genome.fa.s542.2.7.7.80.10.50.1000.2.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: VEPZ01000542.1 Hibiscus syriacus cultivar Beakdansim tig00001052_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  715625

Tables:   1   2   3   

This is table  2  of  3  ( 272 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)
344980--345028	19	2.5	19	86	3	71	48	4	12	34	1.59
345926--345985	30	2.0	31	83	3	77	55	10	8	26	1.61
349991--351236	623	2.0	623	99	0	2483	28	20	16	33	1.95
351552--351576	13	1.9	13	100	0	50	84	8	0	8	0.79
354294--355539	623	2.0	623	99	0	2474	29	20	16	33	1.95
356047--356098	20	2.7	18	77	13	59	38	5	15	40	1.71
356861--356920	30	2.0	31	83	3	77	55	10	8	26	1.61
364723--364770	24	2.0	23	84	11	62	79	4	16	0	0.89
374580--374819	120	2.0	119	97	2	455	36	14	23	25	1.92
381058--381615	275	2.0	275	95	0	999	28	14	23	32	1.94
386261--386307	11	4.1	12	75	8	53	72	4	8	14	1.24
386261--386307	23	2.1	21	88	7	67	72	4	8	14	1.24
393395--393443	22	2.2	22	88	3	71	0	8	12	79	0.93
403487--403537	20	2.6	20	93	3	86	33	13	5	47	1.67
404234--404305	34	2.2	31	85	11	92	73	4	16	5	1.18
407727--407777	20	2.6	20	93	3	86	33	13	5	47	1.67
411966--412016	20	2.6	20	93	3	86	33	13	5	47	1.67
412712--412783	34	2.2	31	85	11	92	73	4	16	5	1.18
416205--416255	20	2.6	20	93	3	86	33	13	5	47	1.67
416952--417023	34	2.2	31	85	11	92	73	4	16	5	1.18
420439--420489	20	2.6	20	93	3	86	33	13	5	47	1.67
424674--424724	20	2.6	20	93	3	86	33	13	5	47	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425737--426043	153	2.0	153	100	0	614	44	11	10	33	1.75
430807--430878	34	2.2	31	85	11	92	73	4	16	5	1.18
434297--434347	20	2.6	20	93	3	86	33	13	5	47	1.67
435036--435120	18	4.9	17	68	18	59	74	4	15	5	1.18
435044--435115	34	2.2	31	85	11	92	73	4	15	6	1.20
438446--438488	20	2.2	20	95	4	79	34	11	4	48	1.60
439524--439557	10	3.4	10	91	0	50	0	11	11	76	1.02
439524--439567	20	2.2	20	87	0	61	0	9	11	79	0.93
439531--439570	10	3.8	10	84	12	53	0	7	10	82	0.84
439898--439944	11	4.1	12	83	8	62	74	2	8	14	1.15
439902--439944	23	2.0	21	90	9	68	74	2	9	13	1.16
442013--442045	10	3.3	10	91	8	50	81	12	6	0	0.85
448502--448540	8	4.9	8	84	9	53	35	2	0	61	1.10
458192--458216	13	1.9	13	100	0	50	40	0	32	28	1.57
464019--464051	2	16.5	2	100	0	66	48	0	0	51	1.00
467734--467817	11	7.0	12	74	23	63	28	2	36	32	1.70
467716--467821	36	3.0	36	90	2	162	31	2	33	32	1.72
470168--470200	2	16.5	2	100	0	66	48	0	0	51	1.00
476492--476537	19	2.3	20	85	3	58	34	15	6	43	1.72
476881--476949	35	1.9	36	88	2	104	31	34	5	27	1.81
477399--477427	14	2.0	15	93	6	51	79	0	20	0	0.74
480523--480568	19	2.3	20	85	3	58	34	15	6	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480911--480979	35	1.9	36	88	2	104	31	34	5	27	1.81
481429--481475	14	3.1	15	75	12	51	72	6	19	2	1.17
484937--485041	36	2.9	36	92	1	167	29	34	5	30	1.81
486671--486731	31	2.0	31	87	6	88	55	8	8	27	1.58
508057--508102	15	2.8	17	75	15	51	41	17	19	21	1.90
509560--509602	20	2.2	20	87	4	61	34	6	9	48	1.62
511497--511537	21	2.0	21	90	0	64	51	7	26	14	1.69
513937--513979	20	2.2	19	83	4	50	37	9	6	46	1.63
515879--515921	19	2.2	20	87	4	61	48	6	9	34	1.62
516628--516666	20	1.9	21	84	5	53	48	7	17	25	1.74
518131--518171	21	2.0	21	90	0	64	14	26	7	51	1.69
523469--523506	13	2.7	14	80	12	51	0	23	0	76	0.79
523469--523528	16	4.0	14	76	19	59	1	21	1	75	0.99
