genome.fa.s8150.2.7.7.80.10.50.1000.3.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: VEPZ01008150.1 Hibiscus syriacus cultivar Beakdansim tig00110716_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3012591

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1639 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)
496389--496471	29	2.9	29	90	0	112	39	12	7	40	1.70
498331--498369	20	2.0	20	85	10	53	35	12	5	46	1.65
502594--502660	25	2.5	26	73	15	66	76	0	17	5	0.99
502616--502673	25	2.3	24	83	13	73	75	0	18	5	0.98
504158--504220	6	10.8	6	74	8	51	17	4	0	77	0.93
504155--504224	12	6.0	12	76	14	67	17	4	0	78	0.90
520004--520043	20	2.1	19	90	4	62	67	0	12	20	1.22
523158--523186	10	2.9	10	100	0	58	41	0	0	58	0.98
523388--523423	2	18.0	2	100	0	72	50	0	0	50	1.00
523583--523618	13	2.8	13	91	0	54	33	16	19	30	1.94
523441--523602	84	1.9	85	82	6	204	29	17	19	32	1.95
523996--524052	30	1.9	30	88	0	87	10	8	21	59	1.57
524157--524204	22	2.2	22	84	0	60	14	8	18	58	1.61
529449--529492	23	2.0	23	90	4	72	13	2	20	63	1.40
532381--532507	20	6.4	20	71	12	75	29	26	15	28	1.96
533412--533464	23	2.2	24	93	3	90	20	16	18	43	1.88
536223--536363	61	2.2	63	83	8	171	50	17	1	31	1.54
540323--540363	21	2.0	21	85	0	55	24	9	36	29	1.87
540496--540622	20	6.2	20	90	1	173	22	20	24	33	1.97
540482--540563	40	2.0	40	83	2	101	25	20	18	35	1.95
540503--540631	21	6.3	21	88	4	167	22	20	24	31	1.98
540543--540666	62	2.0	61	81	12	146	25	19	25	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540503--540703	20	9.9	21	79	9	148	24	17	25	32	1.97
541260--541387	60	2.1	60	85	8	172	35	24	4	35	1.76
541509--541692	60	3.1	59	79	5	219	41	5	20	32	1.76
542784--542809	6	4.3	6	100	0	52	53	30	0	15	1.42
548476--548573	42	2.2	45	87	8	141	52	1	1	45	1.14
555075--555535	55	8.5	55	84	8	531	31	24	15	28	1.96
555075--555541	216	2.1	217	86	7	644	30	24	15	28	1.96
556909--556933	11	2.3	11	100	0	50	8	8	0	84	0.79
556911--556969	18	3.3	17	77	11	64	6	18	0	74	1.03
556903--557015	19	6.2	19	71	15	87	6	19	0	73	1.10
556929--557029	28	3.9	27	75	14	81	5	19	0	73	1.10
556903--557029	19	6.6	18	70	19	62	6	18	0	74	1.08
556907--557036	9	14.5	8	68	23	57	6	18	0	73	1.09
566283--566385	45	2.2	46	85	10	138	42	19	9	28	1.82
573234--573295	18	3.6	17	82	10	74	37	11	6	45	1.66
579117--579150	13	2.6	13	90	9	52	47	5	17	29	1.71
579623--579677	23	2.5	22	91	5	92	27	23	34	14	1.94
579626--579683	23	2.5	23	91	0	89	27	20	36	15	1.93
585196--585248	21	2.5	21	90	6	81	26	24	32	16	1.97
586986--587015	15	1.9	16	93	6	53	36	3	20	40	1.69
598832--599224	193	2.0	193	96	0	723	27	15	22	34	1.94
616090--616132	18	2.4	18	88	0	59	72	0	4	23	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618057--618179	62	2.0	62	95	0	219	32	25	5	36	1.79
618783--618820	20	1.9	20	94	0	67	44	10	23	21	1.83
618783--618827	20	2.4	19	88	7	65	46	8	24	20	1.78
618788--618833	20	2.6	16	81	18	56	45	10	21	21	1.82
621282--621357	22	3.5	22	96	0	134	43	0	21	35	1.53
623520--623594	3	24.7	3	86	8	107	37	0	0	62	0.95
625060--625098	15	2.3	18	87	12	57	30	12	0	56	1.37
625687--625750	26	2.5	25	78	9	67	32	7	1	57	1.37
627325--627378	14	3.8	14	82	4	63	24	14	9	51	1.71
630670--630712	22	2.0	22	90	0	68	81	0	18	0	0.69
632920--633138	115	1.9	115	91	0	357	32	15	22	29	1.95
634048--634475	192	2.2	192	96	0	786	32	17	21	28	1.96
634048--634528	191	2.5	192	92	1	678	31	17	22	29	1.96
635411--635643	54	4.3	54	90	0	313	39	15	21	23	1.92
