genome.fa.s8719.2.7.7.80.10.50.1000.2.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  2  of  18  ( 2140 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)
281693--281723	14	2.1	14	94	5	53	80	0	19	0	0.71
281693--281723	5	6.4	5	92	7	55	80	0	19	0	0.71
288647--288676	13	2.4	13	94	5	53	43	0	30	26	1.55
291888--291917	13	2.4	13	94	5	53	26	30	0	43	1.55
297937--297992	13	4.7	11	74	21	51	0	19	1	78	0.84
297937--297992	18	3.1	18	82	17	71	0	19	1	78	0.84
309239--309275	18	2.0	18	89	5	56	83	10	2	2	0.84
313458--313499	22	1.9	22	90	9	68	14	11	4	69	1.34
316764--316867	33	3.1	33	82	9	95	30	36	1	30	1.69
319189--319218	13	2.4	12	94	5	51	43	0	30	26	1.55
340097--340147	19	2.6	20	90	3	77	43	5	15	35	1.71
344304--344354	19	2.6	20	90	3	77	43	5	15	35	1.71
349589--349630	22	1.9	22	85	9	59	16	11	4	66	1.40
350015--350043	8	3.6	8	100	0	58	68	0	10	20	1.18
352176--352288	35	3.2	35	88	2	163	32	3	37	26	1.74
358498--358562	27	2.4	28	80	12	80	63	10	13	12	1.53
364312--364342	11	2.8	11	95	0	53	22	51	6	19	1.69
369392--369495	33	3.1	33	76	13	88	31	1	35	30	1.69
374075--374110	18	1.9	19	88	5	56	0	8	11	80	0.90
378998--379046	23	2.1	24	81	11	57	63	0	22	14	1.30
382773--382852	35	2.2	37	88	4	119	32	37	2	27	1.70
382806--382852	11	4.1	11	80	20	60	36	36	2	25	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382806--382852	24	2.0	24	84	15	64	36	36	2	25	1.68
388393--388472	35	2.2	37	86	4	110	31	37	3	27	1.74
389354--389396	10	3.9	10	78	21	50	0	4	9	86	0.71
389346--389396	24	2.2	24	92	3	86	0	5	11	82	0.83
393315--393369	25	2.2	25	100	0	110	32	10	18	38	1.85
393458--393579	35	3.4	35	85	6	149	31	2	37	28	1.70
393900--393943	20	2.1	21	83	4	54	43	9	11	36	1.72
395610--395800	35	5.4	35	84	6	253	31	3	37	27	1.74
395610--395800	71	2.7	71	91	3	307	31	3	37	27	1.74
395738--395795	13	4.7	13	68	12	50	31	1	39	27	1.67
396185--396287	35	2.9	35	81	8	120	33	2	35	27	1.72
402153--402192	11	3.6	11	96	0	71	37	0	30	32	1.58
402220--402328	35	3.1	35	80	7	123	33	3	34	27	1.75
404451--404505	18	2.8	20	73	15	53	74	3	20	1	1.06
411078--411109	16	2.0	16	100	0	64	31	18	6	43	1.75
417340--417394	5	10.8	5	78	21	53	0	20	1	78	0.85
417347--417394	8	5.9	8	88	11	71	0	20	2	77	0.88
419604--419643	19	2.0	20	90	4	64	20	15	0	65	1.28
419906--419968	27	2.3	28	78	13	69	73	3	14	9	1.21
424144--424183	19	2.0	20	90	4	64	22	12	0	65	1.26
437444--437791	174	2.0	174	98	1	680	39	11	18	30	1.86
440217--440259	10	4.2	10	88	5	59	83	11	4	0	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440217--440259	21	2.2	19	87	8	59	83	11	4	0	0.78
442816--442842	9	3.0	9	100	0	54	22	11	11	55	1.66
445125--445174	23	2.2	23	96	3	93	10	26	30	34	1.89
446691--446745	24	2.3	25	81	6	60	29	21	16	32	1.95
448194--448244	23	2.2	24	89	3	77	19	23	23	33	1.97
452652--452800	36	4.1	36	86	0	199	30	4	37	27	1.77
453145--453195	19	2.6	20	87	3	68	45	5	13	35	1.68
465326--465429	33	3.1	33	82	9	95	30	36	1	30	1.69
465849--465896	17	2.7	18	79	17	55	77	4	18	0	0.93
465847--465896	11	4.5	11	80	14	50	78	4	18	0	0.91
469328--469397	35	1.9	37	88	5	108	34	34	4	27	1.76
469333--469436	33	3.1	33	82	9	95	30	36	1	30	1.69
470489--470514	5	5.2	5	100	0	52	80	0	19	0	0.71
482290--482364	26	3.0	26	75	16	77	17	17	0	65	1.28
484086--484127	18	2.3	18	91	0	66	69	7	4	19	1.31
