genome.fa.s9.2.7.7.80.10.50.1000.12.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  12  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)
4760536--4760573	17	2.1	19	90	9	62	10	5	21	63	1.46
4774037--4774068	11	2.9	11	100	0	64	9	15	18	56	1.66
4776031--4776066	2	18.5	2	88	5	56	47	0	0	52	1.00
4783901--4783936	3	12.0	3	100	0	72	66	0	33	0	0.92
4786064--4786095	17	1.9	17	93	6	57	56	3	6	34	1.40
4801759--4801797	13	3.1	13	82	17	55	53	0	0	46	1.00
4801759--4801801	12	3.6	11	79	14	50	51	0	0	48	1.00
4802120--4802188	29	2.3	29	82	9	77	49	11	14	24	1.77
4817402--4817524	20	5.7	20	68	26	74	60	1	2	35	1.20
4817498--4817530	16	2.1	16	88	5	50	63	0	0	36	0.95
4817420--4817520	24	4.5	22	70	14	66	59	0	2	36	1.19
4817549--4817612	6	10.5	6	79	6	67	65	3	1	29	1.17
4817555--4817606	17	3.0	17	85	2	68	69	3	1	25	1.16
4817545--4817621	29	2.6	29	80	13	95	63	2	1	32	1.16
4818093--4818148	19	2.8	20	81	10	60	33	0	1	64	1.04
4830173--4830219	12	3.9	12	75	10	51	51	12	14	21	1.76
4837312--4837371	31	1.9	31	82	0	75	43	1	6	48	1.39
4838776--4838823	3	15.7	3	95	4	87	33	0	2	64	1.05
4840174--4840228	23	2.4	23	96	0	101	40	16	5	38	1.72
4842289--4842335	19	2.5	19	79	6	51	27	4	4	63	1.31
4842946--4843009	30	2.2	30	88	2	94	56	12	4	26	1.56
4845079--4845131	2	26.5	2	100	0	106	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4849910--4850536	329	1.9	331	87	3	933	32	13	10	43	1.78
4850199--4851217	363	2.8	361	88	1	1488	30	14	11	43	1.81
4852269--4852297	2	14.5	2	100	0	58	0	48	0	51	1.00
4863507--4863542	17	2.1	18	89	5	56	38	8	0	52	1.32
4868484--4868600	62	1.9	59	86	5	162	42	1	4	51	1.31
4872467--4872509	18	2.4	18	88	7	61	46	0	0	53	1.00
4875580--4875837	132	2.0	132	84	4	342	30	18	20	31	1.96
4875713--4876047	150	2.2	150	83	2	422	28	20	19	32	1.97
4891619--4891670	26	2.0	27	81	7	63	42	5	5	46	1.51
4898192--4898245	12	4.7	12	75	13	51	31	1	0	66	1.02
4898193--4898243	11	4.5	11	80	4	57	29	1	0	68	1.00
4910365--4910558	96	2.0	96	88	2	291	22	15	37	24	1.93
4913500--4913539	19	2.1	19	100	0	80	15	20	20	45	1.86
4914791--4914834	18	2.5	19	82	14	58	50	0	0	50	1.00
4915001--4915124	30	4.2	29	77	15	110	50	9	11	28	1.69
4918909--4918938	14	2.2	14	94	5	53	83	0	6	10	0.81
4920178--4920211	16	2.1	17	88	5	52	44	0	0	55	0.99
4922765--4922849	22	3.7	22	73	11	73	16	4	11	67	1.39
4923796--4923904	30	3.6	30	78	8	114	39	14	6	39	1.72
4923811--4923904	30	3.1	30	80	3	116	40	15	6	37	1.73
4931928--4931972	19	2.4	19	96	3	83	77	8	8	4	1.10
4931928--4931979	18	2.8	18	91	5	70	75	9	11	3	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4933283--4933324	18	2.3	18	88	8	59	45	0	0	54	0.99
4935789--4935817	15	1.9	15	100	0	58	31	6	13	48	1.69
4969586--4969624	20	2.0	20	94	0	69	51	25	0	23	1.49
4971305--4971344	18	2.2	18	95	0	71	50	7	5	37	1.53
4971487--4971534	18	2.6	19	80	6	62	62	0	4	33	1.14
4976373--4976438	33	1.9	36	84	9	93	53	6	31	9	1.57
4977452--4977613	23	7.2	23	75	17	151	12	23	22	41	1.88
4977499--4977656	64	2.5	64	95	2	284	12	22	21	43	1.86
4979219--4979255	17	2.1	18	85	14	51	59	0	0	40	0.97
4979953--4979998	23	2.0	22	84	12	58	58	2	6	32	1.36
4981129--4981239	40	2.8	40	83	2	127	49	6	20	23	1.71
4991254--4991288	14	2.4	15	90	9	63	11	5	0	82	0.82
4997971--4998005	18	1.9	18	88	0	52	31	28	14	25	1.95
4999986--5000040	27	2.0	27	100	0	110	29	7	3	60	1.41
5002009--5002119	40	2.8	40	72	13	97	32	27	19	20	1.97
5002222--5002266	6	7.5	6	94	0	81	20	31	0	48	1.49
