genome.fa.s7.2.7.7.80.10.50.1000.56.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: CP032251.1 Gossypioides kirkii chromosome KI_09
Parameters: 2 7 7 80 10 50 1000
Length:  38743931

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   

This is table  56  of  144  ( 17169 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)
11275040--11275108	30	2.3	30	85	7	86	18	10	18	52	1.73
11276630--11276654	4	6.2	4	100	0	50	76	0	0	24	0.80
11282807--11282868	31	2.0	31	96	0	115	33	29	11	25	1.91
11283805--11283908	37	2.7	38	76	5	93	31	26	19	22	1.97
11286943--11287061	45	2.7	45	85	1	150	44	10	22	21	1.83
11286991--11287059	21	3.1	21	64	18	50	42	13	24	20	1.87
11297000--11297024	5	5.0	5	100	0	50	20	0	0	80	0.72
11304668--11304925	130	2.0	130	97	0	489	31	14	24	29	1.95
11306510--11306566	30	1.9	30	82	7	71	15	8	3	71	1.24
11306521--11306566	15	3.1	15	93	0	74	13	8	4	73	1.21
11308186--11308320	67	2.0	69	88	2	202	40	2	5	51	1.42
11308233--11308277	20	2.4	20	85	10	60	44	2	4	48	1.35
11314363--11314440	37	2.1	37	92	0	129	33	33	21	11	1.90
11317189--11317431	119	2.0	120	80	3	276	28	22	14	33	1.94
11327855--11327896	16	2.5	17	81	14	52	28	2	2	66	1.16
11328003--11328043	21	1.9	21	85	5	55	53	0	2	43	1.13
11334110--11334142	3	11.3	3	93	6	59	69	0	0	30	0.88
11335179--11335298	7	18.0	7	75	10	117	31	23	27	17	1.97
11335192--11335288	27	3.7	26	83	8	117	31	23	26	17	1.97
11335179--11335268	46	1.9	47	95	2	164	32	23	26	17	1.97
11335179--11335288	20	5.2	20	82	16	141	32	23	26	17	1.96
11335351--11335419	21	3.3	21	89	2	104	15	1	31	50	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11335394--11335423	15	1.9	16	93	6	53	23	0	26	50	1.50
11335929--11335962	17	2.0	17	100	0	68	82	0	17	0	0.67
11335928--11335961	10	3.3	10	87	4	50	85	0	14	0	0.60
11341425--11341449	13	1.9	13	100	0	50	80	0	0	20	0.72
11343657--11343750	25	3.8	25	88	0	134	34	22	19	24	1.97
11351145--11351193	25	1.9	25	83	4	62	38	24	20	16	1.92
11351151--11351311	25	6.4	25	82	0	187	35	26	16	21	1.95
11355190--11355234	21	2.2	21	88	4	65	55	6	8	28	1.56
11361834--11361889	17	3.3	17	89	0	85	35	1	1	60	1.17
11361834--11361902	34	2.0	35	88	2	104	34	1	4	59	1.26
11361834--11361899	17	3.8	17	85	2	69	36	1	4	57	1.28
11361870--11361928	23	2.5	23	80	2	73	35	1	8	54	1.41
11361870--11361942	24	3.1	23	80	4	74	36	1	6	54	1.36
11361829--11361942	6	19.3	6	71	9	65	36	0	5	57	1.28
11363046--11363089	20	2.2	20	100	0	88	13	29	52	4	1.60
11363698--11364110	29	14.1	29	77	8	234	33	24	3	38	1.73
11363680--11364045	88	4.1	88	82	5	420	34	23	3	37	1.72
11365445--11365487	18	2.5	17	79	20	54	23	4	6	65	1.37
11368965--11369067	20	5.4	19	76	15	88	79	1	16	1	0.91
11368996--11369076	6	13.5	6	76	17	71	80	1	18	0	0.78
11368979--11369072	21	4.5	20	78	13	93	79	2	18	0	0.82
11369011--11369078	7	9.7	7	79	17	70	77	0	22	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11369994--11370705	50	14.4	50	75	7	569	33	16	32	18	1.93
11369994--11370705	99	7.2	98	76	7	568	33	16	32	18	1.93
11369996--11370705	295	2.4	295	83	4	842	33	16	32	18	1.93
11370901--11370992	41	2.2	41	90	3	141	34	22	14	28	1.93
11370985--11371920	39	24.1	39	73	5	567	24	30	19	25	1.98
11370987--11371832	78	10.9	78	82	3	819	24	31	19	25	1.98
11371533--11371910	77	4.9	78	80	6	304	24	32	19	23	1.98
11372334--11372433	6	16.8	6	68	9	53	38	1	5	56	1.28
11372339--11372425	17	5.1	17	77	5	86	35	1	5	57	1.30
11372339--11372421	35	2.4	34	85	2	103	36	1	6	56	1.32
11374159--11374426	29	9.2	30	80	7	223	34	25	3	37	1.72
11374520--11374557	14	2.8	14	81	18	53	18	10	5	65	1.41
11375304--11375357	26	2.0	26	85	10	72	46	0	0	53	1.00
11375320--11375353	17	1.9	18	88	5	52	50	0	0	50	1.00
