genome.fa.s8016.2.7.7.80.10.50.1000.3.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  3  of  25  ( 2971 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)
497044--497235	81	2.4	80	82	2	258	26	20	15	37	1.93
516194--516239	19	2.4	19	96	0	83	43	13	21	21	1.86
517912--517953	2	21.0	2	90	0	66	2	45	0	52	1.13
519550--519617	33	2.1	33	91	5	111	23	8	2	64	1.36
519579--519640	25	2.7	22	68	20	54	22	8	3	66	1.33
520905--520994	46	2.0	46	90	0	144	40	13	20	26	1.89
528133--528178	24	2.0	24	91	4	76	23	26	23	26	2.00
528195--528417	105	2.1	104	79	1	239	41	21	14	22	1.89
529886--529986	21	4.7	22	88	2	134	20	25	22	30	1.98
531677--531738	27	2.3	27	94	0	106	19	12	12	54	1.70
532472--532528	22	2.6	22	100	0	114	33	17	10	38	1.84
533165--533345	45	4.0	45	90	1	254	24	23	21	30	1.99
533353--533449	45	2.2	45	94	0	176	24	22	18	34	1.96
533277--533419	76	1.9	74	85	2	196	27	20	20	31	1.98
533232--533849	121	4.9	121	76	11	516	26	21	20	31	1.97
533406--533609	76	2.7	77	92	1	329	25	19	19	34	1.96
533285--533647	198	1.8	198	87	0	546	25	20	20	33	1.97
533561--534005	47	9.7	47	87	3	597	28	21	20	30	1.98
537818--537885	33	2.1	33	88	5	102	25	10	2	61	1.42
537854--537907	26	2.1	26	93	3	92	24	7	3	64	1.35
537854--537916	25	2.3	28	86	10	87	25	6	3	65	1.32
537894--537964	30	2.3	30	81	9	81	21	7	1	70	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539769--539811	21	2.0	21	86	0	59	60	2	2	34	1.22
568715--568758	14	3.0	14	90	6	61	47	11	22	18	1.80
570828--570887	16	3.9	16	95	4	106	46	13	23	16	1.82
570828--570887	30	1.9	30	93	6	102	46	13	23	16	1.82
577944--577993	23	2.2	23	100	0	100	54	12	12	22	1.69
582273--582434	81	2.0	81	100	0	324	24	25	9	39	1.86
582771--583194	55	7.9	55	82	6	396	30	24	15	29	1.95
582771--583194	106	4.0	107	80	8	436	30	24	15	29	1.95
582821--583179	161	2.2	162	88	1	524	28	24	16	30	1.96
583196--583303	36	3.0	36	89	2	162	22	21	18	37	1.94
583198--583306	37	3.0	36	90	1	155	22	21	19	37	1.94
584585--584680	19	5.3	19	74	17	73	6	17	1	75	1.07
584589--584694	54	1.9	55	83	12	137	6	18	0	73	1.10
584611--584685	10	8.0	9	73	14	55	4	16	1	78	0.96
584648--584745	15	6.5	15	68	19	62	10	13	0	76	1.02
594045--594136	45	2.0	45	87	4	130	36	25	8	29	1.86
600044--600078	3	11.7	3	100	0	70	68	0	31	0	0.90
609920--609955	2	18.0	2	100	0	72	50	0	0	50	1.00
610088--610153	33	2.0	34	87	3	98	60	6	0	33	1.21
610196--610242	19	2.6	18	83	9	69	38	2	17	42	1.61
613348--613592	43	5.7	43	88	0	357	20	17	21	40	1.91
613348--613584	128	1.8	129	88	0	368	20	17	21	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613563--613619	30	1.9	30	96	0	105	14	14	26	45	1.82
613520--613664	73	2.0	73	87	0	209	19	15	21	43	1.88
616623--616901	40	6.9	41	74	4	154	32	17	21	29	1.96
616614--616838	123	1.8	123	86	0	326	32	17	21	29	1.96
616652--616915	122	2.2	123	81	4	284	32	17	21	29	1.96
617828--617912	9	8.7	10	86	11	83	36	0	0	63	0.95
617828--617913	6	13.8	6	86	13	113	37	0	0	62	0.95
619153--619208	18	2.9	20	79	10	64	26	1	3	67	1.16
619236--619265	3	10.0	3	92	0	51	33	3	0	63	1.11
619462--619503	20	2.2	19	86	4	57	33	0	2	64	1.07
619358--619593	119	2.0	116	81	5	278	37	7	8	46	1.64
620832--620876	23	2.0	23	86	0	63	26	26	26	20	1.99
632833--632870	10	3.7	10	89	3	58	84	0	13	2	0.73
634895--634940	23	2.0	22	84	12	58	52	6	23	17	1.68
634399--635164	334	2.3	333	91	1	1273	36	15	20	28	1.92
