genome.fa.s9578.2.7.7.80.10.50.1000.2.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: VEPZ01009578.1 Hibiscus syriacus cultivar Beakdansim tig00116946_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  651624

Tables:   1   2   3   

This is table  2  of  3  ( 291 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)
260692--260736	7	6.4	7	94	0	81	60	0	40	0	0.97
260852--261009	78	2.0	79	96	1	291	22	13	6	57	1.58
262245--262277	16	2.1	16	88	11	50	48	0	0	51	1.00
263723--263750	13	2.2	13	100	0	56	71	0	28	0	0.86
263861--263893	15	2.1	16	94	5	59	84	6	6	3	0.84
264626--264668	21	2.0	21	86	4	59	55	4	2	37	1.33
265778--265834	30	1.9	30	85	7	80	43	5	12	38	1.65
275969--276029	20	2.9	20	85	7	59	24	32	26	16	1.96
276012--276051	21	1.9	21	89	0	62	25	40	25	10	1.86
278013--278046	17	2.0	17	88	0	50	14	2	29	52	1.56
279713--279759	18	2.6	18	93	0	76	19	14	27	38	1.91
279708--279770	18	3.5	18	86	0	72	20	20	25	33	1.97
280251--280275	13	1.9	13	100	0	50	28	8	8	56	1.57
287470--287515	20	2.3	20	80	0	56	26	23	26	23	2.00
293384--293465	40	2.0	40	97	0	155	47	12	4	35	1.62
295202--295238	17	2.2	17	100	0	74	43	24	0	32	1.55
301059--301108	25	2.1	23	85	14	66	16	28	28	28	1.97
315193--315319	60	2.1	59	78	7	139	35	19	17	27	1.94
325294--325347	27	2.0	27	88	0	81	38	7	9	44	1.65
327678--327725	3	16.0	3	87	8	71	31	2	2	64	1.16
330553--330618	26	2.5	25	80	9	60	16	4	4	74	1.16
333326--333355	15	2.0	15	93	0	51	50	13	16	20	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357514--357617	6	19.4	5	77	11	50	41	3	0	53	1.25
357506--357603	10	9.2	11	70	21	59	43	4	0	52	1.20
357512--357617	18	5.8	18	74	14	76	41	3	0	53	1.25
357505--357636	35	3.6	35	77	16	101	41	3	0	54	1.21
361730--361835	45	2.4	45	96	0	194	33	19	22	24	1.97
361778--361902	64	1.9	65	87	10	186	28	20	22	28	1.99
361779--361916	64	2.2	64	82	12	160	29	20	21	28	1.98
361733--361968	110	2.1	110	84	10	306	28	19	22	28	1.98
364583--364662	23	3.5	22	72	14	65	23	25	26	25	2.00
371207--371268	20	3.1	19	79	9	70	35	22	8	33	1.84
379090--379221	68	2.0	67	84	4	176	37	14	17	30	1.89
383909--383945	2	18.5	2	100	0	74	48	0	0	51	1.00
385921--385961	7	5.9	7	82	0	55	82	0	4	12	0.81
386684--386730	18	2.5	19	75	3	51	51	25	8	14	1.71
386726--386785	21	3.2	21	62	37	55	40	21	15	23	1.91
386714--386799	35	2.5	35	100	0	172	43	23	12	20	1.86
388649--388681	7	4.9	7	88	7	50	24	0	0	75	0.80
432697--432780	35	2.4	35	83	0	105	34	1	17	46	1.56
435674--435711	20	1.9	20	88	0	58	15	10	42	31	1.81
435741--435780	20	2.0	21	90	5	64	27	20	17	35	1.95
448835--448875	3	14.7	3	80	14	52	34	0	0	65	0.93
448834--448875	8	5.1	8	83	13	50	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450670--450726	20	2.7	20	86	10	69	26	22	19	31	1.98
454363--454419	26	2.2	26	96	0	105	45	12	3	38	1.59
454759--454809	18	2.6	20	90	9	79	21	17	23	37	1.94
455447--455473	10	2.7	10	100	0	54	62	0	37	0	0.95
458962--459006	19	2.3	20	85	11	67	15	17	11	55	1.68
459577--459897	164	2.0	159	95	4	581	33	22	11	33	1.90
460425--460476	13	4.0	13	83	16	72	69	9	21	0	1.17
461831--461907	32	2.5	31	78	21	81	33	15	12	37	1.86
462905--463076	91	1.9	91	85	4	240	22	26	22	28	1.99
463825--463980	81	1.9	82	84	1	206	23	35	16	25	1.95
463825--464005	81	2.2	82	82	2	204	23	35	16	24	1.95
469580--469643	29	2.2	30	83	8	78	57	1	1	39	1.17
469631--469664	16	2.2	15	89	5	50	52	5	2	38	1.41
471594--471642	24	2.0	24	88	7	73	26	2	4	67	1.19
