genome.fa.s8460.2.7.7.80.10.50.1000.4.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

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

This is table  4  of  15  ( 1744 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)
529312--529374	23	2.7	23	90	0	90	38	19	6	36	1.77
529725--529778	23	2.5	20	75	18	54	42	18	1	37	1.61
529740--529802	23	2.7	23	90	0	90	38	19	6	36	1.77
530156--530209	23	2.5	20	75	18	54	42	18	1	37	1.61
530171--530233	23	2.7	23	90	0	90	38	19	6	36	1.77
529032--531189	431	5.0	431	99	0	4260	38	13	8	39	1.74
530587--530640	23	2.5	20	75	18	54	42	18	1	37	1.61
529032--531189	859	2.5	859	99	0	4254	38	13	8	39	1.74
531013--531066	23	2.5	20	75	18	54	42	18	1	37	1.61
531028--531090	23	2.7	23	90	0	90	38	19	6	36	1.77
533648--534694	184	5.7	184	97	1	1968	34	15	15	35	1.89
536063--536113	3	17.0	3	83	0	66	25	33	3	37	1.74
536063--536125	12	5.2	12	90	0	81	23	33	6	36	1.80
536067--536128	18	3.4	18	88	0	88	20	33	6	38	1.79
536067--536128	6	10.3	6	83	0	61	20	33	6	38	1.79
537591--539205	397	4.1	397	97	1	2963	32	15	14	37	1.88
537591--539205	594	2.7	594	96	1	2918	32	15	14	37	1.88
539271--539350	38	2.1	38	83	2	99	55	10	2	32	1.47
539287--539350	19	3.4	19	95	0	110	56	9	3	31	1.47
541145--541210	33	2.0	33	87	0	96	24	45	1	28	1.62
543332--543384	24	2.2	24	83	6	63	26	7	13	52	1.66
543529--543575	20	2.4	19	79	10	58	19	17	8	55	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543692--543741	20	2.5	20	81	12	75	22	16	10	52	1.73
545795--545885	42	2.2	42	94	2	157	50	3	3	42	1.35
545796--545871	15	5.3	15	71	15	61	52	2	2	42	1.29
545879--545918	20	2.0	21	90	5	64	37	5	2	55	1.35
547509--547555	17	2.6	18	76	6	51	29	0	4	65	1.11
547995--548134	69	2.0	69	95	0	253	47	19	10	23	1.79
550722--550769	2	24.0	2	100	0	96	50	0	0	50	1.00
550817--550896	29	2.8	28	75	16	83	38	2	1	57	1.20
558270--558330	31	2.0	31	100	0	122	34	22	9	32	1.87
559547--559586	21	1.9	21	85	10	55	50	0	2	47	1.14
559983--560016	6	5.7	6	92	0	50	23	2	73	0	0.97
559983--560024	12	3.4	12	86	3	57	26	2	71	0	0.98
567094--567147	17	3.2	16	76	7	54	29	0	3	66	1.09
569246--569343	32	3.0	32	83	8	117	54	4	4	37	1.39
569246--569343	31	3.0	33	83	8	128	54	4	4	37	1.39
569247--569350	34	3.2	32	83	9	129	54	4	3	36	1.40
569706--570318	128	4.9	128	93	3	987	32	20	24	22	1.98
570387--570427	8	5.2	8	82	5	57	36	29	0	34	1.58
573467--573614	45	3.3	44	80	8	165	35	8	15	40	1.77
573797--573950	60	2.6	60	82	4	170	36	7	12	44	1.70
574003--574107	39	2.7	39	79	2	104	36	6	11	45	1.67
574155--574321	88	1.9	89	86	3	239	38	8	10	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574242--574451	39	5.4	39	89	2	269	35	7	11	46	1.67
584203--584235	3	11.0	3	100	0	66	66	0	33	0	0.92
584893--585344	226	2.0	226	100	0	904	35	13	16	34	1.87
595508--595545	20	1.9	20	88	0	58	36	0	2	60	1.11
597016--597270	113	2.2	116	87	6	376	42	9	4	44	1.55
597180--597221	20	2.2	19	83	12	50	28	7	4	59	1.44
599849--599889	18	2.3	18	95	0	73	60	4	4	29	1.38
600597--600634	19	2.0	20	94	5	69	68	0	0	31	0.90
601605--601648	22	2.0	23	86	4	63	40	0	0	59	0.98
604104--604159	16	3.6	16	73	11	62	37	3	12	46	1.59
605512--605563	28	2.0	27	85	11	72	34	28	11	25	1.91
607645--607688	14	3.1	14	81	12	54	29	0	0	70	0.88
608276--608314	13	3.1	13	77	7	53	64	5	7	23	1.40
615651--615689	20	2.0	20	94	0	69	38	30	17	12	1.88
