genome.fa.s8128.2.7.7.80.10.50.1000.2.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  2  of  20  ( 2387 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)
326397--326575	94	1.9	96	81	4	220	37	13	20	27	1.91
326383--326598	94	2.3	96	76	9	210	37	14	21	26	1.92
326543--326603	20	3.0	20	90	9	88	36	16	22	24	1.94
326939--327218	54	5.2	54	84	0	319	31	19	17	31	1.95
326946--327201	107	2.4	108	83	0	298	32	19	17	30	1.95
329970--330021	17	2.9	18	88	5	79	19	19	30	30	1.96
340616--340650	17	2.1	18	89	10	56	28	0	17	54	1.43
344708--344780	28	2.6	28	88	0	119	24	12	24	38	1.90
347966--348008	2	21.5	2	100	0	86	51	0	0	48	1.00
356139--356176	20	1.9	20	88	0	58	39	5	23	31	1.77
360487--360573	29	2.9	29	77	9	86	49	5	13	31	1.66
361466--361514	23	2.3	22	86	10	66	32	8	26	32	1.86
361473--361518	23	2.0	23	95	0	83	34	10	26	28	1.90
362950--363066	54	2.2	54	89	1	173	38	19	17	23	1.93
373069--373104	14	2.5	14	95	4	63	13	25	0	61	1.33
375772--375827	22	2.5	23	83	16	73	23	19	7	50	1.72
379179--379274	40	2.3	42	83	5	124	50	1	5	43	1.31
379292--379339	20	2.3	21	92	7	80	16	6	0	77	0.97
380283--380382	47	2.1	47	92	0	164	15	19	24	42	1.89
380533--380558	12	2.2	12	100	0	52	15	0	0	84	0.62
392617--392733	45	2.5	47	86	5	150	44	0	5	48	1.33
392746--392786	15	2.7	15	82	14	57	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393944--394000	9	6.0	9	75	17	53	21	3	1	73	1.07
393946--393996	12	4.3	12	73	14	52	19	3	1	74	1.07
393946--394000	18	3.1	18	80	12	69	20	3	1	74	1.06
393951--394007	18	3.2	18	76	16	57	21	7	1	70	1.20
394841--394896	24	2.3	24	96	0	103	44	10	14	30	1.79
398188--398241	21	2.6	21	94	2	92	22	24	24	29	1.99
401513--401589	23	3.5	22	74	10	77	25	23	25	24	2.00
403515--403571	28	2.0	28	86	0	78	19	5	21	54	1.63
410096--410143	11	4.2	11	77	17	53	2	4	8	85	0.80
412592--412621	2	15.0	2	100	0	60	50	0	0	50	1.00
413887--413965	27	2.8	29	76	14	83	34	5	2	58	1.34
414684--414737	20	2.7	20	91	0	81	61	14	11	12	1.58
417084--417605	31	16.9	31	88	2	710	47	22	4	25	1.70
417627--417854	63	3.6	63	90	1	332	31	11	16	39	1.85
420868--420905	17	2.0	20	85	14	55	57	0	2	39	1.12
421873--421971	39	2.6	38	87	4	144	58	13	8	20	1.60
423574--423652	5	16.4	5	84	7	110	1	21	0	77	0.84
424295--424378	26	3.2	26	94	0	141	17	17	13	51	1.77
430298--430337	14	3.1	13	82	10	55	60	0	0	40	0.97
431738--431791	3	17.7	3	81	11	65	64	0	0	35	0.94
431738--431794	11	5.3	11	78	21	59	64	0	0	35	0.93
431738--431794	14	4.0	14	84	11	80	64	0	0	35	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432024--432432	113	3.7	113	89	3	580	29	18	12	39	1.88
432024--432431	225	1.8	222	87	3	613	29	18	12	39	1.88
432394--432459	20	3.3	20	65	23	57	15	24	10	50	1.75
432374--432626	40	6.5	40	71	8	198	22	21	11	44	1.84
432261--432739	153	3.1	153	92	0	787	25	20	12	42	1.87
433565--433917	83	4.2	83	90	1	553	35	20	14	29	1.92
435059--435138	8	9.5	8	84	10	106	0	16	0	83	0.64
435059--435138	26	3.2	25	79	13	101	0	16	0	83	0.64
435058--435138	43	1.9	42	92	2	135	0	17	0	82	0.66
445257--445281	12	2.1	12	100	0	50	68	8	0	24	1.16
445488--445527	14	3.1	13	82	10	55	60	0	0	40	0.97
446385--446416	14	2.1	16	88	11	50	0	12	6	81	0.87
446914--446970	3	18.7	3	82	10	71	64	0	0	35	0.93
446917--446977	9	6.7	9	78	10	52	65	0	0	34	0.93
446915--446977	12	5.4	12	71	21	53	66	0	0	33	0.92
