genome.fa.s7113.2.7.7.80.10.50.1000.3.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: VEPZ01007113.1 Hibiscus syriacus cultivar Beakdansim tig00018586_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  836039

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 495 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)
456952--457018	20	3.3	20	73	18	68	38	23	17	19	1.93
456962--457020	20	2.9	20	84	2	82	40	20	16	22	1.91
457025--457112	19	4.8	19	77	16	105	45	17	21	15	1.85
457264--457300	14	2.6	14	86	0	56	48	21	0	29	1.50
458659--458745	21	4.1	21	74	0	84	22	19	36	20	1.95
459404--459527	20	6.5	20	82	10	152	18	19	22	39	1.92
459366--459504	54	2.6	54	86	1	181	17	20	20	40	1.92
461398--461467	20	3.5	20	90	0	86	41	25	17	15	1.89
462143--462295	20	7.7	20	90	0	234	20	18	20	39	1.92
462325--462370	20	2.3	20	100	0	92	34	21	23	19	1.96
462405--462451	19	2.5	19	96	0	85	23	21	23	31	1.98
463180--463221	2	21.0	2	100	0	84	50	0	0	50	1.00
465915--466014	12	9.2	11	71	20	61	66	0	5	29	1.13
465986--466014	3	9.7	3	100	0	58	68	0	0	31	0.89
465995--466076	28	2.9	28	76	14	87	75	3	6	14	1.13
466025--466069	21	2.2	21	88	11	67	80	4	2	13	0.97
466795--466869	35	2.1	36	92	2	125	2	9	29	58	1.43
467326--467387	4	15.2	4	80	15	58	69	0	0	30	0.89
467326--467387	11	5.5	11	75	21	65	69	0	0	30	0.89
467317--467380	31	2.1	31	85	5	85	67	1	0	31	1.00
467329--467387	13	4.7	13	76	17	54	67	0	0	32	0.91
467516--467882	40	9.5	38	74	13	211	43	7	2	46	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467505--467845	39	8.8	38	80	12	304	43	7	2	46	1.45
467642--467842	75	2.7	74	85	9	266	44	8	2	44	1.49
467642--467889	75	3.3	74	80	10	202	43	8	2	45	1.49
468539--468776	85	2.8	85	84	1	291	26	17	20	35	1.95
470242--470436	99	2.0	99	91	0	318	31	16	17	34	1.92
474546--474619	23	3.3	22	80	14	71	81	1	5	12	0.93
474548--474626	24	3.2	24	75	20	67	79	1	7	11	0.98
476068--476116	7	6.3	7	82	17	53	65	0	0	34	0.93
476063--476116	20	2.6	22	83	13	71	64	0	0	35	0.94
476247--476610	38	9.6	37	79	11	255	43	7	3	45	1.48
476235--476573	37	9.0	37	79	11	307	43	7	3	45	1.48
476758--476799	21	1.9	23	90	9	70	66	2	0	30	1.04
476769--476812	21	2.0	21	82	8	52	65	6	0	27	1.17
477825--477851	13	2.1	13	100	0	54	37	14	25	22	1.93
482239--482291	29	1.9	27	88	11	81	24	15	13	47	1.81
483350--483398	24	2.0	24	96	0	89	26	8	18	46	1.76
485166--485301	60	2.3	60	80	2	157	33	14	19	31	1.92
490006--490038	4	8.2	4	100	0	66	51	0	0	48	1.00
492135--492491	131	2.7	132	82	2	391	32	10	16	39	1.83
493830--493899	19	3.1	23	64	27	60	28	22	10	38	1.87
493977--494057	40	2.0	40	82	0	99	25	24	23	25	2.00
494731--494798	34	2.0	34	97	0	127	32	16	2	48	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495438--495840	41	9.7	41	79	6	355	28	21	17	33	1.96
495486--495840	83	4.3	83	91	0	559	27	22	17	32	1.96
499248--499568	43	7.5	43	81	4	328	22	22	20	33	1.97
499248--499564	128	2.5	129	79	6	327	23	22	20	34	1.97
511635--512605	408	2.4	404	83	5	1224	31	21	16	30	1.95
511635--512664	134	7.6	134	82	5	1108	31	21	16	30	1.95
514869--515142	131	2.1	131	81	0	323	32	10	17	39	1.84
517778--517905	59	2.2	59	94	2	222	39	9	15	35	1.80
519518--519591	21	3.6	21	75	3	87	21	18	25	33	1.96
519514--519614	41	2.5	41	95	3	177	18	19	24	36	1.95
519539--519611	20	3.6	20	74	7	76	13	21	26	38	1.91
520260--520313	6	9.0	6	100	0	108	0	16	50	33	1.46
520402--520515	20	5.6	20	67	4	84	38	22	20	18	1.93
