genome.fa.s8128.2.7.7.80.10.50.1000.3.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: 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  3  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)
553377--553430	17	3.1	17	81	7	65	62	0	1	35	1.06
553646--554041	133	3.0	133	82	3	422	28	16	19	34	1.94
554269--554298	13	2.2	14	94	5	53	43	6	6	43	1.57
554351--554391	21	2.0	21	86	13	59	29	19	19	31	1.96
554492--555078	221	2.6	221	82	8	648	34	16	16	32	1.91
562396--562465	29	2.4	31	79	15	87	61	5	14	18	1.52
562674--562861	66	2.9	66	91	2	290	50	3	13	32	1.60
562674--562861	33	5.8	32	88	5	261	50	3	13	32	1.60
564249--564317	3	22.7	3	73	8	59	60	0	2	36	1.11
564253--564313	13	4.6	14	74	10	58	59	0	3	37	1.14
564281--564316	16	2.2	16	100	0	72	63	0	0	36	0.94
564448--564514	20	3.3	20	70	15	57	56	0	0	43	0.99
564465--564496	16	2.1	15	94	5	55	56	0	0	43	0.99
569786--569825	20	2.0	20	85	9	55	17	10	25	47	1.78
581356--581500	61	2.3	65	83	8	183	26	28	14	30	1.95
602657--602736	35	2.3	35	95	2	142	25	6	15	53	1.64
605518--605574	2	28.5	2	100	0	114	49	0	0	50	1.00
607345--607442	45	2.2	45	81	9	110	25	21	7	45	1.77
607355--607447	45	2.0	46	84	10	120	24	20	6	48	1.73
607355--607470	45	2.6	46	78	9	114	22	18	6	51	1.70
607514--608603	4	275.2	4	97	2	2069	50	25	0	24	1.50
609123--609328	60	3.5	60	95	0	360	30	20	11	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609368--609650	79	3.6	79	86	2	408	28	22	11	36	1.89
609328--609650	158	2.1	157	87	4	463	28	22	11	38	1.88
610034--610089	22	2.6	21	75	5	58	28	26	14	30	1.95
610128--610203	20	3.8	20	81	11	84	26	28	15	28	1.96
610148--610203	22	2.7	22	89	8	82	25	26	17	30	1.97
611991--612025	18	2.0	17	88	5	52	77	0	8	14	0.99
618962--618995	17	2.1	16	88	5	50	76	0	8	14	1.01
621909--621948	17	2.4	17	91	0	62	37	15	2	45	1.59
623536--623577	3	14.0	3	100	0	84	66	0	0	33	0.92
623576--623619	3	14.7	3	100	0	88	34	0	0	65	0.93
624561--624590	9	3.4	9	95	4	53	73	0	16	10	1.09
627832--627876	20	2.2	20	100	0	90	44	11	31	13	1.78
628522--628546	13	1.9	13	100	0	50	48	12	0	40	1.40
628822--628856	17	1.9	18	88	11	54	68	8	20	2	1.29
628822--628857	18	1.9	19	88	5	56	69	8	19	2	1.27
628835--628873	20	2.0	19	85	5	51	76	7	12	2	1.09
630074--630262	65	3.0	65	86	3	260	31	10	14	42	1.80
630389--630794	131	3.1	131	79	5	372	26	30	18	24	1.98
630984--631009	3	8.7	3	100	0	52	34	0	0	65	0.93
630982--631022	9	4.6	9	87	0	55	43	0	0	56	0.99
632882--632910	15	1.9	15	100	0	58	6	0	10	82	0.83
634336--634362	7	3.9	7	100	0	54	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638834--638876	2	21.5	2	100	0	86	51	0	0	48	1.00
642401--642986	54	10.9	54	80	1	602	31	22	16	30	1.95
646006--646051	17	2.7	17	89	0	74	15	23	23	36	1.93
650653--650750	42	2.4	41	81	5	117	30	22	24	22	1.99
650884--650965	41	2.0	41	85	2	110	31	18	21	28	1.97
650382--650991	240	2.5	239	85	7	749	33	18	18	29	1.94
651151--651334	58	3.2	58	82	3	226	39	16	8	35	1.79
651065--651334	58	4.6	59	76	7	223	41	17	8	33	1.79
660606--660641	18	1.9	19	94	5	65	61	0	0	38	0.96
660620--660654	12	2.8	13	91	4	54	62	0	2	34	1.10
660620--660659	13	3.2	12	86	10	53	62	0	5	32	1.17
661429--661535	41	2.6	41	87	1	151	35	17	19	27	1.94
661690--661844	59	2.6	59	84	5	181	42	14	9	33	1.77
661731--661844	59	1.9	59	90	0	183	43	14	8	32	1.77
663407--663449	2	22.0	2	95	4	79	48	0	0	51	1.00
