genome.fa.s9596.2.7.7.80.10.50.1000.3.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: VEPZ01009596.1 Hibiscus syriacus cultivar Beakdansim tig00116975_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1846166

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 926 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)
392848--392925	21	3.7	21	94	0	129	41	17	21	19	1.91
412985--413035	20	2.5	21	77	22	56	39	1	3	54	1.30
414623--414656	2	17.5	2	87	6	52	44	0	2	52	1.16
414304--414716	211	2.0	202	87	7	598	30	7	5	56	1.50
414695--414737	17	2.5	18	77	14	54	27	4	0	67	1.10
414875--414917	14	3.1	14	83	12	54	20	4	0	74	1.00
416025--416058	10	3.4	10	87	0	50	20	5	0	73	1.04
426292--427087	106	7.4	105	84	6	1006	32	26	18	22	1.97
426294--427190	332	2.7	331	90	3	1333	32	26	18	22	1.97
427578--427628	20	2.5	21	77	22	56	39	1	3	54	1.30
428998--429037	14	3.1	13	85	7	55	40	0	5	55	1.22
428888--429298	201	2.0	208	89	6	642	30	8	5	56	1.50
429277--429327	17	2.8	18	85	8	68	23	3	0	72	1.01
429460--429497	13	2.9	14	88	11	55	18	5	0	76	0.97
430569--430699	33	4.0	33	92	0	208	35	19	8	37	1.82
435116--435147	2	16.0	2	100	0	64	50	0	0	50	1.00
439139--439257	61	2.0	61	85	6	161	28	21	15	33	1.95
439139--439260	20	6.0	21	75	12	103	28	22	16	32	1.95
440122--440175	24	2.2	24	93	0	90	20	18	20	40	1.91
442646--442718	20	3.6	20	68	17	69	34	23	17	24	1.96
442712--442842	19	7.7	19	68	23	94	46	18	22	12	1.82
442712--442838	33	3.8	33	93	0	209	46	18	22	12	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442730--442817	14	5.6	14	71	23	50	45	18	23	12	1.83
442848--442913	19	3.7	19	69	19	52	13	21	18	46	1.83
443020--443056	14	2.6	14	91	0	65	45	21	0	32	1.52
444442--444521	42	1.9	42	84	0	106	23	15	38	22	1.92
445392--445451	17	3.5	17	90	4	68	20	50	23	6	1.71
445392--445456	5	12.8	5	78	15	55	20	50	23	6	1.70
445421--445463	22	2.0	22	100	0	86	18	48	23	9	1.76
445407--445451	17	2.6	17	100	0	90	17	51	22	8	1.73
447135--447256	19	6.8	19	66	20	57	47	22	18	11	1.80
447159--447253	33	2.8	33	83	1	118	47	23	18	10	1.80
447284--447357	19	3.8	19	89	3	112	9	20	18	51	1.74
447446--447723	94	3.1	93	83	7	374	47	18	11	22	1.81
449401--449496	20	5.2	20	72	23	84	46	18	22	11	1.81
449448--449501	14	3.5	14	73	22	54	46	22	22	9	1.80
449399--449506	33	3.1	33	82	9	117	46	19	23	11	1.81
449504--449594	33	2.7	33	89	1	128	10	21	24	42	1.85
449532--449600	20	3.8	19	70	20	67	11	23	21	43	1.85
450144--450237	20	4.7	20	82	2	125	21	21	18	39	1.93
450144--450237	41	2.3	40	87	1	125	21	21	18	39	1.93
450123--450278	61	2.6	61	77	4	179	26	19	21	32	1.97
451161--451278	40	2.9	41	89	2	193	16	21	25	37	1.93
451168--451288	21	5.9	21	68	19	76	17	20	25	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451368--451399	6	5.5	6	92	7	57	34	50	15	0	1.45
451892--451945	6	9.3	6	97	2	94	0	16	53	29	1.43
451984--452053	34	2.1	34	91	0	113	41	20	22	15	1.90
452054--452120	21	3.2	21	61	4	55	26	23	20	28	1.99
452031--452140	41	2.7	41	97	0	202	34	21	21	21	1.97
452062--452189	21	6.2	21	63	10	75	33	23	20	22	1.97
452075--452144	20	3.5	20	64	3	59	35	22	22	18	1.95
452031--452165	41	3.3	41	89	4	148	34	22	21	21	1.97
454682--454739	15	4.2	13	77	12	53	70	5	0	24	1.07
454838--454877	21	1.9	21	89	0	62	10	40	22	27	1.86
455228--455262	18	1.9	18	100	0	70	25	22	22	28	1.99
456769--456990	111	2.0	111	93	0	381	45	11	6	36	1.67
457279--457385	50	2.1	50	79	3	117	22	24	31	21	1.98