492888--492926	15	2.5	15	83	4	51	61	0	23	15	1.33
493063--493171	35	3.1	35	84	2	139	32	3	37	26	1.74
493845--493883	15	2.5	15	87	4	60	15	25	0	58	1.37
494922--494957	2	18.5	2	94	5	65	50	0	0	50	1.00
499250--499298	20	2.3	21	83	16	66	65	0	22	12	1.26
499449--499548	11	8.5	11	71	22	62	28	4	38	30	1.75
499451--499550	36	2.8	36	92	1	157	29	4	38	29	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508807--508855	20	2.4	21	93	6	91	61	0	28	10	1.29
509016--509096	11	7.2	12	72	25	54	29	3	34	32	1.75
508992--509096	34	3.1	35	87	6	146	28	3	35	32	1.75
508992--509096	35	3.1	34	84	9	135	28	3	35	32	1.75
514104--514149	24	1.9	24	81	0	56	28	26	15	30	1.96
514111--514157	24	2.0	24	86	0	67	25	25	14	34	1.94
514128--514173	24	1.9	24	82	8	58	34	21	10	32	1.88
515480--515516	19	1.9	20	88	5	58	2	13	8	75	1.13
517807--517848	21	2.0	21	81	9	50	35	7	9	47	1.64
520080--520117	20	2.0	19	85	10	51	50	15	2	31	1.58
526968--527021	23	2.3	24	96	3	101	29	24	18	27	1.98
527135--527177	19	2.2	19	87	4	59	18	18	20	41	1.90
533002--533041	6	6.7	6	83	11	55	82	2	15	0	0.77
533225--533284	16	3.6	16	80	6	57	13	18	0	68	1.21
537137--537182	15	2.9	16	81	12	51	58	0	30	10	1.32
545228--545278	18	2.7	19	78	6	59	78	0	9	11	0.97
558875--558904	13	2.4	13	94	5	53	43	0	30	26	1.55
562148--562185	20	1.9	20	84	10	51	63	2	18	15	1.43
576877--576943	29	2.4	28	78	9	73	7	16	13	62	1.52
580425--580458	2	17.0	2	100	0	68	50	0	0	50	1.00
581560--581627	26	2.6	26	92	0	109	17	33	20	27	1.95
585096--585169	37	2.0	37	100	0	148	35	24	27	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585823--585866	22	2.0	23	86	4	63	29	11	34	25	1.91
588628--588732	36	2.9	36	91	1	176	29	35	5	29	1.81
589538--589623	35	2.5	34	90	1	136	29	39	1	30	1.64
590603--590643	18	2.3	18	86	0	55	31	17	19	31	1.95
591403--591427	13	1.9	13	100	0	50	80	4	0	16	0.87
592723--592777	2	27.5	2	92	0	92	47	1	0	50	1.11
594349--594415	27	2.4	27	79	13	75	73	2	16	7	1.19
598861--599166	152	2.0	152	100	0	612	35	15	23	25	1.94
604265--604377	36	3.2	36	91	1	165	28	3	36	31	1.74
604713--604763	19	2.6	20	87	3	68	45	5	15	33	1.71
607807--607850	15	2.9	15	80	16	54	2	15	2	79	0.93
608297--608411	38	3.2	37	87	6	155	28	3	35	32	1.74
608751--608801	19	2.6	20	87	3	68	45	5	15	33	1.71
611664--611749	35	2.4	36	84	1	102	27	36	3	32	1.74
611911--611950	16	2.5	15	84	8	53	15	25	0	60	1.35
615271--615316	23	2.0	23	83	8	58	36	6	8	47	1.60
618230--618280	20	2.6	20	90	3	77	35	15	5	43	1.71
619639--619729	35	2.6	36	85	3	114	26	37	4	31	1.76
619771--619799	11	2.6	11	100	0	58	34	27	0	37	1.57
619891--619929	15	2.5	15	87	4	60	15	25	0	58	1.37
624796--624835	15	2.7	15	88	3	64	67	0	20	12	1.22
630652--630686	6	5.7	6	86	6	52	0	14	2	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630652--630686	13	2.8	12	87	8	52	0	14	2	82	0.77
632611--632664	28	2.0	27	82	10	65	9	20	3	66	1.35
633953--634373	208	2.0	210	98	1	819	23	22	22	31	1.99
640911--640962	21	2.3	23	81	15	65	1	15	5	76	1.05
641904--641963	30	2.0	31	83	3	77	55	10	8	26	1.61
644346--644370	8	3.1	8	100	0	50	0	24	0	76	0.80
646039--646098	30	2.0	31	83	3	77	55	10	8	26	1.61
646456--646507	19	2.6	21	87	6	72	42	7	13	36	1.73
650259--650369	35	3.2	35	88	2	161	30	3	37	27	1.74
650338--650363	13	2.0	13	100	0	52	30	0	46	23	1.53

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18