genome.fa.s4.2.7.7.80.10.50.1000.74.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  74  of  193  ( 23090 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)
23747079--23747140	3	20.7	3	72	0	52	30	29	32	8	1.86
23748235--23748270	15	2.4	15	90	0	54	36	11	0	52	1.37
23749945--23749985	21	2.0	21	95	0	73	19	36	21	21	1.95
23751877--23751937	3	20.3	3	100	0	122	67	0	0	32	0.91
23752822--23752963	45	3.2	45	90	0	212	42	14	6	35	1.71
23752932--23752992	29	2.1	29	87	0	86	44	16	1	37	1.58
23752887--23753038	74	2.1	74	89	0	232	42	16	4	36	1.69
23752961--23753612	45	14.8	45	85	5	841	42	16	6	34	1.73
23753287--23753349	31	2.0	31	90	0	99	42	14	4	38	1.66
23753242--23753387	76	1.9	76	97	0	274	43	16	5	34	1.71
23758797--23758912	45	2.6	45	86	8	182	41	18	5	35	1.72
23759736--23759855	29	4.0	29	75	8	89	28	6	20	44	1.77
23759763--23759870	29	3.7	30	75	9	116	26	5	22	45	1.74
23767150--23767184	15	2.4	15	95	4	63	77	0	11	11	1.00
23767151--23767189	12	3.0	12	88	11	51	74	0	10	15	1.07
23767150--23767199	15	3.6	13	84	15	57	72	0	12	16	1.13
23767151--23767210	27	2.3	27	85	2	77	73	1	11	13	1.18
23774121--23774199	31	2.5	32	81	8	99	39	2	0	58	1.12
23774497--23775020	198	2.6	200	98	0	1007	31	13	14	40	1.85
23786379--23786437	27	2.2	27	93	0	100	28	15	1	54	1.51
23791796--23791834	15	2.5	16	87	4	53	53	10	2	33	1.48
23797043--23797112	18	3.9	18	80	0	77	12	32	10	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23815243--23815289	19	2.5	19	92	0	76	12	8	14	63	1.50
23815863--23815905	16	2.5	16	88	11	59	76	0	20	2	0.89
23816400--23816442	16	2.5	16	88	11	59	76	0	20	2	0.89
23815437--23816513	537	2.0	537	99	0	2127	36	12	19	31	1.89
23827121--23827151	9	3.4	9	95	0	53	41	0	38	19	1.51
23828499--23828552	28	1.9	28	96	0	99	38	24	11	25	1.88
23828944--23829046	29	3.5	29	67	17	77	23	24	23	29	1.99
23832085--23832143	26	2.2	28	78	6	68	20	23	23	32	1.98
23833722--23833858	69	2.0	69	84	5	179	29	27	15	27	1.96
23835514--23835575	23	2.7	24	82	7	74	37	19	16	27	1.93
23844585--23844625	22	1.9	22	85	14	59	60	7	4	26	1.43
23846485--23846942	97	4.7	98	76	4	370	18	24	17	39	1.91
23846427--23846942	49	10.5	48	73	6	315	18	24	18	39	1.92
23846485--23846944	146	3.1	146	77	6	374	18	24	17	39	1.91
23846530--23846944	195	2.1	196	83	4	514	18	24	17	39	1.91
23854557--23854618	26	2.4	26	81	5	63	64	8	4	22	1.40
23855529--23855569	22	1.9	22	85	14	59	60	7	4	26	1.43
23856934--23857118	87	2.1	87	100	0	370	32	2	23	41	1.66
23877650--23877726	33	2.3	34	81	4	93	28	7	16	46	1.75
23882624--23882681	17	3.4	16	71	19	55	20	34	1	43	1.62
23882612--23882679	34	2.0	34	94	0	118	19	38	2	39	1.67
23882840--23882878	19	2.1	19	85	9	53	33	5	0	61	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23883366--23883433	21	3.2	22	76	13	72	44	27	1	26	1.63
23883366--23883440	20	3.6	22	77	12	70	45	26	1	26	1.62
23883358--23883441	35	2.4	36	78	8	91	45	28	1	25	1.61
23883436--23883497	27	2.3	26	78	8	70	43	25	4	25	1.74
23883630--23883678	21	2.5	19	80	16	55	63	2	2	32	1.17
23896475--23896530	10	5.5	10	77	10	60	64	1	1	32	1.14
23896502--23896530	11	2.7	11	94	5	51	68	0	0	31	0.89
23901126--23901161	15	2.4	15	90	9	56	75	2	2	19	1.06
23901991--23902028	8	4.3	9	87	12	53	78	0	0	21	0.74
23902047--23902103	20	2.9	20	79	10	64	26	5	1	66	1.22
23902114--23902226	20	5.9	19	67	19	65	31	0	2	64	1.13
23902108--23902182	28	2.5	31	78	8	84	33	1	2	62	1.17
23902115--23902220	41	2.7	40	75	15	96	33	0	2	63	1.16
23902163--23902224	29	2.2	29	85	2	81	37	0	1	61	1.06
23902356--23902557	90	2.2	90	87	4	282	35	6	17	41	1.75
23918493--23918536	23	1.9	23	100	0	88	22	20	18	38	1.93
