genome.fa.s20.2.7.7.80.10.50.1000.162.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: At_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  162  of  186  ( 22216 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)
53850594--53850630	12	3.1	12	100	0	74	18	16	56	8	1.64
53857709--53857756	25	1.9	25	91	0	78	35	25	14	25	1.94
53857793--53857859	20	3.3	20	89	0	98	35	13	20	29	1.91
53857908--53858027	24	5.0	24	87	5	154	28	23	22	25	1.99
53858221--53858281	31	2.0	31	90	0	95	34	13	24	27	1.93
53865805--53865852	25	1.9	25	86	0	69	35	22	14	27	1.93
53865889--53865955	20	3.3	20	87	0	98	35	11	20	31	1.89
53866005--53866085	24	3.4	24	87	3	110	29	22	22	25	1.99
53866293--53866353	31	2.0	31	86	0	86	34	14	24	26	1.94
53867368--53867535	82	2.0	82	97	0	318	34	17	13	34	1.89
53886471--53886696	45	5.1	45	79	3	210	23	16	25	34	1.96
53887942--53887969	12	2.3	12	100	0	56	42	7	10	39	1.67
53889927--53890052	44	2.8	44	80	3	137	38	12	25	23	1.90
53890235--53890346	56	2.0	57	92	1	190	43	10	24	21	1.84
53897577--53897620	22	1.9	23	86	9	63	61	13	9	15	1.56
53901024--53901089	34	1.9	34	93	0	114	22	24	18	34	1.96
53902808--53902861	20	2.7	20	74	8	56	20	1	14	62	1.40
53903794--53903830	13	2.9	13	81	18	51	75	2	8	13	1.13
53904829--53905018	46	4.0	46	79	8	200	27	17	26	27	1.98
53917137--53917222	43	2.0	43	86	0	118	22	27	18	31	1.97
53923383--53923479	48	2.0	48	97	0	185	31	16	23	27	1.96
53925632--53925747	28	4.2	28	87	2	155	37	21	24	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53926979--53927028	18	2.7	19	78	6	59	64	0	30	6	1.18
53926978--53927034	15	3.5	16	71	21	55	64	0	29	5	1.15
53929172--53929209	19	1.9	19	85	15	51	23	26	7	42	1.81
53931715--53931767	27	2.0	27	85	7	72	9	41	0	49	1.35
53935980--53936046	20	3.3	20	78	12	75	16	28	14	40	1.88
53935979--53936054	20	3.8	19	77	10	71	17	26	15	40	1.89
53939270--53939447	27	6.6	27	82	3	196	26	15	27	29	1.96
53939271--53939426	82	1.9	81	86	3	224	26	16	27	29	1.96
53939267--53939447	82	2.2	81	82	2	220	27	16	27	29	1.96
53948745--53948922	27	6.6	27	81	3	187	26	15	28	30	1.96
53948738--53948922	82	2.3	81	79	2	219	26	15	27	30	1.96
53964832--53964860	5	5.8	5	100	0	58	20	0	20	58	1.39
53971671--53971699	5	5.8	5	100	0	58	20	0	20	58	1.39
53974810--53974879	31	2.3	31	82	0	86	28	25	20	25	1.99
53974834--53974925	46	2.0	46	86	0	130	28	23	21	26	1.99
53974880--53974938	31	1.9	31	96	0	109	27	25	18	28	1.98
53974918--53975044	50	2.5	50	85	1	173	25	22	15	36	1.94
53975049--53975078	11	2.7	11	100	0	60	23	36	20	20	1.95
53982303--53982362	22	2.8	22	77	5	61	8	10	6	75	1.20
53983692--53984007	124	2.5	124	91	2	510	31	17	22	28	1.97
53985248--53985312	5	12.3	6	71	28	51	47	1	0	50	1.10
53985248--53985312	26	2.5	26	82	9	71	47	1	0	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53985335--53985389	25	2.2	25	81	12	60	49	5	1	43	1.36
53997622--53997673	26	2.0	26	85	7	70	17	21	19	42	1.89
53999649--53999691	18	2.3	18	84	11	52	18	0	30	51	1.47
54000585--54000626	21	2.0	21	100	0	84	28	14	23	33	1.94
54003377--54003441	20	3.4	20	74	25	77	47	7	1	43	1.41
54007637--54007678	15	2.8	15	92	0	66	50	4	7	38	1.51
54010676--54010731	23	2.4	23	84	0	76	42	16	23	17	1.88
54014520--54014549	15	2.0	15	93	0	51	30	20	3	46	1.66
54015776--54015814	18	2.0	20	90	9	64	41	0	12	46	1.42
54015936--54015979	22	2.0	22	81	4	52	40	6	2	50	1.42
54020361--54020418	17	3.3	18	76	11	59	31	0	0	68	0.89
54024979--54025037	16	3.6	16	80	13	66	38	0	5	55	1.22
54039256--54039282	9	3.0	9	100	0	54	77	0	0	22	0.76
54040350--54040386	20	1.9	18	89	10	56	43	0	21	35	1.53
54043280--54043532	46	5.5	46	75	8	160	26	19	30	23	1.98
