genome.fa.s4593.2.7.7.80.10.50.1000.3.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: VEPZ01004593.1 Hibiscus syriacus cultivar Beakdansim tig00010263_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1592963

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 829 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)
437549--437609	2	30.5	2	86	0	86	50	0	3	45	1.17
443325--443358	15	2.1	17	89	10	54	50	0	11	38	1.39
448214--448268	20	2.8	20	77	5	67	34	30	16	18	1.93
448254--448528	20	13.5	20	68	17	77	37	22	18	20	1.94
448317--448608	20	14.4	20	78	7	241	38	24	17	19	1.93
448317--448567	81	3.1	80	79	6	238	38	23	18	19	1.93
449147--449225	20	3.9	21	83	5	85	51	17	20	10	1.73
449207--449271	14	4.3	14	73	17	58	46	21	23	9	1.80
449202--449282	33	2.5	33	93	0	135	46	22	20	9	1.80
449278--449361	19	4.7	19	77	14	97	13	21	20	45	1.84
449321--449374	14	3.5	14	73	22	54	9	24	22	44	1.81
449300--449374	33	2.3	33	95	0	132	12	22	21	44	1.85
449313--449394	33	2.5	33	91	2	128	12	24	21	41	1.87
449359--449414	20	2.8	20	84	10	87	14	25	21	39	1.91
451231--451263	17	1.9	17	88	11	50	24	15	15	45	1.84
451113--451492	94	4.1	94	93	1	611	22	11	18	47	1.80
451556--451610	19	2.8	19	80	5	65	49	18	20	12	1.79
451669--451717	20	2.5	20	89	0	71	22	20	22	34	1.97
452201--452305	21	5.0	21	74	3	95	20	37	19	22	1.95
452198--452308	42	2.6	42	78	5	118	20	37	18	22	1.94
453663--453698	14	2.6	14	90	0	54	30	0	22	47	1.52
453865--453933	20	3.5	20	82	4	86	20	21	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456382--456433	24	2.2	24	82	0	59	36	21	19	23	1.95
457274--457690	60	6.9	60	73	15	234	21	18	24	36	1.95
457281--457629	20	17.4	20	77	11	227	20	18	24	35	1.95
457276--457629	60	5.9	60	76	14	255	20	18	24	35	1.95
457479--457672	61	3.2	62	82	6	195	20	17	25	37	1.94
457281--457690	20	20.4	20	74	13	195	20	18	24	36	1.95
458078--458152	37	2.0	37	82	10	91	49	4	1	45	1.29
459241--459270	13	2.2	14	94	5	53	26	6	20	46	1.75
460036--460083	2	24.0	2	100	0	96	50	0	0	50	1.00
481341--481421	41	2.0	41	90	0	126	35	18	18	27	1.94
481364--481530	61	2.7	61	83	1	201	38	20	16	23	1.92
481364--481502	20	6.8	20	72	3	107	41	19	16	23	1.90
485334--485397	3	21.3	3	100	0	128	34	0	0	65	0.93
490488--490515	2	14.0	2	100	0	56	50	0	0	50	1.00
496844--496889	20	2.3	20	92	0	74	26	15	21	36	1.93
515208--515247	21	2.0	20	85	5	53	35	7	0	57	1.27
517249--517296	24	2.0	24	83	0	60	50	10	6	33	1.62
521247--521280	17	2.1	17	88	5	52	38	5	0	55	1.24
536758--536807	24	2.1	24	85	7	66	54	0	0	46	1.00
536781--536814	15	2.3	15	100	0	68	52	0	0	47	1.00
540459--540585	63	2.0	64	92	1	211	36	17	22	24	1.95
541530--541585	2	29.5	2	82	10	73	50	0	1	48	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541927--542575	105	6.2	105	90	2	977	22	18	26	33	1.96
554199--554260	31	2.0	32	83	3	81	67	0	9	22	1.19
554531--554657	63	2.0	64	92	1	211	36	17	22	24	1.95
556914--556985	15	4.9	15	78	14	71	41	1	1	55	1.17
556916--556985	3	23.0	3	75	2	59	40	1	1	57	1.17
558439--558483	21	2.1	21	87	0	63	31	28	24	15	1.96
559351--559474	31	4.0	31	91	4	198	21	20	20	37	1.95
559351--559474	61	2.0	62	90	4	198	21	20	20	37	1.95
562491--562535	21	2.1	21	91	0	72	33	28	22	15	1.95
563396--563520	31	4.0	31	91	2	198	21	20	21	36	1.95
565735--565805	30	2.6	26	77	14	72	32	4	1	61	1.23
565735--565801	28	2.5	27	83	7	75	32	4	1	61	1.25
570932--570978	7	6.7	7	95	0	85	76	0	23	0	0.78
