genome.fa.s11.2.7.7.80.10.50.1000.40.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  40  of  143  ( 17057 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)
12397545--12397576	13	2.4	14	90	10	50	9	6	28	56	1.55
12401675--12401944	73	3.7	73	79	2	281	27	17	30	24	1.97
12402096--12402237	38	3.7	38	90	0	194	37	21	15	25	1.93
12402094--12402271	38	4.6	38	86	2	185	37	21	16	24	1.93
12402995--12403158	48	3.0	56	75	18	173	38	18	4	38	1.72
12403038--12403114	23	3.3	23	71	20	77	35	18	5	41	1.73
12403055--12403128	24	3.1	23	71	21	80	36	20	2	40	1.67
12403018--12403140	48	2.6	48	88	2	176	36	18	4	39	1.72
12403056--12403140	24	3.5	24	70	20	77	36	18	3	41	1.68
12403189--12403319	23	5.7	23	92	0	219	48	14	3	32	1.62
12403143--12403319	46	4.0	46	84	7	215	48	13	5	32	1.66
12403402--12403540	66	2.1	67	86	2	190	42	28	9	20	1.82
12403799--12403982	36	5.1	36	85	0	251	36	23	9	29	1.87
12403784--12403982	72	2.8	72	85	0	281	37	24	9	29	1.86
12404319--12404511	102	1.9	102	93	0	332	45	18	3	32	1.67
12406771--12406803	10	3.4	10	83	8	50	36	21	6	36	1.78
12406765--12406847	20	4.5	20	68	20	72	34	18	6	40	1.75
12406771--12406855	43	2.0	44	88	2	127	35	17	5	41	1.74
12406840--12406965	23	5.5	23	87	0	171	49	15	3	31	1.63
12406840--12406968	69	1.9	69	90	0	204	48	14	3	32	1.62
12408721--12408922	42	4.7	43	84	3	230	36	10	24	27	1.89
12408721--12408952	85	2.7	85	78	10	233	38	10	24	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12409605--12409657	21	2.5	21	81	0	61	32	11	24	32	1.91
12411597--12411649	12	4.4	12	81	9	63	16	18	18	45	1.86
12411597--12411649	24	2.2	24	86	0	79	16	18	18	45	1.86
12411622--12411664	18	2.4	18	80	0	50	23	11	16	48	1.78
12411606--12411664	24	2.5	24	85	0	73	22	13	16	47	1.82
12413341--12413373	9	3.8	9	88	4	50	12	3	0	84	0.72
12413179--12418409	256	20.5	256	83	4	5868	37	7	13	41	1.73
12414096--12414136	12	3.1	13	89	10	57	0	9	0	90	0.46
12414099--12414136	8	4.4	9	90	3	53	0	7	0	92	0.40
12413179--12418409	257	20.5	256	83	4	5946	37	7	13	41	1.73
12413179--12418426	516	10.3	511	84	4	5842	37	7	13	41	1.73
12416671--12416704	13	2.7	12	86	13	50	26	0	0	73	0.83
12416948--12418426	255	5.9	240	80	9	1382	37	7	13	41	1.72
12424240--12424298	31	1.9	31	82	6	75	25	3	1	69	1.13
12432298--12432344	21	2.2	21	100	0	94	19	23	21	36	1.95
12446029--12446069	18	2.3	18	91	4	66	48	4	26	19	1.69
12450142--12450176	18	1.9	18	88	11	54	60	0	0	40	0.97
12450547--12450602	23	2.5	23	88	2	78	50	8	19	21	1.75
12451892--12451950	30	2.0	30	86	6	84	25	28	18	27	1.98
12453925--12453972	18	2.7	18	79	20	57	58	2	2	37	1.22
12454333--12454383	23	2.2	23	92	0	84	49	11	21	17	1.79
12464591--12464623	7	4.7	7	88	11	50	54	12	0	33	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12472075--12472366	52	5.6	52	90	0	422	26	14	22	35	1.93
12475240--12475305	30	2.3	29	81	5	71	36	1	18	43	1.59
12476213--12476246	11	3.1	11	91	0	50	11	0	11	76	1.02
12476543--12476572	16	1.9	15	93	6	51	16	3	33	46	1.64
12477033--12477180	47	3.1	47	74	11	122	20	22	16	40	1.91
12477804--12478336	49	10.9	49	81	3	464	21	27	16	35	1.94
12477804--12478336	147	3.6	147	81	3	570	21	27	16	35	1.94
12478774--12478976	112	1.8	112	90	0	325	41	11	18	28	1.85
12480123--12480159	14	2.6	14	95	0	65	0	16	0	83	0.64
12482367--12482640	42	6.5	42	82	5	295	35	11	26	25	1.91
12483238--12483287	21	2.4	21	93	0	82	32	16	28	24	1.96
12489483--12489801	42	7.6	42	81	3	286	34	11	26	28	1.91
12490410--12490454	21	2.1	21	95	0	81	31	15	24	28	1.96
12498218--12498492	42	6.6	41	81	2	262	35	11	26	26	1.90
12507160--12507184	2	12.5	2	100	0	50	52	0	48	0	1.00
