genome.fa.s9247.2.7.7.80.10.50.1000.3.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: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1479039

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 948 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)
422186--422259	37	2.0	37	97	0	139	37	6	33	21	1.80
425923--426321	198	2.0	199	88	2	597	38	16	17	27	1.90
430345--430863	256	2.0	259	90	1	810	31	18	20	29	1.96
431057--431104	18	2.5	20	87	12	66	29	25	16	29	1.97
432222--432268	16	2.9	16	81	6	51	51	4	4	40	1.41
439324--439372	22	2.2	22	85	7	64	44	20	14	20	1.86
440170--440324	64	2.4	63	86	5	195	29	23	18	29	1.97
448324--448349	13	2.0	13	100	0	52	53	7	0	38	1.30
454532--454581	23	2.2	23	88	0	73	42	4	42	12	1.60
456774--456859	31	2.9	30	75	14	79	45	6	5	41	1.55
462180--462383	103	2.0	103	84	1	266	42	23	11	22	1.86
467265--467315	22	2.3	22	93	0	84	23	17	21	37	1.94
472359--472421	23	2.8	22	90	2	90	19	26	28	25	1.98
472335--472421	22	3.9	22	80	3	84	19	24	29	26	1.98
476177--476246	33	2.1	33	97	0	131	47	5	12	34	1.66
479077--479242	91	1.8	91	85	0	233	26	22	12	39	1.89
479161--479451	105	2.7	105	83	7	318	25	20	15	38	1.92
479416--479844	135	3.2	136	91	2	668	26	22	17	33	1.96
480128--480578	40	11.6	37	85	6	214	41	12	17	29	1.86
480118--480338	72	2.9	73	82	6	194	38	12	19	29	1.89
480236--480599	40	9.1	40	93	0	559	41	12	16	29	1.84
480360--480423	20	3.2	20	64	24	53	43	10	14	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
480402--480470	23	3.3	23	62	29	62	40	14	13	31	1.84
480522--480590	23	3.3	23	61	23	60	43	15	10	30	1.80
483426--483512	9	9.6	9	84	13	90	4	14	0	80	0.87
483426--483512	28	3.2	26	85	12	113	4	14	0	80	0.87
483476--483510	10	3.5	10	96	0	61	0	11	0	88	0.51
483468--483510	19	2.2	20	91	4	70	0	13	0	86	0.58
486332--486481	55	2.7	53	79	11	162	24	20	10	45	1.81
488329--488402	35	2.1	35	97	0	139	47	5	12	35	1.64
496394--496430	19	1.9	19	88	0	56	54	2	16	27	1.56
496401--496452	19	2.8	19	82	2	61	51	3	11	32	1.56
496499--496559	13	4.8	13	80	11	65	52	0	21	26	1.47
496502--496537	19	1.9	18	94	5	63	50	0	25	25	1.50
496591--496671	39	2.1	39	88	0	117	29	8	16	45	1.77
497912--497949	20	1.9	20	94	0	67	36	10	13	39	1.79
497933--498003	17	4.2	17	72	5	63	36	14	9	39	1.79
500467--500508	21	2.1	19	83	16	50	59	0	23	16	1.37
501979--502061	17	4.7	18	84	11	84	38	12	9	39	1.75
502001--502071	17	4.2	17	87	5	90	39	12	8	39	1.74
508846--508917	22	3.3	21	76	14	65	25	12	20	41	1.87
508846--508929	44	1.9	44	82	4	107	25	14	20	40	1.90
513901--513942	11	3.9	11	81	3	50	33	7	0	59	1.25
516532--516569	19	2.0	20	84	5	51	31	13	7	47	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522214--522291	37	2.1	37	80	0	84	23	17	10	48	1.78
524788--524813	13	2.0	13	100	0	52	53	0	0	46	1.00
535948--535984	20	1.9	19	89	10	58	45	10	24	18	1.81
538173--538249	28	2.6	30	78	12	79	49	1	3	45	1.28
538201--538350	38	4.0	37	84	5	201	46	2	6	45	1.39
538327--538374	24	2.0	24	91	0	78	39	4	4	52	1.40
538403--538597	5	39.0	5	98	0	327	40	3	0	56	1.17
538599--538645	17	2.5	18	80	16	51	8	8	6	76	1.15
542063--542102	16	2.5	16	100	0	80	32	12	5	50	1.62
542691--542729	18	2.1	19	85	4	53	35	28	15	20	1.93
545858--545896	18	2.3	16	80	16	51	41	17	0	41	1.50
545865--545901	18	2.1	18	100	0	74	37	16	0	45	1.47
549386--549460	20	3.8	20	94	0	114	25	34	13	26	1.93
552129--552200	23	3.1	23	72	4	65	23	19	22	34	1.96
