genome.fa.s8425.2.7.7.80.10.50.1000.3.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1340 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)
443699--443730	11	2.9	11	100	0	64	75	9	0	15	1.05
449543--449593	21	2.3	23	77	12	63	54	1	31	11	1.47
449963--450024	23	2.7	23	92	0	106	29	19	19	32	1.96
450856--450909	27	2.0	27	88	0	81	46	24	7	22	1.77
452094--452144	23	2.2	23	89	0	75	41	25	11	21	1.87
452595--452740	65	2.2	66	85	1	195	30	14	21	32	1.93
454726--454819	40	2.3	40	88	0	134	39	12	13	34	1.83
455203--455249	2	23.0	2	95	4	85	48	0	2	48	1.13
460606--460649	20	2.2	20	95	0	79	29	0	38	31	1.58
462234--462295	19	3.3	19	75	2	54	38	6	22	32	1.80
462313--462356	19	2.3	19	80	7	54	54	0	25	20	1.45
477587--477664	31	2.5	31	78	13	88	20	10	15	53	1.70
478988--479094	31	3.5	31	93	0	169	53	17	11	17	1.72
482441--482501	27	2.3	27	88	2	88	31	1	6	60	1.32
487952--487992	18	2.3	18	95	0	73	19	14	31	34	1.92
489671--489711	18	2.3	18	91	4	66	63	2	4	29	1.28
490494--490536	17	2.5	17	80	0	59	60	2	0	37	1.10
501629--501813	60	3.1	61	75	5	162	34	21	3	40	1.71
506094--506182	32	2.8	31	81	10	117	37	5	10	47	1.61
510760--510802	18	2.4	18	96	0	77	23	18	9	48	1.76
510819--510946	60	2.1	60	83	8	154	31	25	5	38	1.78
511083--511243	60	2.7	60	80	10	152	40	4	24	29	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513762--513858	41	2.3	43	82	3	117	30	19	14	35	1.92
513762--513866	43	2.5	44	80	7	119	31	18	15	35	1.91
514415--514465	21	2.4	21	96	0	93	31	17	11	39	1.86
517506--517820	42	7.6	42	76	9	274	33	16	20	30	1.94
517506--517819	122	2.5	120	78	9	301	33	16	19	30	1.94
518170--518195	5	5.2	5	100	0	52	0	19	57	23	1.40
519438--519786	168	2.1	168	96	0	635	33	10	17	38	1.83
520370--520559	64	3.1	63	65	21	170	41	11	18	28	1.85
520433--520666	53	4.2	53	70	15	168	41	11	19	26	1.86
522751--522819	29	2.2	32	80	16	83	28	10	5	55	1.56
528328--528400	30	2.4	30	95	0	128	23	17	20	38	1.93
528591--528629	17	2.4	17	95	4	71	43	0	5	51	1.24
538433--538469	20	1.9	19	89	10	58	45	10	24	18	1.81
542997--543043	20	2.3	21	85	10	71	53	0	19	27	1.45
551333--551373	21	2.0	21	85	9	57	46	0	17	36	1.48
553148--553776	81	7.8	81	90	1	924	30	24	10	34	1.90
553148--553776	240	2.6	241	88	4	937	30	24	10	34	1.90
553769--553802	17	1.9	17	88	5	50	29	8	2	58	1.43
553937--554082	57	2.6	57	92	0	247	36	19	9	34	1.84
554496--554547	20	2.6	20	84	6	61	23	23	17	36	1.95
554654--554705	20	2.6	20	84	6	61	23	23	17	36	1.95
554466--554794	158	2.1	158	98	0	640	26	21	13	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558969--559006	3	13.0	3	86	5	51	68	2	28	0	1.03
559476--559513	20	2.0	20	89	5	60	47	5	13	34	1.65
560644--560701	21	3.1	18	76	13	62	31	12	6	50	1.66
560661--560701	21	2.0	21	90	0	64	29	12	4	53	1.58
561053--561148	21	4.6	21	94	0	174	23	23	27	25	2.00
561053--561148	42	2.3	42	100	0	192	23	23	27	25	2.00
561177--561216	20	1.9	22	90	10	66	37	40	10	12	1.77
562294--562397	30	3.2	30	65	19	82	14	16	21	48	1.81
566456--566500	21	2.1	21	91	0	72	33	28	22	15	1.95
566993--567039	23	2.0	24	91	4	78	44	0	21	34	1.52
567217--567372	31	5.0	31	92	1	251	20	19	22	37	1.95
570642--570686	21	2.1	21	87	0	63	31	28	24	15	1.96
571180--571226	23	2.0	24	91	4	78	44	0	21	34	1.52
571404--571559	31	5.0	31	92	1	251	20	19	22	37	1.95
578949--578986	14	2.7	14	87	0	58	71	2	10	15	1.25
580409--580498	42	2.1	42	95	0	162	34	12	18	34	1.88
