genome.fa.s8243.2.7.7.80.10.50.1000.3.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  3  of  49  ( 5786 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)
455808--455974	86	2.0	84	91	2	271	25	20	22	31	1.98
456342--456456	53	2.2	53	85	6	169	29	22	27	20	1.98
456346--456474	53	2.4	53	83	5	145	29	21	26	22	1.99
456624--456657	14	2.3	15	90	5	52	47	0	0	52	1.00
456631--456725	3	32.3	3	70	4	59	42	2	2	53	1.24
460660--461021	66	5.4	66	79	4	350	24	38	4	32	1.76
460663--461020	136	2.7	132	81	6	407	24	37	4	32	1.77
468798--468844	22	2.1	23	84	4	60	36	12	19	31	1.89
469260--469322	23	2.7	23	87	0	90	39	20	4	34	1.74
469677--469739	23	2.7	23	92	0	99	38	20	4	36	1.74
469885--469951	30	2.2	29	84	10	82	41	0	4	53	1.21
468911--471219	430	5.5	429	96	2	4245	38	12	7	40	1.72
470107--470169	23	2.7	23	92	0	99	38	20	4	36	1.74
470533--470590	23	2.5	23	94	0	98	37	20	5	36	1.75
470956--471013	23	2.5	23	94	0	98	37	20	5	36	1.75
468911--471219	847	2.7	856	96	2	4248	38	12	7	40	1.72
471438--471523	39	2.2	39	93	0	145	18	13	18	48	1.80
472214--472283	23	3.2	22	82	10	81	40	22	4	32	1.74
472628--472693	25	2.6	25	80	0	87	42	13	9	34	1.76
475134--475196	23	2.7	23	92	0	99	38	20	4	36	1.74
475340--475406	30	2.2	29	84	10	82	41	0	4	53	1.21
475562--475624	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474734--477107	429	5.6	429	98	0	4519	38	12	7	40	1.72
475991--476053	23	2.7	23	92	0	99	38	20	4	36	1.74
476420--476477	23	2.5	23	94	0	98	37	20	5	36	1.75
476837--476901	21	2.9	22	84	9	78	40	23	4	32	1.75
476845--476901	21	2.6	22	86	5	80	36	22	5	35	1.77
477327--477412	39	2.2	39	93	0	145	18	13	18	48	1.80
478121--478183	23	2.7	23	92	0	99	38	20	4	36	1.74
478528--478593	25	2.6	25	80	0	87	42	13	9	34	1.76
481052--481389	183	1.8	183	89	1	534	33	16	13	35	1.88
482855--482941	3	29.0	3	73	0	57	21	33	9	35	1.85
482855--482951	12	8.1	12	78	4	79	22	31	9	36	1.86
482904--482959	24	2.3	24	87	0	85	19	32	10	37	1.86
484423--485791	199	6.9	199	97	0	2530	31	17	15	36	1.91
484423--485791	596	2.3	597	96	1	2530	31	17	15	36	1.91
485910--485958	19	2.6	19	93	0	80	57	10	2	30	1.43
487748--487813	33	2.0	33	90	0	105	22	48	0	28	1.51
487850--487890	21	2.0	21	85	0	55	17	26	12	43	1.84
490107--490149	20	2.3	18	85	14	61	20	16	11	51	1.75
490112--490158	20	2.4	19	82	10	67	19	17	10	53	1.72
490293--490339	20	2.3	20	89	10	78	17	17	10	55	1.69
490388--491100	226	3.1	228	96	2	1339	39	8	7	44	1.64
496058--496178	54	2.2	54	98	0	233	32	24	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496272--496310	16	2.4	16	86	0	51	20	28	15	35	1.93
496481--496538	13	4.5	13	70	23	50	50	0	3	46	1.18
496471--496541	21	3.6	21	73	19	71	53	0	2	43	1.15
496530--496649	14	8.2	15	74	18	76	39	8	0	51	1.38
496553--496649	22	4.4	20	82	13	88	37	9	1	52	1.40
496539--496643	35	2.9	35	85	8	140	38	8	0	52	1.39
496508--496643	73	1.9	73	82	11	172	39	6	1	52	1.37
496508--496629	35	3.4	35	84	8	140	39	5	1	53	1.35
496558--496641	22	3.9	20	86	12	98	36	7	1	54	1.35
496537--496641	43	2.5	43	80	16	121	38	7	0	53	1.36
496859--496973	20	5.7	20	78	4	131	40	18	23	17	1.91
496876--496987	21	5.4	21	78	4	138	41	17	24	16	1.89
496859--496988	41	3.2	41	100	0	260	40	17	23	17	1.91
496978--497055	41	1.9	41	84	5	104	41	20	14	24	1.89
497025--497075	20	2.5	20	93	0	84	29	27	19	23	1.98
497263--497306	22	2.0	22	95	0	79	20	45	15	18	1.85
