genome.fa.s8357.2.7.7.80.10.50.1000.2.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: VEPZ01008357.1 Hibiscus syriacus cultivar Beakdansim tig00111096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1459476

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 750 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)
313597--313629	14	2.2	16	89	10	52	48	0	0	51	1.00
313601--313639	12	3.1	12	79	13	51	38	0	0	61	0.96
314336--314373	15	2.8	13	88	11	51	23	5	2	68	1.23
317678--317702	8	3.1	8	100	0	50	28	0	0	72	0.86
321419--321451	10	3.4	10	87	8	50	24	9	0	66	1.20
321414--321451	19	2.0	19	89	0	58	23	13	0	63	1.30
324970--325032	11	5.5	11	83	5	81	85	0	11	3	0.70
324970--325050	12	6.5	13	73	20	59	82	0	14	2	0.77
324977--325050	15	4.8	15	77	12	78	82	0	14	2	0.78
324970--325040	11	6.2	12	76	15	62	84	0	12	2	0.73
324967--325052	13	7.1	12	81	13	81	82	0	15	2	0.77
326190--326658	83	5.6	84	89	4	657	28	13	21	35	1.92
326190--326658	166	2.8	165	87	6	723	28	13	21	35	1.92
327352--328015	112	5.9	113	85	5	909	38	12	19	30	1.88
328330--328420	3	30.0	3	95	2	146	32	3	0	63	1.10
329009--329372	182	2.0	180	95	3	660	24	23	25	26	2.00
332404--332515	57	2.0	57	85	0	152	39	9	13	37	1.78
332617--332682	24	2.8	22	82	13	62	60	15	10	13	1.59
332627--332679	24	2.2	24	87	9	74	64	15	9	11	1.50
333812--333893	41	1.9	42	87	7	121	34	8	2	54	1.44
333824--333913	41	2.2	41	84	9	112	33	7	3	55	1.45
333955--333998	22	2.0	22	82	8	54	20	2	4	72	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344404--344429	1	26.0	1	100	0	52	100	0	0	0	0.00
344370--344490	63	1.9	63	88	6	183	58	11	18	11	1.62
344467--344500	1	34.0	1	87	0	50	94	0	5	0	0.32
345231--345759	106	5.0	105	95	0	934	33	26	17	22	1.96
345817--345858	20	2.1	20	86	0	57	23	19	19	38	1.93
347022--347125	30	3.3	30	67	18	86	22	22	16	39	1.92
347945--347979	10	3.5	10	92	0	52	68	14	2	14	1.32
348174--348232	24	2.5	24	97	0	109	61	15	11	11	1.58
348154--348229	14	5.7	14	74	12	70	59	15	11	13	1.62
350686--350731	23	1.9	24	82	8	58	6	21	6	65	1.39
351164--351206	3	14.3	3	90	9	70	65	0	0	34	0.93
351756--351867	31	3.5	31	69	17	93	41	14	20	23	1.88
351626--352165	67	8.2	67	82	7	599	40	13	20	25	1.89
351626--352219	196	3.0	195	89	3	838	39	12	20	26	1.89
352289--352384	37	2.6	37	81	3	115	38	8	20	32	1.83
358804--358848	23	2.0	23	90	0	72	55	8	11	24	1.63
383567--383726	61	2.6	61	91	0	257	29	28	16	26	1.97
393914--393974	3	20.0	3	77	9	61	36	1	1	60	1.16
395263--395298	16	2.2	16	90	9	56	36	0	0	63	0.94
395301--395334	17	2.0	17	88	11	52	29	5	0	64	1.17
395340--395386	2	23.5	2	100	0	94	51	0	0	48	1.00
402119--402339	114	1.9	114	88	1	336	34	15	19	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402508--402571	31	2.1	31	100	0	128	34	18	15	31	1.93
404941--404995	22	2.5	22	93	0	101	34	10	14	40	1.81
405702--405985	73	3.9	73	95	0	514	29	17	14	38	1.89
405706--405980	37	7.5	36	72	2	235	29	17	13	38	1.89
406388--406448	3	20.0	3	77	9	61	36	1	1	60	1.16
407702--407755	27	2.0	28	85	10	76	35	1	0	62	1.06
407719--407754	16	2.2	16	90	9	56	36	0	0	63	0.94
407809--407850	2	21.0	2	100	0	84	50	0	0	50	1.00
428476--428507	3	10.7	3	100	0	64	31	0	0	68	0.90
439749--439773	3	8.3	3	100	0	50	64	0	0	36	0.94
439964--440691	45	16.2	45	93	0	1199	33	19	21	25	1.97
440023--440681	20	29.2	24	60	25	122	33	19	21	25	1.97
441368--441418	20	2.4	22	87	12	88	37	13	13	35	1.85
