genome.fa.s3.2.7.7.80.10.50.1000.41.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  41  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)
18086054--18086119	31	2.2	31	83	5	82	43	12	10	33	1.76
18092510--18092605	23	4.3	23	70	15	74	70	17	3	8	1.25
18092535--18092582	12	4.1	11	78	21	53	77	12	0	10	1.00
18092511--18092594	24	3.7	23	72	22	61	73	14	2	9	1.18
18093551--18093595	22	2.0	22	95	0	81	40	4	15	40	1.67
18094324--18094370	15	3.2	15	71	17	53	12	12	10	63	1.52
18122481--18122507	7	3.9	7	100	0	54	74	0	0	25	0.83
18126471--18126503	14	2.2	16	89	10	52	36	0	0	63	0.95
18126717--18126780	27	2.3	27	86	7	85	51	7	10	29	1.65
18135653--18135805	30	5.2	30	66	19	97	35	3	28	32	1.75
18135655--18135902	59	4.2	59	80	10	290	35	3	28	32	1.73
18135864--18135939	37	2.1	37	92	2	127	40	0	28	30	1.57
18135902--18136187	29	9.5	30	69	26	112	35	1	27	34	1.68
18135900--18136185	59	4.7	59	82	7	351	35	1	27	35	1.67
18136463--18136530	32	2.1	33	86	8	95	58	4	13	23	1.53
18137252--18137302	3	16.7	3	76	11	50	33	1	1	62	1.17
18137252--18137302	12	4.5	11	81	13	59	33	1	1	62	1.17
18138054--18138094	17	2.3	18	91	4	66	53	0	2	43	1.13
18142680--18142762	28	2.9	28	80	7	78	33	0	4	61	1.17
18144380--18144419	17	2.4	17	91	4	64	40	0	2	57	1.12
18144379--18144455	27	2.8	27	80	4	73	44	5	2	48	1.39
18146258--18146480	30	7.6	29	73	13	154	39	26	2	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18146262--18146515	59	4.3	59	81	6	237	39	24	2	33	1.70
18146293--18146515	117	1.9	118	85	2	315	39	25	2	33	1.70
18146353--18146549	30	6.8	28	74	11	121	37	25	4	32	1.75
18146309--18146549	117	2.1	117	82	5	290	36	25	3	33	1.74
18146309--18146588	117	2.4	117	79	8	266	35	25	4	34	1.77
18146904--18147078	96	1.8	96	83	9	232	27	22	13	36	1.92
18149237--18149353	21	5.2	22	75	13	96	72	16	1	9	1.18
18149237--18149353	45	2.6	45	82	8	121	72	16	1	9	1.18
18149316--18149381	22	3.0	21	77	16	80	69	19	3	7	1.26
18151118--18151213	17	5.7	17	71	9	81	40	1	5	53	1.30
18151118--18151216	34	2.9	34	78	10	98	41	1	5	52	1.30
18151169--18151213	10	4.2	10	78	15	54	40	0	4	55	1.20
18151170--18151212	23	1.9	22	90	4	68	39	0	4	55	1.20
18157233--18157284	22	2.4	22	83	0	68	40	19	28	11	1.86
18162909--18162964	29	1.9	29	85	7	78	35	16	3	44	1.65
18164105--18164148	2	22.5	2	95	4	81	50	0	50	0	1.00
18170008--18170045	20	1.9	20	94	0	67	63	0	0	36	0.95
18172824--18172882	28	2.1	28	100	0	118	42	3	20	33	1.69
18175762--18175799	2	19.5	2	94	5	69	47	0	0	52	1.00
18175760--18175804	6	6.7	7	87	10	51	44	0	0	55	0.99
18178962--18179010	15	3.2	15	71	5	53	51	0	0	48	1.00
18179844--18179896	13	3.9	13	78	9	61	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18179822--18179897	28	2.8	28	90	6	120	48	0	0	51	1.00
18182170--18182219	22	2.3	22	86	6	66	32	4	4	60	1.34
18182185--18182360	57	3.0	56	82	9	194	43	1	2	52	1.23
18182991--18183029	19	2.0	21	85	10	55	38	7	7	46	1.61
18183275--18183337	6	10.5	6	77	19	69	42	3	0	53	1.16
18183275--18183334	31	1.9	31	93	6	104	43	3	0	53	1.17
18183277--18183340	11	5.5	11	75	14	56	45	3	0	51	1.17
18185271--18185396	30	4.3	29	80	9	134	35	26	3	33	1.75
18185271--18185439	29	5.8	30	73	12	138	36	24	4	34	1.76
18185257--18185434	58	3.1	59	81	6	193	35	23	4	36	1.75
18197237--18197346	38	2.9	38	68	25	106	36	17	18	28	1.93
18197251--18197799	68	7.9	68	88	4	749	35	15	19	29	1.92
18198159--18198217	31	1.9	30	86	10	84	47	3	0	49	1.18
18199233--18199280	22	2.1	23	88	3	71	52	0	16	31	1.45
18200104--18200420	30	10.6	30	83	5	356	39	22	1	36	1.65
18200288--18200342	15	3.3	19	63	36	54	40	27	3	29	1.73
