genome.fa.s1444.2.7.7.80.10.50.1000.2.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: VEPZ01001444.1 Hibiscus syriacus cultivar Beakdansim tig00002793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2564052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  2  of  12  ( 1400 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)
288439--288463	3	8.3	3	100	0	50	68	0	32	0	0.90
290325--290429	54	1.9	55	98	1	203	55	9	5	29	1.55
306907--306956	17	3.1	17	68	26	54	54	22	4	20	1.61
307253--307279	2	13.5	2	100	0	54	51	0	0	48	1.00
311636--311690	25	2.1	27	90	6	87	50	7	9	32	1.61
312725--312777	2	28.5	2	78	14	51	54	0	0	45	0.99
315986--316017	14	2.3	14	100	0	64	46	0	9	43	1.35
324559--324592	15	2.3	15	94	0	59	32	32	20	14	1.93
325119--325275	64	2.5	64	80	8	176	27	18	18	35	1.94
328025--328231	82	2.5	81	79	3	200	34	20	15	28	1.94
328102--328261	82	2.0	82	83	5	207	31	20	16	30	1.95
332246--332314	10	6.2	10	72	21	57	13	11	15	59	1.61
343914--344135	64	3.5	64	85	3	252	34	20	17	27	1.95
343956--344135	65	2.8	65	87	2	247	34	21	17	26	1.95
344443--344478	12	3.0	12	91	0	63	33	5	25	36	1.79
344443--344511	24	2.8	26	83	12	85	37	5	24	31	1.79
344623--344655	15	2.2	15	100	0	66	15	18	33	33	1.92
383200--383275	27	2.9	27	82	3	75	57	0	3	38	1.17
383657--384689	516	2.0	516	99	0	2048	30	15	12	41	1.85
385350--385395	19	2.4	19	96	0	83	45	19	19	15	1.85
390671--390703	16	2.0	17	94	5	59	24	6	0	69	1.10
396269--396321	22	2.4	22	84	6	72	18	13	30	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396463--396559	20	4.8	20	82	2	122	40	23	21	14	1.90
397347--397395	21	2.4	21	96	3	91	34	18	8	38	1.80
397835--397881	23	2.0	24	95	4	87	57	0	12	29	1.36
400854--400880	14	1.9	14	100	0	54	40	7	0	51	1.30
403209--403243	2	17.5	2	100	0	70	48	0	0	51	1.00
406091--406136	20	2.3	20	96	0	83	30	19	36	13	1.90
406510--406549	16	2.5	16	88	8	55	75	7	15	2	1.14
407594--407667	32	2.3	32	80	0	85	33	8	22	35	1.84
408220--408365	43	3.4	43	87	0	202	29	30	17	22	1.96
408221--408385	86	1.9	86	83	2	215	30	29	18	21	1.97
408828--409048	121	1.8	121	90	0	352	29	23	19	26	1.98
409050--409506	84	5.4	84	76	2	434	31	21	18	28	1.97
409050--409480	168	2.6	168	84	2	526	31	21	18	28	1.97
414071--414136	31	2.1	32	97	2	125	27	12	12	48	1.76
430611--430659	21	2.3	21	89	0	71	42	10	32	14	1.79
430786--430820	16	2.1	17	89	5	54	45	2	34	17	1.63
435707--435755	21	2.3	21	96	0	89	40	8	34	16	1.78
435881--435915	16	2.1	17	89	5	54	45	2	34	17	1.63
440737--440778	22	1.9	22	85	0	57	30	9	21	38	1.85
444548--444891	169	2.0	171	97	2	647	32	14	22	30	1.94
446178--446810	337	1.9	337	95	0	1160	22	21	22	33	1.98
447123--447180	22	2.6	22	77	0	62	34	6	18	39	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449688--449725	14	2.8	13	85	14	51	65	0	28	5	1.14
450313--450390	33	2.4	32	83	12	88	42	0	0	57	0.98
450303--450390	33	2.7	30	79	10	86	42	0	1	56	1.06
450346--450428	15	5.7	14	71	15	53	36	1	2	60	1.18
453833--453892	25	2.4	25	88	0	84	33	8	15	43	1.76
454239--454311	23	3.2	23	88	0	101	34	4	21	39	1.73
454571--454620	25	2.0	25	96	0	91	26	8	22	44	1.80
455006--455042	18	2.1	18	89	0	56	32	5	10	51	1.60
454998--455044	24	2.0	24	86	0	67	34	4	14	46	1.64
455313--455399	39	2.2	39	93	0	147	48	19	13	18	1.81
455821--455875	21	2.6	21	91	0	92	34	5	23	36	1.78
455821--455882	21	3.0	21	83	9	81	32	4	24	38	1.76
456082--456296	107	2.0	107	98	0	412	49	6	11	31	1.66
456342--456414	23	3.2	23	80	0	83	34	6	21	36	1.81