636010--636064	22	2.5	22	87	0	83	34	14	14	36	1.87
636484--636791	101	3.0	100	88	7	422	35	14	22	27	1.93
636839--636933	40	2.4	40	94	0	163	50	9	21	18	1.75
636715--637059	164	2.1	162	87	2	494	42	13	19	24	1.86
636874--637119	123	2.0	123	85	5	311	43	15	17	24	1.87
637341--637424	3	27.7	3	83	11	109	34	0	0	65	0.93
638821--638859	15	2.6	15	100	0	78	28	5	5	61	1.39
638815--638871	15	3.6	17	85	9	68	28	5	3	63	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638791--638871	44	1.9	43	82	7	103	30	6	2	60	1.34
638810--638882	26	2.8	27	77	8	71	28	4	2	64	1.26
638894--638919	2	13.0	2	100	0	52	50	0	0	50	1.00
640079--640255	87	2.0	87	90	0	273	37	27	18	15	1.92
647091--647625	268	2.0	267	97	0	1009	31	16	15	36	1.91
654620--654650	15	2.1	15	100	0	62	38	0	35	25	1.56
654739--654780	21	2.0	21	81	9	50	40	11	0	47	1.40
654854--654937	39	2.2	39	86	4	125	39	14	8	38	1.76
661857--661887	15	2.1	15	93	0	53	22	45	0	32	1.53
662176--662217	21	2.0	21	85	0	57	61	23	2	11	1.42
664187--664268	23	3.6	22	75	8	69	25	21	26	25	2.00
670084--670242	64	2.5	63	88	5	230	27	19	24	28	1.99
671032--671632	299	2.0	299	98	0	1157	32	12	18	36	1.88
677712--677803	30	3.0	29	77	13	78	51	15	2	31	1.55
678397--678435	20	1.9	20	89	5	60	61	7	0	30	1.24
679309--679359	23	2.1	25	82	7	61	50	3	5	39	1.45
708111--708151	2	20.5	2	100	0	82	51	0	0	48	1.00
714078--714119	12	3.5	12	86	0	57	33	4	30	30	1.78
715321--715354	9	3.7	9	88	4	50	73	0	2	23	0.97
715801--715835	6	5.7	6	86	6	52	51	0	0	48	1.00
715800--715853	23	2.3	23	87	6	72	51	0	0	48	1.00
715800--715836	13	2.9	13	88	4	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
718584--718823	42	5.6	42	87	3	320	18	22	25	33	1.97
718565--718854	84	3.4	85	84	2	341	18	23	24	33	1.97
718565--718854	42	6.8	42	82	3	294	18	23	24	33	1.97
723524--723835	42	7.3	42	89	1	426	21	22	23	32	1.98
723524--723835	126	2.4	127	89	2	473	21	22	23	32	1.98
728184--728961	136	5.7	136	83	2	884	28	17	16	37	1.92
728164--728974	271	3.0	270	83	3	977	28	17	17	36	1.92
729981--730040	26	2.3	26	81	13	70	8	15	0	76	1.00
750391--750442	12	4.4	12	81	13	54	76	7	0	15	0.99
758236--758271	16	2.2	16	90	0	54	16	0	5	77	0.94
760269--760320	12	4.5	11	75	13	50	32	5	0	61	1.20
762011--762568	45	12.6	45	75	8	360	24	16	16	42	1.88
762088--762516	135	3.2	133	77	6	402	23	15	17	43	1.87
775617--775641	2	12.5	2	100	0	50	48	0	0	52	1.00
775813--775869	26	2.2	26	90	0	87	42	29	19	8	1.81
777336--777382	4	11.8	4	100	0	94	25	0	23	51	1.49
779748--779844	33	3.0	33	86	7	144	36	16	17	29	1.92
780031--780063	2	16.5	2	93	0	57	48	0	0	51	1.00
782614--782676	6	10.5	6	78	0	63	58	12	3	25	1.49
782616--782677	24	2.6	24	94	0	115	58	12	3	25	1.50
783016--783078	8	7.8	8	89	3	90	34	23	14	26	1.93
783019--783074	4	13.8	4	77	3	58	32	25	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
783390--783432	18	2.5	17	77	7	50	34	2	2	60	1.22
785123--785234	60	1.9	59	88	1	170	33	14	16	34	1.89
785124--785247	60	2.1	59	83	4	151	34	16	15	33	1.90
786925--786969	22	2.1	20	84	12	54	48	20	4	26	1.68
789168--789228	29	2.1	29	87	0	86	29	8	16	45	1.76
791841--794470	661	4.0	660	97	1	5063	32	20	11	35	1.88
800089--800483	59	6.7	59	91	1	598	33	19	11	35	1.87
801850--801886	16	2.4	16	86	4	58	70	0	0	29	0.88
801858--801884	8	3.4	8	100	0	54	77	0	0	22	0.76
802559--802616	21	2.8	21	84	5	64	39	10	13	36	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14