genome.fa.s2.2.7.7.80.10.50.1000.112.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: At_chr1
Parameters: 2 7 7 80 10 50 1000
Length:  106989029

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   

This is table  112  of  322  ( 38559 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)
36461629--36461832	40	5.1	40	82	8	238	25	27	22	25	2.00
36463624--36463792	46	3.7	44	77	13	128	23	30	20	26	1.98
36475884--36475932	25	2.0	25	88	8	73	34	14	10	40	1.79
36477924--36477997	31	2.4	31	95	2	130	43	10	20	25	1.84
36478705--36478770	21	3.2	20	75	10	71	16	28	18	36	1.93
36478706--36478935	41	5.7	40	76	8	169	20	26	17	36	1.94
36478739--36478945	81	2.5	82	82	4	233	20	26	16	36	1.94
36478742--36478964	41	5.5	40	76	11	150	20	26	16	37	1.93
36487556--36488114	138	4.1	138	89	0	832	45	6	7	40	1.57
36487556--36488113	275	2.0	276	90	0	866	45	6	7	40	1.58
36488589--36488655	33	2.0	33	100	0	134	23	8	14	52	1.70
36489375--36489436	24	2.5	24	84	7	72	50	16	9	24	1.75
36491677--36491724	18	2.7	18	90	0	78	6	35	10	47	1.63
36494113--36494157	20	2.2	20	80	7	56	64	0	6	28	1.19
36494185--36494215	16	1.9	16	93	0	53	58	12	0	29	1.35
36495501--36495581	42	1.9	41	82	7	99	37	20	12	29	1.90
36495513--36495594	42	2.0	42	82	4	103	37	23	10	28	1.88
36499895--36499944	26	1.9	26	95	0	91	42	28	14	16	1.86
36500025--36500083	31	1.9	31	89	0	91	55	22	6	15	1.63
36500783--36500811	13	2.1	14	93	6	51	55	10	0	34	1.34
36507995--36508020	6	4.3	6	100	0	52	30	34	34	0	1.58
36508659--36508963	153	2.0	156	85	3	420	26	20	22	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36508893--36508980	40	2.2	40	83	4	106	22	23	22	30	1.99
36508621--36508969	153	2.3	155	82	4	402	26	20	21	30	1.98
36509472--36509655	41	4.5	41	84	3	217	30	18	14	36	1.90
36510155--36510200	24	1.9	24	90	0	74	41	4	4	50	1.42
36515957--36515993	18	2.1	18	90	5	58	27	32	29	10	1.90
36517922--36518027	55	1.9	54	86	1	149	16	31	4	47	1.68
36522044--36522117	36	2.1	36	97	0	139	55	4	2	37	1.33
36522120--36522192	33	2.2	32	80	7	85	49	21	8	20	1.75
36523629--36523762	47	2.9	43	75	13	119	29	27	19	23	1.98
36529014--36529191	27	6.6	27	83	5	198	30	28	14	26	1.95
36529013--36529190	82	2.2	81	85	4	241	30	29	14	25	1.94
36534579--36534751	46	3.7	46	74	7	170	30	26	19	23	1.98
36534584--36534754	93	1.8	93	91	0	279	29	27	19	22	1.98
36535172--36535231	30	2.0	30	90	0	93	30	25	8	36	1.85
36537611--36537665	19	2.9	19	76	13	60	36	0	5	58	1.21
36552912--36553096	79	2.3	81	84	7	236	24	22	27	25	2.00
36552913--36553096	40	4.6	40	83	9	216	24	22	27	25	2.00
36552913--36553129	79	2.7	79	81	7	201	25	22	27	24	2.00
36565273--36565428	41	3.8	40	75	9	152	40	19	25	15	1.90
36565298--36565428	41	3.2	41	81	0	172	39	19	25	16	1.91
36566210--36566369	7	22.7	7	72	8	56	20	0	28	50	1.52
36566245--36566290	22	2.1	22	84	8	58	15	0	23	60	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36567132--36567245	41	2.8	40	84	5	138	30	21	21	26	1.98
36571736--36571872	43	3.2	42	80	12	120	27	15	24	32	1.95
36575512--36575734	119	1.9	120	81	6	274	26	27	21	24	1.99
36575510--36575734	40	5.7	40	83	6	251	27	27	21	24	1.99
36578934--36578994	31	2.0	30	100	0	113	16	22	36	22	1.93
36586287--36586337	26	2.0	26	100	0	102	35	19	5	39	1.76
36599604--36599655	20	2.7	21	80	14	67	55	3	0	40	1.18
36599597--36599655	28	2.1	28	81	6	66	55	5	0	38	1.22
36605744--36605823	30	2.8	27	79	18	83	27	7	17	47	1.74
36606116--36606158	21	2.2	18	84	12	50	60	0	4	34	1.17
36612329--36612719	193	2.0	193	97	0	737	26	12	20	40	1.88
36613529--36613568	14	2.9	14	84	0	53	30	25	12	32	1.92
36617714--36617927	48	4.6	45	83	4	216	25	19	30	24	1.98
36617663--36617930	48	5.8	45	77	9	179	25	19	30	24	1.98
