genome.fa.s20.2.7.7.80.10.50.1000.19.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  19  of  199  ( 23844 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)
6150325--6150985	132	5.0	131	85	4	839	28	19	24	27	1.99
6150325--6150985	264	2.5	264	89	2	1008	28	19	24	27	1.99
6152490--6152546	19	2.9	18	80	19	62	24	7	8	59	1.52
6163604--6163630	13	2.1	13	100	0	54	55	7	0	37	1.28
6166995--6168337	120	11.2	120	99	0	2560	44	2	5	47	1.41
6167339--6167385	15	3.0	16	82	17	55	48	0	4	46	1.21
6168286--6168320	18	2.0	17	88	5	52	45	0	0	54	0.99
6168485--6168575	45	2.0	45	85	2	121	37	28	6	27	1.82
6168556--6168591	16	2.2	16	100	0	72	38	36	0	25	1.56
6170916--6170954	3	13.3	3	94	5	71	30	0	0	69	0.89
6172417--6172474	30	1.9	30	85	0	80	18	37	31	12	1.88
6185016--6185432	45	9.3	45	79	1	426	31	16	24	27	1.96
6185017--6185405	134	2.9	134	88	1	521	31	17	23	27	1.97
6185016--6185442	89	4.8	89	86	3	466	31	16	23	27	1.96
6184991--6185446	223	2.0	223	91	0	734	30	17	23	28	1.97
6186064--6186125	29	2.1	30	81	3	72	12	8	1	77	1.06
6186074--6186126	24	2.2	25	82	3	63	16	7	0	75	1.02
6186716--6186775	3	19.7	3	76	10	50	28	3	1	66	1.17
6186716--6186778	21	3.1	21	75	11	69	28	3	1	66	1.16
6186716--6186779	9	6.8	9	76	13	58	28	3	1	67	1.15
6190850--6190890	20	2.0	20	90	9	66	14	14	4	65	1.42
6193137--6193347	44	4.8	44	69	9	160	30	18	24	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6193081--6193434	132	2.7	132	90	0	546	29	19	24	27	1.98
6193192--6193365	44	4.0	44	67	13	115	29	18	25	26	1.98
6193088--6193512	132	3.2	131	85	5	527	29	19	24	27	1.98
6196474--6196561	29	3.1	28	80	11	97	39	19	2	38	1.64
6204025--6204099	37	2.0	37	100	0	150	36	18	8	37	1.80
6216856--6216895	3	13.3	3	94	0	71	70	0	30	0	0.88
6219742--6219787	21	2.2	21	85	14	60	69	0	2	28	1.00
6220505--6220543	19	2.1	18	90	4	60	28	0	12	58	1.34
6220509--6220549	19	2.3	18	87	8	57	26	0	9	63	1.25
6221462--6221492	16	1.9	16	100	0	62	32	48	12	6	1.67
6221962--6222080	25	4.8	25	68	11	75	33	20	24	21	1.97
6222156--6222224	26	2.7	26	79	4	86	37	20	23	18	1.94
6232059--6232115	16	3.6	16	95	0	87	29	0	36	33	1.58
6232361--6232394	17	2.0	17	88	11	52	55	0	0	44	0.99
6235379--6235438	30	2.0	30	90	0	93	28	5	11	55	1.57
6235560--6235587	11	2.5	11	100	0	56	75	0	0	25	0.81
6239348--6239403	30	1.9	28	82	13	69	60	10	14	14	1.58
6239556--6239588	15	2.2	15	100	0	66	36	6	33	24	1.80
6240494--6240557	32	1.9	33	84	9	85	39	9	1	50	1.44
6240593--6240636	16	2.6	18	75	14	56	36	6	0	56	1.26
6247055--6247107	27	2.0	27	100	0	106	33	11	18	35	1.87
6253952--6254050	23	4.3	24	90	3	143	28	27	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6254276--6254314	18	2.2	17	86	13	53	46	20	0	33	1.51
6254384--6254474	45	2.0	45	100	0	182	17	32	4	45	1.69
6255456--6255522	31	2.2	31	83	5	82	47	14	11	25	1.79
6272095--6272138	15	2.6	17	86	13	56	56	6	4	31	1.46
6275540--6275667	61	2.1	61	80	8	145	39	8	15	35	1.78
6294932--6294970	18	2.2	18	86	9	53	48	2	0	48	1.15
6295102--6295157	23	2.4	23	82	5	69	44	3	1	50	1.29
6300698--6300753	28	2.0	28	100	0	112	21	25	10	42	1.85
6308761--6308790	3	10.0	3	100	0	60	33	0	0	66	0.92
6314954--6314998	23	1.9	24	86	4	65	55	6	2	35	1.38
6317911--6317946	16	2.2	16	90	0	54	55	2	0	41	1.14
6319317--6319362	16	2.6	18	86	10	60	47	8	4	39	1.54
6319322--6319362	19	2.2	19	86	8	57	46	9	2	41	1.50
6319505--6319562	3	19.3	3	100	0	116	32	0	0	67	0.91
6321647--6321917	125	2.2	125	98	1	526	38	9	21	30	1.86
