genome.fa.s1362.2.7.7.80.10.50.1000.2.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: VEPZ01001362.1 Hibiscus syriacus cultivar Beakdansim tig00002655_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  681426

Tables:   1   2   3   

This is table  2  of  3  ( 253 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)
325530--325596	32	2.1	32	83	10	84	23	29	14	31	1.95
328088--328130	21	2.0	21	81	0	50	30	30	25	13	1.94
328110--328261	67	2.2	68	95	1	270	29	28	26	15	1.96
328222--328262	21	2.0	21	90	0	64	21	31	36	9	1.86
328739--329042	149	2.0	149	98	0	581	26	15	20	36	1.93
329021--329065	23	2.0	23	86	0	63	20	24	28	26	1.99
354614--354683	34	2.1	34	91	2	115	42	28	5	22	1.76
369272--369316	21	2.1	21	87	0	63	31	28	24	15	1.96
371000--371057	22	2.6	22	97	0	107	18	27	29	24	1.98
374223--374267	21	2.1	21	87	0	63	31	28	24	15	1.96
375953--376010	22	2.6	22	97	0	107	18	27	29	24	1.98
378076--378220	60	2.4	59	77	10	152	43	3	23	29	1.70
380065--380146	28	2.7	31	80	12	91	42	6	6	45	1.53
380950--381080	67	2.0	67	100	0	262	25	6	18	50	1.69
382357--382404	21	2.5	19	83	10	62	54	0	0	45	0.99
386145--386170	3	8.7	3	100	0	52	0	0	30	69	0.89
386462--386600	73	1.9	73	98	0	269	48	5	12	33	1.63
388248--388274	14	1.9	14	100	0	54	48	0	0	51	1.00
391138--391193	25	2.2	25	100	0	112	37	19	25	17	1.94
393236--393292	28	2.0	28	89	0	87	31	22	17	28	1.97
395062--395143	24	3.7	22	79	9	78	28	1	1	69	1.03
395473--395497	12	2.1	12	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395811--395839	3	9.7	3	100	0	58	68	0	0	31	0.89
398680--398724	24	2.0	22	83	16	56	40	6	15	37	1.74
400192--400243	27	1.9	27	88	0	77	28	13	13	44	1.82
404606--404667	20	2.9	21	80	9	63	16	25	35	22	1.94
422110--422612	51	9.6	54	87	5	305	28	25	15	30	1.96
422217--422622	51	7.9	51	93	1	650	27	26	15	30	1.96
422160--422622	153	3.0	153	90	2	665	28	25	15	30	1.96
423757--423863	8	13.4	8	73	20	57	5	16	0	77	0.95
423766--423884	14	7.9	14	67	20	53	8	15	0	76	1.01
423752--423884	15	8.8	15	71	21	82	8	15	0	76	1.00
423761--423866	40	2.7	39	78	18	132	6	16	0	77	0.97
423764--423883	8	15.6	8	74	22	50	8	14	0	77	0.98
435526--435566	16	2.6	16	100	0	82	58	19	4	17	1.56
455037--455078	19	2.2	19	100	0	84	38	14	11	35	1.83
459422--459446	6	4.2	6	100	0	50	0	52	0	48	1.00
466121--466194	32	2.3	32	76	4	78	29	16	21	32	1.95
471176--471240	26	2.4	29	80	12	75	46	1	6	46	1.37
473748--473805	12	4.8	12	82	16	75	6	24	0	68	1.13
473749--473805	15	3.4	15	72	25	51	7	24	0	68	1.14
474882--474919	20	1.9	19	85	15	51	31	7	0	60	1.25
475779--475808	14	2.2	14	94	5	53	40	3	0	56	1.16
477939--478001	18	3.5	18	97	0	117	17	44	15	22	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484263--484311	22	2.1	22	81	7	53	57	2	2	38	1.22
485658--485791	3	43.7	3	86	4	187	61	2	1	34	1.17
486042--486804	113	6.7	113	90	1	1152	28	19	13	38	1.89
486040--486807	340	2.3	340	94	1	1344	28	19	13	38	1.90
489813--489838	11	2.4	11	100	0	52	0	7	0	92	0.39
489807--489849	17	2.5	17	85	7	52	0	16	0	83	0.64
493844--493881	15	2.8	13	88	11	51	68	2	5	23	1.23
494607--494655	22	2.1	22	81	7	53	57	2	2	38	1.22
496004--496134	3	42.7	3	86	4	181	61	2	1	34	1.18
497488--497659	29	6.0	28	87	6	220	30	2	13	52	1.55
497493--497676	87	2.1	86	88	1	269	30	2	14	52	1.53
499137--499212	35	2.2	35	83	9	93	48	17	1	32	1.55
507207--507245	18	2.2	18	85	0	51	20	48	15	15	1.81
507395--507504	54	2.0	54	83	1	139	36	1	13	48	1.54
