genome.fa.s9289.2.7.7.80.10.50.1000.2.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: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661737

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 855 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)
248087--248407	103	3.1	103	95	0	579	25	13	23	37	1.91
248424--248486	23	2.7	23	88	9	85	20	25	26	26	1.99
254500--254542	21	2.0	21	81	0	50	30	27	23	18	1.98
255083--255403	103	3.1	103	94	0	588	25	12	25	36	1.91
255428--255482	23	2.4	23	81	0	65	18	23	29	29	1.98
265717--265751	16	2.1	17	89	5	54	82	5	11	0	0.82
266104--266142	20	2.0	20	89	0	60	33	10	23	33	1.88
268146--268188	21	2.0	21	90	0	68	37	16	16	30	1.91
274599--274667	23	3.0	23	78	4	77	30	24	21	23	1.99
274675--274887	103	2.1	104	95	1	385	36	24	11	27	1.90
275382--275521	64	2.2	63	85	5	183	25	19	18	37	1.94
278768--278985	103	2.1	103	96	1	402	37	25	12	25	1.91
281957--282947	125	8.0	125	84	3	1067	33	17	16	32	1.92
281957--282947	372	2.7	372	79	7	1146	33	17	16	32	1.92
284136--284171	18	2.0	18	100	0	72	27	11	55	5	1.57
286302--287855	53	27.8	53	77	11	1334	31	6	22	40	1.78
286241--287909	114	14.9	108	83	6	1300	31	6	22	39	1.79
286494--286589	30	3.2	30	61	19	72	31	5	27	36	1.79
286302--287855	387	4.0	387	86	3	1966	31	6	22	40	1.78
290332--290367	2	18.5	2	94	5	65	50	0	0	50	1.00
292581--292620	3	13.0	3	89	5	62	35	2	0	62	1.09
312937--312963	4	6.8	4	100	0	54	25	0	0	74	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313930--313969	2	20.0	2	100	0	80	50	0	0	50	1.00
316276--316346	23	3.0	23	89	6	106	59	1	4	35	1.26
321443--321481	17	2.2	19	86	9	55	30	15	30	23	1.95
321799--321903	48	2.2	48	98	0	201	33	1	20	43	1.63
323533--323579	17	2.8	17	81	12	60	44	0	0	55	0.99
324120--324153	17	2.0	17	100	0	68	58	0	0	41	0.98
334837--334876	19	2.1	19	100	0	80	35	22	0	42	1.54
336696--336741	23	1.9	25	91	8	78	52	6	2	39	1.40
336723--336759	17	2.1	18	90	5	58	51	0	2	45	1.15
339164--339247	37	2.2	37	80	2	96	29	41	11	16	1.84
346384--346437	20	2.7	20	94	0	90	50	18	20	11	1.77
346428--346494	22	3.1	22	73	16	77	37	23	19	19	1.94
346448--346519	20	3.8	20	65	20	64	37	19	23	19	1.94
346423--346526	36	2.7	38	82	11	131	39	21	20	19	1.93
353285--353342	31	1.9	31	89	3	91	31	15	20	32	1.94
354614--354650	17	2.2	17	95	0	65	16	24	18	40	1.90
355626--355657	14	2.4	14	94	5	57	18	0	12	68	1.20
356079--356109	15	2.1	15	93	0	53	45	0	0	54	0.99
358099--358151	16	3.2	16	75	12	54	60	3	1	33	1.26
365004--365036	14	2.4	14	94	0	57	24	39	30	6	1.79
365042--365098	10	5.4	10	74	12	51	26	26	40	7	1.81
365018--365099	33	2.5	33	91	0	128	25	29	36	8	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365135--365217	33	2.5	33	92	0	130	9	38	25	26	1.86
365183--365235	23	2.3	23	93	0	88	16	30	26	26	1.97
365233--365277	20	2.2	20	88	0	63	15	24	33	26	1.95
365269--365310	14	3.0	14	96	0	75	9	28	40	21	1.84
365617--365705	29	3.1	29	96	0	169	17	34	31	15	1.92
367437--367479	2	21.5	2	100	0	86	48	0	0	51	1.00
367553--367601	16	3.4	16	68	26	54	22	16	26	34	1.95
367542--367608	27	2.5	27	95	2	118	22	17	28	31	1.97
367863--367935	33	2.2	33	95	2	128	38	0	1	60	1.06
367851--367934	42	1.9	46	83	9	113	39	0	1	59	1.05
369890--369924	17	2.1	17	100	0	70	34	25	11	28	1.91
372356--372428	3	24.3	3	97	0	137	65	0	0	34	0.93
372554--373799	258	4.8	258	85	3	1590	34	15	15	33	1.90
372570--373794	517	2.4	516	86	2	1731	34	15	15	34	1.90
