genome.fa.s7768.2.7.7.80.10.50.1000.3.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: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2539099

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

This is table  3  of  11  ( 1290 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)
441405--441444	20	2.0	20	100	0	80	40	25	15	20	1.90
443524--443606	30	2.7	30	86	1	112	30	14	24	31	1.94
443588--443647	28	2.1	28	100	0	120	28	20	18	33	1.96
443601--443690	31	3.0	31	80	7	80	24	17	17	40	1.91
444356--444499	60	2.4	60	80	3	157	33	19	4	43	1.70
448726--448753	2	14.0	2	100	0	56	50	0	0	50	1.00
450215--450297	19	4.2	19	70	17	60	32	19	18	30	1.95
450216--450342	61	2.1	61	89	2	193	35	19	18	25	1.95
450216--450345	19	6.4	19	67	16	55	36	19	18	26	1.94
450300--450365	23	3.0	22	72	17	66	37	21	22	18	1.94
451066--451105	16	2.6	15	84	7	53	40	0	20	40	1.52
454602--454647	22	2.0	23	87	4	67	43	2	0	54	1.12
454810--454841	12	2.7	12	100	0	64	28	18	37	15	1.92
454836--455058	35	6.0	35	84	13	304	25	32	21	19	1.97
454819--455052	117	2.0	117	100	0	468	25	30	23	19	1.98
454871--455028	82	1.9	82	94	2	282	25	31	22	19	1.98
455093--455172	29	2.8	29	92	3	126	15	31	32	21	1.94
455359--455410	25	2.1	25	100	0	104	26	11	34	26	1.91
455423--455468	23	2.0	23	100	0	92	47	4	39	8	1.54
455423--455483	23	2.6	23	86	5	59	50	6	36	6	1.54
455473--455525	21	2.5	21	96	0	97	62	0	35	1	1.06
455471--455502	17	1.9	16	93	6	55	62	0	37	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455685--455794	44	2.6	41	79	13	118	40	0	10	49	1.38
455728--455818	44	2.0	46	87	8	134	39	0	12	48	1.40
455981--456027	16	3.0	16	84	9	53	29	0	10	59	1.31
456002--456032	15	2.1	14	94	5	53	38	0	6	54	1.26
458183--458215	17	1.9	17	93	0	57	45	12	6	36	1.66
458200--458268	22	3.0	22	73	19	77	47	7	4	40	1.51
460383--460441	26	2.3	24	78	16	64	40	3	8	47	1.51
461187--461295	47	2.4	45	81	12	127	50	8	0	40	1.39
461257--461324	28	2.4	28	85	9	102	55	10	0	33	1.34
461294--461342	21	2.3	21	85	3	71	53	16	0	30	1.43
461770--461863	46	2.1	45	97	2	179	20	52	8	19	1.72
461910--461999	29	3.1	29	98	0	171	18	35	31	14	1.91
462377--462430	28	1.9	28	92	0	90	22	18	12	46	1.83
464005--464162	21	7.8	20	72	7	86	39	24	17	18	1.92
464130--464181	20	2.6	20	90	0	77	44	26	17	11	1.83
464149--464358	20	10.5	20	81	5	210	36	25	17	20	1.94
465051--465097	24	2.0	24	87	8	69	25	14	21	38	1.92
467580--467830	33	7.2	33	71	17	186	46	17	22	13	1.83
467594--467830	53	4.5	53	97	1	440	46	17	22	13	1.83
467594--467836	19	13.7	19	77	18	274	45	17	22	13	1.84
467580--467759	86	2.1	84	86	12	242	46	18	22	12	1.82
467594--467830	105	2.2	106	96	0	440	46	17	22	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467807--467922	53	2.2	52	86	3	160	18	23	18	38	1.93
467845--467932	19	4.8	19	82	14	123	13	22	15	47	1.81
468023--468059	14	2.6	14	91	0	65	45	21	0	32	1.52
469985--470122	19	7.5	19	79	8	133	46	24	19	9	1.79
470118--470162	19	2.4	19	92	0	72	8	17	26	46	1.78
470292--470793	93	5.4	93	99	0	986	45	19	13	21	1.84
472460--472556	20	5.2	20	72	18	100	46	17	24	11	1.81
472458--472522	21	3.1	21	82	4	96	47	15	26	10	1.78
472507--472562	14	3.6	14	74	21	58	44	23	23	8	1.81
472458--472580	33	3.5	33	88	8	156	47	18	23	10	1.80
472597--472653	14	3.7	14	75	20	60	8	24	22	43	1.81
472581--472660	33	2.4	33	95	0	142	8	21	22	47	1.78
472641--472714	21	3.5	21	80	7	96	14	20	17	47	1.83
472794--472864	33	2.2	33	94	0	124	47	16	23	11	1.79
