genome.fa.s26.2.7.7.80.10.50.1000.182.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   

This is table  182  of  221  ( 26413 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)
54189147--54189200	27	2.0	27	96	0	99	14	27	18	38	1.90
54189458--54189718	130	2.0	130	93	0	450	33	14	23	28	1.94
54194251--54194292	19	2.2	19	86	0	57	42	7	9	40	1.65
54195529--54195576	23	2.1	23	85	14	64	52	0	2	45	1.12
54199687--54199734	20	2.4	20	96	0	87	31	4	18	45	1.68
54203419--54203481	24	2.5	25	84	10	83	44	6	0	49	1.28
54203541--54203614	27	2.7	27	87	8	98	25	29	29	14	1.95
54203845--54203873	3	9.7	3	100	0	58	0	0	31	68	0.89
54204765--54204802	18	2.1	18	90	0	58	34	7	44	13	1.72
54208714--54208916	46	4.3	48	88	7	265	35	14	21	28	1.92
54208648--54208916	98	2.7	98	93	0	457	34	14	22	28	1.93
54208880--54209024	37	4.0	37	91	3	233	36	16	22	24	1.94
54208880--54209024	73	2.0	72	93	1	245	36	16	22	24	1.94
54213190--54213244	24	2.3	24	90	0	92	38	0	12	49	1.41
54213221--54213706	159	3.0	162	71	12	530	30	11	8	50	1.68
54214175--54214204	16	1.9	15	93	6	51	26	3	0	70	1.03
54214746--54214900	36	4.2	36	75	15	129	0	32	0	67	0.96
54214745--54214886	42	3.5	42	81	11	188	0	30	0	69	0.94
54214756--54214890	41	3.3	43	79	15	137	0	28	0	70	0.93
54214999--54215023	9	2.8	9	100	0	50	0	0	8	92	0.40
54218112--54218145	16	2.1	16	88	0	50	20	14	20	44	1.87
54218587--54218633	19	2.5	19	86	6	60	27	19	8	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54220507--54220544	18	2.1	18	95	0	67	18	15	7	57	1.62
54222483--54222543	22	2.7	22	79	2	68	39	18	4	37	1.72
54222689--54222834	45	3.3	45	71	16	133	30	17	26	26	1.97
54222662--54222854	88	2.2	88	85	3	255	27	20	24	26	1.99
54223207--54223571	44	8.4	43	69	9	233	31	20	21	27	1.98
54223194--54223358	89	1.9	89	87	2	242	33	18	20	28	1.96
54223240--54223526	129	2.2	130	85	1	371	31	20	20	27	1.98
54223411--54223581	85	2.0	85	91	0	279	28	23	19	28	1.98
54224369--54224407	19	2.0	20	85	14	55	12	10	0	76	1.01
54225414--54225486	36	2.0	36	97	0	137	35	9	8	46	1.66
54226625--54226686	29	2.1	30	90	3	99	12	20	24	41	1.87
54235647--54235686	21	2.0	20	85	14	55	32	0	5	62	1.17
54242948--54243029	42	2.0	42	92	0	137	30	12	8	48	1.70
54250731--54250823	46	2.0	46	93	0	159	29	23	10	36	1.89
54254405--54254473	31	2.2	30	80	10	77	40	0	0	59	0.97
54268499--54268556	22	2.6	22	81	5	64	25	17	18	37	1.93
54268523--54268578	20	2.7	22	81	10	64	25	17	17	39	1.92
54270789--54271001	67	3.2	67	86	4	295	21	21	19	37	1.95
54272072--54272127	24	2.3	24	87	0	85	51	7	0	41	1.29
54272334--54272404	3	23.7	3	85	0	97	61	2	2	32	1.24
54272803--54272827	12	2.1	12	100	0	50	60	0	40	0	0.97
54273655--54273785	45	2.9	45	81	4	156	22	19	13	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54275093--54275137	3	15.0	3	100	0	90	66	0	0	33	0.92
54279839--54280129	109	2.7	108	89	3	415	35	18	16	29	1.93
54280308--54280354	18	2.5	18	80	13	51	70	6	6	17	1.30
54280480--54280521	16	2.8	16	82	10	54	38	7	11	42	1.69
54280838--54280919	29	2.7	29	77	21	78	58	1	10	29	1.40
54286573--54286615	17	2.5	17	88	3	59	27	30	25	16	1.97
54286572--54286638	18	3.8	17	76	5	62	29	26	23	19	1.98
54292364--54292431	34	2.0	34	100	0	136	38	11	8	41	1.73
54295446--54295538	36	2.6	36	82	0	105	20	11	23	44	1.85
54307724--54307763	21	2.0	20	85	14	55	37	2	0	60	1.11
54310308--54310350	4	10.8	4	79	0	50	25	2	2	69	1.12
54311071--54311136	3	21.0	3	84	9	87	33	3	1	62	1.20
54311185--54311224	16	2.5	16	91	0	62	42	15	0	42	1.46
54311723--54311760	18	2.1	18	90	5	58	23	0	2	73	0.95
54311723--54311761	16	2.3	18	86	8	55	23	0	2	74	0.94
54314020--54314079	17	3.4	17	75	13	59	60	1	1	36	1.17
