genome.fa.s9617.2.7.7.80.10.50.1000.2.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: VEPZ01009617.1 Hibiscus syriacus cultivar Beakdansim tig00117005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3386631

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  2  of  16  ( 1887 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)
297759--297805	21	2.2	21	77	7	51	19	8	2	70	1.24
300582--300807	116	2.0	113	97	2	425	33	15	23	27	1.94
315143--315173	7	4.6	7	92	8	55	54	0	0	45	0.99
315143--315173	13	2.3	14	94	5	55	54	0	0	45	0.99
315298--315332	2	17.5	2	100	0	70	48	0	0	51	1.00
317880--317959	40	2.0	40	85	0	106	21	26	23	28	1.99
318612--318651	18	2.2	18	100	0	80	50	17	5	27	1.67
320670--320873	4	50.0	4	72	11	121	66	6	2	24	1.29
320674--320873	23	8.7	23	73	13	146	66	6	3	24	1.30
320748--320869	19	6.8	18	79	11	119	68	5	1	24	1.21
329110--329185	36	2.1	37	85	7	102	46	2	2	48	1.30
336175--336212	19	2.0	20	89	5	60	44	18	13	23	1.85
340134--340163	2	15.0	2	100	0	60	50	0	0	50	1.00
340212--340243	15	2.1	15	100	0	64	59	25	0	15	1.36
343598--343679	30	2.7	30	82	0	101	57	7	10	24	1.58
345150--345208	31	1.9	31	89	6	93	42	6	8	42	1.61
345235--345283	22	2.2	22	85	3	62	55	12	0	32	1.37
345223--345617	54	7.4	54	81	10	447	52	11	0	35	1.40
345333--345524	32	6.7	32	74	22	174	53	12	0	33	1.43
345397--345439	22	2.0	22	100	0	86	51	13	0	34	1.42
345399--345447	22	2.2	22	88	3	71	55	14	0	30	1.40
345451--345493	22	2.0	22	100	0	86	51	13	0	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345453--345501	22	2.2	22	88	3	71	55	14	0	30	1.40
345503--345545	21	2.1	21	91	4	70	53	16	0	30	1.43
345548--345689	15	9.5	15	78	12	141	51	2	0	46	1.12
345593--345685	28	3.3	26	79	16	98	48	1	0	50	1.07
345548--345689	42	3.2	44	83	10	171	51	2	0	46	1.12
346072--346188	42	2.8	41	90	3	180	17	17	19	46	1.85
346611--346668	27	2.1	28	84	9	75	60	1	0	37	1.07
347000--347037	3	12.7	3	94	0	67	68	0	0	31	0.90
347911--347984	37	2.0	36	87	12	107	25	6	16	51	1.69
349149--349189	13	3.1	14	79	13	59	21	0	14	63	1.30
351380--351455	22	3.6	20	73	19	66	22	10	9	57	1.60
351362--351448	44	2.0	40	81	14	95	22	13	10	52	1.71
355368--355412	23	2.0	23	82	8	56	28	28	22	20	1.98
355391--355694	149	2.0	149	98	0	581	35	19	16	27	1.93
356161--356197	19	1.9	19	88	0	56	10	29	35	24	1.89
356163--356308	65	2.2	67	90	4	228	17	25	27	30	1.97
358715--359111	200	2.0	197	98	1	758	26	25	18	28	1.98
359089--359151	33	1.9	33	93	6	110	25	28	20	25	1.99
362437--362481	23	2.0	23	86	0	63	26	28	24	20	1.99
362460--362761	149	2.0	147	97	1	568	35	20	16	27	1.94
363231--363379	65	2.2	66	92	3	246	16	25	28	30	1.96
369414--369456	21	2.0	20	86	8	59	76	0	0	23	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369420--369468	21	2.3	21	82	6	55	71	4	0	24	1.03
369747--369829	33	2.5	33	98	0	157	43	10	26	19	1.84
378292--378956	186	3.5	185	81	5	683	32	15	11	39	1.84
383476--383519	21	2.1	21	100	0	88	29	31	15	22	1.95
387082--387155	35	2.1	34	88	11	107	44	17	0	37	1.49
393927--393957	16	1.9	16	93	0	53	54	0	0	45	0.99
393916--393971	22	2.6	22	77	8	62	58	3	0	37	1.15
395009--395081	32	2.3	32	95	0	128	38	12	8	41	1.73
399485--399559	38	1.9	39	86	10	109	29	17	22	30	1.97
402930--402957	14	2.0	14	100	0	56	64	7	7	21	1.43
404487--404512	5	5.2	5	100	0	52	0	19	57	23	1.40
405417--405455	19	2.1	19	90	4	62	17	23	10	48	1.78
405679--405724	20	2.2	21	85	11	60	28	0	4	67	1.10
