genome.fa.s8356.2.7.7.80.10.50.1000.45.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  45  of  56  ( 6656 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)
10264414--10264587	65	2.6	65	84	5	224	33	21	8	36	1.84
10264414--10264586	67	2.6	67	86	3	208	32	21	8	36	1.84
10265304--10265542	110	2.2	110	85	4	317	33	24	18	23	1.96
10267014--10267093	37	2.2	35	84	10	108	26	5	3	65	1.30
10267023--10267080	16	3.3	16	70	21	53	27	6	3	62	1.37
10267032--10267094	16	3.6	17	75	16	58	25	4	4	65	1.32
10267098--10267136	16	2.4	17	86	4	53	20	5	0	74	1.01
10267083--10267136	17	3.2	17	77	15	51	22	3	0	74	0.98
10267241--10267266	11	2.4	11	100	0	52	7	7	0	84	0.77
10267338--10267399	9	6.7	9	72	7	52	14	1	6	77	1.04
10267330--10267371	19	2.2	19	87	8	59	19	0	2	78	0.86
10267330--10267371	10	4.4	9	80	19	50	19	0	2	78	0.86
10267357--10267418	25	2.5	24	78	19	65	14	4	8	72	1.24
10267357--10267418	26	2.5	23	80	12	70	14	4	8	72	1.24
10267358--10267418	22	2.7	23	80	12	63	14	4	8	72	1.26
10278235--10278933	226	3.1	224	87	1	952	39	13	15	32	1.85
10278320--10278963	118	5.8	109	69	12	437	39	12	15	32	1.85
10279121--10279568	200	2.2	199	89	0	671	33	14	13	38	1.86
10281693--10281842	77	1.9	78	81	10	182	42	5	8	44	1.56
10288567--10288712	77	1.9	78	83	7	190	44	4	9	41	1.58
10290339--10290817	60	8.0	60	85	1	602	35	11	23	29	1.90
10296308--10296346	19	2.1	19	100	0	78	5	43	20	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10296859--10296926	18	3.5	19	76	13	59	30	11	26	30	1.92
10297424--10297843	60	7.0	60	86	0	545	34	12	23	29	1.92
10297423--10297843	180	2.3	180	87	1	610	34	12	23	29	1.92
10299629--10299673	22	2.1	22	84	8	58	31	17	24	26	1.97
10301162--10301196	16	2.2	16	100	0	70	25	11	5	57	1.56
10302927--10303283	81	4.4	81	89	0	527	35	10	20	33	1.88
10321846--10321888	22	2.0	22	95	0	77	32	13	25	27	1.94
10321845--10321898	22	2.6	21	85	8	65	31	16	25	25	1.97
10322281--10322773	81	6.1	81	91	0	691	35	11	21	31	1.89
10326108--10326160	20	2.6	19	88	11	79	24	15	22	37	1.92
10332536--10332593	14	4.1	15	74	14	52	72	1	20	5	1.13
10332540--10332591	26	2.0	27	88	3	79	69	1	23	5	1.20
10333729--10333783	25	2.2	25	93	0	92	56	1	0	41	1.10
10333742--10333791	25	2.0	25	84	3	66	62	2	0	36	1.07
10334782--10334827	24	1.9	24	100	0	92	32	13	15	39	1.85
10335044--10335104	27	2.3	27	88	8	90	42	0	0	57	0.98
10335041--10335104	28	2.3	27	89	10	94	42	0	0	57	0.98
10335037--10335093	3	19.0	3	79	13	64	38	0	0	61	0.96
10336062--10336120	29	2.0	30	87	9	86	28	3	5	62	1.32
10336350--10336387	12	3.2	12	81	3	51	28	2	2	65	1.19
10337258--10337309	20	2.6	21	76	11	56	26	7	0	65	1.20
10344154--10344384	115	2.0	115	88	1	340	34	15	19	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10346842--10346896	22	2.5	22	87	0	83	34	14	14	36	1.87
10347552--10348573	76	13.5	76	98	0	1956	22	19	21	35	1.96
10348708--10348768	27	2.3	27	88	8	90	42	0	0	57	0.98
10348705--10348768	28	2.3	27	89	10	94	42	0	0	57	0.98
10348701--10348757	3	19.0	3	79	13	64	38	0	0	61	0.96
10349715--10349773	29	2.0	30	87	9	86	28	3	5	62	1.32
10350003--10350040	12	3.2	12	81	3	51	28	2	2	65	1.19
10352924--10352960	17	2.2	17	90	9	58	43	0	0	56	0.99
10370828--10370951	29	4.2	30	73	16	109	53	2	0	43	1.19
10370882--10370975	23	4.3	23	73	21	96	51	3	1	44	1.24
10370882--10371000	23	5.5	23	71	16	94	52	4	1	42	1.31
10370828--10370955	2	67.5	2	74	18	78	53	2	0	43	1.19
10371623--10371739	2	62.0	2	74	14	79	51	2	0	45	1.21
10371621--10371722	44	2.4	44	83	8	131	49	2	0	47	1.23
10371706--10371745	18	2.2	18	86	0	53	60	2	2	35	1.24
