genome.fa.s15.2.7.7.80.10.50.1000.125.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   222   

This is table  125  of  222  ( 26535 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)
40562365--40562418	6	9.2	6	77	2	56	75	5	14	3	1.12
40562457--40562491	18	1.9	18	88	11	54	57	0	20	22	1.41
40567107--40567203	30	3.2	30	75	2	97	27	15	27	28	1.96
40570475--40570601	30	4.2	30	82	2	103	27	26	16	29	1.97
40573694--40573722	12	2.3	13	94	5	51	24	0	0	75	0.80
40576072--40576198	30	4.2	30	82	2	103	27	26	16	29	1.97
40586714--40586752	21	1.9	20	85	15	53	33	10	23	33	1.88
40588387--40588922	48	11.3	47	84	13	635	31	26	8	33	1.86
40588387--40588922	191	2.8	188	81	14	642	31	26	8	33	1.86
40595318--40595367	9	4.7	11	77	22	54	84	2	4	10	0.84
40595318--40595367	21	2.4	21	89	0	82	84	2	4	10	0.84
40595326--40595369	12	3.9	12	82	17	58	79	2	6	11	1.01
40613222--40613444	39	5.7	40	84	8	257	25	21	27	25	2.00
40613222--40613444	79	2.8	81	83	9	273	25	21	27	25	2.00
40613222--40613477	79	3.3	79	80	10	208	26	21	27	24	1.99
40621369--40621427	30	2.0	30	83	6	75	49	13	6	30	1.68
40641367--40641435	34	2.0	34	97	0	129	39	8	10	42	1.70
40644936--40644976	21	2.0	21	95	0	73	31	0	19	48	1.49
40654109--40654143	13	2.7	13	86	13	54	8	8	5	77	1.13
40654111--40654143	12	2.6	13	95	4	59	6	9	6	78	1.08
40662647--40662707	29	2.0	31	84	6	81	39	19	13	27	1.89
40662615--40662803	92	2.1	92	82	4	229	44	13	10	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40667823--40667880	19	3.1	18	75	18	55	1	17	5	75	1.06
40673138--40673199	32	1.9	32	90	0	97	14	32	22	30	1.94
40674378--40674417	18	2.2	18	90	0	62	57	5	15	22	1.57
40683323--40683352	6	5.0	6	95	0	51	0	63	0	36	0.95
40686344--40686394	24	2.2	24	77	22	56	33	0	5	60	1.21
40686522--40686598	14	5.0	15	71	20	52	42	15	9	32	1.78
40686538--40686577	20	2.0	20	90	0	62	50	12	10	27	1.72
40686526--40686592	34	1.9	35	90	3	109	46	13	8	31	1.74
40686561--40686600	14	2.9	14	84	0	53	42	17	7	32	1.77
40687669--40687723	6	8.5	6	88	11	74	18	0	61	20	1.34
40693294--40693355	29	2.1	29	82	5	72	20	27	24	27	1.99
40693810--40693843	17	2.1	16	88	5	50	11	26	0	61	1.30
40697571--40697797	41	5.6	41	83	1	260	25	19	25	29	1.98
40697571--40697797	81	2.8	81	85	2	276	25	19	25	29	1.98
40698105--40698216	7	15.7	7	68	10	57	22	1	28	47	1.61
40698182--40698285	7	15.0	7	73	13	63	19	0	36	43	1.58
40701125--40701158	16	2.1	16	88	0	50	35	0	8	55	1.31
40701110--40701172	23	2.8	24	76	9	69	38	1	4	55	1.31
40706428--40706477	22	2.3	22	78	0	55	30	36	18	16	1.92
40711307--40711373	27	2.5	27	82	0	98	26	7	22	43	1.80
40711307--40711373	9	7.4	9	81	6	73	26	7	22	43	1.80
40711741--40711798	28	2.0	28	83	9	73	58	0	1	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40711790--40711878	19	4.7	19	68	12	67	67	3	2	26	1.18
40711780--40711878	38	2.6	38	82	4	128	67	3	3	26	1.19
40711856--40711928	30	2.4	29	80	14	85	65	2	6	24	1.30
40713546--40713616	37	1.9	37	88	0	106	39	9	14	36	1.79
40716290--40716493	91	2.2	91	96	0	372	28	22	15	33	1.94
40716296--40716493	46	4.3	46	96	1	371	29	22	14	33	1.94
40720183--40720535	176	1.9	177	83	8	449	52	3	5	38	1.41
40729882--40730101	40	5.7	40	89	8	339	31	20	25	22	1.98
40729882--40730101	72	2.8	78	85	10	317	31	20	25	22	1.98
40729882--40730083	112	1.8	112	96	0	377	30	20	25	23	1.98
40735324--40735376	22	2.4	22	81	12	72	33	7	15	43	1.74
40737804--40737839	17	2.2	17	90	5	56	2	19	0	77	0.88
40737791--40737839	17	3.1	16	82	5	55	4	16	4	75	1.11
40740303--40740346	22	2.0	23	86	13	65	43	9	6	40	1.63
40744559--40744605	17	2.6	18	80	10	60	17	10	14	57	1.65
40759334--40759444	54	2.1	54	89	0	168	18	25	32	24	1.97