449563--449596	17	2.0	17	88	0	50	41	0	0	58	0.98
450177--450225	24	2.0	26	84	8	66	36	10	6	46	1.63
450249--451343	4	276.0	4	92	1	1740	48	23	1	26	1.60
451353--451404	15	3.5	15	80	15	63	38	5	0	55	1.24
458455--458901	55	8.1	55	85	1	556	31	18	20	29	1.96
458470--458901	165	2.6	165	89	1	634	31	18	20	29	1.96
459436--459499	20	3.3	19	77	12	67	29	23	14	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477106--477254	55	2.7	55	90	0	226	30	16	21	30	1.96
477561--477678	42	2.8	42	93	1	202	52	18	4	24	1.63
477590--477657	21	3.2	21	68	15	68	57	19	1	22	1.49
480085--480202	56	2.2	53	86	4	155	61	17	6	14	1.54
480986--481227	55	4.4	55	86	0	340	31	19	19	30	1.96
481621--481654	18	1.9	17	88	5	50	23	26	17	32	1.97
484659--484698	21	2.0	20	85	9	55	27	12	22	37	1.90
484746--484784	21	1.9	20	84	5	51	28	15	20	35	1.93
500147--500181	11	3.2	11	87	0	52	37	25	8	28	1.85
500199--500295	15	6.9	15	73	17	57	38	4	5	52	1.43
500227--500319	9	10.7	9	73	21	58	34	3	5	56	1.38
500215--500319	22	4.7	23	73	18	78	34	3	5	56	1.41
500230--500320	31	3.0	30	75	13	89	34	3	5	57	1.38
500230--500302	16	4.7	16	78	11	62	35	4	5	54	1.42
500239--500331	38	2.4	38	81	10	109	34	3	5	56	1.38
500537--500567	16	1.9	16	93	0	53	35	3	12	48	1.58
500724--500767	12	3.7	12	96	0	79	43	6	13	36	1.71
501785--501822	17	2.2	17	90	0	58	44	2	13	39	1.57
502064--502255	67	2.8	67	84	3	222	27	18	14	39	1.89
509496--509806	43	7.3	43	71	13	162	53	7	16	23	1.68
509492--509735	86	2.8	85	80	5	233	52	6	16	23	1.67
512324--512408	24	3.5	24	73	12	75	42	18	14	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514905--514967	3	20.7	3	80	3	72	41	0	0	58	0.98
516738--516781	18	2.5	17	79	13	54	50	0	0	50	1.00
516738--516830	16	5.6	17	71	8	75	46	1	0	52	1.07
516800--516826	11	2.5	11	100	0	54	44	0	0	55	0.99
516900--516951	23	2.2	24	86	3	70	36	0	3	59	1.16
517516--517561	7	6.4	7	95	5	83	26	0	0	73	0.83
517516--517562	22	2.1	22	100	0	94	25	0	0	74	0.82
517573--517625	19	2.7	19	85	8	63	30	1	0	67	1.01
517570--517626	18	3.2	18	82	9	64	28	1	0	70	0.98
519667--519709	15	3.1	14	83	9	52	18	16	4	60	1.52
519675--519716	22	1.9	22	90	0	66	16	16	4	61	1.50
519774--519839	20	3.2	20	80	6	71	21	12	9	57	1.62
522192--522277	1	86.0	1	81	0	91	89	2	8	0	0.56
522192--522277	41	2.1	39	89	8	127	89	2	8	0	0.56
522192--522275	44	2.0	42	90	4	132	89	2	8	0	0.57
526922--527006	22	3.9	22	85	0	125	32	12	12	41	1.82
527680--528617	76	12.3	76	95	1	1657	24	19	21	34	1.96
528761--528840	3	26.7	3	89	0	124	37	0	0	62	0.95
530784--530834	23	2.2	24	86	6	70	37	0	3	58	1.16
535611--535655	20	2.2	20	88	0	63	15	22	0	62	1.33
537697--537744	23	2.1	23	84	7	62	31	2	10	56	1.45
538931--538992	25	2.4	25	81	7	72	37	12	8	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539033--539096	31	2.1	31	91	2	103	40	4	25	29	1.76
539934--539980	21	2.2	22	92	3	78	19	23	34	23	1.97
542510--542869	149	2.3	155	84	6	448	26	17	6	49	1.70
543121--543162	2	21.0	2	100	0	84	50	0	0	50	1.00
545641--545708	29	2.4	27	82	7	73	61	5	16	16	1.52
545895--546187	33	8.9	33	93	1	482	48	3	15	32	1.62
546928--546992	13	5.0	13	81	7	78	29	20	18	32	1.96
551806--551834	4	7.2	4	100	0	58	75	0	24	0	0.80
553381--553430	3	16.7	3	79	8	57	62	0	2	36	1.07
553377--553430	14	3.9	14	73	17	51	62	0	1	35	1.06

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20