genome.fa.s7909.2.7.7.80.10.50.1000.3.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: VEPZ01007909.1 Hibiscus syriacus cultivar Beakdansim tig00110303_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3382237

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

This is table  3  of  17  ( 1978 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)
382249--382286	18	2.1	18	95	0	67	10	18	13	57	1.63
382253--382292	18	2.2	18	86	0	53	17	17	12	52	1.74
391399--391454	15	3.8	15	88	2	78	23	26	25	25	2.00
391458--391495	13	2.9	14	84	15	62	15	21	18	44	1.86
402283--402330	19	2.5	19	93	0	78	33	27	18	20	1.96
404442--404492	23	2.2	23	100	0	102	43	11	0	45	1.40
405749--405835	27	3.2	27	95	1	147	47	12	6	33	1.68
407089--407810	360	2.0	358	96	1	1320	40	8	7	43	1.62
408904--408961	3	19.7	3	91	3	91	0	70	1	27	0.97
408910--408967	12	5.0	12	85	4	57	0	72	3	24	1.00
411405--411455	14	3.4	15	75	15	52	58	0	9	31	1.30
411403--411467	31	2.3	29	77	15	73	60	0	10	29	1.31
413037--413081	14	2.9	16	80	16	58	22	46	17	13	1.83
413053--413104	22	2.4	22	93	0	86	21	50	19	9	1.76
413074--413111	17	2.2	17	100	0	76	18	47	23	10	1.79
420307--420360	14	4.3	13	78	21	62	18	48	22	11	1.79
420335--420372	17	2.2	17	100	0	76	18	47	23	10	1.79
421912--422054	43	3.3	43	79	5	121	34	16	21	27	1.94
421942--422065	43	2.9	43	84	1	124	34	16	22	25	1.95
422124--422165	3	14.0	3	100	0	84	66	0	0	33	0.92
424603--424769	41	4.1	41	81	9	169	36	12	20	30	1.90
424612--424770	82	1.9	82	85	0	219	37	13	19	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429633--429935	139	2.2	137	83	4	376	29	14	22	33	1.93
432852--432894	3	14.0	3	95	4	77	2	32	0	65	1.06
434668--434733	34	1.9	34	93	0	114	46	18	6	28	1.72
435640--435677	19	2.0	20	84	5	51	42	23	15	18	1.89
437591--437654	21	3.2	19	76	10	56	32	21	18	26	1.97
437670--437721	21	2.5	21	84	6	70	28	30	17	23	1.97
438704--438915	53	4.0	53	81	2	255	35	21	9	33	1.86
438705--438914	106	2.0	106	85	0	285	35	20	9	34	1.86
439027--439062	2	18.0	2	100	0	72	50	0	0	50	1.00
440309--440366	29	2.0	29	96	0	107	32	31	18	17	1.94
440746--440803	30	1.9	30	96	0	107	32	20	25	20	1.97
450120--450182	30	2.1	30	90	0	99	28	22	15	33	1.95
463077--463112	19	1.9	18	88	5	54	58	5	22	13	1.56
466856--466911	25	2.2	25	100	0	112	30	28	7	33	1.84
468863--468908	22	2.0	24	87	8	69	69	0	2	28	1.00
468949--469027	38	2.1	39	85	7	108	50	2	11	35	1.52
478737--478779	22	1.9	22	85	4	59	60	4	2	32	1.30
478960--479003	3	14.3	3	85	4	61	31	0	0	68	0.90
480658--480698	22	1.9	22	90	5	66	26	0	12	60	1.31
482336--482413	29	2.5	31	82	11	90	21	12	7	57	1.60
484744--484785	6	6.5	6	86	10	57	14	16	14	54	1.71
487517--487637	44	2.8	43	72	6	102	35	20	18	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487601--488184	126	4.6	126	86	4	696	28	25	18	27	1.98
487601--488113	253	2.0	253	88	1	751	29	24	18	27	1.98
490067--490107	22	1.9	22	90	5	66	26	0	12	60	1.31
498171--498196	13	2.0	13	100	0	52	61	30	0	7	1.24
498803--498854	21	2.5	21	81	3	61	38	19	25	17	1.93
498843--498956	20	5.7	20	83	6	113	31	25	18	24	1.97
498840--498956	61	1.9	61	85	0	162	33	24	17	23	1.97
499513--499554	19	2.2	19	86	0	57	50	28	16	4	1.66
499550--499675	19	7.1	19	71	18	101	12	23	19	44	1.85
499572--499627	14	3.6	14	74	21	58	8	25	23	42	1.82
499555--499650	33	2.9	33	95	0	165	11	23	20	43	1.85
501128--501258	63	2.1	63	100	0	262	20	18	37	23	1.94
501540--501572	17	1.9	17	88	11	50	24	15	15	45	1.84