441772--441904	53	2.5	52	78	7	142	30	21	12	34	1.91
441811--441924	54	2.1	55	83	1	140	27	20	13	39	1.89
447262--447345	42	2.0	42	83	0	105	19	20	13	47	1.82
447634--447695	26	2.3	28	83	10	76	58	11	14	16	1.64
447776--447866	43	2.1	43	97	0	173	35	23	7	34	1.83
450199--450243	20	2.2	21	84	4	56	66	2	4	26	1.22
451545--451611	3	22.3	3	81	0	71	58	2	0	38	1.14
454431--454460	2	15.0	2	100	0	60	50	0	0	50	1.00
458815--458840	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459322--459402	42	1.9	42	87	0	117	38	14	18	28	1.90
459367--459412	20	2.3	20	84	0	56	43	17	17	21	1.88
462903--463080	89	2.0	89	100	0	356	26	12	14	46	1.80
467059--467100	22	2.0	21	85	4	57	33	11	14	40	1.82
467068--467103	18	1.9	19	88	5	56	33	11	13	41	1.80
471337--471375	20	2.0	20	89	0	60	33	25	17	23	1.96
476900--477007	39	2.9	36	75	16	103	65	3	2	27	1.23
478331--478427	3	32.7	3	72	17	51	56	0	0	43	0.99
478324--478421	25	4.1	24	73	10	85	55	0	0	44	0.99
478320--478427	44	2.6	42	76	19	79	56	0	0	43	0.99
478634--479083	124	3.8	122	81	9	478	27	18	14	40	1.89
478882--479099	108	2.0	111	90	4	343	27	17	16	38	1.91
479577--480127	274	2.0	274	98	0	1057	34	16	20	28	1.95
487901--487934	13	2.6	13	95	0	59	44	8	23	23	1.81
491386--491442	28	2.1	26	83	6	69	59	1	5	33	1.30
492305--492391	35	2.5	36	80	16	94	66	3	3	26	1.23
492344--492404	21	2.9	21	88	11	81	65	1	3	29	1.18
493577--493646	21	3.4	21	88	7	92	61	0	0	38	0.96
493589--493647	3	19.7	3	89	6	84	62	0	0	37	0.95
497065--497106	15	2.8	15	88	0	57	9	11	66	11	1.44
499368--499396	13	2.3	13	94	5	51	27	0	0	72	0.85
506628--506736	56	2.0	52	91	7	173	33	7	26	32	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516343--516382	21	1.9	21	90	10	64	27	17	5	50	1.67
518164--518193	15	2.0	15	93	0	51	43	13	23	20	1.86
533292--533565	137	2.0	137	100	0	548	33	27	10	27	1.90
536901--536967	23	3.0	22	80	8	89	17	46	22	13	1.83
537535--537816	145	1.9	145	96	0	519	29	7	14	48	1.71
541711--541758	20	2.3	21	89	3	71	37	33	12	16	1.86
542459--542602	55	2.6	55	86	0	198	29	20	19	30	1.97
548479--548619	41	3.4	41	72	6	149	31	19	19	29	1.96
548505--548635	41	3.2	42	72	7	142	32	22	19	25	1.97
548473--548635	83	2.0	83	98	0	317	31	21	19	27	1.97
549417--549525	21	5.3	19	72	16	92	24	21	20	33	1.97
549409--549524	42	2.8	42	93	2	200	23	20	20	35	1.96
549614--549655	6	7.5	6	91	2	54	28	54	14	2	1.52
550413--550535	42	3.0	42	88	5	180	35	19	21	23	1.96
550413--550516	21	4.9	20	73	15	86	35	20	21	23	1.96
552532--552586	2	27.5	2	100	0	110	50	0	0	49	1.00
553008--553073	19	3.3	19	66	22	53	51	7	3	37	1.46
553007--553074	21	3.2	21	68	15	68	50	7	2	39	1.46
552985--553075	42	2.2	42	92	5	150	49	5	2	42	1.38
553066--553123	26	2.3	26	78	18	68	39	1	0	58	1.08
553769--553803	7	5.0	7	92	0	52	48	22	14	14	1.79
553763--553803	14	2.9	14	81	3	55	51	19	14	14	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553763--553803	21	1.9	22	90	5	66	51	19	14	14	1.77
556138--556192	24	2.2	25	74	3	58	49	12	16	21	1.79
556752--556784	13	2.5	13	95	0	57	48	12	3	36	1.56
559602--559682	12	6.7	12	78	16	78	58	0	0	41	0.98
559607--559650	2	23.0	2	86	9	65	50	0	0	50	1.00
559614--559695	9	8.3	9	84	10	67	60	0	1	37	1.04
559614--559695	12	6.2	12	83	10	67	60	0	1	37	1.04
559651--559701	12	4.2	12	90	9	77	68	0	3	27	1.07
560017--560594	45	12.9	45	90	1	883	34	19	22	23	1.97
560311--560378	20	3.3	20	68	22	59	32	19	29	19	1.96

Tables:   1   2   3   4   5   6   7