584885--584930	2	23.0	2	100	0	92	50	0	0	50	1.00
586788--586877	31	2.8	32	85	6	121	46	6	5	41	1.53
588118--588229	57	2.0	57	85	7	156	21	22	25	31	1.98
588733--588851	33	3.6	33	87	0	130	27	49	8	14	1.72
588766--588863	33	3.0	33	89	0	142	26	51	8	14	1.70
594511--594667	20	7.8	20	73	6	93	38	25	17	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594511--594667	41	3.9	41	70	11	126	38	25	17	19	1.93
594634--594843	20	10.5	20	78	6	183	37	24	18	20	1.94
595526--595572	24	2.0	24	83	8	60	25	12	21	40	1.89
595747--595771	12	2.1	12	100	0	50	72	0	28	0	0.86
598054--598289	19	13.4	19	78	17	278	46	18	21	13	1.83
598054--598311	33	7.5	34	82	14	282	46	18	22	13	1.83
598054--598311	52	4.9	52	87	7	371	46	18	22	13	1.83
598054--598311	105	2.5	105	89	6	375	46	18	22	13	1.83
598336--598414	19	4.4	19	80	16	105	13	22	17	45	1.84
598521--598557	14	2.6	14	91	0	65	45	21	0	32	1.52
600481--600609	19	7.3	19	75	17	125	45	28	17	8	1.77
600517--600609	33	2.8	32	91	4	150	46	27	18	7	1.76
600481--600609	52	2.5	52	74	14	140	45	28	17	8	1.77
600605--600739	19	7.6	19	76	16	137	10	19	24	45	1.81
600627--600683	14	3.7	14	77	20	60	8	21	24	45	1.80
600610--600702	33	2.8	33	98	0	177	9	20	22	47	1.79
600787--601162	93	4.1	93	98	0	727	46	19	12	22	1.83
602869--602958	14	5.7	14	72	23	72	42	23	24	10	1.84
602861--602975	33	3.5	33	95	0	212	45	20	23	10	1.82
602863--602980	19	7.1	18	69	24	80	44	21	23	11	1.84
602992--603048	14	3.7	14	75	20	60	10	24	22	42	1.85
602989--603053	33	2.0	33	96	0	121	10	24	23	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603032--603109	41	1.9	41	94	0	138	12	25	17	43	1.85
603033--603108	21	3.7	21	85	3	109	11	25	18	44	1.83
603188--603258	33	2.2	33	94	0	124	47	16	23	11	1.79
603440--603494	22	2.5	22	81	0	74	20	16	40	23	1.91
603641--603834	20	9.6	20	77	5	185	19	19	25	36	1.95
603643--603814	60	2.8	60	81	0	218	19	19	25	35	1.95
603801--603898	20	4.8	20	77	3	79	21	18	23	36	1.95
603801--603957	61	2.6	60	80	7	176	19	17	25	38	1.93
603801--603957	41	3.9	41	70	14	110	19	17	25	38	1.93
604583--604647	31	2.1	31	82	0	76	58	10	4	26	1.51
611377--611408	3	10.7	3	93	0	55	3	34	0	62	1.11
612759--612850	31	3.0	31	93	3	150	18	20	23	36	1.94
616736--616769	2	17.0	2	100	0	68	50	0	50	0	1.00
617217--617286	36	1.9	36	91	0	113	55	11	10	22	1.65
618307--618403	41	2.3	41	91	5	151	20	5	22	51	1.67
619538--619570	13	2.5	14	85	14	52	66	6	0	27	1.15
621137--621178	20	2.0	22	86	9	61	50	0	11	38	1.40
623012--623054	16	2.7	16	92	0	68	11	11	18	58	1.63
623122--623162	16	2.7	16	92	7	68	7	9	21	60	1.52
623498--623531	12	2.9	12	86	4	52	35	0	2	61	1.11
625293--625331	20	2.0	19	95	5	69	35	10	30	23	1.88
632498--632578	4	21.0	4	75	7	78	23	8	25	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632499--632578	8	9.9	8	88	8	117	23	8	26	41	1.83
633802--633839	17	2.2	17	90	0	58	26	5	2	65	1.27
637373--637411	21	1.9	20	89	5	60	79	10	10	0	0.94
637400--637443	15	2.8	17	83	12	51	72	9	18	0	1.10
638082--638152	22	3.2	22	87	0	106	35	22	12	29	1.91
639034--639138	36	2.9	36	88	5	158	24	23	14	37	1.92
639154--639238	36	2.4	36	84	4	100	25	21	12	40	1.89
639214--639317	31	3.2	31	67	17	93	30	20	13	35	1.91
639180--639338	67	2.4	67	89	4	241	32	20	11	36	1.88
640080--641122	105	10.0	105	91	3	1585	33	26	18	21	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12