genome.fa.s6.2.7.7.80.10.50.1000.16.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: CP032250.1 Gossypioides kirkii chromosome KI_08
Parameters: 2 7 7 80 10 50 1000
Length:  39602670

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   

This is table  16  of  125  ( 14887 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)
5156083--5156128	16	3.1	16	76	17	55	71	4	2	21	1.14
5156189--5156223	18	1.9	18	94	0	61	37	0	2	60	1.12
5157031--5157060	2	15.0	2	100	0	60	0	50	0	50	1.00
5158795--5158838	18	2.4	18	84	3	61	59	0	0	40	0.98
5158794--5158850	19	3.1	19	82	7	64	57	1	0	40	1.09
5160020--5160053	17	2.0	17	94	0	59	41	0	2	55	1.15
5160111--5160146	14	2.5	15	86	9	56	25	2	0	72	0.98
5160348--5160384	19	1.9	20	88	5	58	43	0	0	56	0.99
5174684--5174768	17	4.9	17	77	1	89	43	2	2	51	1.27
5174684--5174788	51	2.1	51	82	7	124	42	5	2	48	1.41
5175481--5175536	16	3.4	16	78	4	58	60	7	3	28	1.40
5175512--5175569	30	1.9	31	92	3	100	53	3	10	32	1.52
5176676--5176778	30	3.5	29	74	10	86	34	20	2	41	1.67
5176708--5177106	59	6.8	58	72	8	233	32	25	5	36	1.78
5176891--5177013	29	4.2	29	67	20	69	30	29	4	35	1.76
5188486--5188531	23	2.0	22	84	12	58	58	0	0	41	0.98
5191723--5191831	29	3.8	28	69	13	71	42	3	9	44	1.53
5192097--5192143	14	3.2	14	77	17	51	29	2	4	63	1.25
5199373--5199430	23	2.5	23	82	0	71	32	27	18	20	1.97
5202964--5203007	3	15.0	3	95	4	81	65	0	0	34	0.93
5203235--5203297	18	3.7	17	74	17	60	28	0	0	71	0.86
5203240--5203301	17	3.6	17	74	18	58	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5208029--5208089	2	30.5	2	79	0	68	45	4	4	44	1.46
5210147--5210176	11	2.8	11	95	5	53	40	0	0	60	0.97
5211458--5211551	4	23.2	4	78	10	84	67	0	32	0	0.91
5211458--5211549	28	3.2	28	85	1	121	67	0	32	0	0.91
5214553--5214599	21	2.2	22	84	3	60	23	2	34	40	1.67
5214560--5214610	21	2.5	21	87	9	70	21	0	31	47	1.51
5214571--5214623	28	2.0	26	88	7	79	22	0	28	49	1.50
5214837--5214883	21	2.2	21	92	0	76	25	17	36	21	1.94
5216825--5216874	16	3.2	16	73	21	52	34	0	6	60	1.21
5217393--5217435	21	2.1	21	91	4	70	60	13	0	25	1.34
5217592--5217622	12	2.6	12	94	0	53	58	3	0	38	1.15
5217803--5217827	10	2.5	10	100	0	50	0	36	0	64	0.94
5217823--5217871	4	12.8	4	82	8	66	0	24	0	75	0.80
5217801--5217867	8	9.6	7	78	14	59	0	29	0	70	0.88
5226463--5226541	24	3.5	23	84	8	83	68	17	1	12	1.27
5226477--5226538	24	2.6	24	94	0	106	69	17	1	11	1.26
5226958--5226993	2	18.0	2	100	0	72	50	0	0	50	1.00
5228050--5228090	14	2.9	14	82	10	57	39	31	0	29	1.57
5228042--5228111	21	3.3	20	82	9	77	42	30	0	27	1.56
5228075--5228140	28	2.4	29	77	10	75	45	31	1	21	1.61
5228726--5228764	20	1.9	21	85	15	55	58	0	0	41	0.98
5229021--5229055	17	2.0	18	94	5	63	77	5	5	11	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5234076--5234115	18	2.2	18	90	0	62	72	0	10	17	1.11
5239973--5240010	20	2.0	20	89	5	60	50	2	0	47	1.15
5243133--5243157	13	1.9	13	100	0	50	40	8	12	40	1.72
5244069--5244111	23	1.9	22	86	13	61	46	11	4	37	1.61
5245348--5245375	6	4.7	6	100	0	56	71	0	0	28	0.86
5258951--5258987	19	1.9	19	88	0	56	27	0	2	70	1.01
5266316--5266355	5	8.0	5	91	0	62	22	37	0	40	1.54
5270448--5270483	12	3.0	12	91	0	54	25	33	33	8	1.86
5272560--5272680	29	4.2	27	71	13	82	32	1	33	32	1.68
5272530--5272659	58	2.2	58	93	1	215	31	1	33	33	1.67
5272530--5272624	30	3.2	30	64	18	72	32	2	33	31	1.70
5272662--5272929	60	4.4	60	87	4	335	35	4	23	37	1.74
5272634--5272930	30	9.9	30	81	8	302	34	3	23	38	1.73
5273026--5273340	162	1.9	162	92	1	533	45	13	13	26	1.81
