genome.fa.s12.2.7.7.80.10.50.1000.45.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  45  of  132  ( 15769 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)
12289962--12290025	30	2.1	31	91	2	103	42	25	1	31	1.64
12289984--12290477	29	16.8	28	67	19	158	34	26	4	34	1.77
12290053--12290475	176	2.4	176	83	4	516	34	27	4	34	1.78
12290053--12290477	59	7.2	58	79	7	414	33	27	4	34	1.78
12290053--12290484	117	3.7	115	82	9	489	33	27	4	34	1.78
12294407--12294468	23	2.7	23	92	0	88	24	17	11	46	1.81
12302025--12302070	25	1.9	25	86	8	69	32	4	6	56	1.45
12303137--12303187	19	2.5	22	79	17	58	23	3	1	70	1.14
12306940--12306978	10	3.7	10	93	6	60	79	0	10	10	0.94
12306940--12306978	11	3.5	11	89	6	53	79	0	10	10	0.94
12308003--12308048	25	1.9	25	86	8	69	32	4	6	56	1.45
12309873--12310528	209	3.1	208	85	2	850	36	18	22	22	1.95
12310911--12310978	12	5.8	12	77	10	59	38	1	4	55	1.29
12310893--12310960	29	2.3	29	80	5	75	36	0	5	57	1.23
12310966--12310999	17	2.1	16	94	5	59	55	2	0	41	1.15
12312885--12312951	30	2.2	30	91	0	107	37	29	4	28	1.77
12312897--12312959	30	2.1	30	96	0	117	33	28	4	33	1.78
12312999--12313281	29	9.6	28	69	17	159	31	27	4	35	1.78
12312965--12313281	59	5.4	57	74	6	260	33	27	4	34	1.78
12312975--12313281	117	2.6	115	83	6	368	33	27	4	34	1.77
12316473--12316528	17	3.2	17	85	5	76	55	5	0	39	1.23
12327901--12327962	23	2.7	23	92	0	88	24	17	11	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12335524--12335569	25	1.9	25	86	8	69	32	4	6	56	1.45
12336622--12336672	19	2.5	22	79	17	58	23	3	1	70	1.14
12339474--12339499	11	2.4	11	100	0	52	76	0	7	15	0.99
12340423--12340462	11	3.6	11	93	6	64	77	0	10	12	0.99
12341486--12341531	25	1.9	25	86	8	69	32	4	6	56	1.45
12343346--12344001	209	3.1	207	85	2	821	36	18	22	22	1.95
12344391--12344458	12	5.8	12	77	10	59	38	1	4	55	1.29
12344373--12344440	29	2.3	29	80	5	75	36	0	5	57	1.23
12344446--12344479	17	2.1	16	94	5	59	55	2	0	41	1.15
12346345--12346411	30	2.2	30	86	0	89	38	29	4	26	1.76
12346363--12346419	30	1.9	30	96	0	105	36	31	1	29	1.68
12346434--12346849	29	14.5	28	67	15	158	33	27	3	35	1.74
12346424--12346849	59	7.4	58	77	11	371	33	27	3	35	1.75
12346424--12346854	88	5.0	87	69	17	280	32	27	3	35	1.75
12346424--12346718	29	10.0	30	69	17	165	33	27	3	34	1.75
12346667--12346760	49	1.9	48	89	2	143	34	30	0	35	1.58
12346611--12346819	107	1.9	108	89	2	323	33	28	2	35	1.70
12346549--12346849	166	1.8	167	85	9	427	32	28	3	34	1.74
12351501--12351663	29	5.6	29	76	7	134	30	4	25	39	1.75
12351548--12351656	57	1.9	57	81	3	130	32	3	26	37	1.74
12351525--12351680	29	5.4	29	75	6	93	33	4	24	37	1.76
12368914--12368978	34	1.9	34	87	3	96	12	15	47	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12378503--12378799	145	2.0	145	89	3	447	27	17	17	37	1.92
12384261--12384356	29	3.3	29	82	7	113	33	4	27	35	1.76
12384343--12384371	9	3.3	9	95	4	51	27	0	27	44	1.54
12384379--12384457	29	2.7	30	82	9	83	32	7	20	39	1.81
12386264--12386316	27	2.0	27	88	7	81	60	1	0	37	1.08
12386273--12386311	16	2.4	17	95	4	71	58	2	0	38	1.12
12386614--12387420	205	4.0	204	88	1	1100	22	23	18	34	1.96
12386614--12387420	406	2.0	409	87	2	1154	22	23	18	34	1.96
12387807--12388013	49	4.2	49	78	7	186	12	28	20	39	1.89
12394006--12394185	58	3.1	59	79	5	186	33	7	25	33	1.83
12394089--12394253	29	5.6	30	77	8	144	32	3	25	38	1.73
12394014--12394215	59	3.5	57	77	6	183	33	5	26	34	1.81
12394658--12394690	5	6.8	5	86	6	50	3	18	57	21	1.53
12396114--12396183	6	12.0	6	75	11	65	55	2	1	40	1.23
12396116--12396183	17	4.2	17	76	19	74	57	2	1	38	1.23
12399968--12400372	30	13.7	29	71	18	225	33	26	4	35	1.78