10370865--10373048	739	3.0	737	95	2	3873	35	15	13	35	1.87
10372376--10372434	26	2.2	28	84	6	77	52	3	0	44	1.17
10372375--10372437	28	2.2	28	86	5	83	50	3	0	46	1.17
10374416--10374460	21	2.1	21	100	0	90	35	28	17	17	1.93
10374768--10375203	139	3.1	138	80	3	489	44	14	12	28	1.82
10375485--10375524	18	2.2	18	90	0	62	62	0	0	37	0.95
10375494--10375733	2	131.5	2	65	23	66	50	3	0	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10375486--10375538	10	5.3	10	78	17	56	58	1	0	39	1.09
10375532--10375630	42	2.4	43	81	11	109	52	3	0	44	1.16
10375492--10375680	24	8.0	23	69	16	77	53	2	0	43	1.14
10375575--10375694	60	2.0	61	84	11	158	50	3	0	45	1.18
10375596--10375679	30	2.8	29	74	12	80	52	2	0	45	1.13
10375574--10375723	62	2.4	61	81	14	159	49	2	0	48	1.15
10380151--10380498	182	1.9	183	88	1	529	32	23	15	28	1.95
10386707--10387064	194	1.9	191	84	6	481	37	12	11	37	1.80
10390576--10390615	19	2.1	19	86	9	55	20	2	2	75	1.04
10397182--10397220	19	2.1	19	85	0	51	33	2	7	56	1.41
10397194--10397268	24	3.2	23	72	11	71	25	2	4	68	1.21
10397195--10397285	46	2.0	46	83	10	116	23	3	4	69	1.22
10409771--10409844	30	2.3	34	75	20	93	47	18	0	33	1.49
10409781--10409841	30	2.0	30	93	0	104	50	21	0	27	1.49
10410018--10410119	51	2.0	52	88	5	154	38	13	17	30	1.89
10410669--10410750	42	2.0	42	92	0	137	43	15	10	29	1.81
10412431--10412682	109	2.3	111	81	7	300	46	13	17	23	1.82
10413639--10413673	13	2.6	14	95	4	63	62	0	0	37	0.95
10414780--10415405	197	3.2	198	88	3	874	37	16	14	31	1.89
10415339--10415461	42	3.0	41	80	5	131	32	21	17	28	1.96
10421531--10421560	2	15.0	2	100	0	60	50	0	0	50	1.00
10428321--10428370	3	16.7	3	100	0	100	34	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10430706--10430761	21	2.7	21	84	15	64	25	17	8	48	1.76
10434012--10434256	109	2.2	110	85	3	334	44	16	15	24	1.85
10435152--10435194	3	14.3	3	85	0	50	67	9	0	23	1.19
10435352--10435410	30	2.0	30	83	6	75	42	10	13	33	1.78
10443122--10443166	17	2.5	18	89	7	65	24	8	0	66	1.20
10443213--10443261	19	2.5	20	83	9	66	22	8	0	69	1.14
10446054--10446196	5	28.0	5	78	12	139	22	3	1	72	1.07
10448953--10448997	17	2.5	18	89	7	65	24	8	0	66	1.20
10449045--10449094	19	2.5	20	83	6	66	22	8	0	70	1.13
10449036--10449094	19	3.1	19	75	4	57	23	6	0	69	1.12
10453737--10453817	41	2.0	41	97	0	153	37	19	14	28	1.92
10455718--10455784	3	22.7	3	82	8	84	34	0	0	65	0.93
10457321--10457356	19	1.9	19	88	5	56	41	2	0	55	1.14
10459679--10459708	15	2.1	15	93	6	53	33	6	26	33	1.83
10461288--10461319	15	2.1	15	94	0	55	25	18	9	46	1.79
10468588--10468626	9	4.2	9	80	6	51	82	0	12	5	0.83
10468586--10468657	9	7.1	11	69	21	50	73	0	16	9	1.08
10468587--10468656	10	7.0	10	72	16	56	75	0	17	7	1.01
10468586--10468636	21	2.4	22	83	9	61	76	0	17	5	0.98
10468591--10468663	30	2.4	29	82	6	92	76	0	15	8	1.00
10469010--10469044	18	1.9	18	100	0	70	31	5	5	57	1.46
10470195--10470989	123	6.7	116	86	7	835	38	15	18	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10470469--10470989	123	4.2	123	96	0	961	39	15	19	25	1.91
10472897--10472932	19	1.9	19	88	5	56	41	2	0	55	1.14
10477716--10477806	3	30.0	3	91	6	148	31	0	1	67	0.98
10477721--10477826	12	8.5	13	88	9	64	33	1	0	63	1.12
10479277--10479351	28	2.7	27	83	6	80	16	10	12	61	1.57
10479428--10479489	30	2.1	29	85	8	81	17	12	14	54	1.70
10480166--10480205	19	2.1	19	86	9	55	47	5	2	45	1.38
10480366--10480406	17	2.4	17	88	8	57	26	4	7	60	1.43
10480378--10480420	13	2.9	15	80	16	54	32	2	9	55	1.44
10480368--10480420	16	3.3	17	75	24	53	28	3	9	58	1.47

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