genome.fa.s11.2.7.7.80.10.50.1000.17.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   

This is table  17  of  143  ( 17057 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)
5259238--5259316	24	3.0	24	70	19	77	44	3	49	2	1.34
5276271--5276301	3	10.3	3	100	0	62	67	0	0	32	0.91
5276351--5276401	19	2.6	20	72	12	52	29	0	1	68	1.00
5280647--5280821	66	2.7	65	82	8	234	34	8	21	36	1.83
5295258--5295368	55	2.0	55	96	0	204	36	18	11	33	1.88
5309311--5309353	16	2.9	14	82	10	50	41	18	0	39	1.51
5314479--5314613	69	2.0	68	94	1	234	34	19	10	36	1.86
5315051--5315090	20	2.0	20	95	0	71	42	30	7	20	1.79
5315390--5315431	17	2.3	18	80	12	50	50	7	0	42	1.30
5315398--5315432	17	2.0	18	88	5	54	57	5	0	37	1.23
5315412--5315480	36	1.9	36	85	5	95	56	2	4	36	1.34
5316605--5316647	20	2.0	22	86	8	63	30	2	58	9	1.42
5316600--5316653	22	2.4	23	81	9	76	29	1	59	9	1.39
5316765--5316807	20	2.2	20	86	0	59	23	4	25	46	1.71
5322827--5322877	21	2.5	20	81	12	50	7	11	3	76	1.13
5324542--5324582	20	2.0	21	95	4	75	56	0	0	43	0.99
5325659--5325759	30	3.3	29	78	8	103	35	25	3	34	1.75
5325734--5325962	29	7.7	29	69	18	123	33	29	3	33	1.73
5325755--5325824	37	1.9	37	82	8	90	34	31	1	32	1.67
5325729--5325967	57	3.9	66	76	14	171	33	30	3	33	1.74
5325792--5325986	57	3.4	57	82	6	232	34	28	3	33	1.75
5325830--5326014	29	6.4	27	75	13	129	34	28	4	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5326030--5326115	30	2.9	30	80	10	86	36	24	2	37	1.68
5328498--5328556	29	2.0	30	90	3	93	30	5	13	50	1.63
5328502--5328571	29	2.3	29	83	9	79	34	5	10	50	1.60
5330093--5330133	21	1.9	22	85	5	57	21	12	12	53	1.70
5334043--5334454	205	2.0	205	93	1	700	35	12	15	36	1.85
5341067--5341104	19	2.0	19	90	10	60	21	2	2	73	1.07
5341127--5341159	15	2.2	15	94	0	57	63	9	6	21	1.45
5341265--5341305	21	2.0	21	85	9	57	58	0	0	41	0.98
5350805--5350865	24	2.5	24	86	5	88	9	24	37	27	1.87
5350808--5350877	21	3.2	21	77	15	61	10	21	37	31	1.86
5350829--5350896	30	2.3	30	81	0	82	7	19	38	35	1.79
5350908--5350964	24	2.4	24	90	0	96	8	15	31	43	1.78
5355218--5355262	22	2.0	22	100	0	90	35	8	13	42	1.75
5364213--5364266	26	2.1	26	86	13	76	27	0	9	62	1.25
5364898--5364958	29	2.1	29	93	0	104	45	6	6	40	1.56
5368298--5368324	2	13.5	2	100	0	54	48	0	0	51	1.00
5372682--5372735	28	1.9	28	88	0	81	33	7	11	48	1.67
5372955--5372992	18	2.2	18	85	4	51	52	0	0	47	1.00
5372983--5373049	17	3.9	16	72	12	53	65	2	0	31	1.07
5373549--5373595	16	2.8	18	81	15	64	25	17	44	12	1.84
5375085--5375190	52	2.0	52	96	0	194	30	19	17	32	1.96
5376527--5376755	60	3.8	60	79	4	230	35	2	25	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5376529--5376791	30	8.8	30	76	7	194	36	2	24	36	1.70
5379204--5379246	21	2.0	21	90	4	68	13	6	4	74	1.19
5381383--5381408	6	4.3	6	100	0	52	15	0	0	84	0.62
5381383--5381435	17	3.1	16	81	8	52	16	3	0	79	0.88
5382852--5382877	5	5.2	5	100	0	52	23	0	0	76	0.78
5383759--5383802	22	2.0	22	100	0	88	13	9	4	72	1.24
5384272--5384343	17	3.8	17	73	26	65	48	1	6	43	1.38
5384989--5385153	85	1.9	85	85	0	222	24	23	13	38	1.91
5384571--5385163	209	2.8	209	83	3	728	24	20	16	38	1.92
5390884--5390923	18	2.3	18	82	4	55	10	12	0	77	0.99
5390928--5390958	16	1.9	16	93	0	53	38	22	22	16	1.92
5391594--5391647	26	2.1	26	83	10	67	35	12	16	35	1.87
5392075--5392102	14	2.0	14	100	0	56	57	0	7	35	1.26
5395783--5395869	28	3.0	30	78	13	108	34	2	26	36	1.69
5395826--5395917	47	2.0	46	87	6	132	30	1	28	40	1.64
5395874--5396176	30	10.3	28	77	9	275	35	2	25	35	1.70