12399985--12400365	59	6.5	59	78	10	361	33	27	4	35	1.77
12399990--12400365	118	3.2	117	81	7	424	33	26	4	35	1.77
12404290--12404385	23	4.2	23	85	6	72	25	19	11	43	1.84
12404302--12404386	23	3.7	23	92	3	136	23	18	11	45	1.82
12418969--12419025	20	2.8	19	79	10	60	77	7	1	14	1.06
12418988--12419021	10	3.4	10	87	0	50	82	2	0	14	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12427672--12428201	269	2.0	270	92	0	882	43	15	15	25	1.86
12445356--12445451	29	3.3	29	84	7	122	31	4	29	35	1.76
12445415--12445489	38	1.9	39	83	2	98	29	4	29	37	1.75
12447369--12447412	17	2.6	18	86	13	67	59	4	0	36	1.18
12447712--12448722	204	4.9	205	91	1	1489	22	24	19	34	1.96
12447712--12448722	409	2.5	406	89	1	1506	22	24	19	34	1.96
12449113--12449319	49	4.2	49	80	4	157	12	28	20	39	1.88
12455274--12455500	59	3.9	59	76	8	198	35	4	24	34	1.77
12455403--12455489	29	3.0	29	77	11	88	32	2	26	39	1.69
12455415--12455501	29	3.0	28	81	8	86	33	2	25	39	1.68
12457362--12457431	6	12.0	6	75	11	65	55	2	1	40	1.23
12457364--12457431	17	4.2	17	76	19	74	57	2	1	38	1.23
12461199--12461660	30	15.7	29	70	16	226	33	27	4	34	1.79
12461221--12461653	59	7.4	58	81	8	423	33	27	4	34	1.77
12461221--12461658	117	3.7	116	80	6	456	33	27	4	34	1.78
12465578--12465650	23	3.2	23	84	5	67	24	19	12	43	1.85
12465590--12465651	23	2.7	23	94	0	106	22	17	12	46	1.82
12476793--12476862	6	12.2	6	69	19	51	42	1	1	54	1.18
12476811--12476842	11	2.8	12	95	4	57	40	0	0	59	0.97
12476793--12476836	17	2.6	18	85	10	65	38	0	2	59	1.10
12476793--12476862	17	4.4	17	76	22	62	42	1	1	54	1.18
12476791--12476859	29	2.4	28	88	7	95	42	1	1	55	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12476977--12477054	3	25.7	3	82	7	77	58	3	2	34	1.30
12476977--12477054	30	2.6	30	83	6	95	58	3	2	34	1.30
12478181--12478243	30	2.1	30	91	5	101	31	22	6	39	1.79
12478194--12478328	30	4.6	27	74	21	87	33	24	5	36	1.80
12478263--12478747	59	8.3	58	79	6	471	33	28	3	34	1.74
12478254--12478742	118	4.2	118	82	5	559	33	28	3	34	1.74
12478263--12478742	177	2.7	173	80	8	546	33	28	3	34	1.74
12478254--12478742	29	16.8	29	70	16	244	33	28	3	34	1.74
12482483--12482532	23	2.2	23	85	0	64	24	20	12	44	1.85
12482495--12482553	23	2.6	23	94	0	100	20	18	13	47	1.82
12490689--12491351	209	3.2	209	87	1	898	36	18	22	22	1.95
12491714--12491821	34	3.2	34	87	6	141	43	0	0	54	1.12
12491714--12491821	6	18.2	6	72	16	91	43	0	0	54	1.12
12493735--12494214	30	16.5	30	68	15	165	36	28	2	32	1.71
12493731--12494214	29	16.7	29	69	14	200	35	28	2	32	1.71
12493731--12494252	59	9.0	59	75	10	375	35	28	3	33	1.73
12493831--12494252	232	1.8	232	86	4	618	34	27	3	34	1.73
12494146--12494233	29	3.0	29	73	15	81	32	27	5	34	1.80
12493831--12494252	117	3.6	117	82	6	534	34	27	3	34	1.73
12496587--12497685	591	1.9	592	94	0	1968	33	17	16	32	1.93
12504787--12504811	11	2.3	11	100	0	50	80	0	0	20	0.72
12518258--12518320	24	2.6	24	84	0	81	25	15	11	47	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12546228--12546292	28	2.3	28	78	7	69	27	10	27	33	1.90
12546335--12546520	29	6.4	28	74	12	144	34	5	25	34	1.79
12546247--12546492	58	4.2	56	80	9	201	34	6	26	33	1.81
12546335--12546512	87	2.0	88	86	5	245	34	5	26	33	1.80
12546335--12546520	58	3.2	58	83	6	173	34	5	25	34	1.79
12548203--12548239	17	2.2	17	95	0	65	62	2	0	35	1.10
12548538--12549549	204	4.9	205	90	2	1448	22	23	19	34	1.96
12549940--12550087	49	3.0	49	74	4	145	15	27	18	38	1.91
12551626--12551690	28	2.3	28	81	7	78	29	9	27	33	1.88
12554692--12555079	29	13.6	28	67	17	158	35	27	2	34	1.72

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