5274887--5274935	6	7.5	6	82	15	53	30	0	4	65	1.11
5274908--5274976	6	12.2	6	78	17	58	49	0	2	47	1.16
5274910--5274975	11	6.0	11	78	5	53	48	0	3	48	1.17
5274946--5274976	10	3.0	10	95	4	53	58	0	3	38	1.15
5274946--5274985	21	1.9	21	89	0	62	55	2	2	40	1.27
5274946--5274985	11	3.7	11	86	6	55	55	2	2	40	1.27
5274925--5274967	17	2.5	18	92	7	72	53	0	4	41	1.21
5275298--5275933	38	17.4	38	65	19	282	33	18	15	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5275273--5275994	76	9.8	76	88	4	884	33	18	15	32	1.92
5287632--5287762	58	2.2	58	86	1	181	34	0	31	33	1.64
5287737--5288035	30	10.0	28	77	12	233	36	1	21	40	1.63
5287756--5288035	121	2.3	119	84	4	350	37	1	19	41	1.62
5287760--5288032	60	4.6	59	79	11	263	36	1	19	41	1.62
5289825--5289873	6	7.5	6	82	15	53	30	0	4	65	1.11
5289846--5289934	6	15.2	6	79	17	80	50	0	2	47	1.13
5289848--5289934	11	8.0	11	75	10	63	50	0	2	47	1.13
5289848--5289934	17	5.4	16	81	12	88	50	0	2	47	1.13
5289863--5289934	31	2.2	32	88	9	103	55	0	2	41	1.14
5289863--5289934	17	4.5	16	84	11	103	55	0	2	41	1.14
5289867--5289952	27	3.0	27	81	6	73	52	3	2	41	1.31
5290609--5290668	31	1.9	31	89	0	93	40	20	11	28	1.87
5294240--5294304	29	2.2	29	80	0	76	41	20	18	20	1.91
5300255--5300317	24	2.6	24	77	5	65	7	4	15	71	1.27
5300780--5300842	32	2.0	32	81	12	76	39	3	7	49	1.48
5313065--5313153	31	2.9	31	80	5	83	48	1	5	44	1.33
5324254--5324310	18	2.8	21	77	22	59	66	7	5	21	1.36
5324458--5324538	19	4.3	18	76	7	90	28	2	3	65	1.22
5324470--5324543	10	7.8	10	75	11	66	32	1	2	63	1.17
5324525--5324581	29	2.0	29	86	3	80	49	1	0	49	1.11
5325242--5325291	24	2.1	24	92	0	82	24	12	16	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5325382--5325489	24	4.5	24	90	3	157	28	12	16	41	1.86
5325405--5325472	12	5.7	12	68	13	50	29	13	16	41	1.86
5325524--5325563	21	1.9	21	94	0	71	55	12	10	22	1.67
5327045--5327080	17	2.1	17	89	0	54	69	0	2	27	1.02
5327045--5327097	17	3.0	16	77	20	52	69	1	1	26	1.09
5327477--5327645	60	2.8	60	81	4	191	49	13	15	22	1.79
5332382--5332411	2	15.0	2	100	0	60	50	0	50	0	1.00
5339758--5339799	21	2.0	21	95	0	75	50	14	2	33	1.56
5357976--5358014	19	2.1	19	95	0	69	12	0	15	71	1.14
5358102--5358158	4	13.8	4	85	7	78	71	0	26	1	0.95
5358105--5358171	20	3.3	20	85	8	73	68	0	28	2	1.04
5361181--5361266	7	12.3	7	75	9	68	23	2	27	46	1.64
5361181--5361266	21	4.1	21	76	8	86	23	2	27	46	1.64
5363837--5363870	18	1.9	18	88	5	52	44	8	11	35	1.72
5366038--5366273	115	2.0	114	82	9	280	44	11	5	38	1.63
5367537--5367583	21	2.2	21	84	0	58	19	21	2	57	1.51
5372616--5372657	14	2.7	15	85	10	50	54	2	2	40	1.26
5373545--5373573	2	14.5	2	100	0	58	51	0	0	48	1.00
5391669--5391834	23	7.4	23	72	14	141	42	22	24	10	1.85
5391675--5391749	39	1.9	39	88	0	114	44	22	22	10	1.84
5391714--5391834	48	2.6	46	83	7	154	39	23	26	10	1.87
5394919--5394991	35	2.1	35	82	14	89	46	0	30	23	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5403002--5403043	21	2.0	20	86	4	57	35	4	2	57	1.33
5405277--5405318	6	7.0	6	100	0	84	0	50	0	50	1.00
5410876--5410903	3	9.3	3	100	0	56	67	0	0	32	0.91
5417047--5417085	17	2.3	17	86	8	53	48	0	7	43	1.31
5417486--5417516	15	2.1	15	93	0	53	58	3	6	32	1.40
5418261--5418303	19	2.3	19	84	8	52	60	6	2	30	1.35
5418276--5418342	19	3.6	19	74	11	66	59	1	5	32	1.31
5426294--5426338	22	2.1	22	84	12	58	57	0	4	37	1.19
5428233--5428426	90	2.2	89	85	6	250	38	20	9	32	1.84
5428254--5428462	90	2.3	91	82	8	239	40	18	9	31	1.83

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