genome.fa.s3.2.7.7.80.10.50.1000.14.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  14  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)
6550316--6550364	25	2.0	24	84	11	64	26	0	8	65	1.20
6551016--6551068	27	2.0	27	84	0	70	49	0	5	45	1.26
6551081--6551111	12	2.6	12	89	0	53	54	0	0	45	0.99
6558671--6558715	21	2.1	22	91	4	74	62	6	8	22	1.48
6559413--6559459	24	2.0	24	87	8	69	42	4	0	53	1.20
6559431--6559478	17	2.9	16	78	6	53	45	2	0	52	1.12
6561269--6561301	6	5.3	6	92	7	57	84	0	15	0	0.61
6564068--6564103	2	18.0	2	100	0	72	50	0	0	50	1.00
6579002--6579048	22	2.1	22	88	4	67	51	6	4	38	1.47
6580044--6580095	27	2.0	26	92	3	86	21	38	0	40	1.53
6586873--6586905	16	2.1	16	94	0	57	66	0	0	33	0.92
6588117--6588236	58	2.1	58	84	6	154	45	19	0	34	1.56
6594258--6594394	37	3.7	36	86	3	175	38	32	16	11	1.85
6615483--6615539	28	2.1	27	87	6	80	57	3	3	35	1.33
6616081--6617497	752	1.9	749	82	5	1777	39	14	8	37	1.77
6628698--6628733	2	18.0	2	100	0	72	50	0	0	50	1.00
6634113--6634152	17	2.4	17	100	0	80	47	5	35	12	1.63
6637033--6637099	33	2.0	32	83	11	82	34	22	7	35	1.82
6639632--6639681	2	25.0	2	100	0	100	50	0	0	50	1.00
6645594--6645639	17	2.9	15	81	12	65	39	2	0	58	1.10
6648537--6648595	31	1.9	31	85	0	82	23	11	10	54	1.67
6650723--6650768	19	2.5	18	83	13	58	65	4	6	23	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6650722--6650764	20	2.2	19	87	4	59	65	4	6	23	1.37
6657906--6657964	29	2.0	29	93	0	100	49	15	8	27	1.73
6667444--6667477	17	2.1	17	88	5	52	38	5	0	55	1.24
6668803--6668906	54	1.9	53	88	1	154	44	6	5	43	1.54
6668803--6668907	27	3.9	27	80	5	113	44	6	5	42	1.54
6668803--6668926	27	4.6	28	77	7	103	43	8	5	41	1.59
6668827--6668934	55	2.0	54	81	1	126	45	10	5	38	1.61
6670823--6670926	23	4.5	22	79	10	95	10	25	25	39	1.87
6672488--6672552	23	2.8	23	92	0	103	40	24	26	9	1.85
6672439--6672552	46	2.5	43	73	14	104	38	22	27	11	1.88
6680582--6680628	24	2.0	24	83	8	60	34	6	4	55	1.45
6687461--6687541	38	2.1	38	93	0	135	40	30	3	24	1.73
6692221--6692256	15	2.3	16	90	4	56	58	0	0	41	0.98
6696296--6696374	28	3.0	27	78	14	83	48	1	2	48	1.23
6699190--6699235	19	2.2	21	85	11	60	56	2	0	41	1.11
6699733--6699789	30	1.9	30	85	7	80	28	0	1	70	0.98
6700244--6700279	15	2.3	16	90	4	56	50	0	5	44	1.25
6700515--6700724	97	2.2	97	92	0	348	33	15	11	38	1.84
6701445--6701599	71	2.2	71	79	6	161	32	9	10	47	1.70
6701461--6701681	82	2.9	71	71	18	194	30	9	10	49	1.68
6701515--6701842	82	4.1	82	77	11	304	29	9	10	50	1.69
6701673--6701925	76	3.3	77	77	10	257	29	11	12	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6702045--6702076	15	2.1	15	94	0	55	40	15	25	18	1.90
6711214--6711254	13	2.9	14	85	10	57	63	2	9	24	1.37
6711287--6711340	18	3.1	17	79	12	56	70	1	5	22	1.18
6711408--6711459	13	3.9	13	74	20	54	75	1	1	21	1.00
6712528--6712556	11	2.6	11	100	0	58	17	17	6	58	1.59
6714070--6714097	6	4.7	6	100	0	56	53	0	0	46	1.00
6714457--6714482	13	2.0	13	100	0	52	23	23	0	53	1.46
6714940--6714991	24	2.2	24	89	0	77	11	13	15	59	1.61
6739268--6739309	12	3.6	12	77	6	50	40	21	14	23	1.90
6739263--6739332	23	3.0	23	85	2	86	42	17	11	28	1.83
6739408--6739440	11	2.8	12	81	9	50	57	15	12	15	1.65
6739408--6739463	24	2.4	24	87	3	78	53	17	10	17	1.72
6746708--6746773	33	2.0	33	100	0	132	18	12	18	51	1.76
6747785--6747819	3	11.7	3	100	0	70	34	0	0	65	0.93
6748019--6748043	2	12.5	2	100	0	50	52	0	0	48	1.00
