genome.fa.s9.2.7.7.80.10.50.1000.127.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  127  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)
40999056--40999108	26	2.0	26	85	0	70	47	16	15	20	1.83
41004807--41004935	43	3.0	42	82	2	159	24	17	27	31	1.97
41010470--41010526	27	2.1	27	83	6	71	33	19	24	22	1.97
41010706--41011012	27	11.4	27	87	0	409	26	20	18	34	1.96
41017027--41017271	49	4.9	49	82	3	310	28	27	18	25	1.98
41027248--41027310	33	1.9	33	96	0	117	23	26	22	26	2.00
41027248--41027336	28	3.0	28	83	11	90	24	26	23	24	2.00
41027724--41028028	27	11.3	27	86	1	423	24	19	20	35	1.95
41027706--41028031	81	4.0	81	88	0	483	24	18	20	36	1.95
41029823--41029898	13	5.9	13	82	1	91	28	7	27	35	1.85
41052339--41052459	44	2.9	41	77	10	111	26	17	25	30	1.97
41067877--41067901	12	2.1	12	100	0	50	40	8	16	36	1.77
41071732--41071756	13	1.9	13	100	0	50	20	16	8	56	1.65
41071791--41071829	13	3.1	13	85	3	53	5	5	20	69	1.28
41072782--41072843	30	2.1	30	84	0	79	37	6	24	32	1.81
41075044--41075182	71	2.0	71	98	0	269	35	15	25	23	1.94
41082754--41082813	27	2.3	26	82	2	66	36	20	21	21	1.95
41095643--41096121	44	10.9	44	74	11	385	26	25	17	30	1.98
41095643--41096119	132	3.6	132	93	0	832	26	25	18	29	1.98
41096906--41096931	10	2.6	10	100	0	52	0	7	0	92	0.39
41101294--41101386	39	2.4	39	94	0	159	30	29	20	20	1.98
41109305--41109438	40	3.4	40	96	2	252	29	29	20	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41110088--41110122	16	2.2	16	100	0	70	42	25	5	25	1.77
41114425--41114484	27	2.3	26	82	2	66	35	18	23	23	1.96
41116626--41116802	27	6.6	27	86	0	219	37	19	15	27	1.92
41118943--41118967	10	2.5	10	100	0	50	32	28	0	40	1.57
41124168--41124272	47	2.2	47	93	0	174	35	6	30	27	1.83
41134285--41134411	45	2.8	45	90	2	184	18	21	17	42	1.89
41134423--41134529	45	2.4	45	80	9	112	25	21	14	38	1.92
41134465--41134571	45	2.4	45	84	6	128	25	21	15	37	1.93
41134465--41134592	45	2.8	45	80	4	125	25	21	14	38	1.92
41135864--41136016	77	2.0	77	90	0	243	33	25	8	32	1.86
41138953--41139129	27	6.5	26	77	3	120	27	16	26	29	1.97
41139007--41139129	55	2.3	53	83	7	140	26	17	27	28	1.97
41138949--41139129	82	2.2	81	82	2	211	27	16	25	29	1.97
41147861--41147970	31	3.5	31	93	0	193	28	26	16	29	1.97
41147992--41148085	42	2.2	42	88	3	136	36	19	14	29	1.92
41148231--41148378	26	5.8	26	95	0	257	25	23	25	25	2.00
41148428--41148513	39	2.2	40	89	6	131	31	17	10	40	1.83
41148428--41148513	20	4.3	20	89	5	131	31	17	10	40	1.83
41149221--41149284	27	2.4	27	81	5	76	21	25	17	35	1.95
41149338--41149415	27	2.9	27	77	11	88	30	3	20	44	1.69
41149318--41149448	54	2.4	54	83	2	156	30	7	20	41	1.80
41149499--41149753	27	9.4	27	74	10	126	36	7	21	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41149583--41149685	28	3.7	27	85	11	104	29	7	22	40	1.82
41149567--41149697	28	4.8	28	75	12	103	31	6	22	39	1.80
41149678--41149780	27	3.8	27	80	0	107	36	4	25	33	1.77
41151053--41151165	45	2.5	45	85	0	136	22	25	13	38	1.90
41155840--41156153	49	6.6	48	71	8	146	28	19	27	25	1.99
41155885--41155973	46	1.9	46	90	0	142	26	19	32	21	1.97
41156025--41156157	49	2.7	49	82	2	160	29	18	27	24	1.98
41161595--41161627	16	1.9	18	88	11	52	30	12	15	42	1.83
41164447--41164702	40	6.4	40	93	0	440	28	19	28	23	1.98
41175433--41175593	27	6.1	26	77	2	142	31	11	19	37	1.87
41175438--41175593	53	2.9	53	74	11	140	31	10	18	39	1.85
41179226--41179532	40	7.7	40	97	0	560	30	20	27	21	1.98
41182103--41182135	2	16.5	2	100	0	66	48	0	51	0	1.00
41182487--41182653	90	1.9	90	83	2	219	28	26	20	24	1.99
41182852--41182918	33	2.0	33	100	0	134	46	17	5	29	1.72
