genome.fa.s3.2.7.7.80.10.50.1000.145.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  145  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)
43895761--43895798	6	6.5	6	87	6	60	47	0	0	52	1.00
43895761--43895796	11	3.2	11	84	7	54	47	0	0	52	1.00
43896520--43896568	20	2.4	19	80	12	53	73	6	2	18	1.14
43897682--43897795	29	3.8	30	77	10	117	35	22	4	36	1.75
43897850--43897925	29	2.6	30	83	6	93	39	18	2	39	1.65
43900275--43900345	21	3.3	21	75	9	72	26	28	18	26	1.98
43901613--43901669	19	3.1	19	80	7	64	56	5	0	38	1.22
43911935--43911964	2	15.0	2	100	0	60	0	50	0	50	1.00
43915118--43915160	13	3.1	14	78	21	54	20	2	0	76	0.89
43915167--43915195	14	2.0	15	93	6	51	41	0	0	58	0.98
43919687--43919728	2	21.0	2	100	0	84	50	0	0	50	1.00
43934246--43934332	29	3.0	28	71	8	68	50	1	11	36	1.46
43934410--43934461	18	3.0	18	77	8	54	51	3	3	40	1.38
43934646--43934720	33	2.4	30	77	18	73	52	2	1	44	1.23
43934691--43934753	33	1.9	32	83	6	81	63	4	0	31	1.15
43935123--43935163	16	2.6	16	75	24	50	36	0	0	63	0.95
43935415--43935462	20	2.5	18	81	15	60	33	0	2	64	1.05
43935712--43935770	10	5.8	10	75	15	50	40	0	3	55	1.16
43935727--43935800	20	3.7	20	83	7	62	36	0	9	54	1.33
43935742--43935807	20	3.2	21	82	4	82	37	0	9	53	1.33
43945023--43945177	59	2.6	60	78	5	154	35	7	23	34	1.82
43945071--43945417	59	5.9	58	81	9	316	34	2	26	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43944976--43945417	118	3.8	115	82	7	414	35	4	26	34	1.75
43945108--43945400	29	10.0	29	78	5	284	34	2	27	36	1.69
43946520--43946564	13	3.4	13	84	3	54	37	6	0	55	1.26
43947752--43948842	92	12.0	92	93	2	1716	32	19	15	32	1.93
43947755--43948827	534	2.0	539	91	3	1737	32	19	16	32	1.94
43953617--43953659	18	2.3	19	80	4	52	4	32	2	60	1.30
43960029--43960205	96	1.8	96	84	7	243	37	10	18	32	1.86
43960479--43960612	59	2.3	58	77	7	137	40	8	21	29	1.82
43960577--43960641	28	2.3	29	78	5	78	30	7	24	36	1.84
43960620--43960812	29	6.6	28	83	9	219	33	1	27	37	1.64
43960596--43960812	58	3.7	57	81	12	232	33	1	27	37	1.66
43960619--43960812	59	3.3	58	86	9	261	33	1	27	37	1.64
43961923--43961967	13	3.4	13	84	3	54	37	6	0	55	1.26
43961972--43962014	3	14.3	3	100	0	86	34	0	0	65	0.93
43962766--43962831	17	3.7	18	82	11	82	53	3	6	37	1.41
43962752--43962831	17	4.6	17	77	13	74	51	2	5	41	1.37
43969701--43969773	27	2.6	28	79	12	80	41	6	20	31	1.79
43969845--43970099	59	4.3	59	75	8	216	36	5	24	34	1.77
43969845--43970104	30	8.7	30	75	7	210	36	5	24	34	1.77
43969874--43970105	89	2.6	90	79	7	233	35	5	23	35	1.78
43971201--43971245	19	2.7	15	76	23	54	51	0	6	42	1.28
43972036--43972090	16	3.4	15	80	14	65	54	5	0	40	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43976522--43976551	13	2.2	14	94	5	53	63	0	0	36	0.95
43977207--43977246	15	2.6	16	84	11	57	67	0	0	32	0.91
43980575--43980712	62	2.2	63	90	1	224	52	2	0	44	1.21
43987334--43987384	23	2.3	23	81	18	63	27	3	3	64	1.28
43987336--43987384	24	2.1	23	85	14	66	26	4	4	65	1.29
43990949--43991010	2	31.5	2	96	3	117	50	0	0	50	1.00
43997271--43997463	59	3.3	57	81	4	224	32	27	2	36	1.71
43997271--43997463	58	3.3	58	79	5	212	32	27	2	36	1.71
43997364--43997464	30	3.4	29	68	20	75	31	26	2	38	1.71
43997306--43997485	58	3.1	59	79	7	145	34	26	3	36	1.73
44001906--44001989	17	4.9	17	70	8	64	52	4	4	38	1.44
44002576--44002745	39	4.4	38	69	16	100	27	15	30	25	1.96
44002580--44002746	78	2.1	78	81	6	196	28	15	30	25	1.96
44003016--44003120	49	2.1	49	82	3	131	20	26	15	38	1.92
44003134--44003409	97	2.8	98	85	4	385	17	24	19	38	1.92
44003136--44003409	49	5.6	50	70	13	201	16	24	19	39	1.92
