genome.fa.s9639.2.7.7.80.10.50.1000.17.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   52   53   54   55   56   57   58   59   60   61   62   

This is table  17  of  62  ( 7398 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)
3726251--3726570	105	3.2	104	89	5	480	22	17	27	32	1.96
3726086--3726570	199	2.5	194	84	6	566	22	17	26	32	1.97
3726739--3726814	36	2.1	36	90	0	116	40	15	21	22	1.90
3726714--3727033	106	3.1	104	89	4	477	37	11	20	31	1.88
3726936--3727010	39	1.9	38	84	7	98	40	10	21	28	1.86
3727104--3727279	72	2.4	74	83	7	198	43	13	15	27	1.84
3727165--3727276	36	3.1	36	74	5	120	45	10	16	27	1.80
3728331--3729050	183	3.9	183	95	0	1298	31	21	20	26	1.98
3733290--3733414	27	4.6	25	70	17	72	72	3	7	17	1.21
3733345--3733395	25	2.2	23	82	10	59	78	1	3	15	0.99
3733582--3733615	16	2.1	16	88	0	50	70	0	2	26	1.01
3734038--3734142	37	2.8	37	83	0	129	30	14	13	41	1.84
3734212--3734409	99	2.0	98	97	1	369	33	5	17	43	1.71
3734449--3734532	22	3.8	22	96	0	150	21	16	20	41	1.90
3740794--3740870	21	3.6	21	77	18	63	74	6	0	19	1.04
3740877--3740901	2	12.5	2	100	0	50	52	0	0	48	1.00
3741114--3741156	18	2.5	17	85	7	61	67	2	4	25	1.22
3741513--3741616	37	2.8	37	86	0	136	29	14	12	43	1.82
3742330--3742781	105	4.3	105	95	0	742	21	16	27	34	1.95
3742160--3742776	210	3.0	206	88	4	865	22	17	26	33	1.96
3742981--3743056	36	2.1	36	87	0	107	39	15	22	22	1.92
3742958--3743273	104	3.1	104	89	2	460	35	12	20	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3743176--3743250	39	1.9	39	83	5	98	36	13	22	28	1.92
3743390--3743503	36	3.2	36	73	2	113	43	14	16	25	1.85
3743344--3743519	72	2.4	74	83	7	207	42	11	18	27	1.86
3744658--3745194	183	2.9	183	94	0	941	31	20	20	27	1.98
3749191--3749282	27	3.5	26	75	16	75	75	3	7	14	1.15
3749190--3749316	28	4.7	27	70	14	84	73	4	6	15	1.21
3749161--3749271	58	1.9	59	80	12	131	72	2	9	15	1.20
3749549--3749591	18	2.5	17	85	7	61	67	2	4	25	1.22
3749469--3749599	60	2.2	56	81	13	156	61	2	3	33	1.24
3749940--3750044	37	2.8	37	85	0	138	29	14	14	41	1.85
3750990--3751044	19	2.9	19	74	15	60	65	1	9	23	1.31
3751195--3751279	30	3.1	27	75	12	75	65	3	2	28	1.21
3751437--3751484	23	2.0	24	84	11	64	70	0	2	27	0.98
3751900--3752001	37	2.8	37	89	0	141	32	12	14	40	1.84
3752753--3753713	106	9.0	106	89	1	1359	22	18	24	34	1.96
3752754--3753713	430	2.2	424	90	2	1530	22	18	24	34	1.96
3754229--3754265	18	2.0	19	89	5	58	43	29	5	21	1.75
3759638--3759693	20	2.9	19	75	19	62	66	1	8	23	1.30
3759791--3759910	21	5.5	21	73	16	59	66	0	4	28	1.15
3759791--3759869	22	3.4	21	80	15	68	67	0	3	29	1.08
3760108--3760154	23	2.0	23	84	15	62	70	0	2	27	0.99
3760579--3760663	37	2.3	37	83	0	98	31	11	14	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3765950--3766019	25	2.8	25	85	6	90	38	30	17	14	1.89
3774954--3775180	56	4.2	53	78	5	222	31	18	24	24	1.98
3774974--3775180	54	3.8	52	80	7	218	33	18	24	23	1.97
3774942--3775180	107	2.2	109	81	5	268	31	19	24	24	1.98
3786971--3787040	32	2.2	32	100	0	140	24	28	22	24	1.99
3787853--3787967	36	3.2	36	96	0	212	40	21	23	13	1.89
3795308--3796136	116	7.0	116	84	5	1002	25	18	24	32	1.97
3798674--3798903	64	3.6	63	80	6	212	27	17	25	29	1.98
3798802--3798852	19	2.7	19	85	8	70	25	15	35	23	1.94
3798695--3798854	65	2.5	65	85	3	207	28	16	25	30	1.97
3798704--3798903	65	3.1	64	80	13	205	27	17	25	30	1.97
3805179--3805218	21	1.9	21	85	10	55	35	10	2	52	1.48
3807139--3807319	64	2.8	63	83	3	218	27	16	25	29	1.97
3807267--3807305	19	2.1	19	100	0	78	28	15	35	20	1.93
3807160--3807319	65	2.5	65	86	3	216	28	15	25	30	1.96
