genome.fa.s9587.2.7.7.80.10.50.1000.3.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  3  of  29  ( 3457 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)
500550--500609	28	2.1	28	81	0	66	3	16	0	80	0.85
500477--500622	61	2.4	60	79	14	156	4	15	0	78	0.95
511067--511179	51	2.2	51	96	0	208	64	0	3	31	1.10
511152--511186	18	1.9	18	100	0	70	68	0	0	31	0.90
511148--511188	10	4.4	10	79	14	52	70	0	0	29	0.87
511538--511585	23	2.1	23	88	0	69	35	12	18	33	1.89
511967--512018	23	2.3	22	90	6	77	44	19	1	34	1.62
511977--512039	23	2.7	23	90	0	90	38	19	6	36	1.77
512443--512529	39	2.2	39	95	0	156	17	13	20	48	1.81
512786--512822	18	2.1	18	89	0	56	51	10	5	32	1.60
513071--513121	25	2.0	25	92	0	84	39	19	7	33	1.81
513388--513439	23	2.3	22	90	6	77	44	19	1	34	1.62
513398--513460	23	2.7	23	90	0	90	38	19	6	36	1.77
513730--513781	23	2.3	22	90	6	77	44	19	1	34	1.62
513740--513802	23	2.7	23	90	0	90	38	19	6	36	1.77
514223--514750	184	2.9	184	95	0	939	33	16	14	35	1.89
516192--516277	9	9.6	9	78	5	93	23	34	6	34	1.82
516204--516295	12	7.4	12	82	3	85	21	34	8	34	1.84
516191--516283	18	5.2	18	84	0	114	23	34	6	35	1.81
516195--516298	18	5.4	18	72	15	66	21	34	7	36	1.82
516191--516283	6	15.5	6	80	0	87	23	34	6	35	1.81
517750--519161	198	7.1	198	96	1	2572	31	15	15	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519239--519286	18	2.6	19	86	6	71	56	10	2	31	1.45
521063--521127	33	2.0	32	84	3	85	24	46	1	27	1.62
523408--523454	20	2.4	19	79	10	58	19	17	8	55	1.67
523574--523619	20	2.3	20	89	10	76	17	17	10	54	1.70
524560--524601	15	2.8	15	100	0	84	38	0	7	54	1.28
524766--524921	52	3.0	52	97	0	294	42	8	13	35	1.74
525821--525862	19	2.2	19	83	8	50	50	2	7	40	1.43
525928--526069	71	2.0	71	100	0	284	43	9	9	36	1.71
526791--526848	30	1.9	31	92	3	100	29	29	8	32	1.87
527595--527704	55	2.0	55	100	0	220	27	27	9	36	1.87
528550--528629	3	26.7	3	79	0	79	58	2	1	37	1.19
529118--529212	42	2.3	42	81	5	113	31	21	22	25	1.98
528876--529412	255	2.1	255	88	2	792	33	15	17	33	1.92
536318--536378	27	2.3	27	88	0	95	29	14	13	42	1.84
539831--539869	21	1.9	21	89	5	62	25	15	23	35	1.94
543428--543527	42	2.4	42	80	8	116	33	17	19	31	1.94
543449--543527	21	3.8	21	69	15	65	31	18	18	30	1.96
543455--543546	42	2.2	41	80	3	112	31	19	19	29	1.97
542979--543547	255	2.2	253	83	5	754	34	15	16	33	1.91
553177--553266	27	3.3	27	98	0	162	22	22	17	37	1.94
555169--556002	414	2.0	416	88	3	1245	38	8	8	43	1.67
558770--558807	16	2.2	17	86	9	51	21	5	5	68	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558978--559359	192	2.0	190	98	1	746	32	12	23	31	1.92
559527--559820	32	9.2	32	70	10	136	49	7	3	39	1.47
562099--562289	29	6.6	29	73	11	140	51	13	3	30	1.58
562121--562289	58	2.9	58	78	11	168	53	14	2	28	1.56
563384--563602	45	4.9	45	87	0	312	29	18	10	42	1.83
563362--563635	90	3.0	90	78	4	302	30	19	10	40	1.85
563385--563634	135	1.9	135	83	1	331	30	19	10	40	1.85
563577--563727	79	1.9	79	89	2	232	29	25	9	35	1.88
570256--570316	20	3.0	20	71	15	61	29	29	26	14	1.95
575566--575635	35	2.0	35	100	0	140	25	17	20	37	1.94
576195--576231	12	3.3	12	85	14	53	64	0	0	35	0.94
579503--579591	25	3.5	25	96	1	160	50	16	15	16	1.78
583454--583544	40	2.3	40	84	5	123	30	18	16	34	1.93
584640--584725	32	2.7	32	80	7	95	36	16	16	31	1.91
585054--585546	246	2.0	246	100	0	986	29	19	12	38	1.88
