genome.fa.s8162.2.7.7.80.10.50.1000.3.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

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

This is table  3  of  16  ( 1865 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)
431746--431868	63	2.0	63	98	0	237	28	25	14	31	1.95
432041--432069	15	1.9	15	100	0	58	48	20	6	24	1.74
433062--433419	178	2.0	179	99	0	709	34	23	15	26	1.95
433883--433967	25	3.3	24	78	12	89	40	15	14	30	1.86
433857--434212	51	7.0	51	82	6	346	39	17	12	30	1.87
433851--433950	26	3.9	27	77	15	104	40	17	10	33	1.82
433857--434209	101	3.5	102	83	2	415	39	16	13	30	1.87
433885--434227	152	2.2	154	84	2	433	39	17	12	29	1.87
433857--434251	101	3.9	101	78	6	336	39	17	12	30	1.86
434514--434594	42	1.9	42	92	0	135	19	14	17	48	1.82
434815--434865	21	2.3	20	87	12	66	43	0	0	56	0.99
434810--434901	8	12.1	8	68	23	56	47	1	0	51	1.07
434861--434911	23	2.2	23	89	6	77	49	3	0	47	1.20
434931--434987	26	2.2	26	75	18	64	49	0	1	49	1.11
434929--434985	25	2.4	22	83	13	69	47	0	1	50	1.11
434929--434986	24	2.4	25	81	13	70	48	0	1	50	1.11
435004--435047	22	2.0	22	86	4	61	54	2	2	40	1.25
435358--435405	14	3.4	14	77	8	53	35	18	4	41	1.70
435344--435382	20	2.0	20	84	0	51	33	17	7	41	1.79
435356--435423	15	4.7	15	73	10	61	38	16	5	39	1.73
435356--435420	28	2.3	29	91	2	105	36	16	6	40	1.74
437172--437232	3	19.3	3	76	6	50	32	1	1	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437170--437232	22	3.0	21	79	6	74	34	1	1	61	1.15
438256--438310	3	18.7	3	77	3	58	21	0	0	78	0.76
438252--438310	9	6.8	9	94	5	104	20	0	0	79	0.73
440847--441317	95	5.1	95	87	7	666	33	17	18	30	1.94
440967--441365	178	2.2	178	90	3	624	31	18	19	30	1.95
442356--443723	246	5.6	244	87	4	1873	32	23	17	26	1.96
442389--443723	124	10.9	123	87	3	1872	32	23	17	26	1.96
444209--444263	3	17.3	3	85	7	65	32	0	1	65	1.03
444226--444264	19	2.1	19	95	0	69	30	0	2	66	1.05
445273--445313	17	2.4	17	87	4	55	19	2	2	75	1.03
445990--446018	15	1.9	15	100	0	58	24	0	6	68	1.13
446269--446339	31	2.3	31	82	4	90	53	11	8	26	1.65
447636--447839	65	3.2	64	78	12	202	31	24	17	26	1.97
455676--455700	13	1.9	13	100	0	50	32	0	16	52	1.44
463262--463314	19	2.8	19	80	5	54	49	1	0	49	1.12
463503--463534	16	2.0	16	93	0	55	56	3	3	37	1.31
464974--465045	3	24.7	3	74	5	67	61	1	1	36	1.14
464987--465039	18	2.9	18	88	5	81	56	1	1	39	1.21
465539--465585	16	3.0	16	73	17	53	23	17	12	46	1.82
465418--465836	141	3.0	140	75	9	433	26	19	14	40	1.89
465655--465692	17	2.2	17	95	0	67	23	21	5	50	1.69
465779--466079	107	2.8	110	88	6	454	27	19	13	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466857--466977	22	5.5	22	91	0	197	39	13	12	34	1.82
467342--467437	50	1.9	49	85	2	129	28	21	13	36	1.92
468314--468555	74	3.2	76	85	1	301	33	22	14	30	1.93
468310--468555	76	3.3	75	85	2	314	32	21	13	31	1.93
469999--470219	114	1.9	114	93	0	379	29	19	15	34	1.93
472342--472427	17	5.4	17	77	13	83	0	17	0	82	0.67
472357--472423	8	8.8	8	82	12	79	0	16	0	83	0.64
472348--472424	9	8.6	9	79	15	70	0	16	0	83	0.66
473751--473806	27	2.1	27	89	0	85	60	7	12	19	1.55
473780--473807	12	2.3	12	100	0	56	53	7	14	25	1.66
475359--475406	21	2.3	21	85	3	62	70	4	2	22	1.15
475928--475969	11	3.3	13	80	12	52	47	0	2	50	1.14
476349--476379	16	1.9	16	93	0	53	54	3	3	38	1.32
476384--476429	20	2.3	21	81	11	60	58	0	8	32	1.28
477857--477944	3	29.7	3	75	6	72	59	1	1	38	1.13