634431--635164	112	6.6	112	95	1	1258	36	14	20	27	1.92
635400--635454	3	17.7	3	82	17	60	38	0	0	61	0.96
636780--636809	3	10.0	3	92	0	51	33	3	0	63	1.11
636866--636905	20	2.0	20	85	9	55	30	7	2	60	1.38
638204--638242	21	1.9	21	89	5	62	38	20	12	28	1.89
649263--649289	2	13.5	2	100	0	54	51	0	0	48	1.00
654162--654229	26	2.6	26	88	4	102	27	22	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658201--658274	14	5.4	14	74	18	66	47	0	0	52	1.00
659925--660046	30	4.1	30	80	7	133	58	1	7	32	1.36
659925--660067	60	2.3	61	74	11	150	58	1	6	33	1.34
665965--666069	37	2.8	37	80	0	120	40	14	12	32	1.83
666769--666840	18	4.4	16	74	25	62	26	1	0	72	0.93
666747--666840	46	2.0	48	83	8	122	28	3	0	68	1.05
666784--666825	13	3.2	14	83	12	54	26	2	0	71	0.98
666922--666966	19	2.4	19	82	13	58	17	8	0	73	1.08
670371--670407	14	2.6	14	100	0	74	18	29	0	51	1.47
672660--672870	72	2.9	72	85	1	262	17	27	26	29	1.97
675523--675576	28	1.9	28	88	0	81	40	20	3	35	1.70
679169--679210	2	21.5	2	95	4	77	52	0	47	0	1.00
679741--679917	84	2.2	80	85	8	225	42	6	33	18	1.75
680136--680277	72	2.0	73	84	6	191	38	9	28	23	1.85
680582--680768	66	2.7	71	73	13	172	36	9	31	22	1.87
680604--680745	66	2.2	66	84	5	180	35	9	31	22	1.87
680438--681175	385	1.9	387	85	5	1008	39	7	31	21	1.82
680989--681127	66	2.1	66	85	2	181	38	7	31	22	1.83
681099--681349	84	2.9	85	80	8	292	38	5	32	23	1.78
681311--681493	71	2.6	72	81	1	197	33	9	32	24	1.88
685163--685485	30	11.0	29	74	10	133	37	5	0	56	1.28
685389--685484	26	3.8	24	80	13	88	34	2	1	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
685414--685477	24	2.6	24	83	11	85	34	0	1	64	1.03
685581--685631	26	2.0	25	81	11	59	60	0	5	33	1.21
685497--685653	31	5.2	31	74	14	139	54	0	8	36	1.37
686349--686375	3	9.0	3	100	0	54	0	33	33	33	1.58
691252--691298	21	2.3	20	81	3	58	42	2	0	55	1.12
694610--694665	17	3.3	16	78	9	58	60	3	3	32	1.31
694589--694669	42	1.9	42	82	9	103	55	4	2	37	1.35
697417--697461	20	2.2	20	88	7	65	33	11	17	37	1.85
700936--700969	18	1.9	17	88	5	50	55	5	20	17	1.62
701038--701095	22	2.7	21	89	5	89	22	27	25	24	2.00
702390--702570	64	2.8	63	84	3	218	27	16	25	29	1.97
702518--702554	19	1.9	19	94	0	65	24	16	35	24	1.95
702412--702619	65	3.2	63	81	12	226	27	16	24	30	1.97
707601--707682	21	3.9	21	76	10	78	15	25	34	24	1.95
707622--707682	20	2.9	20	85	7	68	18	26	32	22	1.97
711477--711524	20	2.4	20	75	6	53	39	4	2	54	1.32
714396--714451	2	29.0	2	92	7	98	48	0	0	51	1.00
716706--716737	16	2.0	16	93	0	55	40	12	28	18	1.87
724477--725180	359	2.0	359	98	1	1358	25	12	25	36	1.91
728465--728497	14	2.2	16	89	10	52	0	9	18	72	1.10
729843--729867	9	2.8	9	100	0	50	44	0	36	20	1.52
730942--731671	249	3.0	245	84	5	952	36	16	21	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
733000--733059	27	2.2	27	96	0	111	36	16	35	11	1.85
737409--737549	64	2.2	63	80	7	151	33	17	23	26	1.96
737537--737594	20	2.6	22	86	10	75	29	22	22	25	1.99
738284--738348	31	2.1	31	82	5	78	21	18	23	36	1.95
738323--738379	30	1.9	30	85	0	78	17	15	29	36	1.91
738334--738406	30	2.4	30	82	8	78	17	17	28	35	1.93
741310--741446	63	2.2	64	81	9	165	34	16	22	26	1.95
741434--741491	20	2.6	22	86	10	75	29	22	22	25	1.99
742231--742302	29	2.4	30	86	2	92	16	19	30	33	1.94
743460--743495	12	2.8	14	88	12	51	44	0	0	55	0.99

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