18201671--18201720	17	3.1	15	86	13	57	26	0	4	70	1.05
18206986--18207027	22	1.9	22	90	0	66	35	26	7	30	1.83
18211440--18211468	13	2.3	13	94	5	51	51	0	3	44	1.18
18214935--18214974	15	2.7	15	88	0	53	52	5	5	37	1.45
18215006--18215038	10	3.7	9	88	11	50	33	0	3	63	1.10
18219092--18219131	17	2.4	17	83	8	55	47	2	2	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18229178--18229325	29	5.1	29	71	11	90	33	5	28	32	1.80
18229171--18229423	58	4.4	59	85	5	327	32	6	29	32	1.83
18229171--18229425	114	2.2	119	84	5	342	31	6	29	32	1.83
18229405--18229662	30	8.7	29	87	3	304	34	3	24	37	1.71
18229421--18229662	60	4.1	59	91	2	351	34	3	23	38	1.71
18229460--18229514	19	3.3	19	63	36	54	27	3	27	41	1.72
18229405--18229662	90	2.9	90	87	2	360	34	3	24	37	1.71
18230863--18230905	19	2.3	19	84	8	52	34	2	2	60	1.22
18230874--18230920	15	3.2	15	79	14	53	36	0	4	59	1.17
18231491--18231528	12	2.9	14	84	11	53	15	18	28	36	1.92
18231606--18231713	6	18.0	6	75	14	89	48	1	0	49	1.18
18231649--18231698	25	2.0	25	88	0	73	54	4	0	42	1.19
18231642--18231705	31	2.1	31	91	5	103	53	3	0	43	1.16
18231620--18231713	42	2.3	43	83	5	113	50	2	0	47	1.13
18231643--18231713	17	4.4	16	79	16	85	54	2	0	42	1.14
18232253--18232292	2	20.0	2	100	0	80	50	0	0	50	1.00
18232879--18232982	46	2.3	46	81	6	113	47	7	10	34	1.67
18232897--18232982	46	1.9	44	85	4	118	46	6	10	36	1.65
18242009--18242046	16	2.3	17	86	4	51	65	2	0	31	1.06
18251194--18251235	20	2.1	20	82	8	50	33	2	14	50	1.56
18251602--18251645	16	2.5	18	82	14	56	29	25	11	34	1.91
18253436--18253512	38	2.0	39	89	2	120	59	9	5	25	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18253986--18254018	17	1.9	17	100	0	66	54	6	0	39	1.25
18256201--18256233	16	2.1	16	88	5	50	51	0	0	48	1.00
18256605--18256635	15	2.1	15	94	5	55	38	3	0	58	1.15
18259741--18259885	65	2.2	66	90	2	229	32	13	14	39	1.85
18259960--18260005	23	2.0	22	83	4	56	41	0	0	58	0.98
18276098--18276139	14	3.0	14	77	22	52	52	7	0	40	1.29
18289818--18289864	21	2.5	18	83	16	60	61	2	34	2	1.20
18290710--18290832	23	5.2	24	83	13	139	12	23	21	42	1.87
18290710--18290832	48	2.6	48	89	5	178	12	23	21	42	1.87
18290797--18290871	39	1.9	39	91	0	123	13	21	21	44	1.86
18297382--18297450	20	3.5	20	75	18	65	28	2	2	65	1.22
18297990--18298028	9	4.2	9	90	6	51	64	0	0	35	0.94
18300891--18300976	44	1.9	45	88	2	129	38	6	2	52	1.41
18308519--18308548	15	1.9	15	93	6	51	36	0	0	63	0.95
18309001--18309074	11	6.5	11	73	11	60	44	1	2	51	1.24
18309008--18309074	6	11.7	6	72	15	61	44	1	2	50	1.26
18309008--18309103	17	5.8	16	77	11	68	45	2	4	47	1.33
18309008--18309074	23	2.9	23	82	8	75	44	1	2	50	1.26
18310877--18310981	30	3.5	30	70	13	90	38	18	3	40	1.69
18310876--18311013	60	2.3	58	84	7	170	38	18	3	39	1.68
18310996--18311179	29	6.3	29	71	17	103	35	26	1	36	1.66
18310938--18311247	59	5.3	58	76	8	249	35	24	2	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18322812--18323268	50	9.1	50	67	8	156	38	22	24	14	1.91
18322777--18323384	100	6.1	100	86	3	765	39	21	24	14	1.90
18322777--18323384	201	3.0	200	86	2	799	39	21	24	14	1.90
18323096--18323253	51	3.1	50	74	8	149	40	22	22	13	1.90
18324086--18324168	17	4.9	17	75	12	64	42	3	3	50	1.37
18325920--18326061	30	4.7	30	75	6	126	38	21	2	37	1.69
18325909--18326084	60	3.0	59	83	6	198	36	21	3	38	1.70
18326089--18326349	30	8.9	31	67	20	125	34	28	2	34	1.72
18326043--18326343	59	5.1	59	84	4	360	34	28	3	34	1.74
18326089--18326348	117	2.2	116	88	6	382	34	28	2	33	1.72

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