5003224--5003289	33	1.9	36	84	9	93	9	31	6	53	1.57
5009700--5009792	31	3.2	31	60	25	74	34	10	23	31	1.89
5009683--5009796	57	2.0	57	100	0	228	33	10	24	31	1.89
5013508--5013540	17	2.1	16	88	11	50	60	0	21	18	1.36
5018135--5018187	27	2.0	27	96	0	97	16	66	0	16	1.26
5020072--5020142	35	2.0	35	100	0	142	35	16	14	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5021019--5021062	23	1.9	23	86	9	63	65	2	4	27	1.23
5024376--5024408	16	2.1	15	94	5	57	57	0	0	42	0.98
5024382--5024420	17	2.4	16	86	4	51	64	0	0	35	0.94
5025689--5025758	22	3.2	22	78	8	63	32	14	11	41	1.81
5025931--5025965	17	2.0	18	88	5	54	71	0	8	20	1.11
5026260--5026323	31	2.0	31	84	3	83	39	4	17	39	1.70
5030222--5030339	27	4.3	26	73	14	78	31	12	8	47	1.71
5030289--5030348	27	2.2	28	90	3	95	30	13	8	48	1.71
5051089--5051155	27	2.5	27	79	18	77	50	2	0	46	1.16
5052173--5052255	31	2.7	30	85	5	105	43	8	0	48	1.33
5056953--5057021	28	2.4	28	77	13	70	34	0	2	62	1.10
5069130--5069218	39	2.3	38	84	5	106	39	2	6	51	1.41
5072432--5072464	2	16.5	2	100	0	66	51	0	0	48	1.00
5083704--5083752	24	2.0	24	100	0	98	32	8	8	51	1.61
5092033--5092287	134	1.9	136	90	3	408	41	9	7	41	1.65
5092505--5092598	47	2.0	47	93	0	161	25	42	0	31	1.55
5100811--5100889	29	2.6	28	78	11	77	55	5	0	39	1.22
5100873--5100921	24	2.0	24	92	0	80	55	0	0	44	0.99
5102119--5102171	23	2.4	22	75	6	61	47	5	1	45	1.37
5105861--5105938	23	3.5	22	77	11	79	43	20	25	10	1.83
5110528--5110571	23	1.9	23	81	9	54	61	0	6	31	1.22
5110635--5110697	27	2.3	28	86	8	85	50	0	9	39	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5121637--5121662	7	3.7	7	100	0	52	76	0	23	0	0.78
5136197--5136233	17	2.1	18	90	5	58	70	0	2	27	1.01
5141623--5141656	2	17.0	2	100	0	68	50	0	0	50	1.00
5142338--5142387	23	2.2	22	82	7	55	38	16	8	38	1.78
5143137--5143185	26	1.9	25	87	4	71	46	0	0	53	1.00
5143141--5143185	13	3.5	13	79	11	56	46	0	0	53	1.00
5143885--5143936	24	2.2	24	93	6	88	53	13	19	13	1.72
5144115--5144139	7	3.6	7	100	0	50	28	0	0	72	0.86
5146068--5146230	59	2.8	59	87	1	220	27	14	7	50	1.70
5146124--5146225	31	3.4	31	73	13	104	24	15	9	50	1.74
5146090--5146190	28	3.6	28	75	15	100	25	14	5	53	1.64
5146090--5146202	28	4.0	28	75	13	88	25	14	7	53	1.66
5146371--5146542	28	5.7	30	72	13	138	51	10	12	25	1.72
5146419--5146541	31	4.1	27	73	19	102	55	7	12	25	1.62
5152917--5152967	18	2.7	19	72	9	50	5	11	15	66	1.41
5156951--5156987	19	2.0	19	89	5	58	62	0	0	37	0.96
5157789--5157820	4	8.0	4	92	0	55	28	0	25	46	1.53
5169012--5169062	26	1.9	27	88	4	77	27	5	3	62	1.36
5174633--5174674	21	2.0	22	86	9	61	47	0	2	50	1.14
5187818--5187932	57	2.0	57	96	0	212	34	16	9	39	1.81
5190068--5190103	2	18.0	2	100	0	72	50	0	0	50	1.00
5193300--5193354	22	2.6	23	80	11	55	61	3	1	32	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5193300--5193348	23	2.2	22	81	3	53	61	4	2	32	1.26
5206935--5206970	18	2.0	18	100	0	72	50	22	5	22	1.70
5210089--5210209	23	5.2	23	77	9	113	12	24	22	40	1.88
5210113--5210198	25	3.6	24	73	17	74	13	27	19	38	1.90
5210089--5210209	48	2.6	49	82	6	160	12	24	22	40	1.88
5210197--5210237	16	2.6	16	100	0	82	12	17	24	46	1.82
5211720--5211766	2	23.5	2	100	0	94	51	0	0	48	1.00
5213114--5213178	21	3.3	19	71	25	55	30	0	4	64	1.14
5213502--5213553	23	2.2	24	83	16	74	59	0	1	38	1.08
5213507--5213553	22	2.1	22	92	7	78	59	0	0	40	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   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