11375418--11375504	33	2.6	34	83	7	106	19	2	33	44	1.63
11375479--11375617	7	19.7	7	67	15	72	26	0	29	43	1.60
11375545--11375602	22	2.7	22	78	10	66	31	0	29	39	1.57
11375573--11375617	15	3.1	15	80	3	56	28	0	24	46	1.53
11375622--11375673	21	2.5	22	81	6	54	13	3	28	53	1.57
11376476--11376513	19	2.0	19	94	0	67	44	5	5	44	1.49
11378612--11378659	19	2.4	21	83	13	57	45	2	2	50	1.25
11378612--11378652	22	1.9	21	85	5	55	48	2	2	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11378611--11378662	21	2.4	22	75	15	54	44	1	1	51	1.23
11380876--11380925	18	2.6	19	81	12	57	34	2	0	64	1.05
11380885--11380927	18	2.3	19	88	4	61	34	2	0	62	1.08
11380876--11380927	19	2.8	19	80	11	63	34	1	0	63	1.06
11380899--11380954	19	2.9	19	78	5	60	26	0	5	67	1.11
11381980--11383360	180	7.7	179	93	0	2330	25	13	22	38	1.91
11381980--11384812	359	8.0	359	88	4	4092	25	13	22	38	1.91
11383194--11383503	152	2.0	151	90	0	485	20	13	23	41	1.89
11383346--11384812	179	8.2	179	92	1	2376	25	13	22	38	1.90
11390503--11390588	40	2.2	40	95	0	154	25	11	18	44	1.84
11395886--11396010	36	3.5	36	91	2	189	36	26	14	22	1.92
11401555--11401590	17	2.1	17	89	0	54	41	0	2	55	1.14
11402461--11402503	18	2.5	16	81	11	50	39	0	0	60	0.97
11407316--11407451	57	2.4	55	79	13	125	27	16	7	48	1.73
11407600--11408216	308	2.0	308	88	0	912	30	23	12	33	1.91
11413515--11413552	20	1.9	20	84	10	51	34	13	2	50	1.55
11416125--11416166	11	3.8	11	83	0	57	16	30	30	21	1.95
11416847--11416884	2	19.0	2	100	0	76	50	0	0	50	1.00
11417255--11417304	3	16.7	3	100	0	100	32	0	0	68	0.90
11423331--11423358	13	2.2	13	100	0	56	14	14	21	50	1.78
11424412--11424446	3	11.7	3	93	0	61	28	0	2	68	1.04
11428029--11428112	33	2.5	33	82	0	87	45	11	23	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11428061--11428145	31	2.7	32	85	3	100	44	14	23	17	1.85
11431634--11431663	16	1.9	15	93	6	51	43	0	0	56	0.99
11431845--11432292	82	5.5	82	83	9	492	31	11	12	45	1.77
11431830--11432292	164	2.8	164	82	10	574	31	11	12	45	1.77
11450168--11450225	17	3.4	17	67	9	55	56	0	10	32	1.33
11450227--11450292	16	3.9	17	76	9	64	57	0	0	42	0.98
11450227--11450288	15	3.7	16	78	12	63	56	0	0	43	0.99
11450529--11450652	60	2.1	59	87	1	176	37	8	14	40	1.76
11455405--11455445	19	2.1	21	86	13	61	48	2	0	48	1.14
11455919--11455956	18	2.1	18	85	9	51	28	23	13	34	1.92
11457842--11457867	7	3.7	7	100	0	52	30	0	0	69	0.89
11459958--11460155	68	2.9	68	80	1	218	38	17	19	24	1.93
11460982--11461049	28	2.3	29	75	12	68	69	14	16	0	1.20
11460992--11461041	14	3.6	14	76	15	50	72	18	10	0	1.12
11462387--11462421	16	2.2	16	94	0	61	20	8	11	60	1.57
11472450--11472527	29	2.7	27	76	11	66	48	3	0	47	1.20
11473130--11473218	31	2.8	32	81	8	103	46	7	15	30	1.75
11474894--11474942	21	2.2	24	85	10	68	32	4	18	44	1.68
11479765--11479813	21	2.2	24	85	10	68	32	4	18	44	1.68
11487705--11487729	10	2.5	10	100	0	50	20	0	28	52	1.47
11489242--11489470	79	2.9	79	83	1	235	34	26	18	20	1.96
11491074--11491205	24	5.5	24	78	3	122	37	19	25	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11491073--11491211	48	2.9	48	82	2	154	38	18	25	17	1.93
11491123--11491221	48	2.1	48	86	0	135	39	16	25	19	1.91
11491088--11491245	72	2.2	72	84	0	199	39	15	22	22	1.92
11491136--11491238	48	2.1	49	82	5	129	38	15	23	22	1.92
11495614--11495676	26	2.4	25	82	7	72	19	19	20	41	1.91
11495640--11495711	26	2.7	26	82	2	81	20	16	20	41	1.90
11495698--11495772	26	2.9	27	82	6	100	25	17	22	34	1.96
11496346--11496377	12	2.7	12	90	0	55	25	46	25	3	1.67
11505866--11505917	25	2.1	24	86	10	70	5	17	1	75	1.10
11505934--11505974	3	14.3	3	80	10	50	60	2	0	36	1.10

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