54046305--54046341	20	1.9	18	89	10	56	43	0	21	35	1.53
54049728--54049768	20	2.0	20	90	0	64	60	2	4	31	1.30
54051535--54051594	30	2.0	30	93	0	102	25	1	15	58	1.46
54054515--54054634	48	2.5	48	83	2	145	35	14	21	29	1.93
54057722--54057832	57	1.9	57	98	0	213	28	3	17	50	1.62
54058913--54059032	48	2.5	48	84	5	147	35	15	21	27	1.93
54059308--54059379	36	2.0	36	97	0	135	18	25	13	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54061756--54062621	46	18.8	46	96	2	1587	21	19	28	30	1.98
54067683--54067717	12	2.8	12	91	4	52	2	8	8	80	1.01
54068224--54068288	29	2.2	30	91	5	114	55	15	20	9	1.67
54069156--54069283	57	2.2	58	77	9	136	26	20	19	33	1.96
54076139--54076179	21	1.9	21	90	5	64	46	0	0	53	1.00
54085340--54085387	16	3.1	15	82	8	51	75	0	8	16	1.04
54085373--54085427	10	5.6	10	75	12	51	78	7	14	0	0.96
54089593--54089819	44	5.2	44	66	7	156	26	22	22	28	1.99
54089597--54089847	87	2.9	88	87	3	380	27	21	23	27	1.99
54090178--54090304	64	2.0	64	92	0	209	37	14	17	30	1.89
54094940--54094986	19	2.5	20	89	6	71	44	14	21	19	1.86
54099148--54099506	110	3.3	110	100	0	718	50	13	12	23	1.75
54103202--54103322	60	2.0	60	95	0	215	32	14	12	41	1.82
54103992--54104030	19	2.1	19	95	0	69	48	15	15	20	1.81
54106766--54106807	13	3.2	13	82	0	57	40	0	16	42	1.48
54111509--54111611	42	2.5	42	80	3	109	33	11	22	33	1.90
54122316--54122440	27	4.5	28	92	2	173	26	12	28	32	1.93
54122344--54122453	54	2.0	55	87	5	161	29	11	26	32	1.92
54143435--54143657	47	4.7	47	76	9	195	23	29	19	27	1.98
54144377--54144401	12	2.1	12	100	0	50	60	16	8	16	1.58
54147030--54147074	19	2.3	20	85	11	58	64	0	6	28	1.19
54147006--54147053	25	1.9	24	91	4	69	66	0	8	25	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54147104--54147321	3	72.7	3	65	12	81	60	2	8	28	1.38
54147175--54147239	23	3.0	23	74	17	66	56	0	12	30	1.36
54147209--54147271	14	4.4	15	74	9	60	55	0	9	34	1.32
54147367--54147413	16	2.9	16	87	9	60	55	2	2	40	1.24
54147382--54147413	12	2.6	12	95	5	55	59	0	0	40	0.97
54147364--54147430	16	4.0	17	78	20	54	58	1	4	35	1.28
54147465--54147499	3	11.7	3	87	0	52	65	0	5	28	1.15
54148908--54149006	45	2.2	45	80	5	112	28	26	17	28	1.97
54149035--54149199	86	1.9	86	91	0	267	23	23	20	32	1.98
54149040--54149182	44	3.3	44	68	14	125	21	23	21	32	1.98
54149167--54149240	36	2.1	36	97	0	139	25	24	25	24	2.00
54149081--54149326	122	2.0	122	93	0	420	23	23	22	29	1.99
54149030--54149408	208	1.8	208	91	0	632	22	24	22	31	1.99
54149415--54149567	44	3.5	44	69	6	139	20	26	22	31	1.98
54149203--54149622	89	4.8	89	90	1	575	21	25	22	30	1.98
54157635--54157673	9	4.3	9	90	0	60	48	10	17	23	1.78
54157635--54157686	27	1.9	27	84	0	68	48	11	17	23	1.79
54161431--54161696	3	88.7	3	64	16	63	59	1	8	30	1.37
54161448--54161637	23	8.4	22	66	19	81	58	2	8	30	1.39
54170242--54170276	17	2.1	17	94	0	61	31	11	20	37	1.88
54171090--54171175	45	1.9	45	100	0	172	26	12	25	34	1.92
54177177--54177327	38	4.0	38	85	3	187	37	28	16	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54177264--54177343	16	4.6	16	72	17	70	32	30	18	18	1.95
54177264--54177381	54	2.2	54	90	3	184	31	28	20	19	1.97
54177225--54177419	92	2.1	92	91	0	309	33	28	19	17	1.95
54177318--54177425	38	2.8	38	87	2	155	35	27	19	17	1.94
54182537--54182569	11	2.9	12	86	13	52	33	0	0	66	0.92
54182788--54182814	14	1.9	14	100	0	54	51	14	11	22	1.73
54192774--54192799	13	2.0	13	100	0	52	38	15	0	46	1.46
54204888--54204925	19	2.0	19	89	0	58	73	0	0	26	0.83
54205098--54205147	25	2.0	25	84	7	66	36	2	0	62	1.07
54206802--54206835	18	2.0	17	88	11	52	26	0	17	55	1.42

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