genome.fa.s3.2.7.7.80.10.50.1000.21.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  21  of  171  ( 20472 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)
9653203--9653267	20	3.3	19	76	16	60	26	6	6	61	1.43
9655243--9655363	23	5.2	23	82	11	156	11	25	23	39	1.88
9655243--9655363	48	2.6	46	87	7	172	11	25	23	39	1.88
9655328--9655402	39	1.9	39	91	0	123	12	22	21	44	1.85
9655362--9655455	23	4.0	23	75	16	86	11	25	19	43	1.84
9658948--9658986	6	6.5	6	87	0	51	46	0	30	23	1.53
9660616--9660670	24	2.2	24	80	3	65	56	1	1	40	1.21
9665712--9665742	6	5.2	6	100	0	62	83	0	16	0	0.64
9675185--9675222	20	1.9	20	94	0	67	55	5	34	5	1.45
9679715--9679753	4	9.8	4	94	0	60	28	51	0	20	1.48
9681701--9681735	19	1.9	18	88	11	54	48	8	11	31	1.69
9684362--9684411	25	2.0	24	81	11	57	48	2	4	46	1.32
9686277--9686339	29	2.1	29	85	5	81	31	7	19	41	1.80
9686291--9686349	29	2.0	30	90	3	93	28	6	16	47	1.72
9689164--9689283	58	2.1	58	91	0	195	31	0	19	49	1.49
9689188--9689298	58	1.9	58	88	3	170	30	0	19	49	1.49
9689420--9689445	9	2.9	9	100	0	52	11	11	19	57	1.63
9689420--9689467	18	2.7	18	83	0	51	22	8	14	54	1.67
9689501--9689546	23	2.0	23	86	0	65	34	19	13	32	1.90
9689532--9689593	27	2.2	28	97	2	117	35	11	11	41	1.77
9689532--9689606	27	2.8	26	90	6	98	33	12	12	42	1.79
9691825--9691858	15	2.4	14	85	9	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9693311--9693369	27	2.1	29	81	6	68	30	25	33	10	1.89
9693410--9693448	19	2.1	19	95	0	69	12	0	20	66	1.24
9693535--9693597	20	3.2	20	75	11	67	65	0	34	0	0.93
9696695--9696735	22	1.9	21	90	5	64	26	0	24	48	1.51
9697723--9697769	21	2.2	21	85	7	60	25	21	17	36	1.94
9700827--9700976	23	6.4	23	71	11	101	12	22	21	44	1.85
9700808--9700929	46	2.6	48	74	8	117	11	22	21	45	1.83
9701560--9701603	21	2.1	21	91	0	70	25	18	36	20	1.95
9701597--9701733	45	3.0	45	90	0	211	18	18	28	34	1.95
9703670--9703719	16	3.2	16	71	21	52	30	0	8	62	1.24
9704662--9704697	19	1.9	18	88	5	54	61	13	0	25	1.33
9710035--9710080	2	23.0	2	100	0	92	50	0	0	50	1.00
9710442--9710517	40	1.9	40	100	0	152	27	17	13	42	1.86
9714538--9714570	17	1.9	17	88	11	50	66	6	0	27	1.15
9714863--9714915	20	2.7	20	80	8	56	43	0	1	54	1.11
9747041--9747124	41	2.0	41	95	0	150	41	10	11	35	1.77
9764093--9764151	3	19.7	3	100	0	118	66	0	33	0	0.92
9769878--9769935	26	2.2	25	80	14	64	65	3	1	29	1.19
9787039--9787088	26	2.0	25	84	4	64	58	4	10	28	1.49
9797285--9797330	23	1.9	24	82	8	58	2	2	19	76	1.00
9798397--9798429	2	16.5	2	100	0	66	51	0	48	0	1.00
9803791--9803828	19	2.0	19	85	10	51	65	2	0	31	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9803839--9803866	2	14.0	2	100	0	56	50	0	0	50	1.00
9812105--9812142	15	2.4	17	82	13	53	36	21	13	28	1.91
9813926--9813976	26	2.0	26	92	0	84	29	13	13	43	1.83
9831268--9831327	21	2.8	21	80	7	59	31	5	1	61	1.27
9831897--9831932	18	1.9	19	88	5	56	30	5	5	58	1.44
9833129--9833162	13	2.5	14	90	4	52	55	0	0	44	0.99
9850115--9850163	18	2.7	18	84	9	64	42	0	2	55	1.11
9855800--9855901	50	2.0	50	96	0	186	46	24	6	22	1.76
9860186--9860461	137	2.0	138	90	2	430	48	13	13	24	1.77
9863334--9863370	16	2.3	17	81	13	51	62	2	0	35	1.10
9863505--9863554	22	2.1	22	82	10	55	72	8	6	14	1.27
9863566--9863614	22	2.2	22	82	13	57	69	22	2	6	1.21
9863548--9863616	35	1.9	37	85	5	97	68	20	2	8	1.30
9864308--9864351	14	2.9	15	86	10	63	50	0	2	47	1.13
9864735--9864781	17	2.5	19	86	10	62	63	6	0	29	1.19
9866387--9866435	18	2.7	19	78	12	59	63	2	0	34	1.06