373574--373653	42	1.9	42	84	5	108	37	18	20	23	1.94
379717--379783	31	2.2	31	91	2	109	20	31	14	32	1.93
383929--383973	13	3.5	13	90	3	74	66	0	0	33	0.92
383929--383973	3	14.3	3	86	9	63	66	0	0	33	0.92
394558--394710	24	6.3	24	76	11	134	73	1	8	16	1.15
394558--394712	73	2.1	73	98	1	303	72	1	8	17	1.15
394768--394857	27	3.2	28	74	14	80	74	1	5	18	1.07
394768--394806	15	2.7	15	84	4	53	71	2	2	23	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394780--394880	20	4.9	20	73	21	68	75	0	5	17	1.06
394821--394881	4	15.8	4	74	19	58	77	0	4	18	0.95
394795--394888	12	8.1	11	79	18	70	76	0	6	17	0.98
394743--394885	31	4.4	31	76	18	114	72	0	8	18	1.13
394759--394885	19	6.6	19	69	25	65	74	0	7	18	1.09
394928--395042	3	36.7	3	73	17	51	66	0	5	27	1.12
394869--394990	40	3.0	40	70	20	94	68	2	4	25	1.20
395736--395813	33	2.4	33	85	8	97	38	0	1	60	1.05
397537--397584	21	2.3	21	85	0	60	25	39	12	22	1.89
397588--397681	21	4.5	21	92	5	129	19	35	25	20	1.96
397558--397675	42	2.8	42	78	10	125	21	36	21	21	1.95
398204--398300	33	2.9	34	87	3	142	56	3	3	37	1.31
398202--398307	34	3.2	33	84	8	142	55	3	2	37	1.33
398701--399456	128	5.9	128	96	0	1381	31	19	25	22	1.98
404574--404744	21	8.2	21	75	12	156	21	20	23	34	1.97
404580--404731	42	3.7	42	94	1	254	21	19	24	35	1.96
405363--405405	6	7.2	6	100	0	86	0	16	48	34	1.46
405492--405759	42	6.7	41	85	8	317	36	21	19	22	1.95
405492--405560	21	3.3	21	67	15	61	37	21	18	21	1.94
405566--405810	21	11.9	21	76	12	231	36	21	19	22	1.95
405561--405767	40	5.1	40	91	2	306	35	20	20	23	1.96
405565--405815	42	6.1	40	87	5	272	36	21	19	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405751--405841	40	2.2	42	92	3	150	35	23	19	21	1.96
405667--405862	21	9.4	21	77	10	111	34	23	20	21	1.96
408699--408746	3	15.7	3	91	4	69	66	4	0	29	1.10
409576--409680	25	4.2	25	72	11	90	51	2	2	42	1.31
411045--411184	73	1.9	73	86	2	201	42	5	10	41	1.62
411342--411374	2	16.5	2	100	0	66	48	0	0	51	1.00
411684--411732	2	24.5	2	100	0	98	51	0	0	48	1.00
419585--419674	23	3.9	23	88	0	117	46	23	11	18	1.81
427715--427886	60	2.9	58	84	7	204	30	22	5	41	1.75
429568--429597	10	3.0	10	100	0	60	10	10	20	60	1.57
431423--431452	15	1.9	16	93	6	53	36	6	30	26	1.82
431589--431663	38	2.0	37	84	5	98	48	4	1	46	1.29
431883--431919	15	2.5	15	90	0	56	29	18	21	29	1.97
432665--432831	86	1.9	86	97	0	316	38	22	13	25	1.91
441878--442066	41	4.6	41	82	5	220	29	17	17	35	1.93
444321--444452	42	3.2	42	82	8	110	21	9	20	47	1.79
444335--444465	42	3.1	42	88	1	181	20	9	19	49	1.77
445550--445617	12	6.0	12	76	13	54	42	19	19	19	1.89
445551--445612	22	2.8	22	90	0	106	45	17	17	19	1.86
448892--448937	23	2.0	23	95	0	83	32	17	23	26	1.97
458981--459405	43	9.9	42	73	9	277	47	6	19	26	1.74
458998--459315	131	2.4	128	80	8	329	46	7	19	26	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463998--464031	17	2.0	17	100	0	68	47	23	17	11	1.81
466238--466305	30	2.3	30	100	0	136	36	2	19	41	1.66
469718--469800	32	2.6	32	98	0	157	32	12	22	32	1.91
470636--470681	18	2.6	18	85	0	65	43	10	19	26	1.84
476044--476068	13	1.9	13	100	0	50	40	16	24	20	1.91
477898--477971	23	3.2	23	64	17	62	35	4	8	52	1.50
477897--477972	24	3.2	24	66	23	70	34	3	7	53	1.48
477879--477975	47	2.1	47	100	0	194	34	6	9	50	1.59
481669--481729	31	2.0	31	86	0	86	40	18	18	22	1.91
481671--481743	31	2.4	31	81	6	78	38	21	20	19	1.94

Tables:   1   2   3   4   5   6   7   8