genome.fa.s3.2.7.7.80.10.50.1000.34.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  34  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)
15502720--15502746	4	6.8	4	100	0	54	51	0	0	48	1.00
15503430--15503464	3	11.7	3	100	0	70	34	0	65	0	0.93
15504396--15504423	13	2.2	13	100	0	56	17	21	32	28	1.96
15509004--15509029	2	13.0	2	100	0	52	50	0	0	50	1.00
15509982--15510066	42	2.0	42	100	0	170	42	9	7	41	1.64
15522765--15522806	22	1.9	22	90	0	66	47	11	2	38	1.53
15522771--15522815	22	2.0	22	82	0	54	42	13	4	40	1.64
15529699--15529853	55	2.9	55	82	7	192	25	19	16	39	1.91
15529808--15530383	59	9.6	57	75	14	352	28	17	14	38	1.90
15529814--15530372	118	4.7	119	78	10	463	28	17	14	38	1.89
15530807--15530929	60	2.0	60	84	3	158	38	12	18	30	1.88
15531243--15531309	23	2.8	24	80	13	75	50	0	0	49	1.00
15531243--15531309	12	5.6	12	70	22	52	50	0	0	49	1.00
15532305--15532348	18	2.4	19	81	11	56	54	0	22	22	1.45
15532737--15532788	25	2.1	24	82	10	61	36	3	1	57	1.28
15538307--15538415	31	3.5	32	67	13	84	26	13	10	49	1.74
15538264--15538446	59	3.0	59	84	4	215	27	13	8	50	1.70
15538587--15538673	32	2.7	32	87	7	115	49	6	17	26	1.71
15540336--15540445	25	4.3	25	71	18	75	39	4	0	55	1.27
15540390--15540445	23	2.3	23	84	6	67	44	1	0	53	1.11
15540390--15540464	23	3.1	24	76	16	66	41	1	1	56	1.16
15560211--15560244	14	2.3	15	90	5	52	29	14	0	55	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15562843--15562898	29	2.0	29	92	3	96	67	0	5	26	1.11
15564841--15564906	23	2.9	22	74	17	62	46	1	1	50	1.20
15568963--15568999	16	2.3	16	100	0	74	21	0	29	48	1.50
15579303--15579335	17	1.9	17	93	0	57	63	3	0	33	1.10
15581555--15581587	14	2.3	15	89	5	50	30	9	0	60	1.27
15581671--15581702	2	16.0	2	93	0	55	50	3	0	46	1.17
15599822--15600027	103	2.0	103	88	3	308	36	13	16	33	1.88
15601460--15601633	23	7.5	23	80	10	167	43	21	23	12	1.86
15601460--15601611	69	2.2	67	85	11	200	44	21	22	11	1.85
15601461--15601633	46	3.7	47	81	9	185	42	21	23	12	1.86
15601849--15601914	31	2.1	31	100	0	132	34	12	9	43	1.73
15604291--15604327	18	2.1	18	89	0	56	54	2	0	43	1.14
15604322--15604357	19	1.9	19	88	5	56	41	0	2	55	1.14
15608097--15608138	9	4.6	9	82	5	57	50	9	19	21	1.75
15609860--15609924	30	2.2	30	86	2	87	52	6	1	40	1.36
15609992--15610035	19	2.3	19	100	0	88	22	29	25	22	1.99
15610993--15611062	36	2.0	34	81	13	81	38	4	5	51	1.45
15625421--15625476	4	13.8	4	85	10	69	71	0	28	0	0.86
15625421--15625471	17	3.0	17	85	8	68	70	0	29	0	0.87
15625420--15625482	21	3.0	21	86	6	85	66	0	33	0	0.92
15630341--15630382	21	2.0	21	90	4	68	61	14	0	23	1.32
15630617--15630646	4	7.8	4	92	7	53	0	23	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15637521--15637553	2	16.5	2	100	0	66	51	0	0	48	1.00
15638345--15638378	2	17.0	2	100	0	68	50	0	0	50	1.00
15640043--15640097	24	2.2	24	78	9	58	67	14	5	12	1.40
15640071--15640165	43	2.2	42	87	9	131	69	15	6	8	1.34
15640071--15640165	42	2.2	43	87	5	131	69	15	6	8	1.34
15640361--15640424	29	2.2	29	88	0	92	32	3	10	53	1.52
15640966--15641010	24	1.9	24	81	4	56	51	2	2	44	1.26
15646153--15646191	20	2.0	20	85	10	53	28	0	17	53	1.44
15648584--15648611	3	9.3	3	100	0	56	64	0	0	35	0.94
15652390--15652438	15	3.4	15	80	5	57	36	4	4	55	1.38
15663102--15663128	2	13.5	2	100	0	54	48	0	0	51	1.00
15679746--15679796	24	2.1	24	92	0	84	25	9	5	58	1.52
15680384--15680449	29	2.3	28	82	12	82	22	3	13	60	1.47
15684976--15685022	6	7.8	6	95	0	85	48	0	36	14	1.44
15696656--15696684	3	9.7	3	100	0	58	31	0	34	34	1.58
15711515--15711539	11	2.3	11	100	0	50	72	0	0	28	0.86
