genome.fa.s3.2.7.7.80.10.50.1000.168.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  168  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)
49760911--49760957	21	2.2	21	84	3	58	68	2	10	19	1.30
49761772--49761814	19	2.3	19	84	8	52	58	4	0	37	1.19
49762367--49762562	104	1.9	103	80	8	227	27	23	11	37	1.89
49763229--49763273	4	10.8	4	81	9	54	80	0	2	17	0.82
49763228--49763275	18	2.8	17	87	9	71	81	0	2	16	0.79
49763228--49763275	8	5.6	8	83	11	60	81	0	2	16	0.79
49764760--49764789	15	1.9	16	93	6	53	70	0	13	16	1.18
49765571--49765613	19	2.3	19	84	8	52	58	4	0	37	1.19
49765615--49765667	20	2.5	22	84	6	65	73	0	0	26	0.83
49765634--49765667	5	6.8	5	100	0	68	82	0	0	17	0.67
49765833--49765877	23	1.9	24	86	4	65	46	6	4	42	1.50
49767707--49767739	3	11.0	3	100	0	66	33	0	0	66	0.92
49771827--49771870	18	2.5	17	77	3	52	34	0	4	61	1.16
49776447--49776988	273	2.0	280	88	3	812	35	19	13	31	1.91
49778948--49778988	16	2.6	16	82	14	50	31	0	0	68	0.90
49780712--49780822	41	2.7	41	85	0	159	32	20	19	27	1.97
49788405--49788442	5	7.4	5	83	16	51	36	0	2	60	1.11
49789723--49789793	31	2.3	31	83	9	83	54	16	7	21	1.65
49793900--49793931	16	2.0	16	93	0	55	71	3	0	25	1.00
49793904--49793943	21	1.9	21	89	0	62	72	2	0	25	0.97
49793981--49794026	24	2.0	23	87	8	67	50	10	8	30	1.68
49797372--49797688	158	2.0	158	100	0	634	26	15	20	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49804735--49804793	28	2.1	28	81	12	68	25	8	0	66	1.20
49816738--49816811	23	3.2	23	86	0	94	31	21	17	29	1.96
49816750--49816815	23	2.9	23	88	0	96	30	21	18	30	1.97
49820265--49820299	16	2.2	16	89	0	52	57	17	8	17	1.64
49826132--49826158	2	13.5	2	100	0	54	51	0	0	48	1.00
49828890--49828920	7	4.4	7	91	0	53	51	25	12	9	1.70
49835229--49835282	28	1.9	28	81	7	65	29	5	5	59	1.43
49835429--49835476	21	2.2	23	78	14	57	66	2	6	25	1.26
49836098--49836304	91	2.3	90	82	5	240	35	5	15	42	1.72
49839753--49839786	15	2.2	16	89	5	52	32	2	0	64	1.08
49841023--49841052	15	2.1	15	93	6	53	53	3	20	23	1.60
49855401--49856087	343	2.0	341	85	3	936	33	16	15	34	1.91
49864450--49865136	343	2.0	341	85	3	936	33	16	15	34	1.91
49873499--49874185	343	2.0	341	86	2	968	32	16	16	34	1.91
49884712--49884904	52	3.7	51	82	6	226	34	25	13	26	1.93
49890526--49890551	3	8.7	3	100	0	52	69	0	0	30	0.89
49891982--49892015	11	3.1	11	86	0	50	8	20	47	23	1.78
49892463--49892513	24	2.1	24	88	0	75	50	5	5	37	1.51
49894933--49894972	20	2.0	20	95	0	71	52	5	5	37	1.45
49895762--49895803	22	2.0	21	85	4	57	40	7	0	52	1.29
49898146--49898652	184	2.8	184	98	0	969	30	19	18	31	1.96
49899811--49899835	13	1.9	13	100	0	50	56	12	16	16	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49903472--49903576	55	1.9	55	86	0	147	27	7	16	48	1.73
49904169--49904235	31	2.2	31	83	5	82	37	1	22	38	1.63
49905159--49905196	17	2.3	16	90	4	58	50	0	0	50	1.00
49905151--49905193	16	2.7	16	86	10	61	46	2	0	51	1.13
49908435--49908476	21	2.0	21	81	9	50	19	28	21	30	1.97
49914714--49914743	16	1.9	16	93	6	53	16	13	0	70	1.18
49917854--49917890	12	3.1	12	96	0	65	67	0	29	2	1.04
49918043--49918101	24	2.4	24	97	2	109	28	0	13	57	1.37
49931432--49931474	18	2.4	18	88	7	61	46	0	0	53	1.00
49931746--49931775	12	2.5	12	94	0	51	43	3	0	53	1.17
49932970--49933036	34	2.0	34	84	0	89	40	7	28	23	1.82
49934115--49934173	29	2.0	30	86	3	84	28	5	13	52	1.61
49934120--49934182	29	2.1	29	82	8	74	31	4	11	52	1.58
49956803--49956864	21	2.8	23	80	9	83	6	6	19	67	1.35
49956765--49956890	56	2.2	57	81	6	141	8	6	19	65	1.41
49956878--49956944	24	3.1	21	83	12	82	10	4	19	65	1.40
