genome.fa.s5836.2.7.7.80.10.50.1000.4.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: VEPZ01005836.1 Hibiscus syriacus cultivar Beakdansim tig00013680_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  991970

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 705 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)
473646--473687	13	3.2	13	89	0	66	80	0	4	14	0.86
473863--473955	20	4.6	20	79	2	105	16	20	22	40	1.91
473838--473955	61	1.9	61	92	0	200	19	19	22	38	1.93
473887--474047	84	1.9	84	94	0	286	20	18	24	36	1.94
473883--474102	41	5.3	41	87	2	296	21	18	25	34	1.96
473970--474037	20	3.3	20	73	4	64	17	19	25	38	1.93
473842--474105	21	12.7	21	74	4	169	22	17	25	34	1.96
474288--474320	6	5.5	6	100	0	66	33	51	15	0	1.43
474812--474862	5	9.6	5	97	2	75	0	19	54	25	1.44
474979--475058	22	3.4	22	66	21	63	37	26	18	17	1.93
474961--475057	49	2.0	49	97	0	185	38	23	18	19	1.93
475022--475081	20	2.9	20	76	13	68	38	25	23	13	1.91
475070--475123	21	2.6	21	90	0	90	29	25	16	27	1.97
481585--481685	44	2.3	44	85	8	127	29	24	17	27	1.98
481606--481684	23	3.5	22	75	6	79	27	24	17	30	1.97
489752--489924	40	4.3	40	82	9	210	41	24	15	19	1.89
489709--489924	80	2.7	80	87	2	301	40	25	14	18	1.89
489907--490017	19	5.7	19	86	6	134	36	22	11	29	1.90
489907--490017	39	2.8	38	86	6	143	36	22	11	29	1.90
489709--490018	20	15.6	20	73	12	176	39	24	13	22	1.90
490143--490211	34	2.0	34	97	0	129	26	39	2	31	1.71
493725--493900	66	2.6	65	89	8	257	52	17	2	27	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495286--495333	21	2.3	22	86	13	75	27	14	33	25	1.94
495741--495790	21	2.4	21	86	0	73	34	30	16	20	1.94
497908--497958	22	2.3	22	89	0	75	23	15	41	19	1.90
498065--498208	20	7.2	20	89	3	184	19	15	23	40	1.90
498202--498248	20	2.3	20	92	0	76	21	17	25	36	1.94
499375--499439	22	3.0	22	80	8	87	35	10	20	33	1.87
503145--503225	3	27.7	3	79	14	89	71	1	2	24	1.05
503241--503304	31	2.1	31	85	5	85	46	6	1	45	1.37
503281--503545	37	7.6	37	72	18	160	44	6	3	46	1.43
503355--503567	64	3.2	65	77	12	211	46	7	2	43	1.44
503395--503476	26	3.2	26	87	3	112	45	6	2	46	1.41
503512--503569	28	2.1	28	83	0	71	48	8	1	41	1.44
504147--504237	34	2.6	34	89	5	139	29	9	17	42	1.82
504284--504534	36	7.1	36	79	11	279	39	13	19	26	1.89
504455--504561	36	2.9	35	87	6	126	37	13	20	28	1.90
508660--508685	4	6.5	4	100	0	52	76	0	0	23	0.78
509920--509963	15	2.9	15	79	0	52	77	0	2	20	0.88
509915--509963	24	2.0	24	84	0	62	77	0	2	20	0.87
509956--510010	13	4.0	14	76	9	60	49	10	0	40	1.38
509976--510015	15	2.7	15	84	3	55	47	10	0	42	1.37
510027--510262	37	6.6	37	76	15	167	43	6	4	45	1.51
510057--510118	25	2.4	25	86	8	79	43	4	3	48	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510016--510218	64	3.0	63	79	13	178	42	6	4	46	1.49
510084--510262	75	2.4	76	82	8	206	43	7	3	45	1.50
510084--510282	37	5.3	36	79	11	152	44	8	4	43	1.53
511459--511492	2	17.0	2	100	0	68	50	0	0	50	1.00
512858--512923	2	33.0	2	100	0	132	50	0	0	50	1.00
514749--515100	20	17.5	19	78	13	228	39	23	20	16	1.92
514750--515088	40	8.4	40	77	13	252	38	23	20	16	1.93
514825--515100	60	4.5	60	85	7	290	37	24	21	16	1.93
514827--515100	40	6.8	40	83	9	263	37	24	21	16	1.93
515211--515242	6	5.5	6	92	7	57	34	50	15	0	1.45
515997--516023	6	4.5	6	100	0	54	0	14	51	33	1.43
516134--516263	20	6.4	20	78	8	138	16	21	24	36	1.94
516134--516241	40	2.7	40	92	0	180	16	22	23	37	1.93
