genome.fa.s2881.2.7.7.80.10.50.1000.3.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: VEPZ01002881.1 Hibiscus syriacus cultivar Beakdansim tig00005939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1746118

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 968 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)
398354--398474	59	2.1	59	100	0	242	24	11	24	38	1.89
401862--401902	20	2.0	21	90	4	66	43	14	4	36	1.67
409742--409827	40	2.2	40	86	0	118	19	11	19	48	1.79
416069--416100	16	2.0	16	100	0	64	56	6	18	18	1.62
417017--417096	21	3.9	21	77	6	83	48	26	0	25	1.51
417401--417429	14	2.1	14	93	6	51	62	3	13	20	1.46
418673--418720	23	2.1	23	88	0	69	35	12	18	33	1.89
421055--421103	22	2.3	22	92	3	82	51	0	10	38	1.36
421465--421862	198	2.0	200	99	1	782	39	21	14	24	1.91
428149--428315	83	2.0	83	100	0	334	38	16	16	27	1.91
429602--429685	21	3.9	21	72	14	64	14	25	36	23	1.92
443222--443344	32	3.9	32	81	7	126	33	21	18	26	1.97
443222--443343	63	1.9	63	81	5	147	33	21	18	26	1.96
447364--447502	68	2.0	68	100	0	278	21	29	27	21	1.99
449947--450016	35	2.0	35	100	0	140	28	2	14	54	1.54
451642--451675	17	2.1	16	88	5	50	76	0	8	14	1.01
455494--455537	20	2.2	20	84	4	63	65	0	15	18	1.27
461880--461913	17	2.1	16	88	5	50	76	0	8	14	1.01
466363--466398	16	2.2	16	95	0	63	38	0	30	30	1.58
466399--466486	39	2.2	40	86	4	117	21	17	23	37	1.94
474052--474150	15	6.3	16	68	20	57	51	5	2	41	1.35
474064--474276	20	11.2	20	66	22	79	48	5	5	40	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474219--474897	2	340.0	2	61	23	71	51	2	6	39	1.41
474242--474276	11	3.3	11	88	4	54	54	0	0	45	0.99
474220--474315	50	1.9	50	81	12	117	47	2	2	47	1.25
474254--474332	17	4.5	17	71	19	56	45	2	2	49	1.29
474254--474398	25	5.7	26	71	16	81	46	2	4	46	1.35
474340--475054	28	25.6	28	70	21	300	53	2	7	37	1.40
474394--474567	40	4.2	41	75	18	146	53	2	8	36	1.43
474368--474553	80	2.3	81	83	8	265	53	2	6	37	1.39
474558--475054	30	17.7	28	70	22	79	53	2	7	37	1.40
474351--475054	22	31.3	22	71	21	304	53	2	7	37	1.40
474876--475094	79	2.7	80	81	11	211	55	1	5	36	1.35
474912--475084	35	5.0	35	80	14	173	56	2	5	35	1.34
474556--475084	101	5.1	101	73	18	371	53	2	6	37	1.39
474349--475063	13	53.3	12	66	20	127	53	2	6	37	1.40
474576--475110	28	19.0	28	72	18	214	53	1	6	38	1.38
474521--475084	58	9.9	56	71	20	240	53	2	6	37	1.40
474944--475108	14	11.4	14	71	24	73	56	1	4	36	1.28
474955--475110	65	2.4	66	85	9	205	57	1	4	36	1.27
474954--475110	22	7.2	21	78	16	151	57	1	4	36	1.27
475697--475730	17	2.0	17	94	0	59	47	17	14	20	1.83
476303--476360	3	20.0	3	76	13	59	27	3	1	67	1.17
476479--476577	25	4.0	25	92	7	159	36	19	15	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491249--491413	87	1.9	89	92	2	280	26	29	18	25	1.98
491451--491554	3	34.7	3	88	3	156	33	0	0	65	0.99
503789--503886	6	16.5	6	72	17	80	78	0	19	2	0.85
504202--504242	18	2.4	16	88	8	55	31	7	9	51	1.62
504999--505190	99	1.9	99	97	2	368	22	14	23	39	1.91
504999--505190	49	3.9	50	97	2	370	22	14	23	39	1.91
505906--506433	119	4.5	118	92	5	837	35	15	20	28	1.93
506584--506667	3	27.7	3	83	7	107	33	1	0	65	1.00
507130--507156	14	1.9	14	100	0	54	51	14	33	0	1.43
507443--507468	13	2.0	13	100	0	52	7	30	53	7	1.57
508916--508973	3	20.0	3	76	13	59	27	3	1	67	1.17
509092--509240	25	6.0	25	95	2	257	35	20	15	28	1.93
516176--516672	165	3.0	165	90	2	763	29	12	19	38	1.88
517473--517512	21	2.0	20	85	5	53	52	7	15	25	1.68