5395796--5395944	76	2.0	76	89	5	230	32	1	26	39	1.65
5395874--5396176	59	5.2	59	81	6	314	35	2	25	35	1.70
5401437--5401498	26	2.4	25	87	12	83	37	0	9	53	1.34
5401879--5401968	44	2.1	44	87	6	130	33	0	6	60	1.23
5412137--5412189	6	8.8	6	82	0	61	41	1	22	33	1.65
5412134--5412191	9	6.8	9	73	11	50	41	1	24	32	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5412133--5412182	3	16.7	3	78	0	55	40	0	26	34	1.56
5413134--5413158	13	1.9	13	100	0	50	76	0	0	24	0.80
5413581--5413648	25	2.6	25	84	11	75	38	1	13	47	1.52
5414863--5414907	6	7.5	6	94	0	81	35	0	48	15	1.45
5419695--5419732	18	2.1	18	90	5	58	63	2	21	13	1.42
5424604--5424662	25	2.4	25	100	0	118	44	25	11	18	1.84
5424669--5424711	17	2.5	17	85	7	52	67	9	2	20	1.30
5435798--5435860	28	2.2	30	82	5	76	42	6	23	26	1.78
5435791--5435906	30	3.9	30	79	10	114	37	4	26	31	1.76
5435826--5436131	59	5.4	57	72	14	213	37	1	24	36	1.66
5435822--5435909	29	3.0	29	86	5	115	34	3	28	34	1.74
5435911--5436131	30	7.5	29	76	7	196	37	1	23	37	1.64
5435933--5436131	59	3.4	58	84	7	233	37	1	24	36	1.65
5437805--5437861	23	2.5	23	97	0	105	14	3	33	49	1.60
5437820--5437861	13	3.5	13	75	18	54	16	2	33	47	1.60
5438585--5438724	73	1.9	73	98	0	271	35	18	22	22	1.95
5439093--5439130	19	2.0	19	94	0	67	34	15	10	39	1.82
5441300--5441392	31	3.0	31	76	14	93	49	6	2	41	1.40
5441539--5441585	13	3.6	13	75	11	51	38	0	10	51	1.37
5441970--5442059	44	2.1	44	87	6	130	35	0	4	60	1.17
5443994--5444311	155	2.0	156	98	1	613	40	21	11	27	1.87
5445427--5445617	29	6.5	29	68	12	95	38	6	23	31	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5445248--5445534	59	4.8	59	79	6	249	42	6	21	29	1.78
5445308--5445534	119	1.9	117	80	6	260	40	7	22	29	1.80
5445511--5445659	30	5.0	29	74	13	115	37	6	24	32	1.80
5445510--5445677	88	1.9	87	79	9	189	37	6	23	32	1.80
5446188--5446217	16	1.9	15	93	6	51	13	13	0	73	1.10
5447083--5447136	26	2.1	26	86	3	74	35	7	16	40	1.77
5447541--5447602	6	10.2	6	72	10	54	59	0	1	38	1.07
5447525--5447602	17	4.4	17	84	10	84	57	2	2	37	1.26
5447520--5447602	37	2.3	35	85	6	112	57	2	2	37	1.25
5447887--5448667	92	8.5	92	94	0	1332	33	18	15	32	1.92
5453959--5454057	38	2.5	41	72	11	98	29	28	20	22	1.98
5454908--5454989	13	6.6	12	74	16	60	51	1	1	46	1.16
5462823--5462890	30	2.2	31	89	7	104	44	5	19	30	1.74
5462823--5462924	29	3.4	30	83	6	109	41	6	22	29	1.80
5462847--5462979	59	2.2	60	81	4	144	37	4	23	34	1.75
5462839--5463017	30	6.0	29	82	9	148	35	5	24	35	1.77
5466994--5467147	43	3.6	43	83	0	193	27	27	19	25	1.99
5470889--5470945	23	2.3	26	76	8	66	57	10	3	28	1.48
5472763--5472862	41	2.5	40	86	4	139	19	31	17	33	1.94
5478099--5478145	6	7.8	6	80	0	58	42	2	21	34	1.65
5478096--5478147	9	5.8	9	74	0	50	42	1	23	32	1.65
5478095--5478147	12	4.4	12	87	0	79	41	1	24	32	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5478095--5478145	18	2.8	18	81	0	66	41	1	23	33	1.66
5481519--5481568	21	2.5	20	83	6	57	44	18	0	38	1.50
5481910--5481947	18	2.1	18	90	5	58	63	2	21	13	1.42
5482456--5482518	24	2.6	24	84	0	90	23	11	12	52	1.71
5484431--5484493	24	2.6	24	79	0	72	25	12	11	50	1.73
5489583--5489619	18	2.1	18	100	0	74	24	37	10	27	1.88
5491119--5491175	23	2.5	23	82	0	69	63	10	12	14	1.53
5498139--5498163	2	12.5	2	100	0	50	48	0	0	52	1.00
5499075--5499113	17	2.4	16	87	8	60	15	2	2	79	0.95
5500619--5500643	5	5.0	5	100	0	50	40	0	0	60	0.97

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   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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143