genome.fa.s25.2.7.7.80.10.50.1000.185.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   

This is table  185  of  196  ( 23409 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)
54334372--54334410	18	2.2	18	90	0	60	30	10	20	38	1.86
54338477--54338601	43	2.9	43	77	11	130	32	28	19	20	1.96
54338610--54338811	98	2.1	98	97	0	379	32	22	13	30	1.93
54341132--54341174	22	2.0	21	82	8	52	51	6	4	37	1.50
54341415--54341458	22	2.0	23	86	8	65	40	9	6	43	1.63
54342892--54342918	2	13.5	2	100	0	54	0	0	48	51	1.00
54350035--54350060	7	3.7	7	100	0	52	73	0	26	0	0.84
54362528--54362588	31	2.0	31	93	0	104	34	8	24	32	1.85
54364295--54364349	17	3.2	16	78	14	56	38	0	14	47	1.45
54364836--54364940	21	5.0	21	78	4	106	16	26	15	41	1.87
54364840--54364940	42	2.4	42	85	4	125	15	26	14	42	1.86
54369589--54369644	9	6.2	9	73	8	51	21	1	1	75	0.99
54369778--54369820	17	2.5	18	81	11	54	16	6	0	76	0.99
54370806--54370843	11	3.5	11	79	13	51	78	5	10	5	1.06
54371809--54371843	15	2.3	15	90	9	54	51	22	0	25	1.48
54372511--54373079	41	13.9	41	88	1	764	34	27	17	20	1.95
54372550--54373079	82	6.5	82	96	0	936	34	26	17	20	1.95
54373194--54373374	64	2.9	63	89	8	262	41	17	8	32	1.79
54375022--54375048	9	3.0	9	100	0	54	44	11	44	0	1.39
54375232--54375282	23	2.2	23	82	0	57	49	17	25	7	1.74
54376042--54376238	98	2.0	98	94	0	349	24	19	16	39	1.92
54392947--54393034	44	2.0	42	84	8	113	76	1	3	19	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54402147--54402178	14	2.3	14	94	0	55	28	46	15	9	1.77
54419408--54419443	18	1.9	19	88	5	56	22	8	25	44	1.80
54422104--54422131	4	7.0	4	100	0	56	25	50	0	25	1.50
54427445--54427635	36	5.0	36	81	12	238	37	12	20	30	1.89
54427409--54427598	82	2.3	82	93	0	317	37	11	21	30	1.88
54439409--54439657	50	4.8	50	85	4	284	20	29	24	26	1.99
54439408--54439657	100	2.4	104	88	6	357	20	29	24	26	1.99
54439752--54439783	13	2.5	13	94	0	55	56	12	0	31	1.37
54439995--54440052	30	1.9	30	89	0	89	31	24	3	41	1.71
54443991--54444022	5	6.4	5	100	0	64	40	0	0	59	0.97
54444974--54445111	40	3.5	39	71	12	104	28	18	23	29	1.98
54451374--54451410	2	18.5	2	100	0	74	48	0	51	0	1.00
54456418--54456526	36	3.0	36	98	0	209	29	20	11	38	1.88
54456329--54456562	82	2.8	86	78	18	257	28	21	13	36	1.91
54462813--54462845	6	5.5	6	96	0	57	12	0	30	57	1.35
54468766--54468819	22	2.4	23	84	3	65	24	5	5	64	1.36
54482655--54482683	11	2.5	12	88	11	51	27	0	0	72	0.85
54483561--54483597	15	2.5	15	87	12	58	24	16	8	51	1.71
54485765--54485820	29	1.9	29	88	0	85	28	17	17	35	1.93
54485759--54485827	29	2.4	29	82	0	84	28	17	17	36	1.93
54494344--54494440	20	4.6	20	68	18	61	34	1	9	55	1.39
54494327--54494464	66	2.1	66	90	0	213	33	0	11	54	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54494352--54494464	33	3.5	31	67	14	84	35	0	10	53	1.42
54495552--54495594	20	2.2	20	87	8	61	58	0	2	39	1.11
54495755--54495820	11	6.4	10	80	15	64	43	0	1	54	1.09
54496021--54496054	17	1.9	17	88	5	50	23	0	2	73	0.97
54503605--54503654	17	2.7	20	78	18	70	10	0	44	46	1.37
54508234--54508283	17	2.7	20	78	18	70	10	0	44	46	1.37
54519090--54519121	16	2.0	16	100	0	64	50	6	12	31	1.65
54520406--54520448	17	2.7	15	83	13	59	13	4	13	67	1.38
54521966--54522021	22	2.6	21	86	8	76	39	19	26	14	1.90
54521967--54522034	22	3.0	22	78	18	70	38	20	25	16	1.92
54522913--54522937	13	1.9	13	100	0	50	0	16	0	84	0.63
54525863--54525910	17	2.9	17	87	3	62	29	0	16	54	1.43
54530589--54530772	46	4.0	46	92	0	296	35	9	26	28	1.87
54534280--54534354	23	3.3	23	96	0	132	17	21	28	33	1.96
54538699--54538773	23	3.3	23	96	0	132	17	21	28	33	1.96
54552200--54552259	31	2.0	30	83	3	75	45	11	5	38	1.63
