.96
3834139--3834177	19	2.0	20	90	5	62	69	2	0	28	1.02
3834168--3834192	12	2.1	12	100	0	50	76	0	0	24	0.80
3834284--3834316	7	4.9	7	96	3	59	12	0	0	87	0.53
3834650--3835155	113	4.3	113	79	11	545	27	18	16	36	1.92
3834864--3835119	132	1.9	133	97	0	487	26	18	17	37	1.93
3835065--3835228	73	2.2	73	97	0	310	31	20	17	31	1.96
3834997--3835341	186	1.9	185	97	0	654	28	19	17	34	1.94
3835138--3835462	113	2.9	113	96	0	614	26	20	16	36	1.94
3835925--3836001	22	3.5	22	89	0	118	36	14	15	33	1.88
3836373--3836514	50	2.7	54	82	7	170	26	20	14	39	1.90
3838585--3838810	114	2.0	114	90	0	353	30	21	15	32	1.94
3841468--3841520	22	2.6	20	77	19	56	50	0	3	45	1.19
3841468--3841516	20	2.3	21	82	6	55	48	0	2	48	1.12
3841598--3841644	22	2.2	22	84	3	60	46	0	6	46	1.28
3843283--3843322	17	2.4	17	86	0	53	15	12	42	30	1.83
3843497--3843541	23	2.0	23	81	0	54	51	11	6	31	1.63
3843669--3843731	31	2.0	31	84	6	83	52	9	6	31	1.59
3845664--3845703	19	2.2	19	86	13	57	32	0	7	60	1.25
3845860--3845914	20	2.8	20	97	0	101	27	21	21	29	1.99
3849824--3850000	47	4.0	42	88	7	155	41	7	19	32	1.79
3849879--3849956	25	3.2	25	64	29	69	39	8	21	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3849843--3850002	47	3.5	47	92	3	247	40	8	20	31	1.81
3856427--3856480	23	2.5	22	81	6	65	29	12	18	38	1.88
3856894--3856940	20	2.4	19	82	13	51	19	0	10	70	1.16
3856964--3856996	12	2.6	13	90	4	50	36	12	6	45	1.66
3858821--3858859	18	2.1	18	86	13	53	33	5	7	53	1.51
3865737--3865766	13	2.4	13	94	5	53	26	30	0	43	1.55
3872115--3872156	20	2.1	20	86	8	59	38	21	9	30	1.85
3888687--3888762	21	3.5	21	71	13	64	28	15	22	32	1.95
3888641--3888761	45	2.8	44	81	9	131	27	17	24	30	1.97
3897169--3897202	17	2.0	17	94	0	59	32	20	29	17	1.96
3900827--3900894	31	2.2	31	100	0	136	45	13	19	22	1.84
3900795--3900943	80	1.9	80	88	0	226	44	14	17	23	1.85
3900858--3901021	49	3.3	49	90	0	256	40	15	20	23	1.91
3907476--3907569	49	1.9	49	89	4	145	38	14	21	25	1.92
3914021--3914046	2	13.0	2	100	0	52	50	0	0	50	1.00
3918465--3918547	22	3.5	25	80	12	88	46	2	8	42	1.47
3918469--3918561	21	4.2	21	81	15	98	44	2	9	44	1.49
3918454--3918561	23	5.0	22	79	13	100	43	1	8	46	1.44
3918563--3918611	22	2.2	23	88	3	73	42	6	6	44	1.54
3918653--3918691	10	4.0	10	83	6	53	28	2	0	69	1.02
3918653--3918692	13	3.2	12	82	10	53	30	2	0	67	1.04
3919235--3919275	22	1.9	21	90	5	64	46	9	19	24	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3934200--3934238	18	2.2	17	90	4	60	17	46	23	12	1.83
3939689--3939759	22	3.2	22	79	16	83	52	4	5	38	1.45
3945948--3945997	21	2.4	21	83	9	68	8	16	4	72	1.24
3956219--3956278	24	2.5	24	88	0	93	23	16	21	38	1.93
3956280--3956431	76	2.0	76	100	0	304	26	7	25	40	1.82
3958897--3958958	25	2.4	26	81	2	72	38	4	0	56	1.21
3960123--3960391	75	3.4	82	77	10	205	31	18	16	33	1.94
3960127--3960423	158	1.9	156	79	4	337	30	18	16	34	1.93
3964334--3964506	29	5.9	29	70	5	116	28	7	22	41	1.81
3964340--3964507	88	1.9	88	88	0	255	29	7	21	41	1.79

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