523478--523545	29	2.3	30	73	16	70	1	20	4	73	1.08
526255--526293	20	2.0	20	85	5	53	48	7	7	35	1.61
529736--529783	16	2.9	16	84	6	51	62	0	20	16	1.33
529912--529954	11	4.2	11	82	14	56	0	18	4	76	0.95
529912--529954	5	8.4	5	80	14	52	0	18	4	76	0.95
529978--530027	6	8.2	6	86	4	64	0	20	2	78	0.86
529980--530030	25	2.1	24	88	3	75	0	17	3	78	0.90
532677--532736	30	2.0	31	83	3	77	26	8	10	55	1.61
533645--533695	20	2.6	20	90	3	77	35	15	5	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537471--537519	16	2.9	16	84	6	53	61	0	22	16	1.34
537662--537688	14	1.9	14	100	0	54	0	11	7	81	0.87
537714--537751	6	6.2	6	87	6	58	0	15	2	81	0.80
537714--537751	19	2.1	18	90	5	58	0	15	2	81	0.80
538559--538601	19	2.2	20	87	4	61	48	6	9	34	1.62
539307--539345	20	1.9	21	84	5	53	48	7	17	25	1.74
543373--543411	20	1.9	21	84	5	53	48	7	17	25	1.74
544891--544942	21	2.5	21	93	3	88	21	32	7	38	1.82
547012--547052	13	3.2	13	83	16	59	78	0	21	0	0.76
547019--547052	18	1.9	17	94	5	59	79	0	20	0	0.73
552795--552828	17	2.0	17	94	0	59	35	0	32	32	1.58
553120--553168	26	2.0	24	84	15	64	0	16	2	81	0.78
553118--553160	6	7.2	6	84	10	61	0	16	2	81	0.79
554715--554753	20	1.9	21	84	5	53	46	7	20	25	1.77
557049--557082	17	1.9	18	88	5	52	73	0	14	11	1.10
557301--557343	16	2.8	14	80	19	50	2	18	0	79	0.85
557299--557343	23	2.0	23	83	8	58	2	20	0	77	0.87
558897--558935	20	1.9	21	84	5	53	48	7	17	25	1.74
560365--560389	12	2.1	12	100	0	50	24	24	0	52	1.48
561152--561214	26	2.4	28	76	17	71	52	0	22	25	1.47
561463--561506	12	3.6	11	82	17	52	0	18	0	81	0.68
561465--561503	16	2.5	16	91	4	62	0	17	0	82	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561463--561506	22	2.0	22	83	12	56	0	18	0	81	0.68
562314--562356	19	2.2	20	87	4	61	48	6	9	34	1.62
576228--576293	13	5.5	11	74	22	62	33	34	3	28	1.73
576206--576310	36	2.9	36	94	1	176	31	35	4	28	1.78
580268--580369	36	2.9	36	91	5	163	32	34	3	29	1.76
582873--582912	20	1.9	20	85	10	53	32	7	32	27	1.85
587137--587176	20	1.9	20	85	10	53	32	7	32	27	1.85
587387--587422	15	2.4	15	90	0	54	50	5	0	44	1.25
599908--600283	186	2.0	186	99	0	743	28	12	16	41	1.85
601203--601259	13	4.4	13	84	8	71	33	14	19	33	1.91
603144--603170	11	2.5	11	100	0	54	77	7	14	0	0.97
603133--603196	20	3.2	20	84	0	74	75	14	10	0	1.06
603143--603190	11	4.7	11	80	14	50	70	14	14	0	1.16
606931--606981	22	2.4	21	80	12	59	31	3	15	49	1.63
622037--622084	14	3.6	13	78	10	53	75	2	20	2	1.02
626541--626593	24	2.3	23	78	15	63	60	15	13	11	1.59
626544--626595	25	2.1	25	89	3	79	61	15	11	11	1.57
626582--626634	18	3.0	17	81	8	61	79	0	18	1	0.83
626584--626632	4	12.8	4	79	12	50	79	0	18	2	0.83
626584--626634	13	4.0	13	85	9	70	78	0	19	1	0.85
627687--627742	27	2.1	26	83	9	69	60	0	16	23	1.35
627709--627753	21	2.3	18	88	11	63	66	0	15	17	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639912--639967	10	5.5	10	77	12	60	0	7	7	85	0.73
641890--641926	18	2.0	19	85	15	51	56	0	32	10	1.34
642572--642659	43	2.2	40	78	13	90	55	12	3	28	1.53
642675--642721	22	2.0	22	84	12	58	53	17	2	27	1.55
650877--650936	17	3.7	15	74	23	59	66	0	16	16	1.25
650883--650931	16	2.9	17	84	9	64	67	0	16	16	1.24
655411--655464	17	3.2	17	86	5	74	38	5	16	38	1.72
655411--655493	34	2.4	34	80	11	98	39	6	18	36	1.75
655411--655477	17	3.9	17	82	3	73	40	4	17	37	1.70
657822--657889	17	3.9	16	85	11	82	39	10	8	41	1.70

Tables:   1   2   3