genome.fa.s8747.2.7.7.80.10.50.1000.3.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  3  of  51  ( 6054 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)
347707--347881	78	2.2	80	81	11	218	34	8	3	53	1.47
347851--347960	37	2.9	38	82	7	111	46	2	1	49	1.26
347879--347961	41	2.1	38	75	18	64	51	2	0	45	1.14
347876--347972	24	4.0	24	81	15	76	49	4	2	44	1.33
348075--348125	14	3.5	15	89	5	61	45	1	3	49	1.32
348066--348111	2	22.5	2	91	4	74	47	0	2	50	1.13
348162--348209	20	2.5	18	83	10	51	50	4	0	45	1.21
348298--348323	13	2.0	13	100	0	52	30	0	0	69	0.89
357384--357986	55	11.0	55	79	4	520	28	20	19	31	1.97
362313--362376	2	32.0	2	100	0	128	50	0	0	50	1.00
362841--362884	19	2.3	19	92	0	70	18	29	11	40	1.85
367793--367913	54	2.2	53	88	5	172	30	19	22	28	1.98
368191--368222	12	2.6	13	85	14	50	43	12	9	34	1.75
371669--371722	26	2.1	26	100	0	108	46	18	3	31	1.67
376166--376220	21	2.6	21	91	0	92	20	25	21	32	1.97
376324--376463	54	2.6	54	89	1	219	27	17	23	31	1.97
377744--377795	20	2.6	20	93	0	86	30	17	17	34	1.93
382468--382503	18	2.0	18	100	0	72	27	16	11	44	1.82
383489--383527	10	3.9	10	89	0	60	56	17	12	12	1.67
384130--384208	31	2.6	31	81	15	94	51	0	2	45	1.14
384075--384207	54	2.6	49	72	18	121	48	0	1	48	1.15
384135--384241	35	3.4	32	77	18	86	50	0	1	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384289--384352	32	2.0	32	87	9	94	51	3	0	45	1.17
384351--384459	23	4.0	27	71	21	77	48	0	1	49	1.11
384217--384387	91	1.9	89	81	8	204	50	4	0	45	1.25
384366--384425	22	2.7	22	77	12	59	53	0	1	45	1.10
384625--384690	32	2.0	32	88	8	98	13	24	19	42	1.87
384908--385950	532	1.9	539	91	3	1715	40	9	18	32	1.82
387503--387548	13	3.5	14	80	14	62	21	0	30	47	1.51
389482--389520	19	2.1	19	90	0	60	28	15	15	41	1.87
390144--390175	15	2.1	15	94	0	55	28	3	12	56	1.51
391027--391064	17	2.2	17	90	0	58	50	2	0	47	1.15
392602--392670	31	2.2	31	94	0	120	40	17	13	28	1.87
392938--392971	16	2.1	17	94	5	61	50	0	2	47	1.16
396032--396086	8	6.2	8	78	17	56	80	0	16	3	0.86
396032--396086	17	3.1	17	86	7	65	80	0	16	3	0.86
397750--398700	134	7.1	134	84	3	1110	29	24	16	29	1.97
397747--398700	268	3.6	266	86	2	1232	29	24	16	29	1.97
397750--398700	402	2.4	402	85	1	1257	29	24	16	29	1.97
398781--398830	3	17.0	3	87	4	66	38	2	0	60	1.09
410016--410053	5	7.6	5	93	0	58	76	5	0	18	0.97
411281--411330	11	4.3	12	78	14	52	64	2	0	34	1.05
411269--411332	22	2.9	21	84	13	58	65	3	0	31	1.08
411282--411612	21	14.8	22	66	23	67	52	4	1	41	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411282--411700	9	46.9	9	70	22	214	52	5	0	40	1.32
411297--411706	2	215.5	2	69	24	207	51	5	0	41	1.32
411395--411711	100	3.2	97	72	17	267	52	5	0	41	1.26
411572--411621	3	17.0	3	76	19	52	60	0	0	40	0.97
411381--411698	17	18.2	18	70	23	111	52	5	0	42	1.27
412193--412289	47	2.1	47	90	0	149	27	17	19	35	1.94
433694--433859	90	1.9	88	91	2	269	39	10	6	43	1.66
437657--437917	2	129.5	2	71	21	165	49	6	2	40	1.42
437651--437917	60	4.5	58	75	17	205	50	6	2	40	1.41
441499--441553	16	3.9	14	73	21	53	30	0	5	63	1.17
441736--442269	141	3.9	141	87	2	773	32	15	15	36	1.89
451232--451504	45	6.1	45	87	2	336	22	19	13	44	1.86
467998--468036	19	2.1	19	100	0	78	10	20	20	48	1.78
472563--472605	11	4.2	11	85	11	56	74	0	25	0	0.82
475290--475438	66	2.3	65	83	4	183	29	19	14	36	1.91