36617678--36617931	142	1.8	141	84	8	342	26	19	29	24	1.98
36631018--36631070	27	2.0	27	84	0	70	28	7	18	45	1.77
36637083--36637303	40	5.6	39	84	6	250	25	22	27	24	2.00
36637079--36637303	80	2.8	80	82	7	278	24	22	27	24	2.00
36639603--36639639	19	1.9	19	94	0	65	45	0	0	54	1.00
36639604--36639646	19	2.3	18	84	4	59	39	0	2	58	1.11
36656371--36656395	13	1.9	13	100	0	50	28	0	8	64	1.22
36666165--36666199	18	1.9	18	88	0	52	17	40	25	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36667101--36667296	97	2.0	97	96	0	365	31	12	8	47	1.71
36670424--36670602	52	3.5	52	87	5	242	28	16	27	26	1.97
36671000--36671038	19	2.1	19	95	0	69	28	12	15	43	1.83
36674435--36674634	55	3.7	54	75	9	165	34	18	25	22	1.96
36674434--36674634	108	1.8	110	82	4	264	34	18	25	21	1.96
36693078--36693716	143	4.5	141	79	12	543	24	28	19	28	1.98
36693263--36693668	138	2.9	140	83	11	473	23	28	20	27	1.99
36693069--36693714	187	3.4	187	85	7	755	24	28	19	28	1.98
36694430--36694454	12	2.1	12	100	0	50	60	16	8	16	1.58
36706400--36706512	27	4.2	26	82	8	127	37	23	23	15	1.93
36706400--36706512	55	2.1	54	85	5	147	37	23	23	15	1.93
36706400--36706512	28	4.1	28	77	6	108	37	23	23	15	1.93
36707951--36708017	24	2.8	24	95	0	116	23	40	5	29	1.79
36712320--36712363	21	2.0	22	83	12	56	25	13	4	56	1.56
36717010--36717123	27	4.2	26	81	8	120	37	22	22	16	1.93
36717010--36717123	55	2.1	54	83	4	140	37	22	22	16	1.93
36718553--36718602	24	2.1	24	88	0	73	22	40	4	34	1.72
36719582--36719708	66	1.9	66	82	10	161	14	23	15	46	1.83
36728829--36728882	19	2.9	19	83	8	58	12	20	37	29	1.90
36731477--36731510	17	1.9	18	88	5	52	11	44	26	17	1.83
36731575--36731609	17	2.0	18	94	5	63	14	34	28	22	1.93
36741606--36741661	29	2.0	28	83	13	71	26	17	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36741634--36742219	127	4.6	127	92	3	946	31	19	23	25	1.98
36741993--36742429	172	2.5	170	87	2	624	30	18	24	27	1.98
36742761--36742814	28	2.0	28	88	3	83	38	38	7	14	1.75
36749803--36749865	31	2.0	31	96	0	117	46	14	14	25	1.82
36758367--36758475	28	3.9	29	84	7	136	30	30	13	25	1.94
36767971--36768012	6	7.2	6	82	12	52	35	0	0	64	0.94
36779562--36779592	13	2.4	13	100	0	62	19	48	19	12	1.81
36779562--36779600	13	3.0	13	92	0	51	17	43	20	17	1.88
36782131--36782321	47	4.1	47	88	1	276	32	9	30	27	1.89
36782131--36782321	93	2.0	94	87	1	276	32	9	30	27	1.89
36782440--36782518	37	2.1	37	88	0	113	24	17	31	26	1.97
36787391--36787561	93	1.8	93	96	0	315	28	28	21	21	1.99
36787386--36787558	46	3.7	46	78	13	210	28	27	21	21	1.99
36787981--36788040	30	2.0	30	90	0	93	30	25	8	36	1.85
36789546--36789593	20	2.2	22	85	10	64	41	0	4	54	1.20
36789568--36789597	14	2.1	14	93	0	51	36	0	0	63	0.95
36792195--36792267	20	3.7	19	78	8	74	28	2	2	65	1.20
36792214--36792282	30	2.3	30	85	7	86	27	5	1	65	1.24
36792195--36792456	10	27.1	9	65	18	59	35	4	1	58	1.28
36792326--36792452	10	13.3	9	67	17	62	40	3	1	54	1.26
36792385--36792452	28	2.3	29	83	14	79	41	4	1	52	1.30
36793551--36793642	46	2.0	46	91	0	148	45	9	11	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36793719--36793750	14	2.1	16	88	11	50	65	3	0	31	1.08
36796545--36796582	18	2.1	19	90	5	60	21	21	5	52	1.66
36801259--36801314	29	1.9	29	85	0	76	32	1	30	35	1.68
36811503--36811614	43	2.6	44	83	8	142	31	25	16	26	1.97
36814205--36814251	17	2.6	18	80	13	51	6	19	6	68	1.34
36819246--36819447	40	5.1	40	87	3	255	26	27	24	21	1.99
36833543--36833589	14	3.4	14	96	0	85	34	6	8	51	1.58
36833530--36833592	28	2.2	29	76	21	71	31	4	7	55	1.50
36836527--36836630	6	17.3	6	73	13	63	73	2	3	20	1.13
36836521--36836592	5	13.0	5	76	21	56	73	2	0	23	0.96

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322