520399--520540	41	3.5	41	95	0	257	37	23	19	20	1.94
520376--520544	21	8.1	21	71	5	128	37	23	18	19	1.94
521835--521892	30	1.9	30	89	6	91	60	8	5	25	1.47
522642--522670	9	3.2	9	100	0	58	55	0	10	34	1.34
525407--525473	28	2.4	28	85	5	91	35	20	16	26	1.94
527432--527505	23	3.2	23	84	0	85	18	22	21	36	1.95
528324--528365	3	13.7	3	95	5	75	66	0	0	33	0.92
529187--529245	31	2.0	30	83	6	75	28	15	8	47	1.74
530010--530085	37	2.1	37	80	9	84	57	0	5	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530742--530782	21	2.0	21	90	9	66	41	7	14	36	1.74
532649--532691	22	2.0	21	86	4	59	48	0	0	51	1.00
533475--533521	23	2.0	23	95	0	85	36	40	4	19	1.71
534658--534742	3	29.3	3	81	11	88	38	0	1	60	1.05
534884--534908	13	1.9	13	100	0	50	52	32	0	16	1.44
548041--548084	12	3.8	12	79	14	56	75	0	11	13	1.06
548041--548092	12	4.5	11	79	16	52	76	0	11	11	1.01
548021--548092	23	3.0	24	84	13	87	73	0	16	9	1.08
548023--548094	13	5.8	13	71	22	57	76	0	15	8	1.01
549110--549486	55	6.9	55	87	4	449	31	15	25	28	1.95
549329--549537	110	1.9	110	82	5	262	30	18	23	27	1.97
549702--549747	11	4.1	11	86	5	56	45	0	0	54	0.99
549896--549920	13	1.9	13	100	0	50	52	24	0	24	1.48
561488--561535	2	24.0	2	100	0	96	50	0	0	50	1.00
561812--561836	11	2.3	11	100	0	50	68	0	0	32	0.90
563251--563296	3	16.3	3	82	13	62	69	0	0	30	0.89
563253--563294	14	3.1	13	83	10	57	71	0	0	28	0.86
563255--563302	19	2.4	19	86	6	60	72	0	0	27	0.84
563252--563295	22	2.0	22	90	0	70	72	0	0	27	0.85
564768--564850	22	3.8	22	90	3	123	37	14	10	37	1.81
565732--565775	21	2.1	21	100	0	88	27	40	9	22	1.84
571944--571982	2	19.5	2	100	0	78	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571975--572017	22	1.9	23	85	4	61	46	0	2	51	1.13
573528--573601	3	27.3	3	77	20	83	70	0	0	29	0.88
573532--573589	5	12.0	5	78	17	61	74	0	0	25	0.82
573532--573600	8	9.0	8	79	19	76	72	0	0	27	0.85
573532--573589	23	2.5	24	91	5	100	74	0	0	25	0.82
573532--573600	23	3.0	23	83	12	97	72	0	0	27	0.85
576607--576722	40	2.9	39	81	7	117	27	24	13	34	1.93
576635--576753	20	6.2	19	73	10	62	28	23	11	36	1.90
576627--576756	60	2.2	58	78	8	138	29	24	11	34	1.91
576625--576735	40	2.8	40	84	2	134	30	24	11	33	1.91
577683--577740	24	2.4	24	91	0	80	24	12	20	43	1.86
580007--580041	6	5.8	6	86	0	52	60	20	2	17	1.49
580008--580048	18	2.3	18	95	0	73	56	24	2	17	1.53
580300--580378	20	4.0	20	86	0	86	45	16	13	24	1.84
581917--582070	21	7.3	21	81	7	125	25	14	37	22	1.93
582368--582446	21	3.8	21	68	6	61	37	30	10	21	1.86
582356--582535	63	2.9	62	76	3	189	33	32	13	20	1.92
582367--582461	42	2.3	43	77	5	122	35	33	9	21	1.85
582480--582544	21	3.1	21	90	0	103	33	35	12	18	1.88
582644--582788	42	3.5	42	87	1	184	20	14	38	26	1.91
584334--584367	14	2.4	14	90	0	50	11	17	23	47	1.81
584348--584386	20	2.0	20	94	0	69	15	12	17	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584350--584393	20	2.2	20	87	0	61	15	13	18	52	1.75
584848--584885	20	2.0	20	89	5	60	47	10	15	26	1.78
587797--588022	116	1.9	116	99	0	443	34	8	3	53	1.48
589270--589311	16	2.8	16	78	7	52	47	23	0	28	1.52
589270--589318	14	3.4	14	75	10	53	46	22	0	30	1.52
589576--589713	7	19.1	7	68	18	61	47	24	1	26	1.61
589757--589786	15	1.9	16	93	6	53	53	26	0	20	1.46
589657--589993	182	1.9	180	93	1	584	45	23	4	25	1.71
590741--590815	35	2.1	35	90	0	114	32	29	29	9	1.88
590876--590987	24	4.7	24	80	2	82	41	18	13	26	1.88

Tables:   1   2   3   4   5