458840--458875	15	2.5	15	86	4	56	36	2	2	58	1.27
461190--461215	6	4.3	6	100	0	52	0	15	50	34	1.45
461295--461415	21	5.9	21	67	19	76	36	25	20	17	1.94
461305--461422	41	2.9	41	91	1	193	37	25	21	16	1.93
463434--463572	31	4.5	31	97	0	251	19	22	20	37	1.94
467804--467942	31	4.5	31	97	0	251	19	22	20	37	1.94
468816--471399	4	648.0	4	99	0	5094	49	25	0	24	1.50
485914--485972	31	1.9	31	82	6	75	38	15	11	33	1.84
485928--485986	31	1.9	30	83	10	75	40	20	8	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486732--486794	31	2.1	30	87	3	90	46	6	7	39	1.59
486788--486846	29	2.0	28	81	12	66	54	8	3	33	1.48
496312--496374	30	2.1	30	97	2	119	28	20	12	38	1.89
504095--504143	24	2.1	24	84	3	64	34	8	6	51	1.57
505573--505614	21	2.0	21	90	0	66	23	16	35	23	1.95
513359--513417	28	2.1	28	90	0	91	27	16	22	33	1.95
516090--516134	21	2.1	21	83	0	54	6	44	6	42	1.57
519295--519342	16	2.6	19	78	18	57	20	0	6	72	1.05
519295--519342	20	2.8	16	78	15	51	20	0	6	72	1.05
519329--519417	26	3.4	26	76	18	71	13	11	2	73	1.20
519389--519435	22	2.1	22	84	7	60	19	6	0	74	1.03
519480--519532	18	3.0	17	80	20	56	18	1	3	75	1.05
519480--519529	17	2.7	20	79	17	54	18	2	4	76	1.04
519483--519531	22	2.3	20	80	13	53	16	2	4	77	1.01
519616--519645	13	2.3	13	94	0	51	30	0	0	70	0.88
520421--520471	25	2.1	24	96	3	93	29	21	15	33	1.94
520947--520996	22	2.3	23	86	10	77	36	34	4	26	1.75
521448--521655	65	3.2	63	80	12	226	26	18	23	31	1.97
523013--523037	13	1.9	13	100	0	50	40	12	16	32	1.84
523760--523789	15	2.0	15	93	0	51	40	30	0	30	1.57
524858--524934	22	3.5	22	78	5	84	23	25	24	25	2.00
524859--524953	44	2.2	42	85	7	120	23	22	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524858--524953	21	4.5	20	75	11	68	22	22	26	28	1.99
524898--524953	22	2.7	20	81	13	69	23	17	28	30	1.97
532879--532910	14	2.1	16	88	11	50	37	0	0	62	0.95
562061--562124	30	2.1	30	85	0	83	34	28	18	18	1.95
562279--562310	14	2.1	16	88	11	50	40	12	6	40	1.68
562799--562959	64	2.5	64	84	4	200	26	19	19	34	1.96
565110--565239	61	2.1	61	88	0	188	20	27	30	21	1.98
597641--597700	31	1.9	31	82	0	75	40	0	10	50	1.36
597708--597754	2	23.5	2	100	0	94	48	0	0	51	1.00
598017--598098	34	2.5	33	94	5	148	40	0	0	59	0.97
598013--598099	23	3.8	24	63	25	53	40	0	0	59	0.97
608604--608790	60	3.1	60	78	9	195	29	26	5	37	1.80
608959--609071	60	1.9	60	80	7	131	44	4	15	36	1.66
613353--613517	83	2.0	84	95	1	296	27	21	15	35	1.94
621932--621981	23	2.2	23	96	0	91	44	12	30	14	1.81
624510--624556	20	2.3	20	100	0	94	51	14	6	27	1.67
626494--626560	17	3.9	17	80	5	73	41	13	7	37	1.73
631119--631206	29	3.1	29	86	1	124	27	15	17	39	1.90
651620--651650	2	15.5	2	100	0	62	51	0	0	48	1.00
660887--660952	30	2.2	30	88	0	96	34	24	30	10	1.89
661172--661230	24	2.5	24	97	0	109	38	16	15	28	1.89
663548--663590	21	2.0	21	95	0	77	48	30	2	18	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664358--664412	3	18.7	3	89	10	87	65	0	0	34	0.93
668883--668949	34	2.0	34	85	5	91	34	10	11	43	1.76
670012--670076	30	2.2	30	86	5	87	16	26	18	38	1.92
672146--672205	23	2.6	23	91	0	93	40	20	16	23	1.91
672153--672208	23	2.4	23	93	0	94	42	19	16	21	1.89
673192--673227	16	2.2	16	100	0	72	50	27	16	5	1.68
682838--682865	8	3.5	8	100	0	56	39	0	10	50	1.37
686376--686422	8	5.3	9	85	15	55	80	0	8	10	0.89
687415--687622	53	3.9	53	84	7	228	30	15	25	27	1.96
687415--687578	53	3.1	53	88	5	240	30	15	26	27	1.96

Tables:   1   2   3   4   5   6   7   8