507261--507492	29	8.1	29	83	6	278	31	2	13	52	1.53
508931--508977	24	2.0	24	91	0	76	40	21	19	19	1.92
508932--508977	12	3.8	12	85	0	65	39	21	19	19	1.93
508930--508987	12	4.8	12	80	0	62	41	18	17	22	1.90
509021--509054	11	3.1	11	91	0	50	38	26	8	26	1.85
513465--513505	12	3.4	12	86	0	55	53	9	14	21	1.70
514885--514910	6	4.3	6	100	0	52	46	34	0	19	1.50
515022--515163	73	1.9	73	95	0	257	24	19	27	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521227--521257	2	15.5	2	100	0	62	51	0	0	48	1.00
527064--527135	33	2.2	32	82	4	92	30	19	25	25	1.98
527076--527145	31	2.2	32	82	10	81	25	22	21	30	1.99
527979--528051	28	2.6	28	97	0	137	19	42	12	26	1.86
531929--531988	21	2.9	21	97	0	111	40	21	18	20	1.92
531918--532014	21	4.6	21	83	10	101	41	19	21	17	1.91
536790--537035	108	2.3	108	84	3	316	36	22	20	20	1.95
536775--537001	36	6.3	36	90	2	339	36	23	21	18	1.95
537417--537873	51	8.8	51	88	3	565	32	19	24	22	1.97
537417--537868	155	2.9	154	89	2	638	32	20	24	22	1.97
537850--538185	53	6.2	53	82	5	331	30	14	28	26	1.95
537873--538138	108	2.5	108	85	1	356	30	13	29	26	1.94
538597--538625	10	2.9	10	100	0	58	31	20	10	37	1.86
538941--539013	28	2.6	28	100	0	146	19	43	12	24	1.85
541982--542013	16	2.0	16	93	0	55	46	0	0	53	1.00
547596--547639	20	2.1	21	87	4	63	52	2	4	40	1.34
547903--548071	71	2.4	71	79	0	185	21	19	13	44	1.85
548123--548233	39	2.8	39	78	5	107	37	10	16	35	1.83
551215--551280	32	2.1	32	100	0	132	19	22	6	51	1.69
555895--555935	21	2.0	20	85	9	55	65	7	7	19	1.41
557547--557607	23	2.7	23	89	0	104	27	26	27	18	1.98
558420--558478	20	2.7	22	77	20	61	27	20	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559596--559643	6	7.5	6	90	4	60	75	0	0	25	0.81
559899--560564	84	7.9	83	84	3	744	23	19	26	31	1.98
559887--560520	252	2.5	251	85	2	844	23	18	25	31	1.97
560562--560679	33	3.5	33	93	3	193	30	10	20	38	1.86
560632--560783	67	2.2	70	83	8	188	35	13	21	29	1.91
560732--561010	36	7.9	36	76	13	285	42	14	17	25	1.87
560925--560989	21	3.4	21	66	24	61	43	10	18	27	1.83
560732--561212	201	2.3	206	86	4	670	42	13	17	26	1.86
561109--561212	36	2.9	36	91	0	154	44	11	19	25	1.84
564163--564204	22	1.9	22	95	0	75	11	23	40	23	1.88
569933--570001	23	3.0	23	89	0	102	30	26	21	21	1.99
570006--570250	121	2.0	121	93	0	418	35	24	14	25	1.93
570134--570355	103	2.2	103	95	0	399	35	25	13	25	1.93
571107--571327	64	3.5	64	81	6	216	28	19	19	33	1.96
575888--575965	23	3.3	23	83	1	102	33	23	19	24	1.97
575975--576189	103	2.1	103	94	0	376	37	23	13	26	1.91
581510--581553	17	2.6	17	92	0	79	15	27	36	20	1.93
581855--581892	19	2.0	20	89	5	60	76	0	7	15	1.01
581902--581942	21	2.0	20	85	9	55	68	4	4	21	1.28
584712--584782	30	2.3	31	82	4	99	36	21	9	32	1.86
586297--586364	31	2.2	30	81	2	73	41	11	14	32	1.82
586458--586529	31	2.4	31	77	11	76	50	9	13	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603364--603420	25	2.2	26	84	3	71	52	7	0	40	1.28
605538--605576	20	2.1	18	90	9	60	38	0	2	58	1.12
613376--613422	22	2.1	22	92	0	76	19	23	38	19	1.93
618000--618405	198	2.1	197	96	0	749	38	15	16	30	1.89
621946--621996	3	17.0	3	100	0	102	33	0	0	66	0.92
622864--622937	21	3.4	21	83	7	85	31	20	24	24	1.98
622874--622937	21	3.0	21	86	4	92	28	21	26	23	1.99
623395--623449	20	2.8	20	97	0	101	20	32	27	20	1.97
638981--639138	54	2.9	54	84	4	194	25	25	19	29	1.98
639051--639300	109	2.3	110	82	9	332	29	24	16	30	1.96

Tables:   1   2   3