genome.fa.s3198.2.7.7.80.10.50.1000.2.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: VEPZ01003198.1 Hibiscus syriacus cultivar Beakdansim tig00006731_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  627338

Tables:   1   2   3   

This is table  2  of  3  ( 280 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)
299107--299145	15	2.5	15	87	4	51	58	12	17	10	1.61
302045--302079	18	1.9	18	88	0	52	48	0	5	45	1.26
302174--302313	30	4.6	28	70	23	79	62	3	2	31	1.27
302184--302289	3	36.3	3	71	19	50	63	2	2	31	1.23
302258--302301	18	2.6	17	85	7	63	68	2	4	25	1.20
309632--309699	28	2.5	28	90	2	102	45	25	7	22	1.77
315885--315975	45	2.0	46	86	2	130	27	23	19	29	1.98
324469--324611	64	2.2	63	83	10	166	30	24	15	30	1.96
333330--333390	20	2.9	21	87	7	79	18	26	34	21	1.96
340819--340880	31	2.0	31	90	0	97	46	8	14	30	1.73
343555--343594	20	2.0	21	85	5	55	42	20	12	25	1.86
347672--347716	22	2.1	21	91	4	72	46	2	0	51	1.13
349073--349247	60	2.9	60	80	8	187	32	18	5	44	1.72
352105--352169	29	2.2	29	76	15	71	30	15	1	52	1.52
352175--352200	4	6.5	4	100	0	52	23	0	0	76	0.78
352183--352535	130	2.8	127	82	4	424	23	14	15	46	1.82
352183--352535	127	2.7	129	82	6	414	23	14	15	46	1.82
352732--352797	24	2.7	24	82	17	66	19	3	6	71	1.21
354866--355154	149	1.9	149	82	1	364	35	17	24	21	1.95
356605--356680	14	5.2	15	71	13	61	77	7	14	0	0.98
356600--356706	29	3.8	28	77	16	89	75	6	16	0	1.06
356595--356680	46	1.9	44	83	4	109	75	6	17	0	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356634--356677	23	1.9	23	85	0	61	77	6	15	0	0.97
356601--356706	30	3.8	28	78	14	103	76	6	16	0	1.04
356601--356709	25	4.0	26	76	16	105	76	6	16	0	1.04
356622--356705	12	7.2	12	68	12	59	76	5	16	1	1.05
358166--358407	75	3.2	75	86	2	308	29	18	14	38	1.90
358681--359037	117	3.1	117	93	0	588	36	15	22	24	1.93
359864--359896	17	1.9	17	100	0	66	15	36	18	30	1.91
360135--360199	29	2.2	29	81	10	87	29	15	3	52	1.58
360167--360552	132	3.0	132	81	8	409	22	13	14	48	1.80
360750--360793	22	2.0	22	91	8	56	13	2	9	75	1.14
360751--360809	23	2.6	22	82	12	66	15	3	8	72	1.21
374081--374129	19	2.6	19	96	0	89	22	10	20	46	1.80
380512--380559	6	8.0	6	80	0	51	45	6	4	43	1.48
380512--380559	4	12.0	4	81	0	51	45	6	4	43	1.48
380559--380606	2	24.5	2	91	4	80	0	0	45	54	0.99
383119--383207	31	2.9	31	75	18	103	24	29	28	17	1.98
383963--384003	20	2.0	20	85	0	55	14	21	39	24	1.91
391153--391195	20	2.2	20	82	0	50	11	16	41	30	1.83
399948--400006	17	3.5	17	86	2	75	32	18	18	30	1.95
408577--408623	20	2.3	20	92	0	76	31	12	29	25	1.93
412247--412287	21	2.0	21	100	0	82	48	0	21	29	1.50
412253--412298	21	2.2	21	84	0	56	52	4	17	26	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412643--412911	77	3.5	77	80	6	271	37	8	16	37	1.78
414485--414540	19	3.3	18	68	31	52	37	32	1	28	1.68
414485--414543	31	1.9	31	96	0	109	37	32	1	28	1.67
419357--419417	32	1.9	31	86	3	86	32	11	13	42	1.79
419596--419646	16	3.2	16	73	15	52	25	9	19	45	1.81
420529--420585	24	2.4	23	74	8	62	43	1	3	50	1.29
429028--429151	24	5.2	24	88	5	90	41	20	14	23	1.89
429045--429160	24	4.8	24	91	4	180	39	19	16	24	1.91
429045--429178	48	2.8	48	86	4	146	41	19	15	23	1.90
430287--430320	18	1.9	18	88	5	52	29	20	0	50	1.49
431596--431632	18	2.1	18	89	0	56	13	18	48	18	1.80
433601--433695	35	2.7	35	90	0	145	30	25	33	10	1.89
433766--433841	24	3.2	24	83	3	73	43	19	14	22	1.87