9866825--9866865	8	5.1	8	87	0	55	70	0	0	29	0.87
9867046--9867176	29	4.6	28	72	16	81	54	9	8	28	1.61
9867114--9867176	29	2.2	28	86	11	83	61	9	1	26	1.36
9873647--9873689	2	21.5	2	95	0	77	53	0	46	0	1.00
9884236--9884315	29	2.8	28	83	11	90	26	3	2	67	1.20
9884273--9884373	39	2.6	40	76	7	109	27	3	3	64	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9892542--9892581	19	2.0	20	85	4	55	37	5	0	57	1.21
9895145--9895191	18	2.9	16	82	14	60	34	2	0	63	1.06
9898661--9898712	15	3.1	17	86	10	63	67	0	9	23	1.20
9919561--9919641	28	2.9	28	78	15	87	38	0	2	59	1.11
9919559--9919640	29	2.9	27	78	15	85	37	0	2	59	1.11
9923633--9923707	30	2.5	30	100	0	150	52	5	0	42	1.24
9923633--9923749	60	2.0	60	81	10	141	48	5	2	42	1.41
9924458--9924535	41	1.9	41	97	0	147	41	12	11	34	1.80
9941174--9941289	58	2.0	58	88	3	171	46	17	0	36	1.48
9941626--9941726	53	1.9	52	84	11	134	21	6	6	64	1.42
9942337--9942369	2	16.5	2	100	0	66	0	51	0	48	1.00
9948968--9948992	7	3.6	7	100	0	50	44	0	12	44	1.41
9949818--9949876	2	29.5	2	100	0	118	50	0	0	49	1.00
9950092--9950224	30	4.4	29	80	6	104	39	6	18	35	1.77
9950092--9950244	60	2.6	58	79	10	148	39	5	17	36	1.74
9951253--9951297	21	2.2	20	84	15	56	0	22	15	62	1.33
9951847--9951889	11	3.8	11	82	17	61	34	2	0	62	1.08
9961322--9961442	23	5.2	23	82	11	156	11	25	23	39	1.88
9961322--9961442	48	2.6	46	87	7	172	11	25	23	39	1.88
9961407--9961481	39	1.9	39	91	0	123	12	22	21	44	1.85
9961441--9961556	22	5.0	22	82	7	106	11	25	19	43	1.84
9964459--9964489	6	5.2	6	100	0	62	16	19	16	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9966268--9966309	22	2.0	22	86	9	61	54	2	0	42	1.13
9966544--9966592	13	3.8	13	81	5	64	38	16	4	40	1.67
9967922--9967970	22	2.2	22	85	7	64	53	0	24	22	1.47
9970075--9970403	162	2.0	164	98	1	635	30	20	17	31	1.96
9990725--9990766	2	21.0	2	100	0	84	50	0	0	50	1.00
9997506--9997538	13	2.5	13	90	9	50	66	3	6	24	1.28
10008147--10008184	15	2.4	16	86	4	51	68	7	0	23	1.16
10008155--10008196	23	2.0	21	81	13	50	69	9	2	19	1.28
10022912--10022938	3	9.0	3	100	0	54	33	0	0	66	0.92
10037447--10037560	46	2.5	46	92	0	183	45	23	16	14	1.84
10037450--10037560	23	4.8	23	85	0	159	44	24	17	14	1.86
10037773--10037921	76	2.0	76	98	0	289	32	18	13	36	1.89
10041247--10041288	12	3.8	12	84	9	54	69	4	2	23	1.20
10044794--10044854	2	30.0	2	96	3	113	49	1	0	49	1.10
10047318--10047355	5	7.6	5	100	0	76	0	81	0	18	0.69
10047621--10047654	17	2.0	17	100	0	68	41	5	11	41	1.66
10047623--10047660	17	2.2	17	90	0	58	52	2	10	34	1.50
10054428--10054590	88	1.9	88	85	2	229	39	7	12	39	1.72
10055912--10055952	5	8.2	5	80	20	50	56	2	0	41	1.13
10057873--10058015	44	3.2	45	78	8	134	67	18	4	8	1.35
10057927--10058010	12	7.2	12	77	11	86	73	15	3	7	1.18
10057883--10058010	21	5.8	21	73	16	89	69	17	3	8	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10058033--10058107	21	3.4	21	72	7	69	66	14	5	13	1.41
10058837--10058883	24	2.0	23	83	8	58	55	4	2	38	1.31
10060325--10060415	30	3.1	29	73	20	82	34	3	3	59	1.30
10061102--10061135	4	8.8	4	93	6	61	76	0	23	0	0.79
10070148--10070182	2	17.5	2	100	0	70	51	0	0	48	1.00
10071123--10071156	3	11.7	3	93	6	61	32	0	0	67	0.91
10075034--10075061	6	4.7	6	100	0	56	17	50	0	32	1.47
10076267--10076323	30	1.9	30	89	7	89	5	19	33	42	1.74
10076298--10076455	6	26.3	6	74	0	64	10	24	29	35	1.89
10076268--10076368	39	2.6	39	79	0	103	10	20	30	37	1.87

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