456667--456739	23	3.2	23	84	0	92	34	4	20	41	1.72
456463--457059	295	2.0	293	93	3	1035	43	7	11	37	1.69
456963--457030	23	3.0	23	88	0	100	33	4	22	39	1.74
457441--457511	23	3.1	23	87	0	97	32	18	11	38	1.86
463161--463199	13	3.1	13	88	3	62	43	0	2	53	1.14
463165--463208	21	2.1	21	83	8	54	45	0	2	52	1.13
464247--464279	2	16.5	2	100	0	66	48	0	0	51	1.00
464467--464499	15	2.3	15	89	5	50	24	6	3	66	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465700--465757	28	2.0	28	87	12	82	53	3	1	41	1.28
466132--466180	2	24.5	2	100	0	98	48	0	0	51	1.00
468909--469121	21	10.7	20	68	23	112	21	20	23	35	1.96
468909--469121	42	5.3	42	80	12	259	21	20	23	35	1.96
468988--469052	31	2.1	31	94	0	112	18	20	27	33	1.96
468947--469094	73	2.0	73	97	0	278	20	19	24	35	1.95
468909--469121	115	1.9	115	90	0	345	21	20	23	35	1.96
469903--470013	20	5.4	20	81	14	120	25	21	18	35	1.95
469919--470096	21	8.6	21	83	6	177	24	20	22	33	1.97
469903--470055	82	1.9	82	90	2	245	24	20	19	35	1.96
473668--473692	12	2.1	12	100	0	50	44	0	16	40	1.47
475227--475349	31	4.0	31	73	9	108	32	17	17	31	1.94
476146--476211	22	3.0	22	79	0	60	21	18	16	43	1.87
495998--496022	12	2.1	12	100	0	50	40	24	16	20	1.91
501318--501374	14	4.4	14	76	17	59	8	12	24	54	1.65
501319--501393	24	3.1	24	88	3	98	12	10	21	56	1.66
502121--502186	16	4.2	16	92	3	100	10	10	19	59	1.60
502248--502280	16	2.1	16	100	0	66	6	12	24	57	1.57
513974--514087	35	3.3	35	84	0	138	41	21	0	36	1.59
514081--514155	35	2.1	35	82	4	89	37	0	18	44	1.50
516820--516850	13	2.4	13	94	0	53	54	16	0	29	1.42
518342--518383	18	2.3	18	91	0	66	59	0	26	14	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518350--518386	18	2.1	18	100	0	74	56	0	27	16	1.40
523940--524041	44	2.3	45	84	5	127	35	21	15	27	1.94
524699--524758	23	2.6	23	84	10	70	21	23	26	28	1.99
528825--529305	239	2.0	241	97	0	903	32	14	22	30	1.94
531104--531265	63	2.5	63	79	6	175	33	20	18	26	1.96
537796--537857	20	3.2	20	65	21	60	32	3	9	54	1.49
537797--537861	21	3.3	21	65	18	59	30	3	9	56	1.46
540917--540964	21	2.2	21	85	3	60	79	2	2	16	0.93
540931--540972	21	2.0	21	90	4	68	73	2	2	21	1.06
547934--548109	90	2.0	90	95	0	316	37	10	6	45	1.65
553203--553232	12	2.5	12	94	0	51	30	13	16	40	1.87
553228--553258	11	2.8	11	95	0	53	12	9	19	58	1.62
553641--553688	10	4.7	10	79	5	60	58	14	10	16	1.63
555165--555202	16	2.4	16	100	0	76	23	18	5	52	1.65
556963--557001	16	2.4	17	91	8	71	48	5	0	46	1.24
557859--558945	106	10.3	106	89	2	1499	22	18	25	34	1.96
559427--559461	18	1.9	18	88	0	52	42	28	8	20	1.81
559898--559940	22	2.0	22	90	0	68	23	11	27	37	1.89
564641--564698	2	30.5	2	83	10	77	50	3	0	46	1.18
565207--565261	21	2.6	21	77	8	58	45	21	9	23	1.80
567947--568121	87	2.0	87	100	0	350	26	22	8	42	1.81
569587--569687	30	3.2	32	77	14	104	30	21	7	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570855--570883	3	9.7	3	100	0	58	65	0	34	0	0.93
573483--573513	15	2.1	15	93	0	53	25	22	0	51	1.48
576877--576934	20	2.9	21	79	7	66	27	15	32	24	1.95
577433--577483	22	2.3	22	96	0	93	27	7	21	43	1.80
579224--579479	138	1.9	138	85	3	363	41	17	13	27	1.87
599806--599878	23	3.3	22	81	9	87	53	17	19	9	1.71
605163--605205	23	2.0	21	86	9	59	32	0	2	65	1.06
605160--605254	37	2.8	34	81	9	106	28	2	2	67	1.13
605166--605293	59	2.2	57	76	13	127	25	3	2	68	1.18
605231--605280	16	3.1	17	77	11	52	24	4	0	72	1.02

Tables:   1   2   3   4   5   6   7   8   9   10   11   12