23918377--23918974	229	2.6	229	93	0	1016	37	13	21	27	1.91
23920979--23921010	16	2.0	16	93	0	55	53	0	21	25	1.46
23922598--23922651	21	2.4	24	78	9	60	27	12	22	37	1.91
23932063--23932380	29	10.9	30	77	12	245	36	2	25	35	1.71
23932090--23932375	59	4.9	59	73	13	200	36	2	24	36	1.70
23934268--23934994	99	7.3	99	70	9	334	15	30	18	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23934236--23935162	149	6.2	149	73	6	579	15	30	17	35	1.92
23934881--23935191	99	3.1	99	82	0	399	17	34	16	32	1.92
23934268--23935164	50	18.0	50	72	6	525	15	30	18	35	1.92
23938595--23938637	22	2.0	22	100	0	86	27	23	18	30	1.98
23942476--23942513	16	2.6	15	84	16	53	57	7	10	23	1.58
23942634--23942859	29	7.8	29	78	7	156	36	2	26	33	1.71
23942628--23943009	58	6.6	58	71	13	196	35	2	26	35	1.71
23942647--23943009	87	4.2	85	76	9	277	34	2	27	35	1.70
23942696--23943014	29	11.0	28	72	11	115	34	3	27	34	1.73
23942869--23943015	30	4.9	30	76	6	111	33	1	28	36	1.66
23946913--23946950	17	2.2	17	90	9	60	63	0	2	34	1.09
23948028--23948054	4	6.8	4	100	0	54	48	0	0	51	1.00
23950245--23950356	30	3.8	30	81	4	93	40	7	19	33	1.79
23950382--23950591	29	7.2	28	76	14	176	30	5	28	35	1.79
23950411--23950572	87	1.9	87	82	8	204	31	4	28	35	1.79
23950581--23950727	30	4.9	30	84	4	154	37	2	24	36	1.67
23950555--23950727	60	2.9	59	81	3	186	36	2	23	37	1.70
23951639--23951663	13	1.9	13	100	0	50	32	0	0	68	0.90
23952850--23953305	39	11.7	39	73	8	291	25	18	31	25	1.98
23952900--23953266	78	4.7	78	85	1	466	25	18	31	24	1.98
23965061--23965125	29	2.2	30	80	2	78	36	4	20	38	1.73
23965160--23965318	29	5.5	28	76	11	135	29	5	28	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23965335--23965422	46	1.9	46	83	4	115	42	1	21	35	1.61
23966997--23967026	14	2.1	15	93	6	53	16	6	33	43	1.74
23978302--23978347	19	2.3	20	81	7	58	32	0	2	65	1.05
23981818--23981964	23	6.5	22	80	3	125	16	19	22	42	1.89
23981853--23981962	45	2.4	46	84	1	132	15	19	24	40	1.90
23981831--23981962	68	1.9	68	84	0	174	15	18	23	41	1.89
23993721--23993758	17	2.2	18	85	4	51	60	7	7	23	1.51
23996852--23997725	210	4.2	209	86	3	1133	22	21	18	37	1.94
23996855--23997725	419	2.1	411	85	3	1158	22	21	18	37	1.94
24005875--24005920	23	2.0	24	82	4	58	43	10	21	23	1.84
24009832--24010218	29	13.4	30	72	14	183	36	4	23	35	1.75
24009921--24010286	29	12.6	28	70	13	120	36	2	23	37	1.70
24009962--24010286	57	5.6	58	74	12	197	35	2	23	37	1.70
24009981--24010202	57	3.8	57	80	11	213	36	1	23	37	1.66
24010222--24010295	30	2.5	30	82	4	87	36	4	17	41	1.68
24011412--24011447	18	2.0	18	88	0	54	50	2	2	44	1.31
24013292--24013799	60	8.6	58	77	8	361	37	22	1	38	1.63
24013358--24013753	117	3.4	118	79	5	392	38	21	1	37	1.64
24013277--24013812	30	18.1	28	76	10	315	37	22	1	38	1.63
24015691--24015724	12	2.8	12	95	0	59	14	29	14	41	1.86
24019414--24019508	46	2.1	46	82	7	113	36	2	2	58	1.21
24019496--24019529	14	2.7	12	86	13	50	23	0	8	67	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24020811--24020839	3	9.7	3	100	0	58	68	0	0	31	0.89
24032297--24032350	18	2.9	18	78	5	63	33	22	20	24	1.97
24033757--24033785	14	2.0	15	93	6	51	20	0	24	55	1.44
24034312--24034439	29	4.3	29	79	6	132	38	24	1	35	1.65
24034480--24034612	29	4.6	28	73	13	83	36	25	3	33	1.74
24034451--24034587	58	2.4	58	85	2	168	35	25	3	35	1.74
24034551--24034732	29	6.2	29	78	8	170	36	24	7	31	1.83
24034764--24034858	30	3.2	29	80	12	95	36	22	4	36	1.74
24037536--24037579	23	2.0	23	86	4	63	15	4	9	70	1.30
24039388--24039444	24	2.4	24	87	0	87	24	14	8	52	1.69

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   183   184   185   186   187   188   189   190   191   192   
          193