genome.fa.s8.2.7.7.80.10.50.1000.19.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   

This is table  19  of  163  ( 19493 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)
5354667--5354861	86	2.3	86	90	1	302	23	24	17	34	1.96
5354467--5355061	286	2.1	286	91	1	962	22	22	18	35	1.96
5354753--5355383	200	3.2	200	94	0	1102	22	21	20	35	1.96
5354278--5355261	486	2.0	487	89	1	1510	22	22	19	35	1.96
5366256--5366448	96	2.0	96	96	0	359	37	15	22	24	1.93
5367670--5367772	30	3.4	30	75	18	115	34	1	29	33	1.69
5367606--5367785	59	3.1	58	89	5	274	34	1	31	32	1.68
5367604--5367774	29	5.8	29	71	19	131	34	2	30	32	1.71
5369592--5369658	13	5.0	13	71	22	50	14	17	26	40	1.89
5369606--5369653	13	3.8	12	76	13	51	10	20	27	41	1.85
5369590--5369658	26	2.6	27	88	9	106	15	17	26	40	1.89
5369723--5369763	17	2.3	18	91	4	66	53	0	2	43	1.13
5370523--5370602	39	2.1	39	90	0	124	23	3	25	47	1.68
5374632--5374685	27	2.0	28	85	10	76	48	37	7	7	1.59
5374791--5374845	25	2.2	25	96	0	101	20	45	12	21	1.84
5376424--5376880	29	15.5	28	68	17	153	33	24	4	37	1.75
5376434--5376880	59	7.6	59	77	8	229	32	24	4	38	1.76
5376566--5376885	59	5.4	58	80	5	306	32	25	5	36	1.79
5376434--5376909	117	4.0	117	77	8	353	32	25	4	37	1.77
5376867--5376927	28	2.1	29	96	3	115	32	27	9	29	1.89
5376744--5376929	29	6.3	30	72	15	120	31	26	8	33	1.85
5376865--5376937	28	2.5	29	86	8	105	31	27	8	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5378282--5378322	18	2.3	18	86	0	55	51	21	7	19	1.71
5382110--5382187	23	3.4	23	77	8	79	70	15	5	8	1.30
5382113--5382198	21	4.1	20	76	5	64	70	12	5	10	1.31
5382136--5382170	18	1.9	18	88	0	52	77	5	2	14	1.07
5386775--5386862	31	3.2	26	77	17	88	42	9	0	48	1.34
5386808--5386862	25	2.1	27	90	6	87	40	12	0	47	1.42
5396205--5396255	25	2.0	27	92	7	88	45	9	9	35	1.71
5399332--5399374	22	2.0	22	85	0	59	65	9	4	20	1.40
5400735--5400772	20	1.9	20	88	0	58	44	13	2	39	1.57
5402934--5402991	18	3.2	18	92	2	89	48	32	17	1	1.57
5402939--5402986	9	5.3	9	84	0	69	50	33	16	0	1.46
5403318--5403350	17	2.0	16	94	5	57	0	15	0	84	0.61
5407091--5407165	36	2.1	36	92	0	123	41	22	10	25	1.86
5408653--5408696	20	2.2	20	100	0	88	56	13	15	13	1.67
5409104--5409152	18	2.7	18	78	9	55	40	6	4	48	1.47
5409162--5409201	17	2.5	16	92	8	64	37	0	10	52	1.35
5409275--5409313	13	2.9	13	85	14	53	43	25	15	15	1.86
5409259--5409311	14	3.8	14	78	16	56	43	26	15	15	1.85
5409243--5409322	27	3.2	24	81	13	99	42	27	15	15	1.86
5409832--5409892	7	9.3	7	79	13	67	49	0	3	47	1.18
5409836--5409892	13	4.4	13	74	14	55	49	0	3	47	1.18
5409832--5409892	19	3.1	19	80	4	77	49	0	3	47	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5410551--5410615	33	2.0	32	84	6	85	16	16	7	58	1.60
5410947--5411144	29	6.9	27	69	23	102	31	28	4	35	1.76
5410949--5411144	58	3.4	57	83	8	245	31	29	4	35	1.76
5410952--5411182	116	2.0	115	82	9	281	29	29	5	35	1.80
5415141--5415294	30	5.1	30	82	10	147	36	24	0	38	1.61
5415141--5415303	60	2.7	60	81	5	188	36	24	0	38	1.60
5415180--5415323	30	4.9	29	83	7	69	35	27	1	35	1.66
5417533--5417570	19	2.0	19	94	0	67	36	13	15	34	1.87
5417886--5417942	27	2.2	26	83	3	69	42	0	1	56	1.10
5417885--5417943	26	2.3	26	79	5	66	44	0	1	54	1.10
5419790--5420332	197	2.8	191	85	8	659	32	22	20	24	1.98
5431429--5431465	18	2.1	19	90	10	60	40	0	2	56	1.13
5433806--5433855	9	5.2	10	76	23	54	44	16	0	40	1.47
5433792--5433855	16	3.8	17	77	22	64	43	12	1	42	1.52
5444365--5444389	2	12.5	2	100	0	50	52	0	0	48	1.00
