genome.fa.s4.2.7.7.80.10.50.1000.15.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  15  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)
5332543--5332596	28	2.0	26	89	7	81	50	0	0	50	1.00
5332786--5332811	12	2.2	12	100	0	52	0	0	7	92	0.39
5333127--5333164	18	2.1	18	90	9	60	28	0	2	68	1.03
5337090--5337149	23	2.6	23	83	0	84	23	11	16	48	1.79
5338194--5338284	39	2.4	39	85	7	107	30	16	23	29	1.96
5338220--5338283	19	3.3	19	64	20	51	32	14	25	28	1.94
5338211--5338287	39	2.0	40	94	2	138	31	15	23	29	1.95
5343137--5343227	39	2.4	39	85	7	107	29	17	23	29	1.97
5343154--5343233	39	2.0	40	95	2	144	30	17	22	30	1.97
5344373--5344398	2	13.0	2	100	0	52	50	0	0	50	1.00
5351535--5351575	11	3.6	11	90	6	64	0	12	2	85	0.70
5352763--5352798	14	2.6	14	90	0	54	47	0	16	36	1.47
5355313--5355440	7	19.1	7	81	6	70	46	0	50	1	1.16
5355360--5355405	12	3.7	12	91	5	56	34	0	65	0	0.93
5355323--5355458	60	2.2	60	83	6	166	44	0	52	2	1.13
5355850--5355910	19	3.2	19	77	9	61	60	3	1	34	1.23
5356721--5356792	19	3.7	19	77	3	63	44	9	6	38	1.64
5356732--5356808	19	4.0	19	77	1	55	44	6	6	42	1.56
5359255--5359396	51	2.8	51	89	1	203	32	15	24	27	1.95
5366599--5366701	20	5.3	19	73	12	66	42	7	11	37	1.70
5366607--5366702	39	2.5	38	81	1	93	42	8	11	37	1.71
5369265--5369364	52	2.0	50	92	5	166	19	23	12	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5380407--5380477	20	3.6	19	74	11	63	36	7	16	39	1.76
5380415--5380510	39	2.5	38	81	1	93	40	7	12	39	1.71
5380442--5380549	19	5.6	19	73	6	83	42	11	4	41	1.61
5383074--5383173	52	2.0	50	92	5	166	19	23	12	46	1.83
5386502--5386537	19	1.9	19	88	5	56	69	0	8	22	1.15
5390312--5390352	14	2.7	16	77	14	50	43	0	4	51	1.23
5394540--5394588	19	2.5	21	87	9	68	63	4	0	32	1.13
5394712--5394801	12	7.8	12	73	15	75	70	20	3	6	1.25
5394698--5394863	20	7.9	20	71	18	72	69	19	4	7	1.29
5394711--5394803	33	2.8	32	82	8	105	69	20	3	6	1.24
5394744--5394801	23	2.5	24	85	2	73	70	20	3	5	1.21
5394712--5394821	56	2.0	56	81	3	132	69	20	4	6	1.29
5399159--5399183	11	2.3	11	100	0	50	0	24	0	76	0.80
5401580--5401917	51	6.6	51	90	1	507	31	13	24	30	1.94
5402335--5402622	51	5.6	51	88	2	382	32	14	22	30	1.93
5405072--5405123	27	1.9	27	100	0	104	30	3	7	57	1.45
5405403--5405504	49	2.1	49	100	0	204	43	3	22	30	1.71
5406995--5407027	17	1.9	17	100	0	66	63	0	6	30	1.18
5411921--5411957	5	7.0	5	88	11	56	0	18	2	78	0.87
5421433--5421485	25	2.0	26	82	10	63	26	15	13	45	1.82
5423682--5423715	2	17.0	2	100	0	68	50	0	0	50	1.00
5425162--5425206	2	22.5	2	100	0	90	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5436966--5437005	21	2.0	21	85	5	55	45	5	7	42	1.54
5437052--5437126	25	2.9	24	72	18	62	58	8	1	32	1.35
5437595--5437641	2	24.0	2	95	4	87	48	0	0	51	1.00
5440863--5440909	21	2.3	21	85	3	60	38	6	0	55	1.26
5445019--5445188	9	18.6	9	68	14	64	33	2	4	59	1.31
5447020--5447145	44	2.9	44	91	4	195	31	6	12	49	1.66
5462663--5462734	29	2.5	29	81	4	74	26	8	0	65	1.21
5462652--5462745	38	2.5	37	82	5	98	28	8	0	62	1.24
5465531--5465578	26	1.9	24	83	8	60	47	10	4	37	1.57
5476169--5476209	21	2.0	21	85	0	55	36	7	7	48	1.59
5483294--5483365	32	2.2	33	80	11	78	40	5	8	45	1.57
5502975--5503021	24	2.0	24	91	0	76	27	12	8	51	1.69
5507218--5507262	3	15.3	3	95	4	83	68	0	31	0	0.89
5507779--5507804	11	2.4	11	100	0	52	76	0	0	23	0.78
5510505--5510569	30	2.2	30	88	5	96	49	0	4	46	1.22
5511801--5511839	9	4.3	9	83	0	51	23	2	10	64	1.37
