genome.fa.s9.2.7.7.80.10.50.1000.177.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   

This is table  177  of  182  ( 21729 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)
53760418--53760468	24	2.1	25	85	10	70	60	0	1	37	1.08
53766462--53766534	29	2.4	30	81	6	76	31	8	15	45	1.75
53766994--53767018	5	5.0	5	100	0	50	80	0	0	20	0.72
53770359--53770410	17	2.9	17	81	18	54	44	17	13	25	1.85
53771713--53771755	14	3.0	15	76	10	54	58	9	6	25	1.54
53772138--53772183	24	1.9	25	86	8	69	54	6	4	34	1.46
53772244--53772274	9	3.4	9	100	0	62	58	9	0	32	1.31
53772235--53772275	18	2.3	19	83	12	59	60	9	0	29	1.28
53773118--53773168	25	2.0	25	88	0	75	31	13	31	23	1.93
53777604--53777719	60	1.9	59	80	1	133	41	4	14	39	1.66
53779528--53779576	26	2.0	26	84	8	66	69	4	8	18	1.30
53781359--53781417	20	3.0	20	82	5	66	40	0	1	57	1.09
53789731--53789770	20	2.0	20	85	4	55	40	2	0	57	1.12
53792392--53792420	14	2.0	15	93	6	51	48	6	0	44	1.29
53792538--53792567	15	2.0	15	93	0	51	50	10	0	40	1.36
53796856--53796884	12	2.3	13	94	5	51	0	62	0	37	0.96
53802054--53802079	3	8.7	3	100	0	52	30	0	34	34	1.58
53803461--53803499	2	19.5	2	100	0	78	48	0	0	51	1.00
53803614--53803648	3	11.7	3	100	0	70	34	0	0	65	0.93
53806764--53806825	29	2.1	29	82	5	72	25	8	11	54	1.63
53823454--53823522	30	2.3	30	92	0	111	36	21	30	11	1.89
53824989--53825055	26	2.5	27	80	7	75	20	11	16	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53826432--53826468	16	2.3	17	90	9	60	29	0	0	70	0.88
53826441--53826480	16	2.5	16	83	0	53	37	2	0	60	1.11
53827289--53827364	34	2.1	34	80	7	80	46	1	3	48	1.29
53828046--53828089	19	2.2	20	84	4	54	40	11	4	43	1.61
53833182--53833226	2	22.5	2	100	0	90	51	0	0	48	1.00
53833226--53833269	2	22.0	2	100	0	88	50	0	50	0	1.00
53833979--53834036	30	1.9	31	82	10	75	44	6	3	44	1.47
53834868--53834930	23	2.8	23	78	7	76	44	0	3	52	1.17
53842031--53842061	15	2.0	16	93	6	55	35	0	0	64	0.94
53854793--53854824	2	16.0	2	93	0	55	46	0	3	50	1.17
53860292--53860349	30	1.9	31	85	3	82	46	3	12	37	1.58
53885155--53885179	3	8.3	3	100	0	50	32	0	36	32	1.58
53903283--53903319	18	2.1	18	100	0	74	35	5	21	37	1.77
53903664--53903731	34	2.0	34	100	0	136	29	14	11	44	1.81
53905515--53905604	15	6.0	15	88	2	128	31	26	34	7	1.85
53906132--53906156	9	2.8	9	100	0	50	20	24	24	32	1.98
53906448--53906575	66	1.9	66	87	0	184	32	16	26	24	1.96
53914384--53914449	32	2.1	32	97	0	123	30	30	10	28	1.90
53933617--53933656	20	2.0	21	85	5	55	40	2	7	50	1.44
53944216--53944340	29	4.3	29	76	4	108	28	9	29	32	1.89
53944216--53944340	58	2.2	58	82	2	144	28	9	29	32	1.89
53944378--53944546	29	5.8	29	76	15	152	36	1	27	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53944381--53944882	30	16.5	28	73	17	151	37	1	24	36	1.65
53944377--53944542	59	2.8	58	83	8	210	36	1	27	34	1.68
53944580--53944881	90	3.4	89	82	9	341	37	0	23	38	1.60
53944656--53944895	30	8.1	30	90	4	303	37	0	22	38	1.58
53947113--53947232	39	3.2	37	71	14	100	25	17	33	23	1.96
53947373--53947444	30	2.4	30	83	2	101	34	2	26	36	1.71
53949221--53949354	58	2.3	58	84	1	180	31	2	35	31	1.70
53949330--53949517	30	6.3	30	84	8	217	35	3	23	37	1.71
53949330--53949517	61	3.2	59	83	9	215	35	3	23	37	1.71
53950620--53950688	13	5.2	13	70	22	54	44	1	1	52	1.19
53950613--53950693	16	4.6	18	76	14	80	44	1	1	53	1.16
53951353--53951409	6	9.3	6	83	11	71	50	0	1	47	1.11
53951362--53951409	14	3.9	12	83	10	53	54	0	2	43	1.12
53951373--53951425	25	2.1	26	86	10	74	54	3	1	39	1.29
53962489--53962622	58	2.3	57	87	2	196	29	2	36	31	1.70
53962515--53962691	58	3.0	58	82	9	184	31	2	32	34	1.70