3807877--3807943	35	1.9	34	85	11	91	61	7	13	17	1.55
3810008--3810044	18	2.0	19	89	5	58	72	0	10	16	1.10
3811224--3811270	15	3.1	15	82	14	60	72	0	0	27	0.85
3811930--3812021	7	13.1	7	95	0	103	15	52	0	32	1.43
3811941--3812053	7	17.0	7	93	3	157	15	56	0	28	1.39
3813713--3813752	12	3.2	12	83	13	53	25	0	0	75	0.81
3816690--3817060	185	2.0	184	92	2	620	45	8	3	42	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3817132--3817189	30	1.9	30	82	6	73	37	8	22	31	1.84
3825429--3825488	20	2.9	21	90	7	95	30	25	26	18	1.98
3826844--3827059	103	2.1	102	93	1	371	25	12	24	37	1.91
3827075--3827143	23	3.0	23	86	0	84	21	20	26	31	1.98
3830934--3830972	16	2.4	16	95	0	69	28	25	12	33	1.93
3831908--3831937	14	2.1	15	93	6	53	20	0	10	70	1.16
3834386--3834470	24	3.6	23	84	6	107	14	10	15	60	1.60
3836606--3836642	18	2.1	18	100	0	74	43	18	0	37	1.51
3840128--3840172	23	2.0	23	100	0	90	22	8	20	48	1.76
3841123--3841256	59	2.3	60	80	6	159	39	14	12	33	1.84
3845456--3845495	21	1.9	21	89	0	62	10	25	40	25	1.86
3845476--3845538	20	2.9	21	79	9	65	15	25	34	23	1.95
3853796--3853846	21	2.4	22	83	9	61	25	27	17	29	1.98
3855986--3856144	79	2.0	79	100	0	318	30	12	15	42	1.83
3857801--3857945	72	2.0	72	100	0	290	36	9	11	42	1.73
3858422--3858473	21	2.5	21	81	3	61	38	19	25	17	1.93
3858462--3858595	20	6.7	19	79	7	106	33	23	17	24	1.96
3858459--3858595	60	2.3	61	84	1	186	35	23	17	24	1.96
3859068--3859115	19	2.5	20	89	3	71	18	18	27	35	1.95
3860896--3860992	19	5.6	19	70	22	88	46	20	19	13	1.83
3860912--3860970	14	3.9	14	76	20	64	49	23	16	10	1.77
3860896--3860987	33	2.8	33	96	0	166	47	20	18	13	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3860999--3861156	18	8.9	18	75	15	116	13	20	21	44	1.85
3861036--3861134	52	1.9	52	85	4	137	14	21	21	43	1.87
3861099--3861142	20	2.3	19	88	4	61	20	22	18	38	1.93
3861520--3861607	42	2.1	42	85	2	124	21	42	14	21	1.89
3863023--3863061	14	2.8	14	84	0	51	35	0	17	46	1.49
3863168--3863221	14	3.5	14	77	22	63	48	20	20	11	1.80
3863216--3863255	19	2.0	20	90	4	64	17	20	20	42	1.89
3863253--3863340	20	4.4	20	80	5	115	15	21	23	38	1.92
3863234--3863320	40	2.4	36	83	12	106	16	20	21	41	1.90
3863401--3863440	19	2.0	20	90	4	64	17	20	20	42	1.89
3863438--3863525	20	4.4	20	80	5	115	15	21	23	38	1.92
3863419--3863505	40	2.4	36	83	12	106	16	20	21	41	1.90
3863204--3863578	185	2.0	186	99	0	743	25	20	20	33	1.97
3863671--3863722	20	2.5	21	87	3	70	21	23	17	38	1.93
3863919--3863952	12	2.9	12	86	4	52	17	41	5	35	1.74
3864500--3864552	24	2.3	23	83	3	61	22	16	18	41	1.90
3867027--3867125	19	5.7	19	67	22	83	41	21	21	16	1.90
3867029--3867128	33	3.0	33	100	0	200	39	21	21	19	1.93
3867057--3867136	19	4.5	19	65	15	53	37	20	20	22	1.94
3867284--3867320	14	2.6	14	91	0	65	45	24	0	29	1.53
3868638--3868704	21	3.2	21	68	4	55	19	20	35	23	1.95
3868677--3868756	42	1.9	42	81	0	97	22	17	37	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3870830--3870948	20	6.7	19	77	13	78	44	18	23	13	1.85
3870883--3870915	14	2.4	14	94	0	57	45	24	24	6	1.75
3870906--3870948	19	2.3	19	100	0	86	46	20	20	11	1.82
3870952--3870996	19	2.4	19	92	0	72	8	15	26	48	1.74
3871558--3871669	20	5.6	20	82	6	75	22	20	20	36	1.95
3871576--3871669	41	2.3	40	87	5	127	21	21	19	38	1.94
3871659--3871731	21	3.5	21	77	3	85	36	17	23	21	1.94
3871555--3871684	61	2.1	61	81	5	156	26	19	20	34	1.96
3871639--3871807	41	4.1	40	70	7	115	29	19	21	29	1.98
3871785--3871834	21	2.4	22	76	6	59	38	16	26	20	1.92

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   52   53   54   55   56   57   58   59   60   61   62