49956870--49956930	24	2.5	24	94	0	113	8	4	19	67	1.36
49957966--49957995	14	2.1	14	93	0	51	0	16	0	83	0.65
49960045--49960229	30	6.3	30	77	7	148	33	7	24	35	1.82
49960060--49960210	59	2.6	59	81	4	162	33	5	27	33	1.81
49969706--49969771	18	3.9	17	80	11	64	31	0	0	68	0.90
49969704--49969772	27	2.5	29	80	13	76	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49971343--49971386	21	2.1	21	100	0	88	40	18	4	36	1.71
49975922--49976102	40	4.6	39	83	0	164	38	18	15	27	1.91
49978447--49978633	97	1.9	97	90	0	293	35	17	18	28	1.93
49978847--49979364	29	17.9	29	76	12	387	32	5	27	34	1.80
49980398--49980437	18	2.2	18	86	0	53	35	0	5	60	1.19
49981180--49981240	17	3.6	16	73	18	52	49	11	1	37	1.49
49981200--49981253	28	1.9	28	92	0	90	55	7	0	37	1.28
49981162--49981252	34	2.7	32	79	14	94	51	7	1	39	1.38
49981203--49981252	17	2.9	17	78	0	55	54	8	0	38	1.30
49982473--49982497	12	2.1	12	100	0	50	52	16	8	24	1.70
49987558--49987594	13	2.9	13	92	4	58	64	2	5	27	1.28
49991119--49991153	16	2.1	17	89	5	54	0	14	8	77	0.99
49991993--49992138	39	3.7	40	81	4	172	40	21	15	22	1.91
49998914--49998951	20	2.0	20	84	5	51	10	10	0	78	0.95
50002721--50002920	109	1.8	109	86	4	287	39	11	12	37	1.79
50003388--50003432	19	2.4	19	81	7	56	37	0	4	57	1.19
50008079--50008167	17	5.2	17	83	0	106	35	2	4	57	1.32
50008991--50009021	3	10.0	3	93	6	53	64	0	0	35	0.94
50010230--50010607	30	12.9	29	77	6	336	35	24	3	35	1.74
50010230--50010627	88	4.5	88	80	4	426	35	24	4	35	1.74
50010580--50010917	145	2.3	144	79	9	339	32	23	6	37	1.80
50010731--50010789	28	2.1	28	87	3	84	40	25	5	28	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50024258--50025088	92	8.9	92	92	2	1356	32	15	19	32	1.93
50025258--50025335	17	4.6	17	86	0	93	34	2	5	57	1.34
50025258--50025335	34	2.3	34	88	0	111	34	2	5	57	1.34
50025290--50025346	17	3.4	16	74	11	51	36	1	5	56	1.32
50026209--50026268	23	2.6	23	89	0	93	11	28	35	25	1.91
50026280--50026347	20	3.4	20	70	0	73	33	2	14	48	1.59
50027214--50027562	30	11.7	30	80	8	360	34	24	6	34	1.82
50027214--50027562	59	5.9	60	78	10	328	34	24	6	34	1.82
50027233--50027537	89	3.4	88	86	5	411	33	24	6	35	1.81
50027517--50027871	148	2.4	144	78	12	357	32	25	7	35	1.83
50027667--50027727	29	2.1	29	87	3	88	37	29	4	27	1.78
50041780--50041845	29	2.3	29	81	5	71	25	10	31	31	1.90
50041808--50041873	30	2.2	30	81	7	73	31	9	25	33	1.87
50041835--50042384	30	18.6	29	71	14	297	34	4	25	36	1.76
50041835--50042377	59	9.2	58	75	9	338	34	4	25	36	1.77
50042151--50042381	91	2.6	89	81	5	252	35	3	23	37	1.71
50044258--50044320	6	11.0	6	78	10	69	55	3	0	41	1.16
50044260--50044349	11	8.0	11	73	11	67	56	4	1	37	1.27
50044258--50044348	17	5.4	17	82	4	121	54	4	1	39	1.27
50044778--50045126	161	2.2	161	92	0	599	24	22	18	35	1.95
50047363--50047387	3	8.3	3	100	0	50	0	32	0	68	0.90
50055266--50055683	59	7.1	59	77	10	335	35	3	25	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50055319--50055421	29	3.6	29	83	8	138	34	2	22	39	1.69
50055266--50055683	30	14.3	30	75	13	302	35	3	25	35	1.74
50057534--50057594	6	10.7	6	78	16	67	52	1	1	44	1.20
50057534--50057624	17	5.4	17	84	4	121	53	4	1	40	1.28
50057535--50057592	11	5.2	11	80	14	66	53	1	1	43	1.21
50057536--50057625	11	8.0	11	73	16	60	55	4	1	38	1.27
50059695--50059744	19	2.6	19	75	15	50	26	0	6	68	1.13
50059677--50059730	21	2.5	22	81	3	65	22	1	3	72	1.10
50061082--50061213	68	1.9	68	86	3	185	41	12	16	29	1.85
50065164--50065828	221	3.0	221	98	0	1303	34	16	13	35	1.88

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