497570--497607	20	1.9	20	88	0	58	13	15	21	50	1.78
499426--499727	94	3.2	93	96	0	541	20	12	19	48	1.81
499816--499891	39	2.0	38	87	7	109	50	18	21	10	1.76
499816--499891	19	3.9	19	87	3	107	50	18	21	10	1.76
499920--500014	33	2.8	33	87	1	118	8	18	24	48	1.76
499954--500014	19	3.5	19	68	21	60	9	22	21	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500462--500550	42	2.1	42	81	8	101	24	34	19	21	1.96
501896--501931	14	2.6	14	90	0	54	30	0	22	47	1.52
502038--502103	19	3.7	19	75	19	79	45	19	22	12	1.83
502113--502235	33	3.7	33	92	0	201	13	22	17	47	1.82
502146--502259	19	6.5	19	70	20	95	15	21	17	44	1.86
502226--502266	20	2.0	20	95	0	73	21	19	19	39	1.93
502233--502305	20	3.6	20	68	17	51	24	17	23	34	1.96
504765--504818	24	2.2	24	93	0	90	40	20	18	20	1.91
504765--504832	24	2.8	24	84	0	64	38	20	17	23	1.93
505669--505939	61	4.4	60	83	6	298	36	16	20	25	1.94
505669--505897	102	2.2	102	91	3	381	37	17	20	24	1.93
505669--505978	41	7.6	41	85	5	321	35	17	20	26	1.95
506149--506208	22	2.7	22	84	2	66	35	13	0	51	1.41
507428--507470	8	5.6	8	83	8	54	48	13	2	34	1.56
507428--507470	15	2.8	16	82	10	54	48	13	2	34	1.56
507713--507778	14	4.7	14	74	7	53	22	0	27	50	1.50
507713--507784	21	3.4	21	80	0	72	20	0	29	50	1.49
507858--507902	23	1.9	24	86	4	65	40	2	6	51	1.41
507929--507963	13	2.5	13	90	9	52	54	0	0	45	0.99
507924--507963	15	2.8	14	85	14	55	52	0	2	45	1.14
508430--508481	14	3.7	14	73	0	50	32	0	25	42	1.55
508756--508824	19	3.5	20	80	5	88	23	28	0	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508773--508862	46	2.0	46	82	8	112	26	25	1	46	1.60
508754--508835	19	4.4	19	80	8	71	24	28	0	47	1.52
508787--508835	17	2.7	17	87	9	62	24	26	0	48	1.51
508792--508851	27	2.2	27	82	5	68	26	25	1	46	1.62
508857--508890	15	2.3	15	89	0	50	67	17	0	14	1.23
508932--509168	2	120.0	2	66	21	92	45	3	3	46	1.37
508930--508987	29	2.0	29	80	12	66	50	3	1	44	1.29
508993--509140	13	11.0	13	72	18	83	45	2	5	46	1.40
509088--509131	17	2.6	17	89	7	63	45	0	4	50	1.22
508929--509160	28	8.7	27	68	19	105	46	3	3	46	1.38
511501--511539	20	2.0	20	84	0	51	46	17	0	35	1.49
511459--511572	53	2.1	54	79	6	124	50	15	0	33	1.51
511565--511646	38	2.1	40	84	8	107	46	6	3	43	1.46
514112--514341	123	1.9	123	87	3	338	36	13	13	36	1.84
514815--514848	16	2.0	18	88	11	54	64	5	2	26	1.30
515158--515197	19	2.1	19	95	0	71	27	12	15	45	1.82
516472--516542	35	2.0	35	91	0	115	26	19	23	29	1.98
520031--520108	34	2.2	36	90	4	133	29	17	0	52	1.45
520311--520459	16	9.4	16	68	11	65	50	25	13	10	1.74
520320--520495	78	2.3	78	90	0	280	50	26	11	11	1.73
520393--520460	32	2.1	32	86	0	91	51	23	13	11	1.73
520963--521013	20	2.5	20	100	0	102	49	21	13	15	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521073--521133	31	2.0	31	93	0	104	37	34	11	16	1.85
521421--521521	20	5.0	21	75	8	77	36	20	17	24	1.94
521606--521652	18	2.5	18	86	6	58	29	21	10	38	1.87
522578--522631	24	2.2	24	93	0	90	20	18	20	40	1.91
524911--524946	18	2.0	18	88	0	54	52	25	5	16	1.65
525206--525236	16	1.9	16	93	0	53	67	12	0	19	1.22
525454--525512	30	1.9	31	96	3	111	44	13	6	35	1.71
526666--526718	21	2.5	21	87	0	70	22	16	35	24	1.95
527015--527197	21	8.7	22	70	10	89	32	32	13	21	1.92
527314--527412	42	2.4	42	92	0	162	17	19	36	27	1.94

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