5511855--5511906	19	2.7	18	82	8	59	34	1	1	61	1.18
5512596--5512639	12	3.7	12	79	11	54	22	2	0	75	0.92
5512603--5512767	67	2.4	69	88	8	239	38	0	3	58	1.14
5519207--5519272	24	2.8	23	88	4	89	25	9	9	56	1.60
5520234--5520478	30	8.2	30	80	8	243	36	2	24	35	1.71
5520242--5520479	29	8.0	29	82	7	255	36	2	25	35	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5521130--5521201	11	6.2	11	76	12	56	52	1	1	44	1.18
5521128--5521221	17	5.6	17	85	8	113	52	2	2	43	1.25
5521128--5521204	6	13.0	6	76	13	79	53	1	1	44	1.17
5523120--5523166	24	2.0	24	91	0	76	23	10	8	57	1.60
5525829--5525889	33	1.9	33	86	6	90	26	3	4	65	1.28
5540358--5540389	16	2.0	16	100	0	64	31	37	12	18	1.88
5544560--5544584	2	12.5	2	100	0	50	52	0	0	48	1.00
5548537--5548598	25	2.4	26	89	5	83	40	0	4	54	1.22
5548544--5548598	25	2.2	25	93	0	92	41	0	3	54	1.18
5549172--5549234	29	2.2	29	78	13	67	34	4	1	58	1.29
5554660--5554697	19	2.0	20	89	5	60	57	0	0	42	0.98
5557768--5557855	20	4.4	20	75	16	83	11	37	21	29	1.88
5560164--5560200	18	2.1	18	89	0	56	37	5	13	43	1.67
5562663--5562702	22	1.9	20	90	10	62	47	5	5	42	1.47
5562839--5562877	10	3.7	10	83	10	51	41	2	0	56	1.13
5572006--5572037	2	16.0	2	100	0	64	0	50	0	50	1.00
5572037--5572099	2	31.5	2	100	0	126	49	0	0	50	1.00
5577964--5578389	212	2.0	212	96	0	789	42	20	14	22	1.87
5594095--5594155	28	2.1	30	82	11	74	44	6	1	47	1.39
5597192--5597227	3	12.0	3	100	0	72	66	33	0	0	0.92
5603031--5603083	14	3.9	14	80	9	65	69	13	1	15	1.27
5618166--5618211	17	2.6	18	77	19	51	69	10	2	17	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5618166--5618213	18	2.6	19	77	9	55	68	12	2	16	1.29
5618370--5618415	3	15.3	3	100	0	92	32	0	0	67	0.91
5618742--5618806	30	2.1	31	85	5	87	46	15	6	32	1.70
5619487--5619520	16	2.2	16	89	5	52	79	2	0	17	0.86
5619863--5620038	92	1.9	92	83	4	230	42	11	11	34	1.78
5624364--5624433	34	2.1	34	100	0	140	47	15	17	20	1.83
5624813--5624845	3	11.0	3	100	0	66	66	0	0	33	0.92
5627981--5628031	16	3.2	16	77	5	59	31	3	0	64	1.11
5627970--5628031	31	2.0	32	87	3	90	33	3	1	61	1.22
5628331--5628364	16	2.2	15	89	5	50	58	5	0	35	1.22
5631168--5631290	44	2.8	44	91	0	192	47	12	8	30	1.71
5634302--5634372	27	2.6	28	82	4	92	36	7	28	28	1.83
5634308--5634537	30	7.9	29	77	11	109	36	3	26	33	1.73
5634357--5634421	30	2.2	30	94	0	112	40	6	23	30	1.79
5634370--5634570	30	6.8	29	74	16	135	38	1	22	37	1.63
5634369--5634533	90	1.8	89	81	8	201	37	1	24	36	1.66
5634400--5634599	60	3.4	58	79	10	174	39	1	21	38	1.60
5634468--5634605	30	4.7	29	76	7	91	40	2	19	37	1.64
5634486--5634599	58	1.9	59	85	1	158	41	1	18	38	1.61
5635534--5635567	14	2.5	14	90	4	52	61	0	0	38	0.96
5636074--5636108	18	1.9	18	88	0	52	14	5	37	42	1.69
5636168--5636270	17	6.0	17	81	2	125	58	2	1	36	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5636159--5636268	6	18.8	6	67	12	59	56	3	1	38	1.28
5636168--5636270	35	3.0	34	82	2	134	58	2	1	36	1.24
5639821--5639958	17	8.1	17	82	6	145	44	0	3	51	1.24
5639836--5639922	11	7.8	11	72	12	61	40	0	3	56	1.16
5639829--5639927	6	16.3	6	68	18	55	41	0	4	54	1.19
5639915--5639956	18	2.4	18	84	4	50	47	0	4	47	1.23
5641892--5641953	30	2.1	29	85	8	81	45	22	1	30	1.62
5641892--5642114	29	7.7	29	69	17	108	35	28	1	34	1.68
5641921--5642084	58	2.8	59	92	2	278	34	29	1	34	1.66
5641950--5642196	29	8.5	28	70	16	137	33	28	3	34	1.73

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