genome.fa.s7930.2.7.7.80.10.50.1000.3.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: VEPZ01007930.1 Hibiscus syriacus cultivar Beakdansim tig00110338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2280901

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

This is table  3  of  12  ( 1413 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)
365862--365904	8	5.0	8	84	15	59	11	2	2	83	0.83
367744--367908	76	2.2	75	87	3	242	30	2	10	56	1.47
367866--367928	19	3.2	19	75	4	54	31	0	12	55	1.37
368625--368676	16	3.2	17	81	10	65	26	1	0	71	0.97
369145--369238	46	2.0	46	85	0	125	35	22	24	18	1.96
369145--369238	23	4.1	23	79	5	91	35	22	24	18	1.96
381210--381273	23	2.8	23	90	0	101	26	26	28	18	1.98
381284--381506	103	2.2	103	100	0	446	36	25	13	25	1.91
382248--382469	64	3.5	64	83	6	240	27	19	20	32	1.97
386894--386957	23	2.8	23	90	0	101	26	26	28	18	1.98
386968--387185	101	2.2	100	93	4	368	36	24	13	25	1.92
388043--388075	17	1.9	17	93	0	57	33	24	18	24	1.97
390127--390323	95	2.1	96	96	1	362	32	20	3	43	1.68
393966--394039	34	2.2	34	90	0	112	37	12	6	43	1.69
393967--394039	17	4.3	17	78	13	69	38	12	6	42	1.69
396882--396915	17	2.1	16	88	5	50	58	0	2	38	1.13
397409--397443	18	1.9	18	88	0	52	65	5	14	14	1.44
407856--407926	20	3.6	20	71	14	58	28	12	30	28	1.93
408417--408496	23	3.5	23	80	0	88	21	18	25	35	1.96
414522--414655	20	6.7	20	83	5	135	32	25	18	23	1.97
414532--414629	41	2.4	40	83	5	108	35	24	17	22	1.95
415174--415254	19	4.5	19	73	16	73	46	24	17	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415250--415415	20	9.1	19	73	16	136	12	21	22	43	1.85
415255--415331	39	2.0	39	89	5	120	9	18	25	46	1.78
415303--415390	33	2.6	33	90	1	131	11	23	25	39	1.88
417416--417508	42	2.2	42	82	0	114	21	38	16	23	1.92
418897--418932	14	2.6	14	95	0	63	30	0	25	44	1.54
419111--419261	19	8.7	19	62	21	62	15	21	20	43	1.88
419115--419241	33	3.9	32	83	8	175	14	21	19	44	1.87
419108--419240	66	2.0	66	94	0	230	16	21	19	42	1.89
421047--421093	24	2.0	24	91	0	76	34	17	19	29	1.94
421051--421102	24	2.2	24	82	0	59	36	19	17	26	1.94
422144--422214	20	3.5	20	96	0	133	35	26	22	15	1.94
422240--422318	33	2.4	34	84	2	97	13	21	20	44	1.86
422283--422320	20	1.9	20	88	0	58	15	18	23	42	1.89
422406--422442	14	2.6	14	86	0	56	48	21	0	29	1.50
424313--424379	19	3.5	19	83	4	89	37	23	23	14	1.93
424368--424425	14	3.9	14	77	16	62	48	24	17	10	1.78
424352--424430	32	2.4	33	93	2	133	46	22	18	11	1.81
424459--424516	14	3.9	14	79	16	71	10	17	24	48	1.78
424442--424532	32	2.8	33	93	3	157	13	18	20	47	1.82
424517--424560	20	2.2	20	84	4	54	20	25	18	36	1.95
424526--424571	20	2.3	20	88	0	65	15	21	26	36	1.93
425052--425096	18	2.5	18	88	0	72	13	15	44	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426387--426424	20	1.9	20	88	0	58	50	21	15	13	1.78
426674--426717	22	2.0	22	95	0	79	18	15	45	20	1.85
426905--426998	20	4.7	20	80	2	89	23	18	24	34	1.96
426885--426999	20	5.7	20	78	5	88	23	17	23	35	1.95
426988--427080	20	4.5	21	78	4	100	17	24	18	39	1.91
426927--427061	41	3.3	41	82	4	139	19	21	20	38	1.94
426988--427080	41	2.3	41	100	0	186	17	24	18	39	1.91
429761--429795	2	18.0	2	94	5	63	0	48	0	51	1.00
430354--430389	18	2.0	18	100	0	72	33	16	5	44	1.71
435740--435764	2	12.5	2	100	0	50	48	0	0	52	1.00
439643--439674	14	2.3	14	94	0	55	78	0	3	18	0.89
440409--440460	21	2.4	21	80	6	59	42	3	3	50	1.39
440412--440452	21	2.0	21	90	0	64	43	2	4	48	1.37
