genome.fa.s8018.2.7.7.80.10.50.1000.2.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: VEPZ01008018.1 Hibiscus syriacus cultivar Beakdansim tig00110485_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  927418

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 495 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)
181838--181900	32	2.0	32	90	0	99	17	26	19	36	1.94
189244--189268	9	2.8	9	100	0	50	80	0	0	20	0.72
195909--195951	21	2.0	21	81	0	50	55	4	0	39	1.20
199306--199365	30	2.0	30	83	9	77	45	8	13	33	1.73
204771--205010	60	4.1	58	78	6	223	32	9	19	39	1.84
204750--204998	117	2.1	120	84	3	317	33	9	17	39	1.82
205098--205140	13	3.4	13	90	3	61	51	2	4	41	1.35
210818--210851	15	2.1	17	89	10	54	50	0	0	50	1.00
210818--210861	17	2.6	18	85	7	56	47	0	2	50	1.13
211251--211286	2	18.0	2	88	11	56	50	0	2	47	1.15
211638--212219	194	3.0	196	96	1	1078	34	12	12	41	1.79
212646--212807	76	2.1	76	93	2	272	31	11	30	26	1.91
215530--215885	28	12.7	27	74	11	152	48	3	5	42	1.41
215525--215638	42	2.7	42	87	0	156	48	3	4	43	1.40
215547--215708	70	2.3	70	96	0	297	49	3	6	40	1.45
215525--215809	84	3.4	82	73	15	201	48	3	5	43	1.42
215614--215834	42	5.3	42	90	2	311	48	3	6	41	1.44
215724--215887	6	23.4	7	64	24	62	48	2	4	44	1.35
223596--223659	3	21.0	3	81	15	78	34	0	0	65	0.93
223596--223659	31	2.1	30	91	8	103	34	0	0	65	0.93
225416--225469	27	2.0	27	89	3	83	48	0	0	51	1.00
230663--230692	2	15.0	2	100	0	60	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)
230986--231029	18	2.4	18	84	0	52	79	0	20	0	0.73
235007--235056	24	2.1	24	85	7	66	60	12	2	26	1.43
245289--245338	24	2.1	24	85	7	66	60	12	2	26	1.43
247267--247428	54	3.0	54	93	0	270	35	16	24	24	1.94
247792--247846	22	2.5	22	84	0	74	36	14	12	36	1.84
248241--249145	113	8.0	113	93	2	1460	37	15	19	28	1.92
249191--249250	17	3.4	17	70	17	50	48	8	26	16	1.75
249076--249294	120	1.8	121	86	6	318	40	13	19	26	1.89
249482--249535	3	18.0	3	81	14	67	35	0	0	64	0.94
251192--251233	20	2.2	19	86	4	57	33	0	2	64	1.07
251088--251325	120	2.0	119	82	4	293	38	6	8	46	1.61
251289--251342	27	2.0	27	89	3	83	48	0	0	51	1.00
255952--256020	35	1.9	36	85	2	95	15	15	20	47	1.82
260388--260435	18	2.7	17	78	15	53	20	4	22	52	1.64
260664--260808	75	1.9	75	90	2	229	26	19	22	31	1.98
260790--260830	18	2.3	18	95	0	73	31	19	24	24	1.98
260798--260863	33	2.0	33	81	0	78	27	16	24	31	1.96
261991--262099	14	8.6	14	70	22	98	14	14	17	53	1.74
261988--262079	38	2.4	38	83	7	116	14	16	17	52	1.75
262009--262099	24	3.8	24	95	0	155	14	14	18	52	1.74
265397--265426	3	10.0	3	100	0	60	33	0	66	0	0.92
265504--265596	33	2.8	32	80	6	96	16	25	31	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
265823--266001	48	3.7	47	78	7	200	16	20	35	28	1.94
265970--266108	39	3.7	38	77	5	147	16	20	30	32	1.95
268261--268341	37	2.2	38	80	13	96	50	3	1	44	1.27
269079--269150	9	7.8	9	78	21	78	34	1	1	62	1.13
269079--269150	6	11.7	6	80	19	78	34	1	1	62	1.13
269090--269150	15	3.9	16	82	16	74	36	0	1	62	1.05
269151--269177	6	4.5	6	100	0	54	85	0	0	14	0.61
270906--271118	114	1.9	113	79	11	238	39	7	7	46	1.58
271616--271678	32	1.9	32	90	6	99	38	1	0	60	1.07
276821--276903	8	10.0	8	80	17	89	74	0	22	2	0.93
276823--276875	17	3.2	17	89	7	83	77	0	20	1	0.87
276824--276894	17	4.3	18	79	17	66	74	0	22	2	0.94
277362--277423	32	1.9	32	90	0	97	41	19	17	20	1.90
279947--279992	22	2.1	22	100	0	92	17	10	36	34	1.85
