genome.fa.s8242.2.7.7.80.10.50.1000.49.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  49  of  73  ( 8740 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)
11628014--11628081	29	2.3	30	87	2	102	64	2	0	32	1.08
11628012--11628107	29	2.9	32	77	14	99	60	4	1	34	1.23
11628048--11628410	38	9.9	37	76	14	288	44	6	3	45	1.47
11628049--11628199	40	3.8	40	85	4	182	49	5	1	43	1.36
11628157--11628225	29	2.5	27	77	13	77	44	4	1	49	1.31
11628122--11628264	67	2.1	66	84	7	191	44	4	2	48	1.36
11628101--11628409	108	2.9	106	78	16	275	42	7	3	46	1.48
11628493--11628527	16	2.2	16	94	0	61	80	5	0	14	0.89
11636328--11636367	17	2.4	17	100	0	80	12	5	22	60	1.52
11647716--11647786	36	2.0	36	91	0	115	30	21	12	35	1.91
11648127--11648219	20	4.8	20	77	16	97	20	22	16	40	1.91
11648158--11648236	36	2.2	36	90	0	122	22	20	17	39	1.92
11651449--11651900	225	2.0	227	99	0	890	37	14	17	30	1.89
11653130--11653200	36	2.0	36	91	0	115	30	21	12	35	1.91
11653411--11653494	35	2.3	36	84	10	109	40	17	3	38	1.67
11653383--11653594	101	2.1	102	79	7	218	37	16	8	37	1.78
11653537--11653770	67	3.5	67	87	1	337	26	17	14	41	1.88
11653736--11653827	21	4.7	21	77	15	106	19	22	15	42	1.89
11653766--11653844	36	2.2	36	90	0	122	22	20	17	39	1.92
11653846--11654247	134	3.0	134	85	0	536	26	30	17	25	1.97
11654047--11654236	43	4.3	43	68	16	118	24	31	20	23	1.98
11654441--11654487	3	16.0	3	77	4	51	29	2	4	63	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11669983--11670154	83	2.1	83	98	0	335	20	11	13	53	1.71
11681710--11681750	17	2.4	17	83	4	55	21	36	19	21	1.95
11681700--11681752	18	3.0	18	83	2	63	22	35	18	22	1.95
11689323--11689403	23	3.8	22	84	9	96	23	32	25	18	1.97
11689323--11689384	23	2.7	23	92	2	99	22	32	25	19	1.97
11695121--11695156	18	2.0	18	94	0	63	33	13	22	30	1.93
11697309--11697356	20	2.5	20	79	3	53	31	22	35	10	1.88
11697616--11697669	2	28.5	2	81	10	60	44	3	0	51	1.19
11697745--11697769	8	3.1	8	100	0	50	36	24	24	16	1.94
11698173--11698322	60	2.5	59	83	6	160	43	3	19	34	1.67
11699617--11699991	30	12.6	30	77	9	281	40	8	0	50	1.39
11699617--11699880	120	2.2	120	82	4	318	39	8	0	51	1.36
11699892--11699941	24	2.0	25	92	3	84	44	4	0	52	1.20
11699855--11699965	55	2.0	56	85	7	154	43	7	0	48	1.36
11700019--11700134	31	3.8	29	78	10	90	51	0	6	40	1.35
11700150--11700205	18	3.1	18	81	2	67	46	0	14	39	1.44
11700622--11700660	18	2.1	19	95	4	71	0	56	17	25	1.41
11700859--11700916	26	2.3	26	90	3	91	48	8	36	6	1.61
11700915--11700961	14	3.5	13	77	11	51	57	0	40	2	1.11
11701061--11701101	22	1.9	21	85	5	55	26	0	19	53	1.45
11701114--11701236	39	3.1	38	68	21	97	40	0	12	46	1.47
11701416--11701446	15	2.1	14	94	5	53	38	0	6	54	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11703519--11703566	14	3.6	14	81	16	66	47	16	0	35	1.47
11703518--11703566	25	2.0	25	95	0	89	46	16	0	36	1.47
11703518--11703576	25	2.6	22	86	10	75	49	13	0	37	1.43
11703518--11703587	21	3.1	22	80	12	63	50	11	0	38	1.39
11703587--11703613	10	2.7	10	100	0	54	40	18	0	40	1.51
11703534--11703786	60	4.2	60	92	1	429	46	13	0	40	1.42
11703701--11703744	11	3.5	12	84	15	54	40	20	0	38	1.53
11707291--11707352	28	2.1	30	94	5	110	56	12	0	30	1.37
11707704--11707759	23	2.4	23	93	0	103	26	21	26	25	1.99
11707775--11707816	22	1.9	22	95	0	75	26	11	33	28	1.92
11707853--11707911	29	2.0	29	93	0	100	13	20	40	25	1.89
11725337--11725489	70	2.2	70	81	1	180	30	18	18	32	1.95
11728663--11728733	24	3.0	24	83	8	101	38	2	18	40	1.65
11728663--11728729	22	3.0	22	91	4	98	38	1	17	41	1.59
11736517--11736683	83	2.0	83	100	0	334	34	16	13	35	1.88
11737958--11738329	46	8.1	45	81	7	353	24	21	10	43	1.84