412327--412381	6	9.2	6	100	0	110	34	49	16	0	1.46
412379--412422	5	8.8	5	94	0	79	18	38	40	2	1.63
418286--418364	6	13.2	6	97	0	149	32	49	16	1	1.54
418362--418410	5	9.8	5	95	0	71	14	38	40	6	1.71
422189--422223	7	4.9	7	86	6	52	11	0	0	88	0.51
422198--422222	13	1.9	13	100	0	50	12	0	0	88	0.53
422517--422586	26	2.7	26	95	0	122	18	15	50	15	1.79
422791--422840	3	16.7	3	100	0	100	68	0	0	32	0.90
425797--425830	12	2.8	12	95	4	59	82	0	8	8	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426145--426235	19	4.6	19	70	17	60	61	2	4	31	1.28
426708--426812	37	2.8	37	83	9	133	30	14	15	40	1.87
427543--429236	106	16.0	106	91	1	2585	22	18	24	34	1.96
430043--430094	22	2.4	21	87	9	77	19	11	28	40	1.86
430489--430835	172	2.0	173	93	3	601	25	17	20	36	1.95
430869--430942	7	9.7	7	71	25	53	2	12	6	78	1.05
430915--430948	16	2.1	16	89	10	52	2	14	5	76	1.09
435494--435527	12	2.8	12	86	4	50	79	0	8	11	0.94
435597--435650	21	2.8	18	81	15	56	62	3	3	29	1.29
435601--435651	18	2.6	19	79	11	59	62	3	3	29	1.31
435651--435703	27	2.0	27	84	0	70	69	11	0	18	1.17
435849--435939	19	4.6	19	70	17	60	61	2	4	31	1.28
436411--436515	37	2.8	37	83	9	133	30	14	15	40	1.87
436678--436706	3	9.7	3	100	0	58	31	0	0	68	0.89
437824--437896	23	3.3	23	70	14	73	54	15	17	12	1.70
438321--438372	19	2.8	19	78	18	56	57	19	0	23	1.40
439789--439838	26	2.0	26	88	11	77	40	12	12	36	1.79
439927--439980	25	2.2	24	77	9	56	53	9	0	37	1.33
439951--440017	22	2.9	23	77	8	64	49	5	2	41	1.42
440091--440130	19	2.0	20	85	4	55	40	2	0	57	1.12
440304--440701	82	4.8	85	79	9	369	29	17	18	34	1.94
440474--440609	41	3.3	41	71	8	123	28	13	22	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441714--441756	16	2.8	16	86	10	54	55	6	4	32	1.47
442187--442222	2	18.0	2	100	0	72	50	0	0	50	1.00
444202--444238	3	12.7	3	88	5	58	62	0	0	37	0.96
444735--444906	91	1.9	91	90	2	274	24	19	14	41	1.88
444402--445145	331	2.2	331	87	3	1043	25	20	16	38	1.92
446028--446078	14	3.5	14	79	10	57	5	7	1	84	0.85
446016--446054	20	2.0	20	94	0	69	7	12	0	79	0.93
446011--446080	34	2.1	34	86	0	95	7	12	1	78	1.01
446014--446064	26	2.0	26	81	14	61	7	11	0	80	0.90
446030--446082	26	2.1	26	86	10	74	5	9	1	83	0.89
457048--457091	16	2.8	16	83	13	56	54	4	4	36	1.41
457385--457499	30	3.9	30	72	10	78	64	6	3	25	1.35
459413--459452	3	13.7	3	89	5	64	62	0	0	37	0.95
459549--459807	42	6.1	42	78	10	231	32	20	22	23	1.98
459549--459807	128	2.0	127	85	5	344	32	20	22	23	1.98
459549--459807	85	3.0	86	83	5	312	32	20	22	23	1.98
459903--459938	19	1.9	19	88	5	56	58	16	0	25	1.38
466154--466562	192	2.1	193	80	2	437	36	13	11	37	1.82
469784--469827	23	2.0	22	86	4	61	54	0	2	43	1.12
471452--471617	60	2.8	59	77	9	165	40	6	20	32	1.77
476363--476431	29	2.4	28	80	9	86	53	15	13	17	1.73
476410--476560	59	2.6	58	84	8	189	59	10	9	19	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476410--476562	30	5.2	30	78	5	150	59	10	9	20	1.58
477815--477858	20	2.2	20	88	4	63	6	2	47	43	1.42
479929--479995	31	2.2	31	97	0	125	17	16	14	50	1.78
482170--482228	29	2.0	29	96	0	109	25	13	11	49	1.76
486840--486898	29	2.0	29	96	0	109	23	11	13	50	1.74
487561--487585	6	4.2	6	100	0	50	0	16	48	36	1.46
487740--487791	22	2.3	23	74	9	54	26	5	25	42	1.77
488344--488428	2	42.5	2	100	0	170	50	0	0	49	1.00
495384--495414	7	4.4	7	100	0	62	51	0	0	48	1.00
498800--498844	21	2.1	21	83	0	54	31	31	24	13	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16