genome.fa.s12.2.7.7.80.10.50.1000.20.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: CP032245.1 Gossypioides kirkii chromosome KI_2_4
Parameters: 2 7 7 80 10 50 1000
Length:  41238926

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   

This is table  20  of  132  ( 15769 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)
5852743--5852800	3	19.3	3	100	0	116	32	0	0	67	0.91
5855401--5855485	31	2.8	29	74	8	80	42	14	9	34	1.77
5856304--5856489	97	1.9	96	82	7	234	37	15	14	32	1.88
5856751--5857028	58	4.7	59	82	4	197	36	5	26	31	1.80
5856806--5857105	58	5.1	59	82	4	313	37	3	26	32	1.74
5856898--5857125	29	7.8	29	78	10	178	40	2	23	33	1.67
5856806--5857096	117	2.5	116	83	3	316	37	3	26	32	1.74
5857016--5857166	58	2.6	58	86	1	194	40	3	22	33	1.73
5858286--5858363	3	25.3	3	83	10	95	37	3	0	58	1.16
5859157--5859237	17	4.7	17	73	8	65	54	3	6	35	1.43
5859612--5860036	39	10.9	38	69	7	253	25	19	29	25	1.98
5859610--5860039	78	5.5	78	87	3	625	25	19	29	25	1.98
5860094--5860295	101	2.0	101	86	3	282	30	18	16	34	1.93
5860423--5861469	50	21.1	48	65	13	309	15	24	21	38	1.92
5860459--5861401	100	9.5	100	87	1	1279	15	24	21	38	1.92
5860464--5861401	199	4.7	200	86	3	1250	15	24	21	38	1.92
5860464--5861400	299	3.1	300	88	3	1338	15	24	21	38	1.92
5867948--5868083	29	4.7	31	76	13	114	40	1	22	36	1.63
5867911--5868083	58	2.9	59	78	12	187	41	3	21	34	1.70
5867941--5868070	30	4.4	29	74	12	88	43	1	19	36	1.60
5867994--5868140	29	5.0	30	75	14	110	38	2	23	36	1.67
5869265--5869345	3	26.3	3	81	9	92	38	3	0	58	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5870124--5870236	17	6.6	16	70	9	64	52	5	4	38	1.44
5870660--5870760	31	3.4	30	70	18	84	25	18	10	44	1.83
5871030--5871063	17	2.0	17	88	0	50	58	2	0	38	1.13
5872393--5872426	17	2.0	17	88	11	52	41	0	0	58	0.98
5874391--5874488	29	3.3	31	68	17	98	47	13	16	22	1.81
5874302--5874488	60	3.1	59	84	6	227	48	13	15	22	1.79
5878989--5879046	21	2.8	20	81	5	62	29	27	13	29	1.94
5883107--5883141	17	2.1	17	94	5	63	25	0	14	60	1.35
5883835--5883874	3	13.3	3	100	0	80	0	32	0	67	0.91
5884401--5884434	2	17.5	2	93	6	61	50	0	0	50	1.00
5891396--5891449	5	10.8	5	93	0	54	35	20	31	12	1.90
5891768--5891802	5	7.2	5	87	6	54	0	22	0	77	0.78
5891768--5891802	14	2.4	15	95	4	63	0	22	0	77	0.78
5894352--5894383	2	16.0	2	100	0	64	50	0	0	50	1.00
5897593--5897658	33	2.0	33	100	0	132	12	30	12	45	1.78
5906987--5907556	312	1.8	311	91	1	946	40	21	11	27	1.87
5908919--5909015	51	1.9	51	93	4	169	44	1	14	40	1.52
5913216--5913250	18	1.9	18	88	0	52	25	5	5	62	1.40
5915589--5915666	30	2.6	31	70	15	74	52	8	0	38	1.33
5915792--5915842	16	3.2	16	73	13	52	49	0	1	49	1.12
5915891--5915962	22	3.2	22	64	21	58	56	2	0	40	1.13
5915891--5915965	23	3.2	24	67	14	75	56	2	0	41	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5917736--5917795	28	2.1	28	100	0	120	36	18	20	25	1.94
5923005--5923033	3	9.7	3	100	0	58	68	0	0	31	0.89
5928540--5928572	14	2.3	15	89	5	50	36	0	3	60	1.12
5928614--5928657	20	2.2	20	91	0	70	27	15	9	47	1.76
5929524--5929618	31	3.2	30	77	10	90	40	10	10	38	1.74
5931316--5931354	15	2.3	18	87	12	57	15	30	0	53	1.42
5931385--5931419	14	2.5	14	90	0	61	31	17	14	37	1.89
5932631--5932680	16	3.2	16	73	21	52	34	0	6	60	1.21
5932857--5932925	25	2.7	26	93	4	113	42	2	1	53	1.24
5939496--5939520	13	1.9	13	100	0	50	32	4	8	56	1.47
5939569--5939609	19	2.1	20	90	4	66	34	14	0	51	1.43
5940882--5940945	29	2.2	28	81	13	76	32	10	6	50	1.63
5946322--5947290	500	1.9	508	81	6	1157	36	15	12	35	1.85