11737958--11738329	92	4.1	92	82	8	420	24	21	10	43	1.84
11737974--11738296	138	2.3	138	85	4	445	23	21	11	42	1.86
11738072--11738287	26	9.3	24	64	25	83	23	21	12	42	1.87
11738051--11738407	46	7.9	45	83	7	261	24	21	11	43	1.85
11738818--11738888	19	3.5	19	73	19	63	28	22	15	33	1.95
11740654--11740719	2	33.0	2	100	0	132	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11743026--11743147	61	2.0	63	82	9	153	28	29	25	16	1.97
11747643--11747768	26	5.3	26	66	24	98	23	20	11	44	1.84
11747644--11747935	46	6.3	46	85	1	390	25	20	10	42	1.85
11747658--11747741	20	3.9	21	70	23	66	22	22	13	41	1.88
11748349--11748419	19	3.5	19	73	19	63	29	21	15	33	1.94
11750357--11750394	19	2.0	19	94	0	67	39	5	13	42	1.66
11756733--11756761	15	1.9	15	100	0	58	41	13	0	44	1.44
11761105--11761439	81	4.1	81	92	0	517	29	21	12	35	1.91
11761861--11762055	95	2.1	95	82	3	232	28	21	12	38	1.89
11769201--11769327	55	2.3	57	76	5	143	25	7	1	66	1.26
11769220--11769286	27	2.5	26	73	4	62	29	2	1	65	1.16
11771469--11771787	159	2.0	160	99	0	631	29	15	20	33	1.94
11786378--11786514	38	3.8	36	79	7	143	34	14	9	41	1.78
11786848--11786965	29	3.8	29	70	22	87	25	18	13	42	1.87
11786853--11787133	65	4.2	66	87	5	329	26	18	14	40	1.89
11786858--11787133	137	2.1	130	82	8	324	26	18	14	40	1.89
11787141--11787631	131	3.7	131	79	5	533	27	30	16	25	1.97
11787819--11787882	3	21.3	3	90	6	103	34	0	0	65	0.93
11795988--11796017	2	15.0	2	100	0	60	50	0	0	50	1.00
11796961--11797006	21	2.0	22	84	12	58	26	6	0	67	1.15
11798644--11798693	21	2.4	20	77	9	55	36	2	8	54	1.42
11798732--11798859	60	2.1	61	78	7	145	33	10	14	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11801810--11801839	14	2.1	14	100	0	60	26	6	20	46	1.75
11802740--11802791	23	2.2	24	80	10	63	67	3	11	17	1.36
11805330--11805385	22	2.6	23	83	11	73	33	16	26	23	1.95
11805308--11805384	21	3.6	21	74	10	75	32	15	25	25	1.96
11806448--11806508	32	1.9	32	93	0	104	29	21	19	29	1.98
11810537--11810578	18	2.4	18	88	7	61	28	2	26	42	1.67
11810537--11810578	9	4.9	9	77	11	52	28	2	26	42	1.67
11814109--11814153	21	2.1	22	87	4	65	71	2	6	20	1.20
11819804--11819850	24	2.0	24	91	0	76	59	0	10	29	1.31
11822283--11822443	6	26.8	6	92	0	250	3	30	1	64	1.19
11822283--11822443	9	17.9	9	92	0	250	3	30	1	64	1.19
11822488--11822607	35	3.3	36	87	6	172	31	5	20	43	1.73
11827103--11827222	35	3.3	36	87	6	172	30	5	19	45	1.71
11827558--11827588	3	10.3	3	92	0	53	0	29	0	70	0.87
11829139--11829417	78	3.6	78	86	1	301	27	35	3	32	1.74
11829139--11829463	78	4.2	78	84	4	259	28	34	4	32	1.76
11830193--11830226	15	2.3	15	89	0	50	47	0	32	20	1.51
11841499--11841538	21	1.9	21	89	0	62	27	0	35	37	1.57
11841806--11841856	25	2.0	25	88	7	77	37	3	3	54	1.37
11842029--11842067	20	2.0	20	84	0	51	23	7	23	46	1.78
11842261--11842298	20	1.9	20	88	0	58	13	26	36	23	1.91
11848578--11848618	2	20.5	2	100	0	82	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11858292--11858369	37	2.1	37	100	0	156	41	12	7	38	1.72
11861353--11861500	40	3.6	41	84	2	199	33	16	20	29	1.94
11861352--11861500	42	3.6	41	82	3	183	34	16	20	28	1.94
11865449--11865501	27	2.0	27	85	7	72	24	3	16	54	1.59
11874287--11874311	13	1.9	13	100	0	50	32	24	20	24	1.98
11874299--11874595	42	6.9	42	74	9	238	29	19	21	29	1.98
11874173--11874514	135	2.5	135	88	0	495	30	19	21	28	1.98
11875082--11875449	53	7.0	53	88	2	485	29	20	27	22	1.98
11878971--11879013	22	2.0	22	90	0	68	30	25	18	25	1.98
11887793--11887824	2	16.0	2	100	0	64	50	0	0	50	1.00

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   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73