53962598--53962725	30	4.3	29	89	5	154	35	3	24	36	1.74
53963829--53963897	13	5.2	13	70	22	54	44	1	1	52	1.19
53963822--53963902	16	4.6	18	76	14	80	44	1	1	53	1.16
53964527--53964559	17	2.0	17	88	5	50	21	9	21	48	1.77
53964562--53964641	6	13.3	6	81	15	94	51	0	2	46	1.14
53964571--53964634	11	5.9	11	75	20	55	54	0	3	42	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53964562--53964646	17	5.2	17	80	13	90	51	0	2	45	1.13
53964570--53964643	37	2.0	37	87	10	107	54	0	2	43	1.14
53964567--53964641	31	2.5	29	87	12	116	53	0	2	44	1.14
53964608--53964652	17	2.6	17	89	6	56	55	2	2	40	1.24
53965321--53965379	6	10.0	6	73	10	50	50	3	0	45	1.18
53965338--53965398	17	3.5	17	86	2	77	59	3	1	36	1.24
53986436--53986504	34	2.0	34	100	0	138	34	8	20	36	1.83
53999301--53999330	9	3.3	9	100	0	60	33	10	36	20	1.86
54000529--54000563	18	1.9	18	94	0	61	60	8	0	31	1.27
54001119--54001164	3	15.7	3	95	4	85	69	0	30	0	0.89
54002262--54002291	12	2.6	12	94	5	53	43	20	10	26	1.83
54002446--54002488	20	2.1	21	91	4	70	11	23	27	37	1.89
54005493--54005589	47	2.1	47	84	3	124	61	12	5	20	1.49
54007792--54007825	13	2.6	13	85	0	50	58	11	0	29	1.33
54008750--54008805	10	5.4	10	76	16	51	7	14	1	76	1.07
54009695--54009742	5	8.8	5	82	13	51	75	2	4	18	1.07
54009692--54009739	12	4.3	11	79	12	53	72	2	4	20	1.11
54009695--54009742	22	2.2	22	85	7	62	75	2	4	18	1.07
54012571--54012615	16	2.8	16	90	10	65	80	0	2	17	0.82
54022513--54022555	20	2.2	20	87	8	61	25	6	13	53	1.65
54028312--54028353	20	2.1	19	86	8	57	26	7	14	52	1.67
54040770--54040813	5	8.8	5	82	9	54	20	0	6	72	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54055456--54055522	30	2.3	30	79	5	75	53	7	1	37	1.38
54055568--54055640	29	2.5	30	90	2	112	31	5	12	50	1.62
54056789--54056886	43	2.3	44	80	5	128	32	8	11	47	1.68
54058555--54058604	24	2.1	23	85	3	64	34	0	0	66	0.92
54075363--54075387	5	5.0	5	100	0	50	0	40	0	60	0.97
54076902--54077022	42	2.9	42	82	1	134	20	26	29	23	1.99
54079976--54080028	21	2.5	21	84	6	63	30	1	5	62	1.29
54083702--54083732	2	15.5	2	100	0	62	51	0	0	48	1.00
54089555--54089610	23	2.4	23	90	0	85	39	25	23	12	1.89
54093820--54093865	20	2.3	20	96	0	83	47	19	4	28	1.68
54096697--54096798	23	4.3	23	84	7	125	41	23	22	12	1.88
54096695--54096798	48	2.2	46	81	6	129	42	23	22	12	1.87
54099568--54099592	2	12.5	2	100	0	50	52	0	0	48	1.00
54120968--54120995	3	9.3	3	100	0	56	0	0	67	32	0.91
54125017--54125076	32	1.9	32	93	3	104	41	11	6	40	1.68
54125980--54126007	2	14.0	2	100	0	56	50	0	0	50	1.00
54133412--54133498	24	3.6	24	84	0	111	52	10	11	25	1.69
54134712--54135036	168	1.9	168	92	0	551	35	24	8	31	1.86
54135053--54135082	15	1.9	16	93	6	53	83	0	0	16	0.65
54140418--54140479	29	2.1	31	84	6	83	33	17	8	40	1.79
54144123--54144181	30	2.0	29	83	9	75	45	0	3	50	1.18
54147245--54147279	16	2.2	16	89	0	52	14	2	25	57	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54147254--54147284	16	1.9	16	93	0	53	16	0	25	58	1.38
54147343--54147383	16	2.6	16	75	17	50	21	0	17	60	1.35
54147507--54147543	3	12.3	3	88	0	56	40	0	0	59	0.97
54147822--54147873	24	2.2	24	85	0	68	7	15	19	57	1.62
54148178--54148241	30	2.1	30	94	0	110	43	12	10	32	1.77
54158084--54158108	5	5.0	5	100	0	50	80	0	0	20	0.72
54160888--54160965	41	1.9	40	84	7	104	37	1	7	53	1.38
54161401--54161458	23	2.4	23	78	21	66	34	0	1	63	1.04
54163326--54163385	30	2.0	31	83	3	77	50	0	8	41	1.33
54167204--54167260	30	1.9	30	85	0	78	31	7	8	52	1.59

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   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182