genome.fa.s8242.2.7.7.80.10.50.1000.4.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  4  of  73  ( 8740 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)
501793--501923	19	7.7	19	66	23	94	42	19	22	14	1.88
501793--501919	33	3.8	33	88	4	202	42	19	22	14	1.88
501794--501926	66	2.0	66	97	0	248	41	19	22	16	1.90
501934--501990	14	3.7	14	75	20	60	8	24	22	43	1.81
501919--502008	33	2.7	33	94	0	153	13	22	21	43	1.87
501948--502008	19	3.5	19	72	21	69	11	22	21	44	1.84
502115--502151	14	2.6	14	91	0	65	45	24	0	29	1.53
503334--503518	91	2.0	90	91	6	300	47	18	12	21	1.82
505167--505288	20	6.8	19	67	20	75	42	20	24	12	1.86
505192--505288	33	2.9	33	92	1	158	40	22	25	11	1.87
505289--505332	19	2.4	19	92	3	72	9	15	25	50	1.74
505883--505976	20	4.7	20	76	7	91	24	17	23	35	1.95
505883--505997	61	1.9	61	81	3	142	22	19	22	35	1.96
506047--506087	21	2.0	21	85	0	55	34	31	17	17	1.93
507632--507738	35	3.1	35	97	0	196	42	20	10	27	1.84
508778--508821	20	2.1	22	91	8	74	25	18	9	47	1.77
513525--513571	23	2.0	24	84	12	62	44	2	4	48	1.34
532917--532983	31	2.2	31	97	0	125	34	17	8	38	1.82
534817--534860	22	2.0	22	82	8	54	45	4	0	50	1.22
535159--535221	22	2.8	23	75	18	69	15	15	12	55	1.69
535681--535719	21	1.9	21	89	5	62	64	0	7	28	1.21
535716--535804	18	5.1	17	67	16	65	73	6	5	14	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535762--535790	13	2.2	13	100	0	58	79	0	0	20	0.74
535706--535821	37	3.2	36	78	13	107	73	5	4	17	1.18
535705--535821	34	3.3	34	75	13	112	72	5	4	17	1.19
537713--538662	84	11.4	83	79	5	834	24	19	24	31	1.98
537713--538662	165	5.7	165	81	4	932	24	19	24	31	1.98
537753--538662	249	3.7	248	85	2	1078	24	19	24	31	1.98
540726--540816	23	4.0	23	85	0	128	28	26	27	17	1.98
542400--542436	19	1.9	19	100	0	74	24	27	16	32	1.96
547214--547274	32	1.9	32	86	6	88	70	0	8	21	1.13
547227--547274	16	3.0	16	75	0	51	68	0	10	20	1.18
547369--547416	19	2.4	20	74	19	55	70	4	6	18	1.25
550399--550448	20	2.5	20	78	12	50	74	4	4	18	1.14
550652--550700	19	2.7	18	80	3	62	51	0	0	48	1.00
552031--552083	19	2.7	19	85	2	70	32	15	13	39	1.85
553733--553767	2	17.5	2	100	0	70	51	0	0	48	1.00
556040--556066	4	6.8	4	100	0	54	74	0	0	25	0.83
556080--556104	13	1.9	13	100	0	50	24	28	8	40	1.83
563314--563362	19	2.7	17	84	9	53	26	20	28	24	1.99
563334--563492	64	2.5	64	86	4	205	28	18	23	29	1.98
564195--564223	14	2.0	15	93	6	51	62	27	0	10	1.28
566134--566213	23	3.6	22	69	5	72	26	22	25	26	2.00
572021--572158	64	2.2	64	86	5	190	27	19	23	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577754--577805	21	2.5	21	96	0	95	36	17	21	25	1.94
580549--580589	17	2.4	17	95	0	73	19	12	24	43	1.85
581172--581246	33	2.3	33	95	0	132	22	21	33	22	1.97
585743--585788	23	2.0	23	91	8	76	21	26	30	21	1.99
593000--593055	17	3.2	17	74	16	53	46	10	14	28	1.78
594773--594830	15	3.7	15	86	4	80	34	20	13	31	1.92
602458--602495	14	2.7	14	95	0	67	36	13	13	36	1.83
604944--604984	17	2.4	17	95	0	73	24	19	21	34	1.97
605127--605191	30	2.2	30	85	0	85	36	3	18	41	1.66
609903--610191	123	2.4	123	95	0	517	29	17	10	43	1.82
612535--612617	32	2.6	32	80	5	87	27	8	25	38	1.85
612596--612850	33	7.5	33	73	16	200	15	9	35	40	1.79
621626--621765	3	46.7	3	98	0	271	32	0	0	66	0.97
622192--622310	30	4.0	30	75	4	105	27	20	14	37	1.91
624797--624851	27	2.0	27	96	0	101	20	20	18	41	1.90
