genome.fa.s7926.2.7.7.80.10.50.1000.3.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  3  of  42  ( 5024 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)
502608--502742	41	3.3	41	81	4	130	20	21	20	37	1.94
502669--502761	20	4.6	20	78	4	96	18	24	18	38	1.92
502669--502764	41	2.3	41	98	0	183	18	23	17	39	1.92
509517--509552	18	1.9	19	88	5	56	55	2	0	41	1.14
510706--510739	15	2.3	15	94	0	59	58	2	0	38	1.13
510933--510965	9	3.8	9	88	8	50	54	3	6	36	1.41
511036--511081	14	3.3	14	85	14	60	50	4	2	43	1.34
511150--511711	300	1.8	303	85	9	804	44	10	8	36	1.70
511712--511794	14	5.7	15	94	1	73	48	2	3	45	1.33
511730--511823	2	46.0	2	87	4	134	47	3	2	46	1.30
511853--511884	13	2.5	13	89	0	55	43	0	3	53	1.16
513343--513373	7	4.6	7	92	8	55	22	29	32	16	1.95
513343--513373	13	2.3	14	94	5	55	22	29	32	16	1.95
513390--513460	9	7.3	9	74	14	61	29	28	26	15	1.96
513390--513457	30	2.3	28	80	14	75	30	29	25	14	1.95
513390--513461	20	3.7	19	75	10	65	29	27	26	16	1.97
514193--514258	21	3.2	21	84	2	71	42	7	4	45	1.53
514164--514329	57	3.0	56	83	8	196	41	5	6	46	1.51
514256--514306	15	3.3	15	71	15	50	41	3	3	50	1.39
514285--514363	36	2.2	36	93	0	131	43	3	8	44	1.53
514381--514424	18	2.7	15	86	13	52	43	0	6	50	1.29
514369--514439	24	2.9	24	81	14	83	45	1	5	47	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514398--514436	18	2.2	18	86	9	53	43	0	7	48	1.31
514499--514562	32	2.0	31	84	3	83	40	3	3	53	1.33
514532--514667	34	4.0	34	77	15	131	47	2	1	48	1.23
514579--514664	15	5.4	14	76	21	73	48	0	1	50	1.08
514577--514662	21	4.0	20	80	19	86	48	0	1	50	1.08
514577--514660	6	15.3	6	76	21	71	48	0	1	50	1.08
514576--514678	49	2.2	49	80	17	121	47	0	1	50	1.12
515367--515408	6	7.0	6	94	0	75	50	47	0	2	1.14
515375--515428	18	3.1	17	84	13	65	48	40	3	7	1.49
515367--515480	18	6.1	18	68	18	63	42	42	7	7	1.61
515879--516004	39	3.2	39	66	16	105	11	16	23	48	1.79
515855--516014	80	2.0	80	98	0	311	12	14	26	46	1.80
516776--516823	20	2.4	20	96	0	87	47	6	29	16	1.71
518475--518517	19	2.3	19	100	0	86	32	4	27	34	1.78
519170--519212	21	2.0	21	95	0	77	46	6	0	46	1.30
519293--519360	30	2.3	29	83	14	86	45	1	0	52	1.09
519243--519340	48	2.0	48	81	11	112	42	2	0	55	1.11
519454--519513	16	3.7	16	73	10	50	43	13	16	26	1.85
520516--520775	36	7.2	36	85	1	299	20	26	21	31	1.98
531781--531849	13	5.0	15	76	18	78	47	0	0	52	1.00
531848--532228	32	12.7	32	69	24	199	35	0	12	52	1.39
531837--532260	54	7.8	54	79	13	388	35	0	11	52	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531880--531922	22	2.0	22	100	0	86	34	0	13	51	1.42
531934--531976	22	2.0	22	95	0	77	37	0	11	51	1.39
531956--532105	80	1.9	80	98	0	291	32	0	14	52	1.42
531848--532196	188	1.9	188	96	1	655	35	0	12	52	1.39
532068--532164	22	4.0	22	70	23	77	37	0	10	52	1.36
532167--532223	18	3.4	18	67	18	59	31	0	14	54	1.40
532208--532250	22	2.0	22	100	0	86	34	0	13	51	1.42
532275--532333	31	1.9	31	96	0	109	44	6	5	44	1.52
534512--534588	40	2.0	40	85	7	106	40	9	19	31	1.83
535015--535048	2	17.0	2	93	0	59	52	0	0	47	1.00
537405--537473	26	2.9	22	69	26	59	47	7	1	43	1.39
550093--550132	21	1.9	21	90	10	64	52	5	10	32	1.56
553925--553980	19	2.9	19	78	7	60	26	30	26	16	1.96
558246--558284	18	2.2	18	85	0	51	28	20	25	25	1.99
562941--562991	22	2.3	22	93	0	84	21	43	15	19	1.88
563330--563373	20	2.2	20	91	0	70	47	20	18	13	1.82