501425--501611	91	2.0	89	89	6	284	21	11	19	47	1.80
501831--502033	42	4.8	42	79	2	194	23	35	17	23	1.95
501831--502003	84	2.1	84	95	0	310	23	36	16	23	1.94
501831--502033	84	2.4	84	90	1	273	23	35	17	23	1.95
503392--503427	14	2.6	14	95	0	63	30	0	25	44	1.54
503534--503623	33	2.7	33	91	0	135	44	20	21	14	1.86
503534--503593	19	3.4	19	69	21	58	45	20	21	13	1.85
503619--503769	19	8.7	19	62	21	62	17	21	19	42	1.89
503624--503749	33	3.8	32	85	8	164	17	20	18	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503616--503746	66	2.0	66	92	0	217	18	21	17	42	1.89
506231--506284	24	2.2	24	90	0	81	40	20	16	22	1.91
507023--507073	20	2.5	20	100	0	102	29	19	31	19	1.97
507286--507335	19	2.5	20	90	3	75	34	24	24	18	1.96
507366--507419	14	3.5	14	75	22	54	11	22	20	46	1.82
507412--507450	20	2.0	20	94	0	69	12	10	30	46	1.75
507533--507569	14	2.6	14	86	0	56	48	21	0	29	1.50
509436--509503	20	3.5	20	74	9	68	41	23	20	14	1.89
509492--509549	14	3.9	14	76	24	64	46	24	18	10	1.80
509480--509554	32	2.3	33	90	2	125	46	22	20	10	1.81
509566--509621	14	3.7	14	76	17	58	12	17	21	48	1.80
509562--509637	32	2.3	33	93	2	127	14	21	21	43	1.87
509622--509665	20	2.2	20	84	4	54	20	25	18	36	1.95
510158--510202	18	2.5	18	85	0	63	15	15	42	26	1.87
511520--511578	20	3.0	20	87	0	73	42	22	18	16	1.89
511841--511884	22	2.0	22	95	0	79	18	15	45	20	1.85
511917--511953	17	2.2	17	100	0	74	16	0	24	59	1.37
512015--512129	61	1.9	61	87	0	167	25	15	24	34	1.95
512005--512159	20	7.7	20	82	6	152	24	17	24	33	1.96
512005--512162	81	1.9	82	84	3	212	24	17	24	34	1.95
512005--512180	81	2.2	81	81	5	194	23	18	23	34	1.97
512230--512270	21	2.0	21	85	0	55	34	31	17	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
512974--513019	23	2.0	23	87	8	67	54	2	0	43	1.12
512978--513096	50	2.4	49	74	16	115	52	1	0	45	1.16
513041--513118	28	2.8	28	80	9	88	51	0	0	48	1.00
513614--513671	30	1.9	30	92	0	98	46	6	17	29	1.74
514630--514662	11	3.1	11	82	8	50	66	0	0	33	0.92
518683--518713	2	15.5	2	100	0	62	51	0	48	0	1.00
530612--530673	23	2.9	21	85	7	81	20	35	25	17	1.95
535744--535815	35	2.0	37	94	5	130	16	31	31	19	1.94
536380--536566	31	6.0	31	91	1	295	20	18	22	38	1.93
537175--537208	14	2.4	14	95	0	59	20	14	20	44	1.87
538643--538720	10	7.1	10	72	18	57	10	7	19	62	1.50
538677--538717	14	3.2	14	74	25	54	4	12	24	58	1.53
542144--542248	45	2.3	45	91	6	169	32	18	20	28	1.96
547079--547141	21	3.0	21	83	0	81	26	17	25	30	1.97
549359--549406	16	3.0	16	90	0	69	12	33	18	35	1.89
561450--561537	46	1.9	47	81	4	108	43	7	6	42	1.60
561550--561586	2	18.5	2	94	0	65	51	2	0	45	1.15
562515--562553	19	2.1	19	85	0	51	43	0	2	53	1.14
563183--563256	29	2.6	29	78	18	84	64	4	0	31	1.12
564283--564348	30	2.2	30	91	5	107	37	24	25	12	1.90
568102--568142	15	2.7	15	92	3	64	19	19	24	36	1.95
568269--568401	15	8.7	15	80	4	113	46	9	14	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568275--568404	63	2.1	63	88	0	188	46	9	13	31	1.74
573248--573312	30	2.2	30	85	0	85	41	12	16	29	1.85
574564--574593	15	2.0	15	93	0	51	33	23	20	23	1.97
575148--575190	21	2.0	22	86	4	61	48	9	18	23	1.76
575818--575886	31	2.3	31	82	7	79	27	18	18	34	1.95
580990--581078	32	2.9	29	86	9	115	25	19	20	34	1.96
580990--581078	30	2.9	31	88	9	121	25	19	20	34	1.96
584558--584616	22	2.7	22	97	0	109	27	22	28	22	1.99
594692--594767	21	3.5	22	77	13	86	30	19	15	34	1.93
594696--594787	43	2.2	42	84	5	114	31	21	16	30	1.95

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