615651--615689	9	4.1	9	81	12	51	38	30	17	12	1.88
615696--615799	29	3.6	29	93	0	163	16	29	31	22	1.95
616112--616162	26	2.0	26	88	3	77	45	11	35	7	1.70
616319--616407	41	2.2	41	78	8	92	42	1	10	46	1.45
616347--616478	45	3.0	45	80	14	134	40	0	12	47	1.41
616519--616595	34	2.3	33	81	14	88	40	0	12	46	1.42
616641--616687	16	3.0	16	84	9	53	29	0	10	59	1.31
616662--616692	15	2.1	14	94	5	53	38	0	6	54	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618845--618877	17	1.9	17	93	0	57	45	12	6	36	1.66
618862--618930	22	3.0	22	73	19	77	47	7	4	40	1.51
619113--619148	11	3.4	11	88	3	56	58	5	0	36	1.22
619085--619436	14	27.1	13	71	18	163	44	9	2	43	1.48
619145--619436	26	11.7	26	75	13	247	43	9	2	44	1.50
619101--619494	124	3.2	124	93	1	643	45	9	2	43	1.47
619454--619501	23	2.1	23	84	7	62	52	2	2	43	1.24
622320--622378	26	2.3	24	78	16	64	40	3	8	47	1.51
623120--623232	50	2.4	47	80	15	128	49	7	0	41	1.38
623192--623254	28	2.2	30	91	5	103	57	11	0	31	1.34
623196--623261	28	2.4	28	85	10	98	56	10	0	33	1.34
623231--623279	21	2.3	21	85	3	71	53	16	0	30	1.43
623646--623738	21	4.3	21	78	15	100	29	26	27	16	1.97
623845--623882	20	1.9	20	94	0	67	21	50	13	15	1.78
623871--623908	20	1.9	20	88	0	58	26	50	7	15	1.72
623968--624042	29	2.6	29	95	0	132	17	36	30	16	1.91
625872--625914	3	14.3	3	90	0	59	67	0	32	0	0.91
626789--626834	24	1.9	24	86	0	65	23	26	21	28	1.99
635123--635160	18	2.1	19	85	5	51	15	28	2	52	1.56
638592--638625	17	2.0	17	88	0	50	47	2	0	50	1.16
640009--640091	3	29.0	3	74	16	70	63	0	0	36	0.94
640008--640084	15	5.0	17	77	19	89	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640284--640984	121	5.9	122	84	7	744	27	17	14	40	1.88
640674--640986	112	2.8	111	84	6	391	28	18	14	38	1.90
643019--643184	67	2.5	68	87	2	253	31	23	15	29	1.95
656417--656446	15	2.0	15	100	0	60	20	26	13	40	1.89
659568--659628	26	2.2	29	80	19	76	62	0	4	32	1.17
659573--659627	28	2.0	28	86	13	80	61	0	3	34	1.13
660417--660454	2	19.0	2	94	0	67	47	0	0	52	1.00
661842--661941	3	34.0	3	80	11	118	65	0	0	35	0.93
661842--661940	25	3.9	24	84	11	119	64	0	0	35	0.94
669245--669286	21	1.9	23	85	9	61	45	7	23	23	1.78
670049--670110	21	3.0	21	95	0	106	25	20	25	27	1.99
671100--671138	19	2.0	20	85	5	53	30	30	7	30	1.85
671221--671296	29	2.6	29	100	0	152	48	0	13	38	1.42
672257--672290	11	3.0	11	95	4	59	55	8	26	8	1.59
673808--673835	2	14.0	2	100	0	56	50	0	0	50	1.00
675566--675607	18	2.3	18	95	0	75	40	28	9	21	1.84
685446--685481	18	1.9	19	88	5	56	22	36	19	22	1.95
698471--698554	25	3.5	24	75	22	70	27	7	0	65	1.18
698482--698541	27	2.3	24	81	13	66	23	8	0	68	1.16
698539--698598	2	30.5	2	88	9	88	45	3	0	51	1.17
698639--698752	37	3.3	35	74	16	123	26	5	1	66	1.22
698639--698774	17	8.2	17	70	19	74	26	5	1	66	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698704--698798	25	3.9	24	70	16	70	24	4	1	70	1.11
698704--698825	29	4.3	28	69	23	71	25	4	1	68	1.16
698722--698765	16	3.1	14	87	9	54	20	6	0	72	1.07
698754--698837	36	2.3	37	82	11	95	25	4	2	67	1.22
698973--698998	11	2.4	11	100	0	52	15	0	0	84	0.62
698954--698996	19	2.2	20	80	19	56	18	2	2	76	1.00
698991--699044	26	2.0	27	82	10	67	12	7	7	72	1.28
698973--699042	26	3.0	22	70	23	54	14	4	5	75	1.14
700531--700627	18	5.6	17	71	18	76	43	9	11	36	1.73
700950--700990	2	20.5	2	100	0	82	48	0	0	51	1.00

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