471602--471655	24	2.2	25	83	3	65	33	3	3	59	1.33
476218--476280	32	2.0	32	96	0	117	28	22	11	38	1.88
480091--480120	7	4.3	7	91	0	51	13	23	0	63	1.29
480077--480120	21	2.0	21	86	4	61	18	18	0	63	1.31
480094--480122	14	2.1	14	100	0	58	17	20	0	62	1.33
482023--482072	12	3.5	15	78	18	54	38	0	0	62	0.96
482039--482079	3	13.7	3	89	0	64	39	0	0	60	0.96
482039--482079	12	3.4	12	96	0	73	39	0	0	60	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494921--494974	7	7.9	7	84	12	76	85	0	14	0	0.61
494918--494974	13	4.2	13	82	14	71	84	0	15	0	0.63
494918--494973	22	2.6	23	86	13	75	85	0	14	0	0.59
495973--496544	94	6.1	93	92	2	945	29	15	20	34	1.93
497375--498225	113	7.5	113	88	2	1251	37	14	18	29	1.90
497375--498225	226	3.8	226	93	1	1445	37	14	18	29	1.90
497940--497998	19	3.0	20	66	14	59	45	11	22	20	1.83
497941--498005	20	3.3	20	68	12	62	41	12	21	24	1.87
498628--498680	3	17.7	3	84	7	72	37	0	0	62	0.96
502385--502456	8	9.9	8	75	17	68	72	0	16	11	1.12
502385--502454	14	4.9	14	83	16	83	71	0	17	11	1.14
502401--502490	20	4.5	19	78	15	94	74	0	17	7	1.05
502398--502446	13	3.6	13	86	8	62	73	0	16	10	1.09
502410--502487	14	5.7	14	73	22	60	76	0	16	6	0.98
503332--503629	105	2.8	105	87	2	425	38	17	21	22	1.93
503739--503803	21	3.2	21	68	27	68	47	6	26	20	1.73
503716--503810	39	2.4	39	96	0	172	46	9	23	21	1.80
505342--505396	27	2.1	25	83	12	67	23	1	7	67	1.26
506949--506991	15	2.8	15	85	3	50	69	0	2	27	1.00
509764--509977	105	2.0	106	92	2	360	29	14	7	48	1.70
510570--511014	7	60.3	7	94	5	683	13	27	13	45	1.81
510570--511014	15	30.1	14	93	6	683	13	27	13	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510571--511014	22	20.0	22	95	4	637	13	27	13	45	1.81
518010--518081	29	2.4	28	81	6	72	43	9	16	30	1.80
518415--518439	13	1.9	13	100	0	50	36	0	0	64	0.94
518904--519405	251	2.0	251	99	0	995	28	19	17	34	1.95
531454--531534	19	3.9	21	75	12	69	24	32	25	17	1.97
533505--533551	24	2.0	24	83	8	60	14	4	27	53	1.60
538969--539002	6	5.7	6	100	0	68	17	17	0	64	1.29
539973--540127	77	2.0	78	93	1	267	36	13	12	38	1.82
541116--541165	23	2.1	24	88	3	75	50	0	4	46	1.20
541263--541315	18	2.8	18	82	5	70	41	0	0	58	0.98
541400--541446	17	2.6	18	83	10	60	46	0	0	53	1.00
541495--541564	18	3.3	21	73	22	67	51	2	0	45	1.16
543592--543624	7	4.7	7	89	10	50	42	24	0	33	1.55
544315--544375	24	2.5	24	100	0	122	26	22	26	24	2.00
544364--544411	18	2.7	18	100	0	96	31	16	29	22	1.96
545925--545960	18	2.0	18	89	10	56	27	22	5	44	1.75
547907--547944	15	2.7	14	88	8	51	42	23	5	28	1.76
547907--547944	7	5.4	7	84	9	51	42	23	5	28	1.76
556614--556667	19	2.6	20	77	14	56	35	24	20	20	1.96
558353--558405	27	2.0	26	82	14	63	33	0	18	47	1.49
562713--562744	16	1.9	17	93	6	57	46	0	3	50	1.17
567855--567894	22	1.9	22	85	10	57	40	10	12	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568715--568753	19	2.1	19	100	0	78	25	15	10	48	1.76
580805--580857	21	2.5	21	81	6	72	22	24	16	35	1.95
580832--580923	41	2.2	41	82	0	121	35	19	19	25	1.95
580847--580918	20	3.5	20	88	3	108	40	18	22	19	1.92
581440--581532	33	2.8	33	86	4	116	44	23	20	11	1.85
581434--581502	19	3.8	19	66	26	60	44	21	21	11	1.84
581528--581621	20	5.1	19	74	17	90	12	23	19	44	1.85
583308--583492	91	2.0	89	88	6	271	22	11	17	48	1.79
585185--585221	14	2.6	14	88	12	58	29	0	21	48	1.50
585328--585445	19	6.7	19	72	20	96	46	20	19	13	1.83

Tables:   1   2   3