516147--516267	60	2.0	62	90	6	194	17	22	23	37	1.94
516147--516325	20	8.9	19	74	12	121	17	21	21	40	1.92
516631--516998	131	2.8	130	77	0	376	40	16	10	32	1.82
519109--519145	3	12.3	3	100	0	74	67	0	0	32	0.91
519955--519995	16	2.5	17	76	7	50	73	4	7	14	1.22
526586--526730	77	1.9	77	85	0	200	33	13	21	31	1.92
527104--527211	54	2.0	54	85	0	144	35	12	24	27	1.92
527825--527897	35	2.1	35	97	0	137	35	16	23	24	1.95
536140--536183	21	2.1	21	82	0	52	9	43	15	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538176--538434	73	3.6	72	93	1	428	32	15	12	39	1.85
538176--538436	37	7.1	37	63	9	149	32	14	12	39	1.84
538447--538778	39	8.5	39	89	0	477	40	11	25	22	1.88
549580--549891	149	2.1	149	87	4	450	33	9	13	44	1.75
549588--549889	76	4.1	74	86	5	396	33	9	13	43	1.76
556655--556680	7	3.7	7	100	0	52	26	0	11	61	1.30
569601--569637	19	1.9	19	94	0	65	32	29	16	21	1.95
569710--569757	20	2.3	20	82	3	60	33	16	20	29	1.95
569935--569988	22	2.5	22	78	0	63	20	38	18	22	1.93
570366--570468	20	5.2	20	79	2	118	19	18	23	38	1.93
570368--570468	39	2.5	40	80	3	114	19	17	22	39	1.92
572228--572279	20	2.6	20	84	6	70	32	25	21	21	1.98
572341--572377	19	1.9	19	100	0	74	5	16	29	48	1.68
572337--572384	19	2.5	19	82	3	69	8	14	25	52	1.69
572342--572390	19	2.6	19	86	0	53	8	16	24	51	1.71
572399--572467	20	3.5	20	84	7	95	18	21	24	34	1.96
572990--573101	42	2.7	42	81	2	118	22	37	17	22	1.94
572987--573101	21	5.5	21	71	4	88	21	37	18	22	1.94
574444--574505	14	4.3	14	75	6	61	35	0	17	46	1.49
574604--574657	20	2.7	20	85	5	74	42	27	18	11	1.84
574700--574839	20	7.3	20	79	9	130	24	17	22	35	1.95
574741--574884	54	2.7	54	86	2	209	23	15	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575055--575089	18	1.9	18	94	0	61	17	2	25	54	1.57
578019--578253	41	5.7	41	84	6	289	23	16	24	35	1.95
578075--578253	62	2.9	62	94	0	304	23	16	24	35	1.95
578019--578252	103	2.3	102	84	6	328	23	16	24	35	1.95
578236--578286	20	2.5	20	83	3	66	29	21	15	33	1.94
578268--578308	21	2.0	21	85	0	55	39	19	19	21	1.93
578359--578395	19	1.9	19	88	0	56	24	16	27	32	1.96
581134--581164	2	15.5	2	100	0	62	51	0	0	48	1.00
581612--581652	18	2.3	19	83	12	59	63	0	0	36	0.95
581616--581652	17	2.1	18	90	5	58	62	0	0	37	0.96
582021--582114	42	2.2	42	92	0	152	18	18	17	46	1.84
582459--582527	19	3.6	18	71	21	52	49	1	1	47	1.19
582422--582507	27	3.1	27	71	18	70	47	1	2	48	1.22
582663--582713	27	1.9	27	84	11	70	54	0	0	45	0.99
582907--582955	14	3.4	14	73	15	55	38	18	2	40	1.62
583935--583983	18	2.7	18	87	0	71	36	6	26	30	1.81
584644--584751	55	1.9	56	98	1	209	35	9	21	34	1.85
592463--592511	2	24.5	2	100	0	98	48	0	0	51	1.00
592988--593036	17	2.8	17	79	14	55	36	0	4	59	1.17
597646--597674	13	2.2	13	100	0	58	62	0	0	37	0.96
604543--604627	21	3.9	22	77	11	77	23	37	24	14	1.92
607180--607220	17	2.4	17	100	0	82	19	0	36	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608785--608963	64	2.8	64	78	5	173	32	22	18	26	1.97
609367--609584	103	2.1	103	93	1	366	26	12	23	37	1.91
609601--609663	23	2.7	22	88	9	90	22	25	26	25	2.00
615770--615937	64	2.6	67	82	6	202	34	19	21	24	1.96
615818--615996	64	2.8	64	80	5	200	32	22	18	25	1.97
616400--616617	103	2.1	103	94	0	382	24	13	24	37	1.92
616633--616695	23	2.8	23	80	7	76	19	25	28	26	1.98
625189--625233	17	2.6	17	96	0	81	17	26	26	28	1.98
627540--627599	31	1.9	31	89	0	93	25	21	15	38	1.92
629356--629430	30	2.5	30	91	0	114	25	25	14	34	1.94

Tables:   1   2   3   4   5   6