genome.fa.s9609.2.7.7.80.10.50.1000.2.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: VEPZ01009609.1 Hibiscus syriacus cultivar Beakdansim tig00116995_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1078827

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 509 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)
338330--338373	21	2.1	21	95	0	79	38	0	0	61	0.96
338798--338875	2	39.5	2	97	2	149	48	0	0	51	1.00
343821--343939	24	5.0	24	88	4	177	40	20	13	26	1.89
343807--343939	48	2.8	48	87	2	178	41	19	12	26	1.87
364717--364772	29	1.9	29	85	7	78	44	5	7	42	1.54
364974--365013	18	2.1	20	86	9	57	42	2	2	52	1.28
367203--367261	31	1.9	31	89	0	91	23	27	10	38	1.87
367203--367269	31	2.2	31	86	0	89	22	28	10	38	1.87
372221--372341	57	2.1	58	81	9	149	36	15	14	33	1.89
377773--377869	48	2.0	48	100	0	194	40	14	20	24	1.90
378434--378463	15	1.9	16	93	6	53	66	3	30	0	1.07
379183--379207	4	6.2	4	100	0	50	76	0	0	24	0.80
382729--382811	29	2.9	29	83	0	94	19	39	27	13	1.89
383031--383136	29	3.7	29	98	0	203	23	27	34	14	1.93
386423--386484	22	2.8	22	90	2	88	40	11	3	45	1.56
395550--395583	15	2.2	16	89	5	52	26	5	20	47	1.73
396677--396737	29	2.1	29	90	6	97	16	27	24	31	1.96
402499--402533	15	2.3	15	100	0	70	42	11	25	20	1.85
406907--406938	3	10.7	3	100	0	64	65	0	0	34	0.93
412015--412039	10	2.5	10	100	0	50	24	0	0	76	0.80
413652--413962	155	2.0	154	89	1	471	34	21	12	31	1.91
424215--424252	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424764--424801	17	2.2	18	85	4	51	60	0	5	34	1.19
427626--427687	22	2.8	23	80	11	76	32	0	24	43	1.54
430553--430607	28	1.9	29	85	10	78	56	9	3	30	1.48
437901--437945	21	2.1	21	87	0	63	31	28	24	15	1.96
439447--439750	149	2.0	149	98	0	581	27	16	20	35	1.94
439729--439773	23	2.0	23	86	0	63	20	24	28	26	1.99
442829--442873	21	2.1	21	87	0	63	31	28	24	15	1.96
444513--444543	16	1.9	16	93	0	53	19	12	22	45	1.84
444358--444649	143	2.0	141	90	7	466	26	17	20	35	1.95
449696--450205	255	2.0	255	99	0	1004	32	20	25	22	1.98
452322--452358	2	18.5	2	100	0	74	48	0	0	51	1.00
452478--452528	22	2.3	22	96	0	93	23	13	3	58	1.52
463742--464528	105	7.5	105	97	0	1466	33	25	18	22	1.96
466240--466270	2	15.5	2	100	0	62	48	0	0	51	1.00
466392--466439	22	2.2	22	96	0	87	22	14	4	58	1.54
495789--495849	27	2.2	27	82	8	70	57	19	0	22	1.41
495787--495864	28	2.8	26	77	12	68	56	17	0	25	1.41
497458--497502	21	2.1	21	87	0	63	31	28	24	15	1.96
503060--503087	2	14.0	2	100	0	56	50	0	0	50	1.00
506963--507146	40	4.6	40	84	2	251	34	24	21	20	1.97
506963--507240	21	14.0	21	73	10	199	34	22	21	20	1.96
506964--507175	61	3.5	59	89	3	280	33	23	21	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506965--507240	40	6.9	42	77	7	195	35	22	21	21	1.96
506965--507240	82	3.5	80	82	4	314	35	22	21	21	1.96
507143--507210	35	1.9	35	84	0	91	36	16	23	23	1.94
507400--507425	4	6.5	4	100	0	52	76	0	0	23	0.78
508556--508618	25	2.5	24	89	7	90	74	1	9	14	1.13
508677--508914	38	6.3	37	73	14	168	45	6	2	44	1.45
517459--517539	27	3.0	27	98	0	153	28	12	22	37	1.90
521089--521122	15	2.3	15	89	0	50	8	17	64	8	1.47
523676--523700	9	2.8	9	100	0	50	40	0	12	48	1.40
523896--523931	10	3.6	10	89	10	56	36	0	0	63	0.94
524175--524204	2	15.5	2	93	6	53	50	0	0	50	1.00
524349--524490	65	2.2	65	94	0	257	27	21	20	30	1.98
528837--529052	108	2.0	108	94	0	378	37	11	20	30	1.88
533624--533687	2	32.5	2	96	3	121	50	0	0	50	1.00