6757014--6757096	43	2.0	43	85	2	114	28	19	20	31	1.97
6763208--6763252	19	2.4	19	81	7	56	37	0	4	57	1.19
6765387--6765430	21	2.1	21	86	0	61	40	13	15	29	1.86
6766620--6766661	9	4.8	9	79	5	50	16	2	0	80	0.81
6766620--6766654	17	2.1	16	89	5	52	14	2	0	82	0.77
6766622--6766661	13	3.1	13	82	13	55	17	2	0	80	0.83
6782892--6782917	3	8.7	3	100	0	52	30	34	0	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6783553--6783588	4	9.0	4	100	0	72	75	0	25	0	0.81
6784178--6784223	17	2.6	18	83	13	60	2	10	2	84	0.79
6784180--6784223	6	7.5	6	85	10	56	2	11	2	84	0.81
6784439--6784475	2	19.0	2	94	5	67	48	0	0	51	1.00
6785514--6785547	6	5.7	6	100	0	68	67	17	0	14	1.23
6786230--6786259	2	15.0	2	100	0	60	50	0	0	50	1.00
6786391--6786415	13	1.9	13	100	0	50	48	20	16	16	1.82
6795915--6795979	29	2.2	31	86	10	91	46	0	0	53	1.00
6795927--6796013	36	2.4	35	75	9	95	50	0	0	49	1.00
6797048--6797080	16	2.0	17	88	5	50	54	0	0	45	0.99
6806183--6806247	23	2.8	23	79	4	69	41	18	10	29	1.84
6815961--6815994	16	2.2	15	89	5	50	55	0	0	44	0.99
6823488--6823512	13	1.9	13	100	0	50	48	20	0	32	1.50
6830920--6830979	28	2.1	28	96	0	111	25	10	31	33	1.89
6833938--6833977	18	2.2	18	90	0	62	42	0	0	57	0.98
6836403--6836524	62	2.0	62	88	3	183	26	17	22	34	1.95
6836404--6836546	62	2.3	62	85	2	180	25	18	22	33	1.96
6837407--6837461	21	2.6	21	82	5	67	18	12	30	38	1.88
6838378--6838420	19	2.3	19	87	0	59	55	0	0	44	0.99
6849159--6849272	50	2.3	50	89	0	165	46	4	5	43	1.46
6852163--6852228	7	9.4	7	77	12	55	37	1	0	60	1.06
6852162--6852236	14	5.4	14	70	12	55	36	1	0	62	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6852367--6852409	21	2.0	21	95	0	77	67	4	2	25	1.22
6852352--6852410	29	2.0	29	83	6	75	67	5	1	25	1.20
6878295--6878348	22	2.4	23	78	6	58	51	3	5	38	1.43
6879461--6879513	17	3.1	17	83	8	54	66	0	3	30	1.10
6881255--6881322	23	3.1	22	79	12	77	32	1	23	42	1.63
6883157--6883225	19	3.5	19	75	14	59	34	1	26	37	1.65
6883269--6883295	14	1.9	14	100	0	54	22	0	33	44	1.53
6898669--6898711	23	1.9	23	85	4	61	60	2	2	34	1.22
6900188--6900237	16	3.1	16	78	15	50	48	0	0	52	1.00
6905866--6905910	23	1.9	24	90	4	74	44	2	0	53	1.13
6911394--6911521	56	2.3	56	90	0	193	22	25	23	28	1.99
6911747--6912356	198	3.1	197	86	1	794	34	14	10	40	1.80
6923113--6923169	15	3.7	15	81	4	78	36	0	1	61	1.07
6923112--6923179	31	2.2	31	82	15	88	33	1	1	63	1.13
6939483--6939535	15	3.2	16	71	23	56	43	5	7	43	1.56
6939470--6939538	33	2.1	33	100	0	138	37	5	5	50	1.50
6939470--6939519	15	3.0	17	70	24	52	38	6	6	50	1.52
6939633--6939681	23	2.0	24	84	7	64	65	4	2	28	1.22
6940187--6940236	24	2.1	23	82	10	57	64	2	0	34	1.05
6940189--6940241	23	2.3	23	80	6	63	62	3	0	33	1.13
6944100--6944130	3	10.3	3	100	0	62	67	0	0	32	0.91
6944175--6944210	3	12.0	3	100	0	72	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6956533--6956574	18	2.4	17	84	11	50	38	2	0	59	1.10
6956877--6956922	22	2.2	20	88	7	65	28	0	2	69	1.00
6957690--6957771	9	8.7	9	75	17	60	59	3	0	36	1.15
6957690--6957771	28	2.9	28	82	8	78	59	3	0	36	1.15
6957665--6957757	38	2.5	36	73	16	82	56	4	0	38	1.19
6957717--6957779	19	3.2	19	84	8	65	61	4	0	33	1.17
6962261--6962440	81	2.2	83	81	10	203	52	4	2	40	1.36
6962310--6962381	30	2.4	30	79	6	76	47	5	4	43	1.46
6962370--6962404	18	2.0	17	88	5	52	65	2	0	31	1.07
6962503--6962527	4	6.2	4	100	0	50	76	0	0	24	0.80

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