40761832--40761871	18	2.2	18	95	0	71	35	15	15	35	1.88
40762352--40762400	24	2.0	24	96	0	89	36	18	20	24	1.94
40763322--40763419	31	3.2	31	79	0	115	46	20	9	23	1.79
40767225--40767359	31	4.4	31	73	15	136	34	6	17	41	1.75
40767152--40767366	92	2.4	92	85	3	296	33	7	16	42	1.76
40767193--40767389	92	2.1	92	87	0	286	35	7	18	39	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40767365--40767518	31	5.0	31	75	7	118	29	8	16	45	1.77
40773945--40773998	26	2.1	26	100	0	108	35	16	14	33	1.90
40784044--40784340	50	5.8	50	83	5	312	23	29	20	25	1.99
40787177--40787270	44	2.1	46	88	4	138	44	0	32	22	1.53
40787177--40787273	45	2.2	46	84	5	135	43	0	34	22	1.54
40790440--40790483	21	2.0	22	86	4	63	25	4	4	65	1.30
40795586--40795618	14	2.3	15	89	5	50	30	12	30	27	1.92
40795694--40795722	5	6.0	5	92	8	51	82	17	0	0	0.66
40797002--40797139	44	3.2	43	63	4	105	29	28	23	18	1.98
40796976--40797199	88	2.5	88	86	0	295	30	28	21	19	1.98
40797192--40797658	217	2.2	217	93	0	792	29	21	20	27	1.98
40797336--40797711	173	2.2	173	77	10	376	29	20	21	27	1.98
40797417--40797840	173	2.4	174	80	8	441	28	21	23	27	1.99
40797200--40797868	44	15.3	44	69	13	268	28	21	22	27	1.99
40798282--40798316	18	1.9	18	88	0	52	28	28	22	20	1.98
40799466--40799508	20	2.1	21	86	4	61	25	4	4	65	1.32
40801825--40801869	23	1.9	23	82	13	56	15	8	40	35	1.79
40801911--40802165	125	2.1	123	86	4	352	29	14	23	32	1.94
40802076--40802276	83	2.4	83	98	0	384	23	20	23	31	1.98
40805413--40805636	23	8.8	23	73	20	155	30	0	21	48	1.51
40805421--40806036	28	22.5	28	75	16	519	29	0	22	47	1.53
40805830--40805999	34	5.5	33	74	22	181	25	0	25	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40805864--40805916	23	2.3	23	96	0	97	26	0	26	47	1.53
40805678--40806029	57	6.4	57	81	15	395	28	0	23	48	1.54
40805434--40806029	51	10.9	54	77	14	396	29	0	22	47	1.53
40805980--40806069	24	3.8	24	78	10	105	27	1	25	45	1.61
40806022--40806057	17	2.1	18	89	5	56	30	0	19	50	1.48
40808340--40808396	29	2.0	29	89	6	89	61	1	0	36	1.07
40808438--40808479	22	1.9	22	90	0	66	33	0	33	33	1.58
40808429--40808531	52	2.0	51	83	9	129	34	0	32	33	1.58
40808481--40808572	22	4.2	23	82	8	111	42	0	27	30	1.56
40808481--40808572	44	2.1	44	85	4	123	42	0	27	30	1.56
40810605--40810694	44	2.0	44	100	0	180	21	20	6	52	1.69
40823622--40823793	48	3.3	54	74	13	144	41	3	5	49	1.44
40831278--40831320	21	2.0	21	100	0	86	18	16	18	46	1.84
40831817--40831846	14	2.1	14	100	0	60	20	16	13	50	1.78
40838160--40838354	51	3.9	50	79	4	205	27	17	24	30	1.98
40838356--40838441	45	1.9	45	90	0	136	29	15	22	33	1.94
40838518--40838590	37	1.9	37	84	13	96	43	2	21	31	1.67
40841618--40841699	41	2.0	41	90	0	128	32	8	10	47	1.69
40844096--40844136	19	2.2	19	95	0	73	39	4	12	43	1.63
40844174--40844244	37	1.9	37	97	0	133	30	7	16	45	1.75
40847644--40847723	31	2.6	30	88	5	108	30	8	15	46	1.75
40852339--40852372	16	2.1	16	100	0	68	38	11	11	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40860316--40860367	17	3.1	17	100	0	104	53	28	11	5	1.60
40880406--40880500	47	2.0	47	100	0	190	25	6	18	49	1.71
40880859--40880894	13	2.8	13	91	8	56	27	5	5	61	1.41
40881266--40881320	27	2.0	28	82	7	67	50	5	12	30	1.63
40884938--40884970	13	2.5	13	95	0	57	36	0	15	48	1.45
40885249--40885341	9	10.4	9	82	2	98	39	24	11	23	1.88
40885267--40885333	26	2.5	27	92	4	118	38	26	11	22	1.89
40885380--40885416	13	2.7	14	91	4	58	18	0	16	64	1.29
40895495--40895537	21	2.0	21	86	8	61	51	2	2	44	1.27
40898296--40898417	23	5.3	23	84	0	172	21	18	27	32	1.97

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   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   222