6330231--6330280	25	2.1	25	85	7	68	32	8	0	60	1.26
6332168--6332209	21	2.0	21	90	0	66	38	33	19	9	1.84
6338173--6338206	8	4.0	8	88	11	50	82	0	2	14	0.79
6338173--6338208	17	2.1	18	89	5	56	80	0	2	16	0.83
6340593--6340691	31	3.2	30	76	8	110	36	3	6	54	1.41
6341832--6341879	23	2.1	23	84	7	62	29	2	2	66	1.14
6342769--6342822	26	2.1	26	89	0	81	38	14	16	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6343796--6343841	18	2.6	18	77	19	51	13	15	0	71	1.14
6343808--6343839	6	5.5	6	96	3	57	15	12	0	71	1.14
6352031--6352800	198	3.9	198	83	3	946	37	15	15	31	1.89
6354606--6354637	7	4.4	7	96	4	55	18	0	0	81	0.70
6354601--6354637	14	2.5	15	86	13	58	21	0	0	78	0.75
6355269--6355306	19	2.0	20	89	5	60	34	0	0	65	0.93
6355270--6355313	20	2.2	20	87	0	61	34	0	2	63	1.07
6355246--6355319	31	2.4	30	75	8	76	33	1	1	63	1.11
6361834--6361868	18	1.9	18	88	0	52	68	17	0	14	1.21
6363675--6363704	15	2.0	15	93	0	51	43	6	0	50	1.28
6364914--6364957	19	2.3	19	88	0	61	72	6	6	13	1.25
6366587--6366655	26	2.7	26	68	18	63	17	23	21	37	1.94
6371856--6372174	159	2.0	160	85	5	441	18	11	18	51	1.75
6378794--6379122	165	2.0	164	87	0	478	27	13	24	34	1.92
6381893--6381925	15	2.1	16	88	5	50	3	21	0	75	0.93
6394131--6394160	14	2.1	14	93	0	51	23	23	20	33	1.97
6394881--6394911	7	4.4	7	100	0	62	61	12	0	25	1.32
6397033--6397229	96	2.1	96	98	0	376	36	22	15	25	1.94
6400203--6400353	76	2.0	76	100	0	302	34	13	16	35	1.88
6412463--6412507	22	2.1	22	83	4	56	44	0	6	48	1.29
6413430--6413469	9	4.4	9	83	0	53	42	15	10	32	1.79
6413430--6413469	18	2.2	18	95	0	71	42	15	10	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6413492--6413520	12	2.4	12	100	0	58	17	0	17	65	1.27
6413492--6413533	18	2.2	20	87	8	61	21	0	11	66	1.23
6419410--6419614	102	2.0	102	100	0	410	19	11	20	48	1.80
6423963--6423988	13	2.0	13	100	0	52	46	23	7	23	1.78
6424673--6424733	29	2.1	30	87	3	88	42	11	6	39	1.67
6427313--6427346	15	2.3	15	95	5	61	67	17	0	14	1.23
6434649--6434682	9	3.8	9	92	0	59	23	8	29	38	1.85
6439642--6439679	20	1.9	20	94	0	67	18	15	28	36	1.92
6445583--6445611	15	1.9	15	100	0	58	34	0	0	65	0.93
6447609--6447653	13	3.1	14	81	15	56	46	0	2	51	1.13
6448101--6448189	38	2.3	38	86	5	115	39	3	4	52	1.38
6452323--6452436	61	1.9	60	87	1	165	38	20	7	34	1.79
6453832--6453935	52	2.0	52	100	0	208	26	19	26	26	1.99
6454430--6454475	24	1.9	24	100	0	92	32	6	13	47	1.68
6455181--6455236	26	2.4	22	76	11	58	50	7	0	42	1.30
6465475--6465664	84	2.3	85	77	4	215	39	5	10	44	1.62
6466178--6466247	31	2.3	31	77	5	79	28	12	18	40	1.88
6473905--6473948	9	4.8	9	86	5	61	63	0	2	34	1.07
6478458--6478508	15	3.5	15	74	15	52	31	1	5	60	1.31
6479148--6479198	26	1.9	27	88	4	77	27	1	9	60	1.39
6479995--6480046	26	2.0	25	85	3	68	48	3	17	30	1.65
6480315--6480379	29	2.2	31	83	5	80	10	13	1	73	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6482752--6482806	25	2.3	23	82	14	67	45	1	1	50	1.22
6483590--6483638	18	2.7	17	75	12	53	34	0	4	61	1.15
6493326--6493365	20	2.0	20	90	0	62	27	10	12	50	1.72
6493311--6493377	34	1.9	35	87	3	100	32	8	11	46	1.72
6496654--6496693	18	2.4	18	80	12	50	32	0	5	62	1.17
6501759--6501827	30	2.3	30	77	7	77	33	17	4	44	1.68
6509893--6510323	153	2.7	155	83	7	473	36	15	19	29	1.92
6510971--6511583	304	2.0	304	100	0	1226	34	23	15	25	1.95
6517125--6517220	44	2.2	44	92	0	156	50	4	7	38	1.50
6519921--6520011	25	3.3	27	75	17	80	52	4	3	39	1.38

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