genome.fa.s2844.2.7.7.80.10.50.1000.3.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: VEPZ01002844.1 Hibiscus syriacus cultivar Beakdansim tig00005856_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1090609

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 551 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)
467148--467214	20	3.4	20	83	2	82	40	23	20	14	1.90
467187--467268	19	4.6	19	76	17	104	45	20	20	13	1.85
467280--467337	14	3.9	14	79	16	71	10	17	24	48	1.78
467275--467350	32	2.3	33	95	2	136	10	19	22	47	1.80
467338--467381	20	2.2	20	84	4	54	20	22	18	38	1.93
469261--469296	14	2.6	14	90	0	54	30	0	22	47	1.52
469379--469416	20	1.9	20	94	0	67	47	28	10	13	1.76
469423--469468	14	2.8	17	75	25	53	45	19	21	13	1.84
469473--469554	33	2.5	33	95	0	146	14	23	23	39	1.91
469494--469596	20	5.6	19	83	12	135	15	24	25	34	1.94
469520--469596	20	3.9	20	94	3	138	15	23	24	36	1.94
469809--469859	20	2.5	20	96	0	93	19	29	19	31	1.97
470604--470657	24	2.2	24	90	0	81	22	16	20	40	1.91
473153--473250	19	5.7	19	62	22	63	42	19	22	15	1.88
473154--473253	33	3.0	33	83	11	141	41	19	22	18	1.91
473409--473445	14	2.6	14	91	0	65	45	24	0	29	1.53
474803--474869	21	3.2	21	68	4	55	19	20	35	23	1.95
474803--474925	42	2.9	41	79	7	113	22	18	36	21	1.95
475144--475329	92	2.0	90	88	7	275	46	18	12	22	1.82
477046--477144	33	3.0	33	92	1	162	39	23	26	11	1.88
477021--477185	19	9.1	19	74	15	143	43	20	23	12	1.85
477738--477790	20	2.7	20	93	0	88	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
477799--477852	20	2.7	20	97	0	99	25	18	24	31	1.97
477739--477855	61	1.9	61	85	0	162	23	17	24	33	1.97
477739--477873	61	2.2	61	81	2	155	22	20	24	32	1.98
478459--478530	29	2.5	29	100	0	144	31	8	19	40	1.81
483815--484102	37	7.6	39	87	6	421	44	2	7	44	1.47
483815--484102	76	3.8	76	89	5	415	44	2	7	44	1.47
484150--484194	21	2.3	19	80	7	54	28	2	2	66	1.15
492451--492521	34	2.1	33	86	2	97	32	15	25	26	1.95
493022--493108	22	4.0	22	74	3	77	19	11	3	65	1.39
498002--498272	36	7.6	37	75	16	209	45	2	8	43	1.47
498002--498272	38	7.6	37	78	14	277	45	2	8	43	1.47
498055--498199	64	2.3	64	87	3	186	47	2	7	42	1.46
498101--498157	25	2.2	27	93	6	100	43	0	8	47	1.34
498134--498272	37	3.8	37	85	2	190	47	3	7	41	1.50
498333--498383	23	2.1	25	85	7	70	25	3	3	66	1.26
499598--499628	15	2.1	15	100	0	62	51	12	12	22	1.74
501935--501976	20	2.2	19	83	12	50	16	30	19	33	1.94
506921--507016	24	3.8	24	65	15	57	20	21	21	35	1.96
509407--509467	30	2.0	30	87	6	88	32	22	19	24	1.97
510648--510672	11	2.3	11	100	0	50	48	16	8	28	1.74
534241--534285	22	2.0	22	100	0	90	26	15	13	44	1.83
534906--534993	37	2.4	37	84	5	106	14	12	34	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535575--535607	3	11.0	3	100	0	66	0	33	0	66	0.92
536351--536403	3	17.7	3	100	0	106	32	0	0	67	0.91
539154--539510	176	2.0	177	96	1	662	29	23	14	32	1.94
542123--542187	26	2.5	26	78	16	71	69	0	12	18	1.19
542398--542450	14	3.9	14	78	14	65	77	0	0	22	0.77
542395--542457	25	2.5	26	82	7	76	74	0	0	25	0.82
542418--542478	20	3.2	20	77	11	65	65	0	3	31	1.09
542799--542848	13	3.9	12	78	14	55	4	10	4	82	0.94
543694--543731	10	3.8	10	89	6	51	15	31	28	23	1.96
545024--545058	18	1.9	18	88	0	52	54	0	17	28	1.43
546170--546278	24	4.5	24	80	6	123	18	17	16	47	1.83
546207--546276	12	5.8	12	78	6	70	15	15	18	50	1.79
546170--546278	48	2.3	48	85	6	141	18	17	16	47	1.83