666342--666366	13	1.9	13	100	0	50	16	16	28	40	1.89
671859--671930	2	36.0	2	100	0	144	50	0	0	50	1.00
673108--673161	21	2.6	21	88	2	83	31	27	16	24	1.96
676275--676302	4	7.0	4	100	0	56	75	0	25	0	0.81
676875--676925	20	2.5	21	78	9	61	31	13	29	25	1.94
677785--677909	23	5.3	23	74	4	99	25	20	22	31	1.98
682468--682510	23	1.9	23	85	4	61	9	9	23	58	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682967--683021	21	2.6	21	91	0	83	34	7	20	38	1.80
683916--684046	23	5.7	23	83	1	136	22	20	23	32	1.98
683932--684041	47	2.4	47	84	1	141	23	20	25	30	1.98
684028--684080	24	2.2	24	83	3	72	28	18	18	33	1.95
690036--690130	23	4.1	23	82	9	113	23	12	26	37	1.90
690092--690151	24	2.5	24	86	0	75	30	11	21	36	1.89
690863--690902	16	2.7	14	78	14	53	45	32	0	22	1.53
703581--703614	2	17.0	2	100	0	68	50	0	0	50	1.00
704573--704613	21	2.0	21	95	0	73	41	17	0	41	1.49
713163--713189	3	9.0	3	100	0	54	66	0	33	0	0.92
713852--713900	21	2.2	22	78	7	55	36	0	2	61	1.08
716733--716796	3	21.3	3	90	0	101	35	3	0	60	1.12
717724--717756	2	17.0	2	87	6	50	54	0	0	45	0.99
724510--724620	38	2.9	37	80	9	125	30	19	12	36	1.89
724814--724947	67	2.0	67	83	2	171	24	21	12	41	1.88
724974--725337	134	2.8	132	84	5	443	25	32	18	22	1.97
731629--731797	36	4.8	36	83	5	193	33	10	11	44	1.74
731621--731797	18	9.9	18	81	6	173	33	10	11	44	1.74
731618--731797	53	3.4	53	82	6	213	33	10	11	44	1.74
731616--731784	89	1.9	91	90	4	272	33	9	11	45	1.73
736677--736711	17	2.1	17	94	0	61	42	22	2	31	1.68
737867--737909	7	6.1	7	88	0	68	16	41	9	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
737867--737905	14	2.8	14	100	0	78	15	43	7	33	1.75
749696--749746	20	2.5	20	93	0	93	19	33	25	21	1.97
754618--754709	21	4.2	22	72	14	66	27	22	25	25	2.00
757378--757535	65	2.5	63	83	8	194	31	22	17	28	1.97
776051--776129	41	1.9	41	89	2	122	21	22	22	32	1.98
777011--777226	44	4.9	43	86	2	270	25	20	12	41	1.87
781962--782012	20	2.5	20	87	0	75	27	19	19	33	1.96
786279--786677	44	9.0	44	88	0	546	25	20	11	42	1.86
788079--788167	42	2.1	41	85	2	115	24	19	20	35	1.95
788523--788563	3	13.3	3	85	14	57	34	0	0	65	0.93
793446--793533	41	2.2	41	82	8	101	34	25	15	25	1.95
793483--793705	83	2.7	83	85	0	295	30	18	19	31	1.96
793463--793907	41	10.9	41	68	13	182	31	19	19	30	1.96
793754--793947	41	4.7	41	74	10	162	35	19	19	26	1.95
797970--798238	86	3.1	83	74	7	225	29	26	19	24	1.98
797984--798238	43	6.0	42	78	3	204	30	26	19	23	1.98
800644--800697	8	6.8	8	75	23	51	57	0	0	42	0.98
800648--800697	5	10.0	5	83	16	68	58	0	0	42	0.98
800648--800693	11	4.3	11	91	2	76	58	0	0	41	0.98
800958--801105	43	3.4	43	71	14	133	26	20	16	36	1.94
805517--805555	20	2.0	20	84	0	51	23	7	23	46	1.78
805737--805797	20	2.9	21	87	7	79	18	26	34	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
818789--818833	22	2.0	22	91	8	74	13	15	15	55	1.69
820782--820825	16	2.7	16	92	3	70	18	25	18	38	1.92
823186--823538	5	72.2	5	90	8	577	59	0	0	39	1.00
823671--823701	14	2.1	15	94	5	55	61	0	3	35	1.12
823976--824050	31	2.4	31	84	0	96	32	20	14	33	1.92
837049--837082	15	2.2	16	89	5	52	47	5	32	14	1.69
837948--838011	23	2.8	22	85	4	83	28	25	25	21	1.99
838019--838244	103	2.2	103	95	1	400	37	25	12	24	1.91
838723--838760	20	1.9	20	88	0	58	10	31	34	23	1.89
849614--849639	11	2.4	11	100	0	52	30	19	7	42	1.79

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