441492--441545	19	2.9	18	76	17	56	22	3	0	74	0.98
441512--441539	11	2.5	11	100	0	56	25	0	0	75	0.81
441488--441535	15	3.4	14	85	8	53	25	2	0	72	0.95
447150--447266	36	3.2	36	93	1	198	30	19	11	38	1.87
447179--447368	102	1.9	102	86	2	274	28	19	11	41	1.85
447281--447438	36	4.4	36	82	8	189	27	19	12	40	1.87
447152--447531	172	2.2	173	94	1	674	27	18	13	41	1.87
447364--447549	101	1.9	100	84	5	250	27	17	14	39	1.89
447543--447701	34	4.8	34	77	10	150	41	18	10	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449205--449239	5	6.8	5	93	6	61	17	2	0	80	0.84
449207--449237	16	1.9	16	100	0	62	19	3	0	77	0.90
449263--449325	14	4.8	13	75	14	51	20	3	3	73	1.12
462150--462195	18	2.5	18	82	10	58	73	10	2	13	1.17
464610--464723	53	2.2	53	83	3	149	39	11	21	27	1.88
464630--464752	53	2.3	53	83	4	142	41	11	22	24	1.87
464793--464841	13	3.6	13	81	10	62	46	16	14	22	1.82
464806--464951	50	2.9	51	79	10	158	41	13	19	26	1.88
464936--465056	36	3.3	36	73	9	129	36	8	19	35	1.82
464922--465094	73	2.4	72	88	4	258	37	10	19	32	1.85
464930--465093	36	4.5	36	71	9	118	38	10	18	32	1.85
465221--465260	21	1.9	22	85	10	57	45	10	12	32	1.75
466853--466882	12	2.4	13	88	11	53	40	23	6	30	1.80
471525--471625	52	1.9	52	82	9	125	62	4	5	26	1.39
472203--472228	12	2.2	12	100	0	52	0	23	0	76	0.78
475358--475404	15	3.1	15	76	14	51	46	2	0	51	1.13
482137--482191	20	2.8	20	94	0	92	21	18	21	38	1.94
482192--482686	186	2.7	186	92	0	819	36	15	22	26	1.93
483040--483100	25	2.5	25	97	2	115	24	26	26	22	2.00
483040--483108	25	2.8	23	93	4	75	24	27	26	21	1.99
486261--486457	76	2.6	75	92	2	317	25	1	11	61	1.38
487071--487127	29	2.0	28	82	3	69	26	3	1	68	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487611--487731	64	1.9	63	84	3	163	25	19	25	28	1.99
488400--488496	16	6.1	16	68	24	55	50	2	2	45	1.25
488426--488546	13	9.4	13	70	15	72	47	3	4	45	1.38
488437--488472	18	1.9	19	88	5	56	47	2	0	50	1.15
488580--488621	17	2.5	17	85	11	52	40	0	0	59	0.97
488733--488770	20	2.0	20	89	5	60	50	0	23	26	1.50
488702--488764	27	2.3	27	83	5	74	46	0	26	26	1.54
488984--489047	2	32.5	2	96	3	121	48	0	0	51	1.00
489147--489172	7	3.7	7	100	0	52	57	26	0	15	1.38
489118--489164	21	2.2	20	82	10	58	57	21	0	21	1.41
489204--489268	7	9.3	7	77	0	58	50	29	0	20	1.48
489204--489264	21	2.9	21	87	0	86	50	29	0	19	1.48
489617--489664	20	2.5	20	86	6	64	47	6	6	39	1.54
489637--489688	15	3.4	15	89	2	77	51	7	1	38	1.42
489746--489789	7	6.3	7	83	0	52	54	31	0	13	1.39
489746--489789	21	2.1	21	91	0	70	54	31	0	13	1.39
490260--490338	7	11.3	7	79	5	72	54	24	0	21	1.45
490500--490549	23	2.1	24	92	3	84	50	4	0	46	1.20
490820--490877	16	3.6	16	80	0	62	53	12	17	17	1.73
492716--492742	14	1.9	14	100	0	54	51	0	0	48	1.00
502462--502492	2	15.5	2	100	0	62	48	0	0	51	1.00
503660--503690	15	2.1	15	100	0	62	19	12	67	0	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508601--508699	21	4.8	20	72	6	72	36	23	19	21	1.95
508667--508857	20	9.5	20	83	3	195	35	26	18	19	1.95
508686--508859	60	2.9	60	83	5	235	34	27	18	20	1.95
509246--509302	14	3.7	14	70	20	51	8	24	21	45	1.80
509236--509306	33	2.2	33	97	0	133	9	23	18	47	1.78
509234--509284	14	3.0	18	70	24	56	9	23	21	45	1.82
509386--509481	21	4.7	21	77	10	108	47	17	20	13	1.81
509531--509594	20	3.1	21	82	6	87	10	26	15	46	1.79
511478--511550	31	2.2	33	88	7	105	43	26	19	10	1.83
511525--511564	14	2.9	14	88	0	62	47	25	17	10	1.78

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