433783--433898	24	4.8	24	84	8	146	39	19	14	25	1.90
433838--433898	12	5.2	11	75	14	59	40	19	11	27	1.86
436983--437007	2	12.5	2	100	0	50	52	0	0	48	1.00
437210--437302	24	4.1	20	80	14	53	43	20	12	23	1.86
437220--437382	48	3.4	48	84	5	197	44	19	13	23	1.86
437220--437352	24	5.5	24	90	3	187	40	20	15	24	1.90
437227--437382	72	2.2	72	82	5	192	44	19	12	23	1.84
438476--438527	17	3.0	17	88	2	77	26	21	3	48	1.67
439810--439850	18	2.3	18	82	0	55	14	17	51	17	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443384--443441	23	2.8	21	84	12	75	18	25	34	20	1.96
451313--451337	2	12.5	2	100	0	50	52	0	0	48	1.00
451533--451584	24	2.2	24	86	6	70	46	19	11	23	1.82
451550--451683	24	5.6	24	77	7	119	41	17	14	26	1.88
452773--452807	18	2.0	18	88	5	54	31	20	0	48	1.50
455333--455617	87	3.3	88	89	2	434	45	10	10	33	1.74
455910--456269	180	2.0	175	94	2	621	48	9	11	30	1.72
456824--456883	21	2.8	22	84	5	77	58	0	0	41	0.98
456843--456892	15	3.0	16	81	16	57	68	0	0	32	0.90
456843--456890	18	2.8	17	84	9	62	68	0	0	31	0.90
456865--456901	15	2.4	16	82	13	51	67	0	0	32	0.91
457961--458014	27	2.0	27	96	0	99	14	12	29	42	1.83
458603--458627	2	12.5	2	100	0	50	52	0	0	48	1.00
458665--458721	22	2.6	22	77	5	62	38	8	0	52	1.33
459825--459876	26	2.0	26	100	0	104	53	3	15	26	1.59
460745--460786	17	2.4	18	84	8	59	45	38	11	4	1.62
461722--461927	108	1.9	108	82	4	254	20	15	18	45	1.85
462792--463315	131	4.0	131	83	4	603	32	10	16	39	1.83
473826--473904	8	11.0	7	86	10	99	81	0	15	3	0.84
473826--473910	6	13.5	6	75	17	59	81	0	15	3	0.83
473826--473912	26	3.4	25	82	7	113	79	0	16	4	0.89
475288--475532	133	1.8	132	81	2	303	33	21	16	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476816--477021	109	1.9	109	87	2	306	21	13	17	47	1.82
477885--478406	131	4.0	131	84	3	639	33	10	16	40	1.82
480545--480578	10	3.4	10	88	12	52	64	0	2	32	1.08
484958--485302	44	7.9	44	77	5	247	28	15	21	33	1.94
485070--485285	85	2.5	87	82	6	244	28	14	20	36	1.92
485739--485779	21	1.9	22	90	5	66	0	29	0	70	0.87
485739--485779	22	1.9	21	90	5	64	0	29	0	70	0.87
486448--486511	13	4.8	14	78	14	64	9	10	0	79	0.93
486434--486505	34	2.3	30	81	13	90	8	12	0	79	0.94
486449--486502	12	4.3	13	75	17	51	7	11	0	81	0.87
486448--486510	15	4.3	14	80	9	56	7	11	0	80	0.89
486449--486510	25	2.5	24	84	5	70	8	11	0	80	0.90
498944--498997	23	2.3	23	100	0	108	14	12	24	48	1.79
507273--507311	20	2.0	20	94	0	69	20	7	10	61	1.52
508429--508495	25	2.8	24	75	11	57	47	2	2	46	1.33
515860--515912	2	26.0	2	96	3	97	49	0	1	49	1.12
517901--517962	31	2.0	31	93	0	106	27	1	33	37	1.67
517960--517988	13	2.3	13	94	5	51	48	13	0	37	1.43
525749--525792	21	2.1	21	86	0	61	9	36	15	38	1.80
526370--526449	31	2.6	31	89	0	115	31	2	33	32	1.71
526447--526475	13	2.3	13	94	5	51	48	13	0	37	1.43
531848--531877	2	15.0	2	92	0	51	46	0	3	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531848--531883	12	3.0	12	91	0	54	41	0	8	50	1.33
532483--532553	17	4.4	17	78	8	67	39	18	11	30	1.86
532515--532584	31	2.3	31	85	5	88	35	18	11	34	1.87
532567--532624	20	2.9	20	86	0	80	48	15	10	25	1.77
533116--533179	17	3.9	17	68	12	53	39	18	7	34	1.80
533207--533248	20	2.1	20	90	0	66	54	14	9	21	1.68
533727--533768	21	2.0	21	86	4	59	69	2	21	7	1.25
535097--535125	14	2.1	14	100	0	58	31	27	6	34	1.83
535270--535326	29	1.9	30	82	10	73	45	10	1	42	1.49
535270--535326	31	1.9	29	86	10	80	45	10	1	42	1.49

Tables:   1   2   3