15720350--15720384	1	35.0	1	94	0	61	2	0	97	0	0.19
15729741--15729770	2	15.0	2	100	0	60	50	0	0	50	1.00
15734421--15734492	14	4.9	16	66	28	52	56	1	0	41	1.07
15734421--15734512	31	3.1	30	66	21	77	57	2	0	40	1.11
15746042--15746079	13	2.9	13	88	7	51	42	0	0	57	0.98
15747318--15747345	11	2.5	11	100	0	56	7	7	25	60	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15747346--15747390	12	3.8	12	76	5	56	11	4	13	71	1.29
15747345--15747420	24	3.2	24	81	3	91	10	3	15	69	1.31
15747367--15747407	15	2.8	15	79	17	50	7	4	19	68	1.32
15753038--15753473	224	1.9	226	86	2	619	35	15	8	40	1.79
15754270--15754298	6	4.8	6	100	0	58	82	0	17	0	0.66
15755506--15755576	31	2.3	31	86	11	94	43	19	14	22	1.87
15757210--15757279	29	2.4	30	81	9	74	55	7	1	35	1.36
15772215--15772278	31	2.1	30	85	5	85	42	10	9	37	1.73
15777123--15777163	10	4.0	10	84	6	55	7	0	14	78	0.96
15777150--15777185	18	2.0	18	88	0	54	13	2	8	75	1.15
15777178--15777221	22	2.0	22	81	0	52	13	6	13	65	1.44
15777188--15777229	22	1.9	22	90	0	66	16	7	9	66	1.42
15777223--15777316	12	8.2	12	75	9	79	8	3	17	71	1.24
15777864--15777905	22	1.9	22	85	0	57	54	2	9	33	1.46
15800759--15800792	16	2.1	16	100	0	68	38	38	0	23	1.55
15801053--15801091	4	9.5	4	83	5	51	23	5	2	69	1.21
15801905--15801963	31	1.9	31	92	0	100	38	8	8	44	1.65
15804151--15804209	31	1.9	31	100	0	118	47	10	8	33	1.68
15804507--15804578	35	2.0	36	89	2	110	45	4	5	44	1.46
15813270--15813312	21	2.1	20	87	12	61	32	25	11	30	1.91
15827092--15827126	18	1.9	18	88	11	54	82	0	17	0	0.66
15833158--15833189	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15847010--15847075	31	2.2	30	81	10	73	43	16	16	22	1.87
15850568--15850677	55	2.0	55	87	7	161	41	21	2	33	1.68
15863062--15863138	30	2.6	29	81	4	91	25	6	9	58	1.53
15871638--15871691	20	2.7	21	80	8	58	61	5	0	33	1.19
15872612--15872801	93	2.0	94	88	7	280	36	5	9	48	1.58
15873006--15873062	17	3.5	16	75	11	62	33	0	5	61	1.18
15885849--15885882	12	2.9	11	87	12	50	26	0	2	70	1.01
15886482--15886510	1	29.0	1	100	0	58	0	100	0	0	0.00
15897087--15897129	2	21.5	2	100	0	86	0	48	0	51	1.00
15902219--15902270	23	2.1	26	82	10	65	42	1	1	53	1.23
15905773--15906193	139	3.0	139	96	0	763	23	14	20	42	1.88
15907016--15907064	25	2.0	25	100	0	98	44	6	20	28	1.75
15911018--15911162	57	2.5	56	81	12	170	45	2	1	50	1.24
15911065--15911158	31	3.1	31	65	24	74	46	1	2	50	1.20
15911079--15911160	26	3.0	26	67	20	67	46	0	2	51	1.14
15911065--15911184	57	2.0	60	84	7	158	49	2	1	46	1.25
15911332--15911371	16	2.5	16	91	0	71	27	27	7	37	1.84
15926567--15926622	13	4.3	13	73	6	51	26	5	3	64	1.32
15928673--15928706	17	2.0	17	88	0	50	38	11	14	35	1.83
15937470--15937495	4	6.5	4	100	0	52	26	23	50	0	1.50
15959610--15959747	67	2.1	67	100	0	276	52	5	24	16	1.65
15960046--15960095	24	2.1	24	84	0	64	58	2	4	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15960668--15960704	19	1.9	19	88	0	56	27	0	5	67	1.12
15960696--15960798	51	2.0	50	83	5	127	40	1	10	46	1.50
15965602--15965664	32	2.0	31	87	3	90	36	9	12	41	1.76
15976256--15976282	12	2.2	12	100	0	54	22	7	0	70	1.12
15977818--15977856	18	2.2	18	86	9	53	17	0	5	76	0.96
15977824--15977871	24	2.0	23	84	4	60	22	4	6	66	1.32
15977851--15977934	31	2.9	28	75	16	89	23	14	11	50	1.76
15980385--15980454	2	35.0	2	100	0	140	0	50	0	50	1.00
15991687--15991810	23	5.8	22	70	21	102	70	5	0	24	1.09
15991706--15991809	42	2.5	42	98	0	199	69	5	0	25	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   
          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