5452852--5452885	16	2.1	16	94	0	59	32	32	0	35	1.58
5457460--5457520	21	2.7	23	80	7	81	44	0	1	54	1.10
5492458--5492507	22	2.3	22	86	6	66	78	10	6	6	1.10
5493132--5493174	22	2.0	22	90	4	70	51	0	0	48	1.00
5493096--5493171	30	2.6	30	89	4	111	47	1	1	50	1.18
5493806--5493849	20	2.2	20	87	0	61	61	9	4	25	1.45
5494118--5494164	15	3.1	15	78	6	58	42	4	0	53	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5494127--5494171	16	2.9	15	80	6	54	48	4	0	46	1.22
5500004--5500031	13	2.2	13	100	0	56	28	7	7	57	1.52
5505075--5505322	53	4.7	53	85	0	318	35	22	13	27	1.92
5505075--5505322	106	2.4	105	88	0	370	35	22	13	27	1.92
5505780--5505811	16	2.0	16	100	0	64	31	18	12	37	1.88
5506541--5506652	58	1.9	58	82	5	138	30	21	19	28	1.98
5508914--5508972	13	4.5	13	72	18	50	57	3	0	38	1.15
5509083--5509128	18	2.5	19	79	10	51	43	4	0	52	1.21
5509867--5509917	23	2.3	22	89	3	75	49	5	17	27	1.70
5511962--5512020	31	1.9	31	86	6	84	45	3	15	35	1.63
5513358--5513815	59	7.8	59	84	2	532	34	1	29	33	1.69
5513333--5513816	177	2.8	176	86	3	647	35	1	28	33	1.68
5513448--5513733	30	9.6	30	67	14	130	36	2	29	32	1.72
5513715--5513823	29	3.8	28	68	25	75	39	0	26	33	1.63
5515773--5515807	18	1.9	18	100	0	70	17	8	17	57	1.64
5516281--5516861	200	2.9	200	88	2	881	19	22	20	37	1.95
5528634--5528704	28	2.5	28	81	6	81	35	0	26	38	1.57
5528634--5528802	29	5.8	29	69	10	110	34	2	27	36	1.70
5528805--5529088	29	9.7	29	64	27	93	36	3	27	33	1.74
5528659--5529223	59	9.6	59	82	4	599	35	3	27	32	1.74
5531194--5531228	18	1.9	18	88	0	52	14	8	20	57	1.63
5535576--5535626	23	2.2	23	85	0	66	45	5	21	27	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5542791--5542835	24	1.9	23	86	13	65	26	0	2	71	0.98
5542806--5542841	18	2.1	17	89	5	54	27	0	0	72	0.85
5543059--5543094	18	2.1	17	89	5	54	27	0	0	72	0.85
5542644--5543139	253	2.0	254	97	1	933	38	5	7	47	1.56
5542927--5543515	305	1.9	306	94	2	1042	36	6	10	46	1.64
5543364--5543399	18	2.1	17	89	5	54	27	0	0	72	0.85
5560008--5560050	13	3.2	13	81	15	52	69	0	4	25	1.07
5565024--5565083	6	10.0	6	91	7	77	11	50	21	16	1.77
5579008--5579050	18	2.4	18	80	7	52	46	2	0	51	1.13
5582147--5582188	22	1.9	22	95	0	75	30	16	26	26	1.97
5584504--5584607	41	2.5	42	85	4	140	37	28	16	17	1.91
5593290--5593341	25	2.1	24	82	10	61	67	1	1	28	1.12
5599532--5599603	33	2.2	33	89	0	108	16	6	34	41	1.75
5608172--5608363	96	2.0	96	88	4	289	38	16	18	27	1.92
5608582--5609027	29	15.2	29	77	13	307	32	4	26	35	1.77
5608603--5609027	59	7.2	60	76	12	309	33	4	26	35	1.77
5608597--5608998	88	4.6	86	80	9	370	33	4	27	35	1.77
5608597--5609071	59	8.1	60	74	11	222	34	4	26	34	1.77
5608853--5609071	30	7.3	30	78	10	155	35	5	25	34	1.78
5609944--5609976	17	2.0	17	88	5	50	33	12	9	45	1.73
5610164--5610221	30	2.0	29	86	3	80	48	1	1	48	1.22
5611836--5612677	201	4.2	201	91	1	1296	23	23	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5617986--5618016	13	2.4	13	100	0	62	29	19	0	51	1.47
5622692--5623529	421	2.0	421	98	0	1604	27	23	15	32	1.95
5627415--5627550	55	2.5	55	90	2	211	13	32	23	30	1.94
5631463--5631487	13	1.9	13	100	0	50	32	4	0	64	1.12
5631505--5631640	33	4.2	32	65	18	91	54	1	2	41	1.24
5631914--5631957	19	2.3	19	84	7	54	45	2	4	47	1.35
5632031--5632093	22	2.8	23	69	9	58	50	7	3	38	1.47
5632138--5632526	80	4.9	80	83	4	425	35	12	10	41	1.76
5632212--5632533	159	2.0	160	86	1	448	35	13	10	40	1.80
5632955--5633015	30	2.0	30	90	0	95	40	13	16	29	1.86

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