565117--565208	42	2.2	42	80	3	105	21	14	31	32	1.93
565487--565585	21	4.7	21	84	3	119	23	32	19	25	1.97
565487--565585	42	2.4	42	85	0	135	23	32	19	25	1.97
565485--565605	42	2.9	40	77	4	116	22	31	19	26	1.98
566949--567097	64	2.3	64	91	0	235	29	1	16	52	1.52
569803--569836	12	2.8	12	90	0	50	14	0	29	55	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570590--570718	20	6.5	19	72	14	75	34	14	22	27	1.93
570672--570786	20	5.7	20	86	8	101	32	15	26	26	1.96
570610--570738	40	3.2	41	81	3	154	33	14	24	27	1.94
570714--570786	20	3.7	20	94	3	121	32	17	27	21	1.96
574187--574213	2	13.5	2	100	0	54	48	0	0	51	1.00
574249--574351	47	2.2	46	86	5	136	33	2	17	46	1.63
581641--581739	49	2.0	48	96	1	180	35	9	11	44	1.72
582972--583005	2	17.0	2	100	0	68	50	0	0	50	1.00
583655--583696	2	21.5	2	86	13	61	50	0	2	47	1.14
585467--585497	15	2.1	15	93	0	53	22	25	16	35	1.94
586117--586172	20	2.8	20	91	0	85	28	10	19	41	1.85
588223--588260	15	2.5	15	83	8	51	13	18	21	47	1.82
595749--595787	19	2.0	21	85	10	55	51	2	0	46	1.14
598369--598414	21	2.2	20	85	11	58	45	0	0	54	0.99
610109--610206	14	7.0	14	95	0	178	14	21	12	52	1.74
610973--611048	34	2.2	34	100	0	152	23	27	19	28	1.98
614954--615037	14	6.0	14	88	0	123	17	19	10	52	1.73
614957--615038	28	2.9	28	92	0	137	18	18	9	53	1.71
619364--619404	21	2.0	21	85	9	57	31	2	24	41	1.68
619622--619705	38	2.2	38	76	4	89	45	1	0	53	1.08
619701--619753	13	4.1	13	74	16	56	43	3	1	50	1.30
620153--620261	31	3.6	30	78	8	105	37	11	8	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623835--623861	2	13.5	2	100	0	54	48	0	0	51	1.00
625740--625810	3	23.7	3	87	5	99	66	0	4	29	1.11
627285--627330	24	2.0	23	87	12	67	10	10	0	78	0.97
627309--627334	10	2.6	10	100	0	52	7	11	0	80	0.89
627288--627320	7	4.7	7	96	0	57	9	12	0	78	0.95
633966--634036	30	2.4	29	83	6	88	32	4	18	45	1.69
636691--636721	14	2.3	13	94	5	53	83	16	0	0	0.64
637707--637736	11	2.7	11	94	0	51	50	0	10	40	1.36
638645--638671	2	13.5	2	100	0	54	48	0	0	51	1.00
640548--640612	3	21.7	3	87	6	96	66	0	3	30	1.07
655248--655318	30	2.4	29	83	6	88	32	4	18	45	1.69
656255--656302	11	4.5	10	77	12	51	25	8	14	52	1.69
656265--656309	22	2.0	22	100	0	90	22	8	13	55	1.65
656853--656885	3	11.3	3	93	6	59	66	0	0	33	0.92
657816--658172	21	17.6	21	71	17	143	29	22	21	25	1.99
657816--658172	42	8.3	42	71	16	162	29	22	21	25	1.99
657905--657986	29	2.9	29	72	26	84	31	20	25	21	1.98
658018--658090	20	3.6	20	79	17	96	23	21	19	35	1.96
658011--658093	41	2.0	41	100	0	166	24	21	19	34	1.96
657961--658216	122	2.1	122	80	12	283	27	22	22	27	1.99
658180--658316	21	6.6	21	80	8	154	23	22	24	29	1.99
657818--658236	143	3.0	141	77	10	417	29	22	22	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
658432--658457	6	4.3	6	100	0	52	34	50	15	0	1.45
659120--659227	21	5.2	21	76	10	105	30	24	22	23	1.99
659109--659227	41	2.9	41	82	3	123	32	24	20	22	1.98
659262--659401	21	6.7	21	79	12	155	23	20	25	30	1.98
662055--662122	27	2.6	27	93	4	113	41	17	10	30	1.83
668282--668335	22	2.5	22	100	0	108	7	5	29	57	1.49
672868--672907	21	2.0	20	90	5	62	22	0	2	75	0.93
674718--674773	21	2.7	21	88	0	85	1	37	14	46	1.55
676056--676180	31	4.0	31	93	4	209	38	24	19	18	1.93
676824--676995	64	2.7	63	84	3	202	25	20	20	32	1.97

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