477886--477938	18	2.9	18	88	5	81	56	1	1	39	1.21
489483--489553	23	3.2	22	74	6	72	15	22	23	38	1.93
496221--496310	23	4.0	22	81	9	112	20	18	27	33	1.96
497988--498030	18	2.4	19	80	11	54	58	0	0	41	0.98
498062--498107	19	2.4	20	82	7	51	69	0	2	28	1.00
498226--498317	45	2.0	45	91	0	148	55	7	4	32	1.48
498297--498363	24	2.9	24	78	17	70	65	2	2	28	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
499096--499196	38	2.7	38	90	0	148	26	16	13	42	1.86
501215--501254	15	2.7	15	85	14	57	25	0	27	47	1.52
517936--517989	22	2.5	21	82	8	63	24	20	18	37	1.94
517954--517996	22	2.0	22	100	0	86	18	20	23	37	1.94
519618--519678	32	1.9	32	89	0	95	34	11	21	32	1.89
524265--524304	19	2.0	20	95	4	73	42	5	27	25	1.75
526528--526593	23	2.9	23	78	8	64	36	37	1	24	1.65
526556--526598	22	2.0	22	90	0	68	34	37	2	25	1.69
530998--531036	12	3.2	12	85	14	53	89	2	7	0	0.56
531004--531038	9	3.7	10	88	11	56	91	0	8	0	0.42
531072--531105	16	2.1	16	88	0	50	73	2	20	2	1.09
533042--533084	22	2.0	22	95	0	77	34	37	2	25	1.69
533806--533951	50	2.9	48	78	9	141	70	3	6	19	1.24
536110--536189	24	3.3	24	75	3	81	50	12	12	25	1.75
540895--540961	24	2.8	24	88	0	98	52	17	11	17	1.74
541153--541185	16	2.0	17	88	5	50	42	12	9	36	1.74
545845--545879	6	5.8	6	86	0	52	0	14	0	85	0.59
555607--555651	16	2.8	16	87	12	65	66	2	2	28	1.15
555546--555651	21	5.3	21	71	12	71	68	1	4	24	1.18
555611--555679	16	4.2	16	73	14	52	62	4	10	23	1.45
561481--561647	65	2.6	64	80	10	169	32	23	17	26	1.97
568693--568746	26	2.3	23	84	12	65	20	0	27	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568777--568817	2	21.0	2	95	5	75	48	0	0	51	1.00
569310--569351	21	2.0	21	95	0	75	28	16	9	45	1.79
569434--569600	65	2.6	64	83	10	196	32	22	16	28	1.96
569439--569642	65	3.2	64	81	12	172	32	22	16	28	1.95
571206--571244	21	1.9	21	94	5	71	33	7	10	48	1.66
571063--571488	199	2.1	198	83	4	518	39	13	13	33	1.84
571301--571667	178	2.1	179	88	3	535	37	14	15	33	1.88
572010--572557	226	2.4	225	85	3	697	33	16	11	38	1.84
577811--577842	15	2.0	17	88	11	50	31	3	0	65	1.08
584422--584505	31	2.7	31	81	9	109	58	1	0	40	1.06
584698--584838	60	2.3	60	85	6	187	25	30	24	19	1.98
590475--590512	2	20.0	2	89	10	62	47	0	0	52	1.00
592539--593185	252	2.6	251	83	8	780	32	16	17	34	1.91
592295--593834	655	2.3	655	86	5	2137	32	15	17	34	1.91
593210--593949	249	2.9	253	81	8	886	32	15	17	34	1.91
594050--594098	16	3.2	16	80	8	66	81	2	14	2	0.87
594330--594564	45	5.3	44	81	6	244	24	17	17	40	1.91
594330--594559	87	2.6	89	83	4	268	24	18	16	40	1.91
594330--594663	45	7.5	43	78	7	239	24	16	17	41	1.90
594330--594658	89	3.7	88	80	5	245	24	16	17	40	1.90
594645--594844	50	4.1	48	81	9	196	25	20	19	35	1.95
594663--594851	99	1.9	95	85	4	252	26	19	19	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594668--594851	50	3.9	46	87	4	208	26	19	19	34	1.95
595151--595582	133	3.2	132	86	4	546	29	20	18	31	1.97
602810--602853	15	2.8	16	79	3	54	61	0	0	38	0.96
602815--602861	25	2.0	24	87	8	69	55	0	2	42	1.12
602815--602861	24	2.0	22	84	12	58	55	0	2	42	1.12
604697--604773	19	4.1	19	72	9	59	35	10	23	31	1.88
604678--604767	37	2.4	38	84	3	119	32	7	26	33	1.85
605674--607609	8	245.8	8	85	10	1752	26	8	23	41	1.82
606167--607607	4	367.0	4	81	5	1634	25	5	24	44	1.76
612493--612561	30	2.3	31	82	7	88	34	5	23	36	1.79

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