517819--517873	23	2.4	23	78	0	65	43	16	16	23	1.87
533877--534204	162	2.0	165	96	3	610	17	26	7	47	1.75
537550--537582	16	2.1	16	88	11	50	27	12	12	48	1.76
539020--539044	12	2.1	12	100	0	50	48	28	8	16	1.74
544249--544332	11	8.1	10	69	20	57	41	1	3	53	1.26
544280--544332	20	2.6	21	80	11	58	41	1	1	54	1.22
544247--544333	31	2.8	30	81	10	104	42	1	3	52	1.25
545085--545171	31	2.8	30	81	10	95	54	3	1	41	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545080--545147	19	3.5	20	73	15	54	54	1	2	41	1.24
554255--554304	24	2.1	24	92	0	82	32	14	20	34	1.92
556409--556478	21	3.4	21	72	4	70	35	20	11	32	1.88
556431--556492	20	3.0	20	72	4	70	32	24	12	30	1.93
556408--556509	41	2.5	41	90	0	159	32	21	15	30	1.95
558172--558225	3	18.0	3	86	7	74	35	0	1	62	1.06
558160--558219	27	2.2	27	96	0	111	35	1	3	60	1.23
561944--562029	18	4.8	18	77	8	77	39	16	13	30	1.87
561943--562023	35	2.3	36	85	6	103	38	16	14	30	1.89
563580--563625	22	2.1	22	88	8	67	36	17	4	41	1.69
564773--564857	29	2.9	29	73	15	84	32	14	5	47	1.68
565859--565908	26	1.9	26	84	8	66	10	24	16	50	1.75
567893--567935	20	2.2	20	86	0	59	30	13	20	34	1.92
574346--574500	60	2.6	61	80	7	149	43	6	18	30	1.75
576040--576101	32	1.9	32	93	0	106	32	11	20	35	1.88
577178--577229	26	1.9	27	84	7	70	67	11	7	13	1.42
578470--578603	60	2.2	59	81	7	153	33	12	17	35	1.88
583143--583254	59	1.9	59	85	3	154	31	16	17	33	1.93
583480--583611	59	2.2	60	81	10	155	34	12	18	34	1.89
584141--584167	12	2.2	12	100	0	54	77	7	7	7	1.12
584726--584774	24	2.1	23	88	3	71	53	22	0	24	1.47
586848--586922	30	2.5	30	88	2	105	52	17	12	18	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
586866--586922	30	1.9	30	100	0	114	54	17	12	15	1.71
588195--588260	2	33.0	2	100	0	132	50	0	0	50	1.00
588424--588452	2	14.5	2	100	0	58	48	0	0	51	1.00
592805--592847	14	3.0	15	83	10	54	76	6	0	16	0.99
596067--596115	23	2.1	23	85	7	64	59	12	2	26	1.44
597541--597578	19	2.0	19	89	0	58	34	2	0	63	1.09
602579--602611	16	2.0	17	88	5	50	9	0	30	60	1.27
603621--603811	85	2.2	85	81	7	210	32	20	15	31	1.94
603831--603859	2	14.5	2	100	0	58	48	0	0	51	1.00
605759--605804	22	2.1	22	91	0	74	32	15	17	34	1.91
606109--606200	26	3.6	26	67	12	75	56	9	32	1	1.39
607966--608003	20	1.9	20	94	0	67	26	23	18	31	1.97
607987--608049	24	2.6	24	94	0	108	23	22	19	34	1.96
608054--608158	47	2.3	45	83	4	131	28	19	16	36	1.93
610349--610400	2	26.0	2	100	0	104	50	0	0	50	1.00
613712--613953	79	3.1	78	80	4	281	25	11	23	38	1.89
613735--614079	79	4.4	78	76	7	268	27	12	22	37	1.90
613705--614079	158	2.4	156	80	7	398	26	13	22	37	1.91
617246--617395	55	2.7	55	89	0	237	29	23	15	32	1.95
617391--617673	54	5.3	54	96	0	496	18	26	19	36	1.94
617673--617752	37	2.2	37	84	4	99	21	20	16	42	1.89
618026--618139	37	3.1	37	91	2	185	25	16	23	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
618000--618139	73	1.9	73	86	2	201	24	19	22	33	1.97
622971--623121	72	2.1	73	93	2	261	23	25	13	37	1.91
623789--623896	55	2.0	55	92	0	180	22	22	11	44	1.84
624202--624333	45	2.9	47	81	4	178	32	22	15	29	1.95
627256--627299	22	2.0	22	100	0	88	18	22	18	40	1.91
629222--629369	50	3.0	50	96	2	271	24	20	25	30	1.99
629318--629613	65	4.6	65	92	1	470	26	22	23	27	2.00
629318--629613	129	2.3	130	91	1	470	26	22	23	27	2.00
629955--630037	31	2.7	31	92	0	130	33	18	7	40	1.78
631798--631841	21	2.1	21	86	0	61	43	9	0	47	1.35

Tables:   1   2   3   4   5   6   7   8   9