534080--534189	20	5.4	20	83	6	114	29	27	19	24	1.98
534122--534198	20	3.8	20	92	0	127	23	27	20	28	1.99
534162--534207	20	2.3	20	84	0	56	30	26	19	23	1.98
534076--534207	40	3.3	40	81	1	156	32	25	18	23	1.97
534406--534462	20	2.8	20	86	0	78	42	19	21	17	1.90
534491--534566	20	3.8	20	87	0	116	15	21	22	40	1.90
535137--535197	21	2.9	21	73	9	70	21	11	42	24	1.86
535563--535637	20	3.8	20	89	1	116	33	24	26	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535543--535628	40	2.2	40	86	0	118	33	26	22	17	1.96
535642--535726	19	4.6	19	73	16	72	16	21	21	41	1.90
535691--535734	20	2.2	20	92	4	72	20	25	18	36	1.95
536279--536326	18	2.7	18	93	0	87	14	12	45	27	1.81
537645--537687	20	2.2	20	91	0	68	51	20	18	9	1.74
537965--538008	22	2.0	22	95	0	79	22	15	40	20	1.90
538216--538292	41	1.9	41	94	2	138	16	16	27	38	1.91
538196--538289	20	4.7	20	80	10	111	19	18	27	35	1.95
538216--538310	41	2.3	41	85	5	122	18	18	25	36	1.94
539274--539303	2	15.0	2	100	0	60	50	0	0	50	1.00
542598--542627	16	1.9	15	93	6	51	33	0	6	60	1.23
545862--545890	14	2.1	14	100	0	58	48	0	0	51	1.00
546177--546235	31	1.9	31	92	0	100	42	10	6	40	1.65
546326--546369	22	2.0	22	100	0	88	36	0	13	50	1.42
546836--546874	14	2.8	14	84	7	53	12	23	0	64	1.28
547237--547279	15	3.0	15	86	10	63	51	0	0	48	1.00
547672--547709	15	2.6	15	83	4	51	65	2	5	26	1.27
551613--551951	169	2.0	169	98	1	653	46	5	5	42	1.52
553313--553413	32	3.2	32	80	1	114	21	28	18	30	1.97
558941--559017	30	2.6	30	81	2	84	25	9	25	38	1.85
561713--561744	16	2.0	16	93	0	55	15	31	40	12	1.85
561818--561872	19	3.0	18	76	10	58	54	3	0	41	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561819--561859	19	2.2	19	90	0	64	51	2	0	46	1.14
563545--563579	19	1.9	17	88	11	52	48	2	2	45	1.32
563917--563953	15	2.5	14	87	12	56	70	8	0	21	1.13
564001--564066	32	2.1	32	85	0	87	62	4	4	28	1.35
565826--565884	27	2.2	27	87	3	84	38	0	11	49	1.40
565813--565884	27	2.7	26	80	8	83	36	1	9	52	1.43
566115--566142	4	7.0	4	100	0	56	25	0	75	0	0.81
567855--567894	18	2.2	18	86	0	53	30	12	15	42	1.83
569051--569090	18	2.2	19	86	4	55	25	5	10	60	1.49
569383--569411	13	2.1	14	93	6	51	37	0	0	62	0.96
570006--570056	22	2.3	22	100	0	102	33	15	23	27	1.95
580058--580182	42	3.0	42	86	0	178	36	7	17	38	1.78
581388--581487	48	2.1	48	94	0	173	17	16	18	49	1.81
604866--604936	21	3.4	21	71	5	54	26	21	19	32	1.97
604923--605036	20	5.7	20	82	0	138	29	25	17	27	1.97
605577--605632	20	2.8	20	80	0	67	14	17	23	44	1.85
605575--605639	20	3.2	20	71	6	60	15	16	23	44	1.86
608037--608084	20	2.4	20	89	0	69	18	18	27	35	1.95
608279--608317	20	2.0	20	94	0	69	43	20	17	17	1.88
607816--608697	308	2.9	308	86	3	1279	29	15	18	36	1.92
608653--608719	20	3.5	19	82	8	82	17	17	26	37	1.93
609210--609251	21	2.2	19	87	12	59	21	35	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610867--610904	20	1.9	20	94	0	67	50	23	18	7	1.73
610906--611185	20	15.2	20	73	16	248	23	19	22	34	1.96
610906--611058	54	2.8	54	95	0	270	23	21	22	32	1.98
610980--611116	34	3.9	34	78	12	150	21	18	24	35	1.95
610960--611136	74	2.4	74	88	1	266	22	19	23	33	1.97
611034--611185	54	2.8	54	90	0	250	23	17	23	36	1.95
610905--611185	128	2.2	128	90	2	440	23	19	22	34	1.96
611153--611198	20	2.3	20	84	0	56	34	19	13	32	1.90
611169--611438	140	1.9	140	95	0	486	42	14	12	29	1.83
613526--613562	14	2.5	15	95	4	67	5	21	21	51	1.68

Tables:   1   2   3   4   5