475366--475556	102	1.9	103	82	3	242	34	15	12	37	1.85
481614--481730	32	3.7	32	77	4	112	33	17	12	35	1.88
486306--486389	31	2.6	33	79	7	102	35	11	10	41	1.77
492346--492413	32	2.1	32	86	0	91	39	11	8	39	1.73
493613--493703	25	3.6	25	76	14	80	17	15	18	48	1.82
494911--494941	13	2.4	13	94	0	53	32	19	6	41	1.77
496017--496047	12	2.6	12	94	0	53	70	9	6	12	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498039--498173	65	2.1	65	84	8	177	25	8	15	50	1.72
500863--500902	20	2.0	20	85	9	55	15	10	27	47	1.77
500924--500990	24	2.8	25	76	13	77	44	25	0	29	1.54
500926--501057	54	2.6	52	85	11	175	43	25	1	30	1.64
500962--501048	26	3.3	24	71	23	68	41	27	2	28	1.68
501059--501216	56	2.9	53	83	5	165	53	20	3	22	1.61
501059--501214	54	2.9	53	84	5	181	53	19	3	22	1.61
501086--501216	56	2.4	54	85	6	174	56	19	3	20	1.55
501173--501315	30	5.0	30	80	10	183	52	22	4	20	1.64
501121--501315	84	2.3	84	92	3	320	53	21	4	21	1.62
505161--505218	20	2.9	21	74	7	66	25	17	10	46	1.79
508492--508645	49	3.1	49	81	0	182	36	11	20	31	1.88
512538--512707	85	2.0	85	97	0	322	30	11	21	37	1.88
515878--516155	137	2.0	137	83	2	344	29	13	17	39	1.88
516198--516236	20	2.0	20	89	0	60	51	2	20	25	1.60
516688--516839	81	1.9	81	98	0	295	38	3	13	43	1.63
528252--528333	40	2.0	40	85	0	110	29	21	20	28	1.98
529140--529208	29	2.3	30	80	9	79	34	21	7	36	1.81
532635--532688	14	3.8	14	78	4	54	24	0	31	44	1.54
532886--532975	37	2.3	41	81	12	109	66	4	0	28	1.11
533122--533173	25	2.1	25	85	0	68	42	7	13	36	1.73
533461--533512	26	2.0	26	85	11	70	25	3	3	67	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534292--534417	47	2.8	46	83	5	141	29	22	7	40	1.82
538257--538365	17	6.1	18	73	19	70	3	14	3	77	1.04
538263--538359	17	5.3	17	77	16	88	4	12	4	79	1.02
541194--541319	47	2.8	45	85	5	164	29	23	7	39	1.83
545518--545619	51	2.0	49	90	3	159	25	22	24	27	2.00
545833--545881	16	3.1	16	78	0	53	22	2	6	69	1.21
549244--549330	35	2.5	34	82	12	106	54	9	8	28	1.61
551642--551680	18	2.2	18	95	4	71	64	2	0	33	1.08
551719--551768	10	5.0	10	82	0	55	44	0	30	26	1.55
555391--555429	2	19.5	2	100	0	78	48	0	0	51	1.00
555542--555570	11	2.5	12	88	11	51	37	0	0	62	0.96
555567--555805	127	1.9	128	81	8	299	38	7	7	46	1.63
557747--557831	43	2.0	44	88	2	127	31	11	24	31	1.91
564216--564303	45	1.9	46	88	2	133	34	13	25	27	1.93
564258--564364	54	2.0	54	85	1	144	33	14	22	28	1.94
565176--565805	223	2.8	223	91	2	996	37	15	19	27	1.92
565176--565805	113	5.6	113	87	5	884	37	15	19	27	1.92
567262--567335	34	2.1	36	82	9	91	33	0	4	62	1.14
570114--570287	90	2.0	88	93	4	296	45	6	10	37	1.64
570644--570680	16	2.2	17	90	4	58	59	2	0	37	1.12
570985--571029	23	2.0	24	87	12	69	60	2	2	35	1.22
571502--571554	22	2.4	21	79	14	54	26	0	1	71	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571511--571553	22	1.9	22	85	4	59	27	0	2	69	1.00
572004--572218	72	3.0	71	88	2	322	49	6	15	28	1.68
572609--572638	14	2.1	15	93	6	53	53	0	0	46	1.00
583067--583120	19	2.8	20	83	8	76	42	7	11	38	1.68
584029--584078	20	2.4	21	80	12	59	58	6	8	28	1.51
592608--592649	12	3.6	12	83	3	59	66	2	2	28	1.16
594059--594103	3	14.7	3	81	4	54	62	0	0	37	0.96
594248--594884	76	8.4	76	94	0	1123	35	22	18	23	1.96
596123--596280	54	3.0	54	84	8	209	25	24	15	34	1.94
598493--598720	114	2.0	114	95	0	411	31	20	15	33	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51