genome.fa.s8292.2.7.7.80.10.50.1000.3.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: VEPZ01008292.1 Hibiscus syriacus cultivar Beakdansim tig00110956_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1591938

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 906 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)
554162--554241	41	1.9	42	89	2	126	33	6	26	33	1.81
554166--554252	20	4.3	20	79	13	97	37	5	25	31	1.79
554669--554791	21	6.0	21	81	11	130	34	20	24	21	1.97
554688--554721	17	2.0	17	94	0	59	38	11	26	23	1.89
554669--554742	38	1.9	38	91	0	121	36	13	25	24	1.92
554842--554886	20	2.2	20	96	0	81	24	20	28	26	1.99
557073--557129	25	2.3	25	100	0	114	40	14	14	31	1.85
561678--561709	4	8.0	4	92	0	55	78	21	0	0	0.76
563643--563710	34	2.0	34	94	0	118	33	25	7	33	1.83
564432--564460	2	14.5	2	100	0	58	51	0	0	48	1.00
565016--565088	37	2.1	36	87	10	107	34	20	13	31	1.92
565459--565503	17	2.6	17	96	0	81	60	0	8	31	1.28
568064--568088	2	12.5	2	100	0	50	52	0	48	0	1.00
568674--568717	12	3.7	12	100	0	88	6	15	18	59	1.58
570071--570127	20	2.8	20	94	0	96	40	15	17	26	1.90
570067--570157	20	4.6	20	84	5	69	35	20	18	25	1.96
570974--571020	24	2.0	24	95	0	85	27	21	17	34	1.95
573279--573321	12	3.6	12	87	0	68	53	23	6	16	1.67
573281--573314	6	5.7	6	85	0	50	58	20	2	17	1.51
573381--573650	140	1.9	140	98	0	522	28	13	15	42	1.85
573621--573845	20	11.9	20	73	11	186	32	22	18	26	1.97
573631--573778	54	2.7	54	89	0	224	35	24	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573888--573926	20	2.0	20	100	0	78	10	20	20	48	1.78
573884--573941	20	2.9	20	86	0	71	13	17	24	44	1.85
575653--575737	20	4.4	18	73	14	71	38	27	17	16	1.91
575664--575737	20	3.7	20	88	0	112	39	25	17	17	1.91
575782--575865	20	4.2	20	89	0	114	19	17	22	40	1.91
577777--577863	20	4.4	20	84	4	106	49	24	16	10	1.76
578463--578569	20	5.3	20	88	0	142	23	22	27	27	1.99
581587--581628	20	2.0	22	86	9	61	28	7	26	38	1.82
582023--582063	22	1.9	22	85	5	57	41	4	17	36	1.71
594031--594074	20	2.1	22	87	8	65	36	29	0	34	1.58
594063--594141	2	40.0	2	94	2	142	49	1	0	49	1.09
594439--594519	17	5.1	17	67	27	61	23	6	22	48	1.73
594452--594504	14	3.6	14	72	22	54	26	5	22	45	1.74
594439--594519	31	2.6	31	98	0	153	23	6	22	48	1.73
595522--595567	21	2.1	22	84	4	58	58	0	10	30	1.32
595658--595992	43	7.8	44	73	10	221	55	6	11	25	1.59
595716--595837	45	2.8	44	80	8	126	55	8	9	26	1.60
595675--595965	42	6.7	43	73	10	184	55	5	12	26	1.58
597816--597846	15	2.1	15	93	0	53	54	0	0	45	0.99
601661--601754	23	4.0	25	73	14	85	31	24	24	19	1.98
604975--605001	2	13.5	2	100	0	54	48	0	0	51	1.00
605743--605993	125	2.0	125	96	0	457	33	16	16	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607331--607487	45	3.6	43	73	12	133	52	9	10	26	1.67
607331--607467	45	3.1	43	77	9	134	54	9	10	25	1.65
607476--607623	42	3.5	41	82	7	154	56	5	11	27	1.56
607583--607653	29	2.4	29	83	6	81	53	8	18	19	1.69
607338--607625	43	6.7	41	74	11	181	54	6	11	27	1.62
607603--607659	29	1.9	30	89	3	89	47	10	22	19	1.80
610265--610312	22	2.2	22	81	7	53	37	8	4	50	1.52
615234--615282	20	2.3	21	79	10	55	0	10	12	77	0.99
615822--615871	3	16.3	3	83	4	64	62	0	0	38	0.96
616030--616708	76	9.4	75	88	8	997	35	20	21	22	1.96
616305--616715	65	6.0	65	85	11	570	35	19	22	22	1.96
616074--616708	282	2.2	285	94	3	1116	35	20	21	22	1.96
616225--616708	141	3.4	141	99	0	941	35	19	21	22	1.96