574210--574384	75	2.3	75	90	1	262	28	17	24	29	1.97
575536--575614	22	3.6	22	73	13	81	31	11	13	43	1.80
576270--576897	90	6.9	91	91	2	942	24	23	18	33	1.97
576270--576897	46	13.8	46	91	1	948	24	23	18	33	1.97
577021--577080	15	3.9	15	84	6	68	43	1	1	53	1.20
582008--582161	45	3.3	44	82	11	168	46	0	3	49	1.20
582030--582162	15	8.5	15	81	11	151	46	0	3	50	1.16
582142--582294	32	5.4	31	71	27	151	35	0	10	53	1.35
582142--582538	54	7.4	54	76	13	365	34	0	12	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582107--582207	22	4.5	22	69	11	78	39	0	8	51	1.33
582265--582338	22	3.2	23	74	16	64	28	0	16	55	1.41
582242--582389	80	1.9	78	95	2	269	31	0	14	53	1.42
582322--582443	52	2.3	54	97	2	230	33	0	13	52	1.41
582187--582538	132	2.6	134	96	2	654	33	0	13	52	1.40
582322--582474	52	3.0	51	89	9	183	32	0	15	52	1.43
582374--582523	80	1.9	80	98	0	291	32	0	14	52	1.42
582486--582528	22	2.0	22	95	0	77	37	0	11	51	1.39
582553--582611	31	1.9	31	89	0	91	40	10	8	40	1.69
584389--584445	19	2.9	18	78	17	51	47	0	3	49	1.18
590153--590461	154	2.0	155	98	0	602	47	15	5	31	1.69
593683--593724	19	2.2	20	87	8	61	50	0	0	50	1.00
597371--597459	19	4.7	18	81	9	79	31	28	25	14	1.95
597371--597459	9	9.3	9	77	11	88	31	28	25	14	1.95
597422--597460	20	1.9	21	89	5	62	38	25	20	15	1.92
601034--601066	16	2.1	16	94	0	57	36	3	6	54	1.41
602992--603032	18	2.3	18	91	0	64	12	65	0	21	1.25
603010--603044	12	2.9	12	86	0	52	8	62	0	28	1.24
603054--603122	27	2.6	27	83	0	84	18	46	15	18	1.84
603089--603395	153	2.0	154	98	0	598	24	33	21	20	1.97
604291--604317	7	3.9	7	100	0	54	70	0	0	29	0.88
606703--606746	20	2.3	19	84	7	54	40	2	27	29	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621101--621171	31	2.3	31	97	0	133	14	42	14	29	1.84
624486--624523	17	2.2	17	90	0	58	10	18	47	23	1.79
624540--624604	10	6.6	10	74	8	53	36	26	21	15	1.93
624534--624604	29	2.4	29	83	6	81	35	25	23	15	1.94
629371--629415	21	2.1	21	87	0	63	31	28	24	15	1.96
630000--630034	18	1.9	18	88	11	54	54	5	17	22	1.64
630529--630558	2	15.0	2	100	0	60	50	0	0	50	1.00
630945--631397	149	3.0	149	99	0	888	26	17	20	34	1.95
631376--631420	23	2.0	23	86	0	63	20	24	28	26	1.99
635275--635307	12	2.8	12	100	0	66	12	24	45	18	1.83
646057--646089	15	2.1	16	88	5	50	9	24	15	51	1.72
647322--647351	15	2.0	15	93	0	51	46	16	6	30	1.73
648477--648523	18	2.5	20	87	12	66	63	0	4	31	1.13
653573--653666	48	2.0	48	100	0	188	36	11	8	43	1.72
663330--663671	171	2.0	171	100	0	684	28	15	25	30	1.96
678922--679056	70	1.9	70	100	0	270	34	7	14	42	1.74
679044--679096	17	3.2	17	81	5	65	39	0	0	60	0.97
682823--682856	12	2.8	12	87	12	52	58	0	0	41	0.98
685973--686007	2	17.5	2	100	0	70	51	0	48	0	1.00
688563--688644	29	2.8	29	94	1	137	32	14	9	42	1.79
693326--693407	29	2.8	29	94	1	137	32	14	9	42	1.79
696994--697031	2	19.0	2	100	0	76	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)
699649--699686	20	1.9	19	89	5	58	52	2	5	39	1.38
699678--699722	21	2.1	21	83	0	54	57	2	2	37	1.23
703176--703200	2	12.5	2	100	0	50	52	0	0	48	1.00
705262--705349	41	2.1	41	81	4	97	32	17	20	29	1.95
705301--705451	41	3.7	40	72	16	121	32	21	18	27	1.97
707215--707316	31	3.0	36	85	14	169	16	17	19	46	1.85
708840--708905	21	3.1	21	78	4	62	40	15	40	3	1.62
709225--709342	42	2.8	43	81	10	127	33	19	16	30	1.94
709315--709437	43	2.9	43	82	2	149	32	24	17	26	1.96
710887--710942	21	2.7	21	83	5	60	39	7	17	35	1.78

Tables:   1   2   3   4   5   6   7