588578--588820	120	2.0	123	97	2	465	43	13	5	37	1.68
589976--590183	44	5.0	42	73	13	187	30	20	9	39	1.84
589985--590183	87	2.4	79	81	9	229	29	20	9	40	1.83
594357--594382	5	5.2	5	100	0	52	0	19	57	23	1.40
594398--594423	5	5.2	5	100	0	52	0	19	57	23	1.40
594403--594493	39	2.5	35	84	12	103	12	19	39	28	1.88
595686--596006	45	7.2	44	83	3	345	28	19	10	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595697--596038	134	2.5	134	82	3	375	28	21	10	39	1.86
595688--596038	179	2.0	179	86	4	494	28	21	10	39	1.86
598176--598239	31	2.0	32	93	3	112	43	23	7	25	1.80
602199--602237	20	2.0	20	85	10	53	20	15	17	46	1.84
613197--613521	45	7.3	45	84	4	381	29	20	10	39	1.85
613207--613541	178	1.9	178	89	2	521	29	21	10	38	1.87
613898--614089	95	2.0	94	84	7	246	29	25	16	29	1.96
615599--615650	19	2.8	18	77	5	59	28	23	30	17	1.97
616090--616122	14	2.4	14	85	5	50	66	6	0	27	1.15
616429--616458	15	2.0	15	93	0	51	40	13	16	30	1.87
617242--617320	29	2.7	29	96	0	140	40	26	6	26	1.80
624290--624320	2	15.5	2	100	0	62	48	0	0	51	1.00
627136--627164	14	2.0	15	93	6	51	10	0	27	62	1.28
636142--636175	15	2.3	15	100	0	68	11	41	5	41	1.66
640913--640952	21	1.9	21	89	0	62	10	25	40	25	1.86
640933--640995	20	2.9	21	79	9	65	15	25	34	23	1.95
644796--644835	21	1.9	21	85	10	55	35	10	2	52	1.48
668305--668358	21	2.6	21	93	0	90	24	29	20	25	1.99
669622--670144	171	3.1	169	80	5	536	34	19	16	29	1.94
680674--680784	40	2.8	40	91	0	195	25	14	26	34	1.94
683534--683653	19	6.7	18	71	18	74	46	27	0	25	1.58
683562--683604	18	2.3	19	88	4	61	46	23	0	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
685289--685314	3	8.7	3	100	0	52	30	0	0	69	0.89
685606--685739	43	3.1	42	74	5	117	35	19	12	32	1.89
688491--688557	33	2.0	33	88	0	98	55	13	10	20	1.67
690088--690119	2	16.0	2	100	0	64	50	0	0	50	1.00
690829--690890	21	3.0	21	95	0	106	51	17	6	24	1.69
692987--693026	21	1.9	21	94	0	71	35	15	2	47	1.58
693878--694029	41	3.7	41	80	6	175	36	15	19	28	1.92
693879--694029	82	1.9	81	88	4	232	37	15	18	28	1.92
694807--694942	69	2.0	69	86	2	193	19	26	19	33	1.96
695186--695492	76	4.1	76	74	5	237	38	19	10	31	1.85
697258--697314	27	2.2	26	84	9	73	33	0	7	59	1.24
699935--699986	25	2.1	25	92	0	86	59	7	19	13	1.58
703550--703586	11	3.4	11	92	0	56	16	8	0	75	1.02
703550--703587	17	2.3	17	82	17	53	15	7	0	76	1.01
706254--706290	12	3.5	11	86	13	51	24	0	2	72	0.97
710263--710287	2	12.5	2	100	0	50	48	0	0	52	1.00
713172--713216	18	2.5	19	82	17	60	60	0	26	13	1.34
724058--724162	35	3.0	35	90	2	149	36	15	24	23	1.94
725591--725635	18	2.5	18	100	0	90	62	0	17	20	1.33
726434--726628	100	2.0	100	91	0	318	44	11	15	28	1.82
727470--727536	19	3.1	22	70	29	63	19	0	28	52	1.46
730505--730573	8	8.6	8	74	6	59	31	0	30	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
730666--730951	158	1.8	158	86	1	421	29	14	19	36	1.92
732443--732489	24	2.1	24	84	11	64	65	10	4	19	1.39
732428--732492	32	2.0	34	87	6	98	66	9	4	20	1.38
733611--733645	14	2.6	14	90	4	54	62	0	2	34	1.10
733790--733839	20	2.4	20	86	6	64	66	0	2	32	1.03
733787--733841	24	2.4	22	84	6	65	67	0	1	30	1.01
735564--735885	46	7.0	46	89	0	446	41	13	23	21	1.88
735587--735656	20	3.2	20	66	21	50	42	11	25	20	1.85
735599--735859	26	11.2	25	65	23	151	41	12	24	21	1.88
735564--735944	138	2.8	138	86	0	512	43	13	21	22	1.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29