genome.fa.s9.2.7.7.80.10.50.1000.162.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   

This is table  162  of  259  ( 31025 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)
52854945--52855048	23	4.5	23	93	0	172	33	1	20	44	1.62
52856803--52856844	22	1.9	22	90	0	66	30	4	11	52	1.59
52857722--52857829	26	4.2	26	93	0	189	32	7	24	36	1.83
52859312--52859364	26	2.0	26	85	7	72	39	22	13	24	1.90
52862236--52862276	21	2.0	21	85	9	57	12	24	17	46	1.82
52862217--52862720	93	5.3	92	77	6	357	19	19	15	45	1.85
52866832--52867063	115	2.0	115	97	0	437	35	11	18	34	1.87
52870353--52870619	133	2.0	133	99	0	525	32	29	11	25	1.91
52878318--52878378	31	2.0	31	83	6	79	42	8	13	36	1.74
52878374--52878429	29	1.9	29	82	7	69	37	10	12	39	1.78
52880993--52881185	41	4.7	41	88	0	296	18	22	28	31	1.97
52881351--52881384	16	2.1	16	88	0	50	52	2	0	44	1.16
52881823--52881864	16	2.5	17	92	7	68	54	0	0	45	0.99
52882057--52882097	21	1.9	22	90	5	66	24	0	36	39	1.56
52882442--52882486	22	2.0	22	91	8	74	68	4	0	26	1.08
52882489--52882573	39	2.2	39	85	4	109	37	18	22	21	1.94
52883365--52883446	38	2.2	38	86	4	112	20	15	8	54	1.67
52887610--52887697	43	2.0	43	91	0	140	23	17	31	27	1.97
52889440--52889499	12	5.3	11	75	13	50	66	1	0	31	1.01
52889666--52889736	25	2.7	26	76	10	74	56	4	1	38	1.28
52889968--52890003	18	1.9	19	88	5	56	16	0	30	52	1.44
52895696--52895776	42	1.9	42	97	0	153	32	11	13	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52899532--52899579	24	2.0	24	84	8	62	20	47	6	25	1.73
52902723--52902764	20	2.1	20	100	0	84	38	9	23	28	1.86
52904797--52904892	48	1.9	50	85	6	133	43	2	3	51	1.29
52904829--52904878	11	4.7	11	74	18	52	44	2	2	52	1.24
52909031--52909431	200	2.0	200	95	0	714	35	10	23	30	1.88
52913312--52913373	27	2.3	27	80	5	63	27	4	16	51	1.64
52913478--52913535	30	1.9	30	92	0	98	31	10	17	41	1.83
52913472--52913523	24	2.2	24	85	0	68	32	11	15	40	1.83
52914232--52914277	12	3.8	12	79	0	56	30	4	17	47	1.67
52916286--52916330	20	2.2	21	77	18	51	42	2	6	48	1.41
52917673--52917720	22	2.2	22	92	0	78	33	8	10	47	1.68
52920712--52920794	43	1.9	43	90	0	130	31	24	19	25	1.98
52921546--52921575	13	2.2	14	94	5	53	53	10	0	36	1.35
52925827--52925962	40	3.4	40	83	4	184	24	20	22	33	1.97
52931040--52931069	6	5.0	6	91	0	51	16	16	63	3	1.44
52936467--52936506	20	2.0	20	85	9	55	72	0	0	27	0.85
52939269--52939298	10	3.0	10	100	0	60	70	20	0	10	1.16
52943162--52943198	14	2.6	14	86	4	56	21	2	16	59	1.49
52944976--52945020	7	5.8	8	86	7	58	55	0	0	44	0.99
52944976--52945010	7	4.9	7	96	3	61	57	0	0	42	0.99
52944976--52945020	14	2.9	15	87	12	65	55	0	0	44	0.99
52947140--52947178	19	2.1	18	85	9	51	48	2	7	41	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52949520--52949559	6	6.7	6	94	0	71	17	50	0	32	1.47
52954081--52954180	33	3.0	33	88	0	137	29	34	30	7	1.84
52954145--52954319	42	4.2	42	78	6	167	37	31	21	9	1.86
52954145--52954319	84	2.1	83	82	8	203	37	31	21	9	1.86
52955543--52955579	16	2.3	16	86	13	58	40	2	0	56	1.13
52955603--52955646	22	2.0	22	86	0	61	47	0	0	52	1.00
52958524--52958563	16	2.4	17	91	4	64	50	2	0	47	1.14
52961235--52961267	15	2.3	15	89	5	50	42	0	3	54	1.15
52969134--52969188	15	3.7	15	75	7	58	18	1	30	49	1.58
52969135--52969250	53	2.2	52	81	4	142	18	1	29	50	1.57
52969247--52969400	41	3.8	41	85	5	181	19	23	22	34	1.97
52973421--52973470	26	1.9	26	83	0	64	52	2	2	44	1.24
52973724--52973767	23	1.9	23	90	9	72	29	40	13	15	1.86
52975247--52975276	15	2.0	15	93	0	51	66	10	6	16	1.41
52987947--52988155	88	2.4	86	80	7	240	36	22	21	19	1.95
52988004--52988158	44	3.6	43	73	6	123	38	22	19	20	1.94