12512327--12512485	80	2.0	80	98	0	309	27	17	20	33	1.95
12523622--12523678	29	2.0	29	85	0	78	31	1	21	45	1.62
12523653--12523764	30	3.8	30	71	13	88	40	3	19	36	1.69
12525046--12525111	29	2.2	30	86	2	89	9	15	25	50	1.73
12530493--12530545	21	2.5	20	82	11	63	32	22	13	32	1.92
12530603--12530650	24	2.0	24	83	4	60	41	18	6	33	1.76
12559178--12559273	41	2.3	41	94	0	165	36	27	6	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12559263--12559301	17	2.3	17	90	0	60	46	25	12	15	1.81
12564512--12564561	27	1.9	26	84	15	68	54	8	4	34	1.49
12571291--12571344	24	2.2	24	78	12	58	50	3	24	22	1.65
12580196--12580244	16	3.2	16	75	19	59	51	0	0	48	1.00
12580228--12580268	15	2.7	15	84	0	55	41	4	0	53	1.22
12587310--12587348	17	2.3	17	90	0	60	43	5	0	51	1.24
12587286--12587354	11	6.1	11	70	11	50	46	4	1	47	1.31
12589089--12589286	30	6.8	29	79	9	170	36	24	1	37	1.65
12589089--12589272	59	3.1	58	78	9	194	34	25	1	38	1.66
12589439--12589506	28	2.4	29	80	14	79	23	7	4	64	1.37
12599978--12600022	22	2.0	22	86	0	63	44	11	15	28	1.81
12600207--12600285	12	6.5	12	67	12	54	44	12	12	30	1.80
12600182--12600274	24	3.9	24	88	1	134	44	15	10	30	1.80
12602087--12602129	20	2.1	21	86	4	61	41	0	2	55	1.12
12603540--12603607	28	2.4	28	82	4	84	36	30	8	23	1.85
12605475--12605517	18	2.4	17	81	11	50	48	2	6	41	1.43
12606487--12606886	23	17.4	23	84	0	505	35	6	12	46	1.66
12624363--12624431	26	2.6	28	80	13	83	27	20	18	33	1.96
12628745--12628812	17	3.9	17	75	9	75	45	11	20	22	1.83
12639310--12639385	35	2.1	36	85	7	102	28	9	26	35	1.87
12642400--12642613	23	9.3	23	86	0	275	35	5	12	45	1.66
12643884--12644127	51	4.8	51	90	0	371	31	13	24	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12644888--12644943	21	2.7	20	76	15	51	35	14	21	28	1.92
12645216--12645314	36	2.8	36	87	0	135	26	14	26	33	1.94
12646680--12646860	90	2.0	90	100	0	362	25	6	29	37	1.82
12648323--12648381	31	1.9	31	82	6	75	40	13	6	38	1.71
12655271--12655393	42	3.0	42	85	3	151	34	11	26	26	1.91
12655342--12655461	41	3.0	40	89	6	170	34	12	25	27	1.92
12656057--12656088	15	2.1	15	100	0	64	31	0	34	34	1.58
12661426--12661560	42	3.2	42	89	1	189	33	10	28	27	1.90
12661426--12661591	84	2.0	84	82	4	201	33	10	27	28	1.90
12661426--12661617	84	2.3	84	78	8	194	33	10	27	28	1.90
12663023--12663081	29	2.0	29	96	0	109	33	20	13	32	1.91
12666736--12666765	14	2.2	14	94	5	53	30	23	10	36	1.87
12672441--12672732	52	5.6	52	88	2	399	36	21	13	27	1.92
12679793--12679832	17	2.4	17	82	0	53	25	12	7	55	1.63
12714869--12714916	17	2.8	17	77	0	51	29	12	6	52	1.63
12715500--12715526	14	1.9	14	100	0	54	55	0	0	44	0.99
12717065--12717111	24	2.0	24	83	4	60	23	12	10	53	1.70
12731752--12731795	16	2.5	17	85	14	63	47	6	15	29	1.72
12736906--12737361	156	2.9	156	91	0	725	47	8	21	22	1.78
12747331--12747380	25	2.0	25	100	0	100	40	28	0	32	1.57
12747386--12747410	6	4.2	6	100	0	50	16	0	0	84	0.63
12759087--12759117	15	2.1	15	93	0	53	12	29	6	51	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12773385--12773428	3	15.0	3	95	4	81	31	0	0	68	0.90
12776147--12776201	24	2.2	24	90	3	83	50	7	14	27	1.69
12777997--12778079	38	2.2	38	82	0	103	26	15	21	36	1.94
12788898--12788946	20	2.4	21	83	10	66	26	6	4	63	1.36
12795425--12795461	5	7.6	5	82	17	51	62	0	0	37	0.96
12795418--12795461	15	3.1	15	84	15	58	59	0	0	40	0.98
12798148--12798192	13	3.3	13	82	17	56	73	4	2	20	1.11
12798142--12798197	15	3.8	15	80	20	73	71	3	1	23	1.11
12798348--12798413	33	2.0	33	96	0	123	51	1	6	40	1.36
12799521--12799578	15	3.7	15	76	13	55	13	6	10	68	1.37

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