281989--282745	73	10.4	73	94	0	1282	27	19	20	32	1.97
282914--282940	12	2.2	12	100	0	54	33	7	0	59	1.25
286499--286559	29	2.1	30	90	3	97	37	32	4	24	1.77
286954--287002	20	2.4	21	82	3	64	75	2	2	20	1.00
286957--286996	21	1.9	21	89	0	62	75	2	2	20	1.04
296048--296079	16	2.0	16	100	0	64	37	12	18	31	1.88
318700--318739	2	20.5	2	94	5	73	47	0	0	52	1.00
320048--320100	3	17.0	3	84	7	70	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
320311--320537	124	1.8	123	87	0	337	25	16	14	43	1.86
320453--321090	113	5.7	113	88	3	903	28	18	14	38	1.90
321425--321622	95	2.1	95	100	0	396	32	15	14	37	1.88
322038--322425	83	4.7	83	98	0	731	39	22	12	25	1.89
321949--322425	166	2.8	166	93	2	774	38	23	12	25	1.89
321949--322425	249	1.9	255	91	3	795	38	23	12	25	1.89
323646--323710	7	9.4	7	76	20	66	0	16	0	83	0.66
323646--323710	10	5.9	11	81	18	73	0	16	0	83	0.66
323646--323704	14	4.0	14	82	10	73	0	15	0	84	0.62
323646--323704	29	2.0	30	90	9	95	0	15	0	84	0.62
331034--331065	15	2.1	15	94	0	55	46	9	18	25	1.79
334848--334887	21	1.9	20	85	10	53	62	5	0	32	1.17
336390--336433	3	14.0	3	81	9	52	61	0	0	38	0.96
343403--343460	31	1.9	30	96	3	107	41	18	12	27	1.86
346575--346631	28	2.0	28	83	6	71	29	15	15	38	1.89
348289--348335	24	2.0	24	91	0	76	40	4	12	42	1.63
351203--351277	25	3.0	25	96	0	132	26	14	20	38	1.91
351363--351415	3	18.0	3	81	11	65	64	0	0	35	0.94
351369--351415	17	2.8	17	81	15	62	65	0	0	34	0.93
351572--351898	43	7.5	42	75	13	216	24	20	29	25	1.99
351614--351858	130	1.9	128	81	8	298	24	20	28	25	1.99
351565--351938	173	2.2	173	94	0	642	23	20	30	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351610--351941	43	7.7	41	75	12	199	24	20	30	25	1.98
351967--352060	28	3.4	27	76	10	91	45	14	14	24	1.83
352587--352661	31	2.4	30	82	8	80	40	13	14	32	1.85
352758--352879	64	1.9	64	88	1	183	45	12	14	27	1.81
353071--353271	70	3.0	68	84	6	239	44	11	11	31	1.77
353131--353254	36	3.5	36	73	7	128	43	10	11	34	1.75
353071--353271	69	2.9	70	86	5	252	44	11	11	31	1.77
353242--353299	28	2.1	28	90	3	91	44	17	5	32	1.70
353386--353654	29	9.5	28	72	14	167	46	14	11	27	1.78
353340--353697	146	2.5	145	91	4	571	46	14	11	27	1.80
353898--354016	36	3.4	36	77	6	93	36	11	20	31	1.89
353968--354184	104	2.1	103	82	8	255	38	12	19	29	1.88
354639--354696	4	15.2	4	85	10	86	25	0	22	51	1.48
355879--355916	11	3.4	11	89	7	58	5	13	10	71	1.30
362723--362797	25	3.0	25	96	0	132	26	14	20	38	1.91
362884--362936	3	18.0	3	81	11	65	64	0	0	35	0.94
362890--362936	17	2.8	17	81	15	62	65	0	0	34	0.93
363109--363170	27	2.3	28	88	5	92	58	0	6	35	1.24
366973--367040	34	2.0	34	91	2	111	41	2	20	35	1.68
367058--367149	35	2.8	33	85	10	127	44	1	6	47	1.36
376874--376949	31	2.4	31	77	2	80	15	26	30	27	1.96
377953--377989	19	1.9	19	94	0	65	62	0	8	29	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381508--381549	22	2.0	22	90	4	68	23	35	0	40	1.55
382872--382927	30	2.0	27	86	10	76	32	23	0	44	1.53
392596--392708	57	1.9	58	96	3	210	22	38	11	27	1.88
403822--403889	27	2.6	27	95	4	122	41	16	11	30	1.84
407434--407528	27	3.6	27	94	2	158	42	15	13	28	1.85
410772--410827	28	2.0	28	92	0	94	42	1	8	46	1.45
414204--414260	23	2.6	23	81	13	66	40	8	0	50	1.33
419825--419867	2	21.5	2	100	0	86	51	0	0	48	1.00
421615--421641	2	13.5	2	100	0	54	48	0	0	51	1.00
421780--421858	28	2.8	28	86	0	113	37	26	20	15	1.92

Tables:   1   2   3   4   5