5947620--5947670	20	2.6	19	73	11	50	41	0	0	58	0.98
5956147--5956199	20	2.7	20	85	8	74	56	5	0	37	1.23
5956178--5956225	24	2.0	25	84	12	64	54	4	0	41	1.20
5956415--5956466	24	2.1	25	85	7	70	34	21	5	38	1.77
5983842--5983874	17	1.9	17	93	0	57	24	9	9	57	1.58
5984428--5984469	22	2.0	22	86	13	63	64	4	4	26	1.33
5988713--5988751	13	3.0	13	88	11	62	51	30	0	17	1.46
5990298--5990339	21	2.0	21	90	0	66	76	14	2	7	1.10
5993880--5993990	55	2.0	55	87	0	159	35	27	11	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5994739--5994952	23	9.5	23	72	16	144	42	21	25	11	1.86
5994832--5994952	48	2.6	46	88	5	179	40	22	25	11	1.87
5997622--5997657	18	2.0	18	88	0	54	25	22	0	52	1.47
6000689--6000736	24	2.0	24	87	0	69	47	22	0	29	1.51
6001832--6001873	22	1.9	22	85	0	57	26	2	33	38	1.69
6005232--6005287	23	2.3	25	75	9	62	33	1	1	62	1.16
6009382--6009510	43	3.0	42	81	4	150	27	17	25	29	1.98
6009497--6009557	31	1.9	32	90	3	97	24	13	14	47	1.80
6015674--6015716	22	1.9	22	86	13	61	34	0	11	53	1.37
6016273--6016323	6	8.5	6	84	0	66	78	1	1	17	0.94
6027033--6027128	39	2.5	36	79	15	106	32	19	18	29	1.96
6027050--6027129	39	2.0	40	90	7	128	32	18	18	30	1.95
6035338--6035414	39	2.0	40	92	2	129	31	15	22	31	1.95
6039075--6039120	19	2.3	20	85	10	60	28	0	2	69	1.00
6040105--6040129	5	5.0	5	100	0	50	60	0	0	40	0.97
6053398--6053430	11	3.0	11	83	16	50	60	0	0	39	0.97
6054545--6054666	58	2.1	59	81	7	142	33	23	4	38	1.74
6054545--6054843	29	10.3	30	72	12	128	35	24	4	35	1.75
6054634--6054839	58	3.6	57	77	9	211	36	23	3	35	1.74
6054634--6054839	87	2.4	87	82	4	247	36	23	3	35	1.74
6066817--6066874	25	2.3	25	85	5	73	46	3	0	50	1.18
6070547--6070585	17	2.3	17	81	0	51	15	10	25	48	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6073179--6073275	51	1.9	51	81	12	119	48	2	1	48	1.20
6073333--6073362	15	2.0	15	93	0	51	10	20	0	70	1.16
6074394--6074440	15	3.1	15	78	21	53	55	0	0	44	0.99
6074387--6074450	17	3.8	18	74	19	66	53	0	0	46	1.00
6077731--6077946	27	7.9	27	73	11	107	19	16	9	55	1.68
6077842--6077947	29	3.9	27	75	13	92	20	14	8	56	1.64
6077885--6077956	29	2.5	28	76	13	74	19	9	8	62	1.51
6085152--6085193	22	1.9	22	85	0	57	33	11	4	50	1.60
6091903--6092068	30	5.6	29	69	23	96	34	2	29	33	1.71
6091991--6092089	29	3.4	28	72	24	98	36	0	30	33	1.58
6091902--6092198	59	5.1	58	88	4	409	34	2	30	32	1.71
6091903--6092198	117	2.5	117	87	3	409	34	2	30	32	1.71
6092875--6092912	13	2.8	14	84	4	51	2	23	0	73	0.95
6092874--6092933	14	4.3	13	81	8	57	5	20	1	73	1.11
6093231--6093278	26	1.9	26	87	8	73	39	8	2	50	1.44
6093255--6093305	20	2.7	19	87	6	68	41	1	0	56	1.10
6094027--6094108	42	2.0	41	85	2	110	56	8	3	31	1.47
6094460--6095095	200	3.2	199	92	1	1004	19	23	21	35	1.96
6107299--6107449	29	5.1	29	66	18	78	31	1	30	35	1.69
6107266--6107608	58	5.8	58	84	5	379	35	2	29	33	1.69
6107266--6107608	118	2.9	118	83	3	433	35	2	29	33	1.69
6107487--6107595	29	3.7	30	71	10	84	36	1	26	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6108292--6108342	20	2.7	18	80	19	59	5	17	1	74	1.11
6108302--6108342	14	2.9	14	85	3	55	4	17	2	75	1.08
6108645--6108692	26	1.9	26	87	8	73	41	8	0	50	1.33
6108669--6108714	19	2.5	19	89	3	67	39	2	0	58	1.10
6109461--6109529	17	3.8	19	77	11	65	57	2	1	37	1.22
6109461--6109508	18	2.6	18	83	12	62	58	0	2	39	1.10
6109479--6109529	12	4.2	12	75	9	50	56	3	0	39	1.18
6109967--6110019	14	3.5	14	75	25	54	66	0	1	32	1.03
6119958--6120045	37	2.4	37	84	0	122	26	20	13	39	1.90
6120197--6120248	26	2.0	26	100	0	104	19	15	34	30	1.93

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