617388--617442	22	2.5	22	90	0	92	38	14	12	34	1.84
618302--618374	24	3.0	24	88	4	67	10	15	24	49	1.76
618312--618367	14	4.3	14	82	17	75	8	14	25	51	1.70
618313--618387	24	3.1	23	90	3	96	12	12	21	54	1.69
619115--619189	10	7.7	10	69	21	61	9	12	21	57	1.62
619121--619185	16	4.1	16	95	0	121	7	12	23	56	1.61
619255--619287	16	2.1	16	100	0	66	6	12	24	57	1.57
623504--623533	12	2.5	12	94	0	51	0	20	0	80	0.72
623507--623537	15	2.0	16	93	6	55	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630503--630529	2	13.5	2	100	0	54	51	0	0	48	1.00
631175--631911	369	2.0	369	99	0	1465	27	16	17	39	1.91
633245--633270	2	13.0	2	100	0	52	50	0	0	50	1.00
633457--633497	17	2.4	17	91	0	64	9	2	7	80	0.99
633457--633508	17	3.1	17	88	2	61	7	1	9	80	0.97
634400--634453	16	3.1	16	82	15	63	81	1	3	12	0.91
635147--635181	2	18.5	2	88	11	56	51	0	0	48	1.00
636113--636160	19	2.5	20	89	3	71	47	22	6	22	1.73
637603--637715	57	2.0	58	92	5	194	15	6	13	65	1.45
648447--648474	10	2.8	10	100	0	56	21	32	17	28	1.96
648840--648897	21	2.8	21	70	0	53	25	20	29	24	1.99
649828--649865	18	2.1	18	100	0	76	23	0	34	42	1.55
654505--654557	22	2.4	21	81	6	61	28	22	26	22	1.99
657616--657770	78	2.0	77	81	9	181	41	10	9	37	1.73
661261--661319	29	2.0	30	86	3	84	22	8	18	50	1.73
663256--663333	25	3.0	26	75	16	81	42	1	1	55	1.16
665805--665867	6	10.5	6	96	0	108	33	47	15	3	1.62
676137--676189	20	2.7	20	84	0	70	47	22	15	15	1.82
676198--676280	20	4.1	20	85	1	112	36	22	19	21	1.95
677310--677363	24	2.2	24	93	0	90	40	20	18	20	1.91
677310--677377	24	2.8	24	84	0	64	38	20	17	23	1.93
678218--678270	20	2.7	20	90	0	79	20	20	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678267--678307	21	2.0	21	95	0	73	41	17	24	17	1.89
686549--687703	577	2.0	578	97	0	2172	37	11	13	37	1.81
693920--694014	48	2.0	49	82	2	120	36	11	10	41	1.76
698832--698866	6	5.8	6	100	0	70	14	17	17	51	1.77
701097--701144	23	2.0	24	84	4	62	25	0	4	70	1.04
704367--704408	20	2.1	20	100	0	84	9	33	21	35	1.86
704973--705000	5	5.6	5	100	0	56	21	0	0	78	0.75
707555--707680	24	5.4	24	93	3	206	35	17	20	26	1.95
708423--708545	31	3.9	31	77	13	126	30	19	18	30	1.96
719462--719519	29	2.0	29	83	6	73	13	32	27	25	1.94
719559--719611	10	4.9	10	77	22	54	22	37	30	9	1.86
719562--719589	14	2.0	14	100	0	56	21	42	28	7	1.79
719558--719620	24	3.0	20	84	11	63	23	36	31	7	1.84
719576--719611	10	3.6	10	89	10	56	22	36	33	8	1.84
719661--719716	29	1.9	29	88	0	85	21	28	35	14	1.92
725190--725216	3	9.0	3	100	0	54	33	0	0	66	0.92
726504--726548	21	2.1	21	87	0	63	31	28	24	15	1.96
727132--727166	18	1.9	18	88	11	54	54	5	17	22	1.64
727411--727451	2	20.5	2	100	0	82	51	0	0	48	1.00
728106--728402	149	2.0	149	93	1	506	27	15	20	35	1.93
728370--728414	23	2.0	23	90	0	72	22	22	26	28	1.99
731681--731725	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
732309--732343	18	1.9	18	88	11	54	54	5	17	22	1.64
733245--733557	149	2.1	148	91	3	515	26	17	21	34	1.95
733525--733569	23	2.0	23	90	0	72	22	26	26	24	2.00
734935--734994	21	2.8	22	84	2	77	20	5	20	55	1.62
735189--735370	43	4.2	43	81	0	220	28	21	21	28	1.99
735189--735370	86	2.1	86	87	0	256	28	21	21	28	1.99
735336--735405	35	2.0	35	85	0	95	31	25	14	28	1.95
735585--735609	2	12.5	2	100	0	50	52	0	0	48	1.00
736032--736088	23	2.5	23	80	8	62	59	14	14	12	1.61
736234--736272	16	2.4	16	91	0	60	61	0	38	0	0.96

Tables:   1   2   3   4   5   6   7   8