549369--549393	13	1.9	13	100	0	50	16	16	40	28	1.89
550076--550266	9	20.8	9	68	20	62	70	2	8	18	1.24
550072--550159	31	2.8	30	75	21	90	73	3	7	14	1.19
550069--550153	8	9.8	8	74	14	62	75	3	5	15	1.13
550224--550261	3	12.7	3	88	0	58	65	5	0	28	1.14
550242--550315	24	3.0	25	76	13	71	68	1	8	21	1.23
550384--550409	2	13.0	2	100	0	52	50	0	0	50	1.00
550521--550571	17	3.0	17	80	13	61	74	0	1	23	0.92
550532--550583	20	2.5	20	84	6	59	73	0	1	25	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550553--550608	14	3.9	14	72	11	51	64	0	1	33	1.04
550550--550608	19	3.1	19	82	7	66	66	0	1	32	1.02
550973--551084	37	3.0	37	94	0	188	34	12	11	41	1.79
563789--563850	23	2.7	23	76	0	70	20	24	27	27	1.99
568825--568896	5	14.4	5	78	16	78	76	2	2	18	1.03
568814--568898	23	3.8	21	80	13	89	76	3	3	16	1.07
568825--568938	28	4.1	27	72	19	85	77	4	4	14	1.08
569182--569234	2	26.5	2	100	0	106	50	0	0	49	1.00
575655--575691	7	5.4	7	90	6	58	40	24	0	35	1.55
575655--575702	14	3.5	13	86	8	60	39	25	0	35	1.56
575853--575900	18	2.7	18	86	0	69	25	33	18	22	1.97
575874--575999	46	2.7	46	91	0	207	29	29	21	19	1.98
575957--575992	18	2.0	18	100	0	72	22	33	22	22	1.97
576504--576553	25	2.0	25	92	0	82	26	18	10	46	1.80
579900--580028	46	2.8	46	95	0	231	31	30	17	20	1.95
579944--580025	18	5.0	18	66	27	65	30	30	17	21	1.96
582522--582562	20	2.0	20	95	0	73	12	9	43	34	1.75
585085--585133	18	2.5	20	83	6	57	36	22	14	26	1.92
589353--589421	20	3.5	20	100	0	138	30	24	10	34	1.89
594537--594584	25	2.0	23	88	8	69	37	0	14	47	1.44
595320--595424	20	5.3	20	86	2	142	46	4	17	31	1.68
595318--595433	40	2.9	40	89	3	173	44	5	18	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595320--595433	60	1.9	59	85	5	158	45	4	18	31	1.69
598082--598145	24	2.6	25	71	11	62	48	20	4	26	1.69
598333--598384	26	2.0	27	84	3	70	51	7	5	34	1.54
602223--602266	2	22.0	2	100	0	88	50	0	0	50	1.00
602696--602763	23	3.0	23	76	8	75	19	22	26	32	1.97
606197--606242	20	2.3	20	85	3	58	39	0	23	36	1.55
608092--608151	27	2.2	27	78	3	66	58	5	11	25	1.53
615270--615326	23	2.5	23	91	0	87	43	8	14	33	1.76
615242--615404	87	1.9	87	92	0	272	41	10	14	34	1.80
615399--616123	197	3.6	197	84	8	891	30	15	14	39	1.87
618775--618992	121	1.8	121	93	2	384	31	17	24	27	1.97
620340--621509	200	5.8	199	84	3	1413	31	16	14	38	1.89
620340--621507	401	2.9	398	87	3	1605	31	16	14	38	1.88
624372--625532	200	5.8	200	84	2	1422	31	16	14	36	1.90
625369--625410	21	2.0	21	85	0	57	45	9	16	28	1.79
624372--625532	602	1.9	600	89	2	1803	31	16	14	36	1.90
625882--625930	19	2.6	19	96	0	89	55	10	2	32	1.45
629294--629362	18	3.8	18	94	0	111	2	36	0	60	1.11
629286--629360	36	2.1	36	90	5	116	2	38	0	58	1.12
637641--637682	8	5.2	8	77	11	50	11	0	26	61	1.30
637644--637677	17	2.0	17	88	0	50	11	0	29	58	1.33
639331--639361	15	2.1	15	93	0	53	16	61	3	19	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639644--639701	24	2.5	23	78	8	64	51	5	0	43	1.24
641656--642145	180	2.7	180	87	2	705	27	17	14	41	1.88
651554--651598	17	2.6	17	78	3	54	71	4	6	17	1.25
657175--657219	19	2.4	19	88	0	72	53	33	11	2	1.49
662276--662317	20	2.1	20	95	0	75	38	14	19	28	1.90
663361--664243	81	10.9	81	88	0	1223	32	23	10	33	1.89
664193--664351	68	2.3	68	92	0	255	27	23	15	33	1.94
664828--664898	36	2.0	36	100	0	142	19	21	16	42	1.89
665794--665838	23	2.0	23	86	0	63	33	2	6	57	1.37
665837--665879	5	8.8	5	80	14	54	18	2	0	79	0.85

Tables:   1   2   3   4   5