626545--626571	2	13.5	2	100	0	54	51	0	0	48	1.00
626939--627008	19	3.4	19	69	16	50	54	5	7	32	1.51
627186--627538	122	2.9	120	89	2	492	32	16	12	38	1.85
627779--627831	26	2.1	25	92	3	88	33	7	15	43	1.74
627786--627837	26	2.0	26	88	7	79	34	9	15	40	1.80
629898--629923	2	13.0	2	100	0	52	50	0	0	50	1.00
629993--630032	15	2.7	15	88	0	62	50	7	0	42	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633685--633713	15	1.9	15	100	0	58	55	3	0	41	1.17
633881--633912	2	16.0	2	100	0	64	50	0	0	50	1.00
636897--636927	6	5.2	6	100	0	62	16	0	51	32	1.44
639502--639642	60	2.3	59	78	9	142	34	19	7	39	1.79
642272--642424	75	2.0	75	100	0	306	33	16	9	39	1.81
644953--645000	23	2.1	23	88	0	69	35	12	18	33	1.89
645376--645430	23	2.5	20	76	18	56	43	18	1	36	1.61
645391--645452	22	2.7	23	85	5	81	38	19	6	35	1.77
648028--648093	33	2.0	33	87	0	96	24	45	1	28	1.62
648133--648173	21	1.9	22	90	5	66	19	24	14	41	1.89
650180--650226	23	2.0	23	84	8	60	27	8	14	48	1.73
650364--650409	20	2.4	18	79	13	56	19	17	8	54	1.68
650526--650571	20	2.3	20	85	10	67	17	17	13	52	1.75
650637--651061	217	2.0	216	91	6	691	38	7	7	45	1.61
652024--652064	18	2.3	18	87	4	57	29	7	2	60	1.36
653719--653754	18	2.0	18	88	0	54	27	27	19	25	1.99
654232--654307	24	3.1	24	71	5	71	23	5	5	65	1.34
659409--659456	21	2.3	20	78	3	51	39	2	0	58	1.10
666188--666250	31	2.0	31	87	3	90	38	14	14	33	1.86
666852--666917	30	2.2	31	88	2	98	36	9	15	39	1.79
668566--668652	31	2.8	30	83	10	104	42	0	3	54	1.17
669235--669307	27	2.8	26	80	12	78	32	4	5	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669381--669460	11	7.7	10	71	17	56	52	3	0	43	1.19
669374--669460	31	2.8	30	83	10	104	54	3	0	42	1.17
669378--669427	19	2.5	21	84	9	70	56	2	0	42	1.11
670327--670360	16	2.1	16	100	0	68	26	23	5	44	1.76
670513--670551	17	2.3	17	86	8	53	64	2	0	33	1.08
680252--680291	21	1.9	21	85	10	55	57	0	7	35	1.27
680450--680508	18	3.6	15	78	13	55	71	1	5	22	1.15
683724--683762	20	2.0	19	85	5	51	0	17	5	76	0.96
683799--683851	15	3.6	14	82	12	61	1	15	0	83	0.74
683799--683850	7	6.5	8	84	10	63	1	13	0	84	0.70
690947--690998	26	1.9	28	88	7	81	71	7	5	15	1.29
694204--694304	37	2.7	37	79	14	109	71	3	8	15	1.26
694200--694313	18	6.1	18	71	11	68	71	3	8	16	1.26
694393--694432	21	1.9	21	85	10	55	57	0	7	35	1.27
694608--694655	21	2.2	21	85	10	62	68	2	2	27	1.11
694596--694667	18	4.2	17	72	21	53	66	1	4	27	1.18
704589--704689	47	2.1	47	89	3	150	28	16	20	33	1.95
711905--711939	18	1.9	18	88	11	54	54	5	17	22	1.64
713215--713259	23	2.0	23	90	0	72	22	26	26	24	2.00
714359--714416	26	2.3	25	77	19	66	37	1	0	60	1.07
716398--716429	3	11.0	3	93	6	57	65	0	0	34	0.93
720438--720957	121	4.3	118	74	8	384	30	15	10	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724047--724106	30	2.0	31	90	3	95	35	5	13	46	1.65
724218--724273	20	2.9	20	84	12	73	64	8	1	25	1.32
729644--729704	3	19.0	3	87	12	86	67	0	0	32	0.91
734259--734312	23	2.4	23	84	3	74	42	1	0	55	1.10
735050--735088	19	1.9	19	90	10	60	41	0	5	53	1.23
742753--742777	3	8.3	3	100	0	50	32	32	0	36	1.58
743054--743117	21	3.0	21	81	0	92	20	18	31	29	1.96
746546--746693	15	9.5	15	81	11	181	46	0	3	50	1.18
746561--747000	54	8.5	48	73	20	177	38	0	9	51	1.36
746591--746748	69	2.3	67	86	6	212	41	0	6	51	1.29

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73