54326889--54326927	16	2.4	16	87	8	53	79	2	2	15	0.95
54327217--54327258	18	2.5	16	88	7	57	52	4	0	42	1.22
54333948--54333993	22	2.0	23	83	4	58	39	8	2	50	1.46
54333959--54334001	22	2.0	22	81	9	52	37	13	0	48	1.43
54334436--54334469	5	7.0	5	96	3	61	20	0	0	79	0.73
54334436--54334515	13	5.6	13	70	15	52	21	2	3	72	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54336296--54336339	19	2.3	20	84	7	56	27	20	11	40	1.86
54340682--54340812	43	3.1	43	64	18	119	27	21	25	25	1.99
54340691--54341197	88	5.8	88	85	3	546	28	22	24	23	1.99
54341014--54341149	44	3.1	43	68	15	125	25	22	27	25	2.00
54342728--54342773	22	2.0	23	83	4	58	39	8	2	50	1.46
54342739--54342781	22	2.0	22	81	9	52	37	13	0	48	1.43
54343216--54343244	5	6.0	5	96	4	51	20	0	0	79	0.74
54343216--54343289	13	5.1	14	66	18	53	20	2	4	72	1.13
54345029--54345095	21	3.2	21	75	10	75	34	8	1	55	1.40
54351452--54351490	15	2.3	18	87	12	57	20	7	7	64	1.45
54353512--54353563	26	2.0	27	84	3	70	44	0	1	53	1.11
54358617--54358688	18	4.0	18	90	0	117	33	18	22	26	1.96
54358618--54358691	36	2.1	36	94	0	130	35	17	20	27	1.95
54361888--54361931	18	2.3	18	84	7	52	56	4	9	29	1.50
54362524--54362572	9	5.4	9	85	0	53	28	8	22	40	1.82
54362516--54362572	18	3.2	18	80	9	71	29	8	21	40	1.83
54368276--54368346	20	3.5	20	69	16	65	42	43	4	9	1.57
54368277--54368354	40	2.0	39	90	7	122	42	42	6	8	1.62
54369957--54370057	24	4.2	24	76	8	82	55	10	4	28	1.55
54374748--54374799	13	4.2	12	81	11	61	82	0	17	0	0.66
54374749--54374799	19	2.8	17	83	16	66	82	0	17	0	0.67
54374749--54374797	6	7.8	6	78	17	55	81	0	18	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54374880--54374987	42	2.5	42	86	1	153	31	12	27	28	1.92
54375962--54376099	43	3.2	43	68	15	129	25	21	26	26	2.00
54375975--54376112	44	3.1	44	71	12	147	22	22	26	28	1.99
54375925--54376156	88	2.6	88	91	1	358	25	23	24	26	2.00
54376654--54376703	20	2.5	20	100	0	100	22	26	18	34	1.96
54376728--54376796	20	3.4	20	67	16	61	40	44	4	10	1.58
54377898--54377956	3	19.7	3	96	0	109	30	0	1	67	1.00
54377985--54378049	27	2.5	25	74	16	60	36	9	0	53	1.33
54378147--54378171	13	1.9	13	100	0	50	16	4	0	80	0.87
54378345--54378435	39	2.3	40	83	5	105	34	6	5	53	1.50
54378452--54378512	32	1.9	32	83	6	79	34	9	1	54	1.44
54378565--54378621	30	1.9	29	85	3	78	42	7	1	49	1.40
54378865--54379150	109	2.6	109	93	1	475	32	14	19	33	1.92
54390806--54390854	12	3.9	12	84	15	64	14	6	2	77	1.05
54390883--54390929	18	2.6	18	82	0	58	38	4	2	55	1.31
54394133--54394177	18	2.5	18	78	7	56	42	17	2	37	1.62
54398724--54398774	18	2.9	18	85	2	68	78	1	19	0	0.85
54399669--54400430	45	16.4	45	69	12	236	32	17	20	28	1.96
54399768--54400107	89	3.8	89	76	9	285	31	18	22	28	1.97
54399757--54400107	45	7.8	44	74	10	237	31	17	21	28	1.96
54399852--54400106	137	1.9	137	84	1	341	31	18	22	27	1.97
54400027--54400219	96	2.0	96	88	0	287	34	17	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54401811--54401854	12	3.5	12	82	11	52	2	6	6	84	0.86
54407575--54407630	21	2.7	21	91	5	87	32	12	10	44	1.77
54407616--54407651	17	2.2	16	90	5	54	47	11	2	38	1.54
54407595--54407674	38	2.1	38	80	0	88	41	10	6	42	1.63
54407633--54407673	22	2.0	20	85	9	55	46	7	4	41	1.53
54407683--54407794	36	3.0	38	75	15	115	41	9	15	33	1.80
54407700--54408006	18	16.8	18	65	21	106	43	9	12	34	1.75
54407771--54407819	24	2.0	25	88	4	73	36	4	10	48	1.56
54407771--54407819	23	2.0	25	84	7	66	36	4	10	48	1.56
54407847--54407938	34	2.6	34	81	13	107	43	7	13	35	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   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   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221