44003061--44003409	196	1.8	188	84	7	477	17	24	19	38	1.92
44004505--44004538	17	2.0	17	94	0	59	0	8	0	91	0.43
44011312--44011362	26	2.0	26	84	0	66	21	9	39	29	1.85
44011480--44011565	17	5.1	17	75	2	84	54	4	3	37	1.38
44019751--44019789	19	2.1	19	86	13	55	38	2	2	56	1.27
44030040--44030070	14	2.1	15	94	5	55	25	3	19	51	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44030404--44030651	97	2.5	97	86	1	318	18	26	17	36	1.94
44030438--44030601	49	3.4	49	75	14	176	17	26	17	37	1.92
44040869--44040916	24	2.0	24	83	0	60	52	8	16	22	1.71
44045561--44045619	24	2.6	23	78	7	59	20	18	6	54	1.66
44045687--44045757	35	2.0	35	97	0	133	22	5	21	50	1.69
44051096--44051152	21	2.7	22	76	13	57	49	1	1	47	1.22
44052714--44052805	10	9.4	10	67	17	50	55	0	5	39	1.23
44055663--44055720	16	3.7	15	77	9	53	55	3	1	39	1.27
44056263--44056327	21	3.0	20	76	17	60	27	1	3	67	1.14
44056580--44056631	21	2.5	22	84	9	72	63	1	0	34	1.06
44056860--44057114	90	2.9	89	88	4	336	27	35	18	18	1.94
44076025--44076074	3	16.7	3	100	0	100	68	0	0	32	0.90
44076264--44076296	16	2.1	16	88	11	50	51	0	3	45	1.16
44076327--44076389	21	2.9	22	74	6	65	38	0	1	60	1.07
44077217--44077259	12	3.7	11	78	9	50	23	0	2	74	0.93
44077936--44077962	6	4.5	6	100	0	54	14	0	37	48	1.45
44078955--44078984	6	5.0	6	100	0	60	83	0	0	16	0.65
44084993--44085044	27	1.9	27	84	7	70	51	0	0	48	1.00
44092687--44092729	22	2.0	22	85	0	59	53	6	13	25	1.65
44093811--44093885	17	4.4	17	86	9	91	46	2	1	49	1.24
44093821--44093883	23	2.8	22	77	15	74	46	3	0	50	1.17
44093821--44093885	6	11.2	6	80	12	82	47	3	0	49	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44095674--44095736	30	2.1	30	96	0	117	39	20	3	36	1.69
44095688--44095751	30	2.2	30	85	2	85	35	31	1	31	1.67
44095747--44095892	29	5.0	30	70	12	124	31	30	4	34	1.77
44095704--44095898	59	3.3	60	86	5	258	32	30	4	33	1.77
44095730--44095898	59	2.9	59	91	2	263	30	31	4	33	1.77
44095734--44095935	59	3.4	58	87	4	221	29	31	6	32	1.83
44097886--44097932	17	2.5	20	80	19	64	25	0	4	70	1.05
44097888--44097929	20	2.3	17	88	12	57	21	0	4	73	1.01
44103185--44103245	31	1.9	33	83	6	81	34	0	3	62	1.12
44103208--44103245	20	1.9	20	89	10	60	26	0	5	68	1.11
44107496--44107549	18	2.9	19	81	10	67	61	3	0	35	1.14
44107496--44107553	20	3.0	20	80	14	68	58	3	0	37	1.15
44114640--44114672	16	2.0	17	94	5	59	57	24	0	18	1.40
44127675--44127807	50	2.7	50	87	4	171	35	20	25	18	1.95
44128526--44128557	16	1.9	17	93	6	57	59	18	0	21	1.38
44137550--44137606	9	6.3	9	95	0	96	21	40	0	38	1.53
44150872--44151028	41	3.8	41	85	3	190	28	27	21	22	1.99
44150971--44151039	23	3.2	22	64	19	56	31	24	23	20	1.98
44152043--44152072	9	3.3	9	100	0	60	0	20	0	80	0.72
44158043--44158092	23	2.2	22	89	3	73	38	0	6	56	1.24
44158554--44158593	16	2.6	16	84	7	57	45	0	0	55	0.99
44162940--44163093	78	1.9	81	83	6	199	24	19	11	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44163253--44163354	29	3.5	28	74	19	100	44	12	16	26	1.84
44163253--44163434	60	3.0	59	86	4	238	46	11	17	24	1.81
44163309--44163415	29	3.6	29	73	19	103	46	12	17	23	1.82
44166411--44166580	23	7.3	23	80	7	164	11	24	21	42	1.86
44166411--44166577	71	2.4	69	79	11	180	11	25	21	41	1.86
44167194--44167523	71	4.7	71	83	1	369	33	22	16	27	1.96
44167194--44167523	142	2.3	142	84	2	441	33	22	16	27	1.96
44193896--44193941	21	2.2	21	88	0	65	32	13	8	45	1.73
44197592--44197651	28	2.1	28	82	14	70	40	0	0	60	0.97
44197610--44197656	22	2.1	22	84	7	60	40	0	0	59	0.97

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