552146--552253	23	4.6	24	69	20	68	21	20	23	35	1.96
552218--552267	25	2.0	25	88	3	75	20	20	26	34	1.96
561482--561516	17	2.1	16	94	5	61	22	31	5	40	1.78
564313--564350	18	2.1	18	95	0	67	5	13	13	68	1.37
564456--564480	13	1.9	13	100	0	50	20	8	24	48	1.76
570006--570032	13	2.1	13	100	0	54	55	0	0	44	0.99
571025--571078	17	3.0	17	83	8	54	57	0	1	40	1.09
571018--571068	20	2.5	21	78	15	54	58	0	1	39	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571739--571857	15	7.5	15	77	15	123	45	0	2	51	1.20
571851--571907	18	3.4	18	67	18	59	31	0	14	54	1.40
571837--572324	32	16.4	32	74	20	341	34	0	12	53	1.40
571716--572197	80	6.0	79	72	18	290	36	0	10	52	1.39
571892--571934	22	2.0	22	100	0	86	34	0	13	51	1.42
571860--571983	54	2.3	54	98	0	239	34	0	12	52	1.40
571769--572301	134	4.2	127	76	18	484	35	0	11	52	1.40
571914--572476	112	5.1	112	77	13	612	32	0	14	52	1.43
572035--572070	14	2.5	15	95	4	65	41	0	0	58	0.98
571812--572341	214	2.5	212	79	12	600	33	0	13	53	1.40
572119--572527	80	5.0	79	76	18	304	33	0	13	52	1.45
572095--572527	144	3.1	143	79	10	470	33	0	13	52	1.45
572375--572422	22	2.4	18	73	23	51	31	0	16	52	1.45
572432--572564	51	2.6	51	97	0	248	37	0	10	51	1.42
572579--572637	31	1.9	31	92	0	100	42	10	6	40	1.65
575635--575709	2	37.5	2	100	0	150	49	0	0	50	1.00
576358--576434	37	2.1	37	95	0	136	33	23	20	22	1.97
578427--578484	18	3.3	17	80	17	73	46	6	1	44	1.40
578432--578621	98	1.9	98	91	0	308	45	5	4	44	1.47
578528--578582	18	3.1	18	79	10	67	45	5	3	45	1.44
578601--578734	15	9.3	15	68	19	72	49	3	4	42	1.41
578601--578782	87	2.1	88	88	3	269	47	2	4	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578681--578734	17	3.2	16	76	10	54	50	3	5	40	1.44
578898--578949	2	25.0	2	80	7	59	44	1	5	48	1.38
578971--579075	7	15.0	7	78	7	90	21	0	26	51	1.48
578973--579075	21	4.9	21	79	9	102	22	0	25	52	1.47
578971--579075	28	3.8	28	78	8	115	21	0	26	51	1.48
579297--579341	19	2.3	20	96	3	83	22	33	0	44	1.53
579451--579543	2	46.5	2	88	4	134	52	1	2	44	1.20
580115--580158	19	2.2	20	92	4	72	50	0	22	27	1.50
580620--580663	23	1.9	23	100	0	88	47	6	0	45	1.29
585268--585307	21	1.9	21	89	0	62	10	25	40	25	1.86
585288--585339	23	2.3	23	80	6	72	17	21	40	21	1.91
595741--595771	16	1.9	16	100	0	62	12	16	32	38	1.86
596131--596162	15	2.1	15	100	0	64	6	6	21	65	1.38
596396--596479	44	1.9	44	92	0	141	28	13	10	47	1.76
596909--596939	16	1.9	16	93	0	53	32	29	16	22	1.95
598109--598140	15	2.1	15	100	0	64	6	6	21	65	1.38
598374--598457	44	1.9	44	92	0	141	29	14	9	46	1.76
598886--598916	16	1.9	16	93	0	53	32	29	16	22	1.95
599736--599773	13	2.9	13	88	0	58	10	0	34	55	1.34
599738--599778	13	3.2	13	85	0	55	12	2	29	56	1.49
600102--600133	15	2.1	15	100	0	64	6	6	21	65	1.38
600367--600450	44	1.9	44	95	0	150	28	14	10	46	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600879--600909	16	1.9	16	93	0	53	32	29	16	22	1.95
611557--612012	20	22.2	20	79	8	434	39	24	19	16	1.91
611557--611981	62	6.9	62	83	7	435	39	24	19	16	1.91
611557--612003	82	5.4	81	84	9	525	39	25	19	16	1.92
611640--612012	62	6.0	61	89	5	493	39	24	19	16	1.92
612108--612177	6	12.5	6	98	1	105	28	54	17	0	1.43
612754--612804	5	9.6	5	97	2	75	0	19	54	25	1.44
614786--614810	12	2.1	12	100	0	50	0	28	0	72	0.86
614985--615031	24	2.0	24	87	8	69	38	21	14	25	1.92
615714--615963	20	12.5	20	82	3	234	20	18	24	38	1.93

Tables:   1   2   3   4   5   6   7   8