41209959--41210013	26	2.1	26	100	0	110	21	36	10	30	1.88
41223928--41223952	7	3.6	7	100	0	50	56	0	16	28	1.41
41224552--41224592	18	2.2	19	86	4	57	41	0	0	58	0.98
41224583--41224663	25	3.2	26	86	8	98	32	0	1	66	0.99
41224601--41224663	25	2.5	25	92	2	108	31	0	0	68	0.90
41224610--41224644	17	2.1	17	89	5	54	31	0	0	68	0.90
41224718--41224756	19	2.1	19	85	9	53	28	2	2	66	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41229202--41229424	39	5.7	40	85	8	266	25	22	27	24	2.00
41229202--41229424	79	2.8	81	84	9	282	25	22	27	24	2.00
41229202--41229457	79	3.3	79	81	10	217	26	21	27	24	1.99
41237088--41237310	39	5.7	40	83	8	239	26	21	27	25	1.99
41237142--41237343	79	2.6	79	82	8	191	27	19	27	25	1.99
41239905--41240200	50	5.9	50	81	3	292	26	18	26	29	1.98
41241482--41241655	49	3.6	48	76	13	169	29	18	28	23	1.98
41241482--41241729	96	2.6	96	88	2	363	29	18	27	24	1.98
41241527--41241685	49	3.3	49	77	13	193	30	18	26	24	1.98
41241915--41242043	62	2.1	62	97	0	240	32	8	23	35	1.85
41242471--41242543	37	2.0	37	91	0	119	19	5	24	50	1.68
41243140--41243181	22	2.0	22	90	4	68	16	42	23	16	1.88
41247975--41248095	47	2.6	46	85	6	154	23	31	17	27	1.97
41247827--41248095	94	2.9	92	77	9	287	23	29	18	28	1.98
41248435--41248493	30	2.0	30	93	0	100	28	25	13	32	1.94
41249478--41249563	44	2.0	44	90	0	136	31	26	19	22	1.98
41250292--41250330	20	2.0	20	85	10	53	35	20	0	43	1.52
41252248--41252301	24	2.2	24	100	0	108	55	3	3	37	1.35
41256405--41256447	21	2.0	21	100	0	86	32	9	13	44	1.76
41271865--41271928	32	2.0	32	100	0	128	21	18	12	46	1.82
41282645--41282840	51	3.9	51	87	2	270	30	24	19	26	1.98
41282645--41282836	101	1.9	102	87	1	287	30	25	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41283089--41283142	27	2.0	27	85	0	72	38	14	7	38	1.75
41289105--41289228	28	4.4	28	93	1	194	26	12	27	33	1.92
41297535--41297611	38	2.0	39	92	2	129	41	6	2	49	1.42
41300957--41301219	120	2.2	119	82	4	316	26	28	20	24	1.99
41300957--41301166	40	5.3	40	92	0	314	26	29	20	23	1.99
41300960--41301219	80	3.3	80	86	3	267	25	28	21	24	1.99
41301151--41301228	40	1.9	41	82	10	97	26	28	21	23	1.99
41302994--41303042	22	2.2	21	82	10	62	44	6	2	46	1.39
41303005--41303052	10	4.6	10	80	10	51	41	2	4	52	1.32
41303003--41303046	22	2.0	22	95	0	79	43	4	2	50	1.35
41314813--41314842	5	6.0	5	92	0	51	63	0	0	36	0.95
41317614--41317673	29	2.1	29	100	0	120	26	10	6	56	1.57
41319273--41319306	6	5.7	6	89	0	50	17	23	0	58	1.38
41325251--41325512	46	5.6	49	74	13	157	25	28	17	29	1.97
41325251--41325379	48	2.6	50	80	8	158	25	28	16	29	1.97
41325251--41325512	45	5.6	46	75	9	178	25	28	17	29	1.97
41330712--41330894	79	2.3	81	81	7	205	25	27	21	24	1.99
41330691--41330894	40	5.1	40	78	8	211	25	27	21	25	1.99
41337924--41338106	79	2.3	80	82	7	221	25	26	22	25	2.00
41337922--41338106	40	4.7	40	80	9	209	25	27	22	24	2.00
41341957--41341995	18	2.2	18	90	0	60	41	20	5	33	1.74
41342540--41342668	48	2.6	50	80	8	158	24	29	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41342540--41342854	46	6.7	46	75	10	203	24	28	17	28	1.97
41342540--41342854	94	3.3	93	76	10	277	24	28	17	28	1.97
41352884--41352964	27	3.0	27	96	0	153	35	25	16	22	1.94
41354987--41355061	37	2.0	38	92	2	125	53	4	12	30	1.56
41357447--41357518	36	2.0	36	91	0	117	20	30	12	36	1.90
41365833--41365921	43	2.1	43	100	0	178	47	10	10	32	1.71
41367131--41367159	4	7.2	4	100	0	58	75	0	0	24	0.80
41368218--41368262	17	2.6	18	89	10	67	28	0	0	71	0.87
41368222--41368313	10	9.6	10	69	15	52	28	5	2	64	1.27
41368258--41368296	21	1.9	20	89	5	60	30	10	2	56	1.46

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