52988275--52988426	44	3.5	44	81	8	143	35	19	23	21	1.96
52988313--52988426	43	2.6	44	88	1	158	35	21	21	22	1.96
52988259--52988511	87	2.9	87	75	8	210	35	19	22	22	1.96
52988620--52988730	43	2.5	44	75	4	109	37	19	17	25	1.93
52990252--52990290	15	2.5	15	87	4	51	30	5	0	64	1.15
52996764--52996844	41	2.0	41	97	0	153	34	30	9	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52998537--52998578	19	2.2	19	83	8	50	35	0	4	59	1.19
52998639--52998666	14	2.0	14	100	0	56	28	14	7	50	1.69
52999341--52999373	16	2.1	16	100	0	66	51	18	6	24	1.68
53003632--53003741	43	2.6	42	82	2	139	29	13	25	31	1.94
53006477--53006532	8	7.0	8	84	8	62	35	0	1	62	1.06
53006486--53006532	3	17.0	3	79	16	57	38	0	0	61	0.96
53008717--53008794	39	2.0	39	100	0	156	33	12	23	30	1.92
53012843--53012896	26	2.1	26	96	0	99	27	12	22	37	1.91
53012869--53012953	35	2.4	35	82	7	102	29	12	23	34	1.92
53014261--53014292	14	2.3	14	94	0	55	46	21	9	21	1.79
53014800--53014832	17	1.9	17	93	0	57	27	9	9	54	1.62
53017137--53017179	15	2.8	15	80	16	52	34	0	4	60	1.17
53017268--53017314	21	2.2	22	84	3	60	12	0	12	74	1.07
53017903--53018159	128	2.0	128	94	0	451	30	18	18	32	1.95
53018725--53018926	6	32.7	6	81	7	199	20	5	13	59	1.55
53021273--53021320	8	6.0	8	90	0	78	45	25	25	4	1.71
53021277--53021320	16	2.8	16	100	0	88	40	27	27	4	1.75
53021564--53021625	28	2.2	28	91	0	97	37	22	6	33	1.80
53021737--53021826	28	3.2	27	82	7	110	21	24	22	32	1.98
53021747--53021837	27	3.2	28	82	4	94	23	26	18	31	1.97
53021737--53021851	55	2.1	56	82	8	137	20	24	20	34	1.96
53023990--53024211	67	3.3	66	91	1	336	23	7	18	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53024165--53024239	26	2.8	26	84	8	80	29	8	16	46	1.75
53024092--53024339	95	2.6	94	88	5	353	25	7	18	48	1.73
53026393--53026425	17	1.9	17	88	11	50	42	18	0	39	1.50
53026444--53026495	10	5.2	10	90	0	77	28	19	0	51	1.47
53026444--53026492	15	3.3	15	91	0	80	28	20	0	51	1.48
53026444--53026495	5	10.4	5	89	0	68	28	19	0	51	1.47
53027989--53028050	27	2.3	26	78	8	70	51	11	0	37	1.38
53029607--53029663	15	3.7	15	80	17	64	77	0	1	21	0.86
53029612--53029666	11	4.8	11	80	14	67	76	0	1	21	0.88
53029612--53029663	21	2.2	25	87	12	76	76	0	1	21	0.87
53033656--53033715	30	2.0	30	90	0	93	28	25	8	38	1.84
53036048--53036079	10	3.3	10	95	4	57	62	0	6	31	1.20
53036075--53036136	27	2.3	26	78	8	70	51	11	0	37	1.38
53037260--53037311	21	2.5	21	77	0	59	38	36	11	13	1.81
53038366--53038408	12	3.5	12	80	3	50	2	27	0	69	1.00
53040174--53040208	16	2.2	16	95	5	63	25	5	22	45	1.74
53041497--53041542	24	2.0	24	87	12	69	30	4	0	65	1.12
53041501--53041553	25	2.3	22	78	12	61	28	1	0	69	0.99
53041560--53041608	24	2.0	24	88	4	71	51	4	0	44	1.20
53041567--53041612	23	2.0	24	95	4	85	45	4	0	50	1.21
53041567--53041612	24	2.0	23	91	8	76	45	4	0	50	1.21
53045361--53045388	3	9.3	3	100	0	56	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53046332--53046428	47	2.1	47	90	0	149	22	23	25	27	2.00
53046339--53046441	47	2.2	46	82	6	125	23	28	23	25	2.00
53052748--53052824	29	2.6	28	74	10	64	55	2	7	33	1.42
53065461--53065545	24	3.7	23	73	16	70	47	1	2	49	1.22
53065503--53065580	21	3.6	21	71	20	63	48	2	1	47	1.23
53066090--53066114	9	2.8	9	100	0	50	32	0	0	68	0.90
53068720--53068758	18	2.2	17	86	13	53	33	0	20	46	1.51
53068763--53068910	75	2.0	75	100	0	296	37	8	21	33	1.83
53069059--53069134	23	3.3	23	92	0	134	21	19	26	32	1.97
53071776--53071835	30	2.0	30	100	0	120	53	13	10	23	1.69

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   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259