54557397--54557444	24	2.0	24	100	0	96	29	25	12	33	1.92
54562733--54562779	12	3.4	13	83	16	51	72	2	0	25	0.96
54574784--54574829	16	2.8	17	70	9	51	41	4	0	54	1.20
54587965--54588014	22	2.3	22	79	6	57	58	6	18	18	1.59
54588907--54589047	70	2.0	70	97	0	264	36	13	17	32	1.88
54600425--54600459	17	2.1	17	100	0	70	42	11	0	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54605443--54605477	18	1.9	18	88	0	52	22	5	17	54	1.64
54608443--54608486	22	2.0	22	86	4	63	38	2	4	54	1.33
54613289--54613326	18	2.1	19	85	14	53	47	7	23	21	1.77
54616421--54616461	17	2.4	17	95	0	73	41	12	12	34	1.80
54622013--54622105	18	5.2	18	85	0	132	32	15	23	29	1.95
54622013--54622105	36	2.6	36	89	0	150	32	15	23	29	1.95
54629228--54629275	22	2.2	22	84	0	60	54	4	0	41	1.20
54630758--54630809	21	2.5	21	84	6	61	44	5	0	50	1.26
54633731--54633796	12	5.5	12	80	5	80	4	24	6	65	1.35
54633731--54633805	24	3.1	24	88	3	98	4	25	5	65	1.31
54653832--54653977	37	4.0	37	93	1	242	24	21	16	36	1.94
54653941--54654260	46	6.6	46	86	8	388	28	21	14	35	1.93
54653984--54654254	52	5.3	52	87	6	385	28	22	14	35	1.92
54653941--54654246	149	2.0	150	94	1	533	28	21	14	35	1.93
54653940--54654260	98	3.3	97	87	7	436	28	22	14	35	1.93
54657382--54657576	49	4.0	49	93	0	309	31	29	14	24	1.95
54658830--54658975	37	4.0	37	93	1	242	24	21	16	36	1.94
54658982--54659253	52	5.3	52	86	6	385	27	22	13	35	1.93
54658950--54659245	150	2.0	150	94	0	520	28	21	14	35	1.93
54658939--54659259	98	3.3	98	87	7	447	28	22	14	34	1.93
54662071--54662146	38	2.0	38	94	2	136	34	1	17	47	1.56
54662209--54662255	24	2.0	24	82	0	58	4	29	2	63	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54663048--54663101	21	2.6	21	90	0	90	22	9	38	29	1.85
54665208--54665239	15	2.1	16	94	5	57	75	3	6	15	1.14
54666461--54666528	36	1.9	35	87	3	100	39	14	14	30	1.87
54675031--54675085	21	2.7	20	86	8	74	30	5	32	30	1.80
54683192--54683241	19	2.6	19	83	3	64	54	6	4	36	1.44
54684529--54684592	28	2.3	28	94	0	110	14	4	42	39	1.66
54686753--54686828	23	3.3	23	90	0	125	28	26	22	22	1.99
54705962--54707087	587	1.9	588	96	0	2083	35	12	17	34	1.88
54709131--54709163	14	2.3	15	94	5	59	0	33	0	66	0.92
54712074--54712111	20	1.9	20	94	0	67	55	0	26	18	1.43
54712947--54712996	16	3.2	16	70	18	52	42	4	0	54	1.19
54712945--54713014	29	2.5	26	76	14	68	47	4	1	47	1.31
54713753--54713815	32	2.0	32	96	0	117	41	6	12	39	1.69
54716735--54716778	21	2.1	22	84	12	58	25	4	4	65	1.30
54716861--54716908	24	2.0	25	84	12	64	64	2	0	33	1.05
54725362--54725458	48	2.0	48	100	0	194	35	19	22	22	1.96
54730299--54730339	21	2.0	21	90	0	64	29	21	29	19	1.98
54755926--54756089	40	4.1	40	87	6	233	36	2	0	60	1.10
54755936--54756096	11	15.4	11	71	17	94	36	3	0	60	1.12
54762509--54762552	22	2.0	22	86	0	61	70	0	0	29	0.88
54764460--54764540	27	3.0	27	78	12	76	44	2	8	44	1.48
54764515--54764581	29	2.3	30	82	7	75	46	2	4	46	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54778560--54778636	34	2.2	35	88	9	120	45	12	15	25	1.82
54778570--54778636	34	2.0	34	96	0	125	43	13	14	28	1.84
54798446--54798498	24	2.2	24	86	0	70	39	3	7	49	1.49
54798463--54798508	24	1.9	24	86	8	67	41	6	4	47	1.49
54811682--54811715	16	2.1	16	88	0	50	67	0	2	29	1.05
54812664--54812725	32	1.9	34	87	9	94	45	9	4	40	1.58
54813060--54813087	13	2.2	13	100	0	56	21	14	32	32	1.93
54813904--54813956	21	2.5	21	90	0	79	30	35	9	24	1.87
54814058--54814092	13	2.7	13	90	0	61	31	5	22	40	1.78
54814325--54814381	23	2.5	21	77	11	60	49	0	5	45	1.24

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   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196