473244--473395	20	7.6	20	89	0	205	20	19	26	33	1.97
473715--473759	21	2.1	21	83	0	54	53	6	8	31	1.58
490811--490845	4	8.8	4	100	0	70	51	22	0	25	1.48
490856--490883	2	14.0	2	100	0	56	0	0	50	50	1.00
492577--492616	21	2.0	20	86	13	57	55	5	10	30	1.54
493552--493598	24	1.9	25	86	4	69	29	21	10	38	1.87
521209--521368	81	2.0	81	97	0	302	20	11	22	45	1.83
527796--527838	20	2.2	19	84	12	52	34	2	9	53	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532681--532749	21	3.3	21	65	25	56	36	15	14	33	1.89
539640--539687	15	3.2	15	71	11	53	43	2	0	54	1.12
540456--540541	41	2.2	42	81	12	110	72	0	4	23	1.04
541847--541894	6	7.8	6	84	11	62	83	0	0	16	0.65
541840--541894	16	3.8	14	79	15	58	83	0	1	14	0.73
541907--541998	37	2.5	38	77	16	95	46	2	3	47	1.30
542150--542243	42	2.3	41	81	7	109	44	9	3	42	1.53
544588--544616	12	2.3	13	94	5	51	51	10	10	27	1.68
550401--550434	2	17.0	2	100	0	68	50	0	0	50	1.00
551623--551671	22	2.2	23	81	7	64	59	0	0	40	0.98
551625--551696	18	3.9	17	70	13	54	54	0	0	45	0.99
552084--552138	24	2.4	23	79	11	60	50	0	1	47	1.11
552320--552352	16	2.1	16	100	0	66	57	24	12	6	1.57
552418--552488	16	4.4	16	90	0	115	56	19	12	11	1.66
552418--552488	32	2.2	32	97	0	133	56	19	12	11	1.66
553235--553265	14	2.2	14	94	0	53	54	22	12	9	1.67
553215--553289	24	3.1	24	86	3	89	57	20	10	12	1.64
553951--553999	16	3.6	14	78	18	50	46	0	4	48	1.20
556119--556155	17	2.2	17	95	0	65	45	13	10	29	1.77
556706--556760	3	18.0	3	85	10	76	30	0	3	65	1.10
564782--564880	36	2.8	35	83	6	128	35	18	14	32	1.90
564854--565138	105	2.7	105	89	5	443	31	14	12	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565791--565887	35	2.7	35	82	7	99	28	17	15	38	1.90
566051--566132	28	2.9	28	80	10	96	21	12	15	50	1.77
566294--566488	40	4.6	40	68	19	124	26	34	16	22	1.95
566139--566488	133	2.6	133	90	0	531	26	33	17	22	1.96
566197--566396	43	4.6	42	70	17	147	25	34	18	22	1.96
566696--566750	3	18.0	3	85	10	76	30	0	3	65	1.10
568747--568785	15	2.6	15	87	0	51	38	28	33	0	1.57
568758--568793	5	7.4	5	96	3	65	36	22	41	0	1.54
569261--569292	5	6.4	5	96	0	55	0	43	21	34	1.53
569868--569903	17	2.1	17	100	0	72	55	16	11	16	1.68
584960--585013	23	2.3	23	93	0	99	29	25	27	16	1.97
586551--586632	24	3.6	24	88	6	118	24	25	19	30	1.98
599819--599863	10	4.8	10	76	15	51	35	2	0	62	1.08
609491--609534	18	2.3	20	84	7	56	52	0	0	47	1.00
636260--636315	7	7.9	8	77	22	63	75	0	10	14	1.06
636260--636315	20	2.7	22	81	18	75	75	0	10	14	1.06
637314--637849	55	9.7	55	90	4	753	30	15	25	27	1.96
637314--637849	111	4.9	111	89	3	766	30	15	25	27	1.96
638572--638607	16	2.2	16	100	0	72	36	16	41	5	1.72
643078--643117	21	1.9	21	84	0	53	22	25	30	22	1.99
646868--646906	17	2.3	17	100	0	78	12	25	10	51	1.71
648633--648693	31	1.9	32	87	9	90	29	6	9	54	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
656783--656819	6	6.2	6	93	0	65	32	16	35	16	1.91
663501--663550	9	5.6	9	79	15	50	40	0	60	0	0.97
663553--664698	3	383.3	3	77	12	988	58	0	39	2	1.10
668641--668697	23	2.6	23	78	13	66	38	1	10	49	1.48
669029--669063	17	2.0	18	88	5	54	2	17	20	60	1.49
675133--675185	21	2.5	21	87	0	70	18	22	33	24	1.97
676874--676900	13	2.1	13	100	0	54	55	0	7	37	1.28
676909--676933	2	12.5	2	100	0	50	48	0	0	52	1.00
677023--677253	117	2.0	117	86	1	329	26	12	28	32	1.93
677562--677957	197	2.0	197	95	1	713	34	9	25	30	1.88

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