genome.fa.s20.2.7.7.80.10.50.1000.133.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  133  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)
43767238--43767561	162	2.0	163	89	1	497	33	8	29	27	1.87
43782986--43783043	30	1.9	30	92	0	98	32	13	25	27	1.94
43783384--43783689	47	6.6	45	71	14	149	28	20	28	22	1.98
43783384--43783742	94	3.8	94	76	10	315	29	20	27	22	1.98
43788530--43788563	11	3.0	11	86	4	50	26	0	2	70	1.01
43788726--43788756	12	2.7	11	90	9	53	70	0	3	25	1.02
43800092--43800137	23	2.1	22	84	8	58	52	8	0	39	1.33
43802145--43802178	15	2.2	16	89	5	52	29	17	0	52	1.45
43802533--43802573	21	2.0	21	85	0	55	21	29	36	12	1.90
43806025--43806058	16	2.2	16	89	5	52	50	14	8	26	1.72
43814457--43814509	21	2.5	21	81	0	79	22	15	26	35	1.93
43816425--43816604	48	3.8	48	86	0	252	25	18	28	27	1.98
43816428--43816604	96	1.8	96	90	0	282	24	18	28	28	1.98
43816572--43816684	43	2.6	42	76	12	104	27	15	29	27	1.96
43823032--43823400	48	7.8	48	84	4	399	25	20	28	25	1.99
43823032--43823400	143	2.6	143	85	3	449	25	20	28	25	1.99
43832221--43832277	24	2.3	23	80	11	60	36	19	21	22	1.95
43847095--43847155	31	2.0	30	87	9	88	57	9	4	27	1.52
43854345--43854379	18	1.9	18	88	0	52	31	11	25	31	1.91
43859166--43859200	18	1.9	18	94	0	61	31	25	14	28	1.95
43876290--43876342	27	2.0	27	96	0	97	30	32	20	16	1.95
43883534--43883785	50	5.0	51	79	4	197	26	15	26	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43883674--43883815	51	2.8	51	84	4	171	26	16	28	27	1.97
43887452--43887543	42	2.2	42	86	0	121	28	26	25	20	1.99
43890112--43890144	14	2.5	13	90	9	50	39	0	27	33	1.57
43890835--43890899	33	2.0	33	93	0	112	24	10	20	44	1.83
43901623--43901714	27	3.4	26	81	11	105	26	18	10	44	1.82
43901768--43901899	45	2.9	45	75	0	120	24	18	12	43	1.85
43907147--43907246	27	3.7	26	84	5	119	32	23	25	20	1.98
43907272--43907362	27	3.4	27	84	0	110	30	14	17	37	1.90
43909514--43909558	12	3.8	11	80	13	54	28	0	51	20	1.48
43909514--43909565	12	4.3	12	80	4	52	28	0	50	21	1.49
43920279--43920459	40	4.6	39	78	7	150	26	27	20	24	1.99
43920279--43920459	80	2.3	80	82	4	215	26	27	20	24	1.99
43928150--43928319	40	4.3	40	89	0	225	27	28	20	24	1.99
43928148--43928372	80	2.8	79	80	4	211	27	28	20	24	1.99
43928304--43928381	40	1.9	41	82	10	97	26	28	21	23	1.99
43928707--43928807	50	2.0	50	100	0	202	46	21	7	23	1.77
43944470--43944647	27	6.6	27	83	3	205	26	15	28	29	1.96
43944471--43944626	82	1.9	81	88	3	233	26	15	28	29	1.96
43944467--43944647	82	2.2	81	83	2	229	27	15	27	29	1.96
43948530--43948735	28	7.4	28	91	2	281	32	28	13	25	1.94
43966590--43966758	93	1.8	93	88	2	259	30	25	20	24	1.99
43966581--43966804	46	4.8	46	79	6	238	31	25	19	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43973967--43974086	43	2.8	42	78	9	136	34	16	21	27	1.95
43975846--43976195	180	1.9	180	87	2	515	34	18	9	37	1.83
43976776--43976909	50	2.6	50	83	2	160	33	25	17	23	1.96
43978310--43978559	27	9.3	27	80	3	153	25	19	17	37	1.93
43978328--43978559	54	4.3	54	84	1	286	25	19	17	37	1.93
43978339--43978556	81	2.7	80	87	2	301	25	19	16	38	1.93
43978581--43979019	27	16.3	27	85	0	455	30	9	20	40	1.83
43983923--43983983	32	2.0	32	87	12	92	32	1	26	39	1.66
43990523--43990562	20	2.0	20	86	13	57	40	5	7	47	1.54
43993405--43993461	30	1.9	30	85	7	80	10	24	36	28	1.88
43997675--43997723	25	2.0	25	83	0	62	53	4	0	42	1.20
44000188--44000286	37	2.6	37	91	1	162	28	16	24	31	1.96
44010570--44010632	32	2.0	32	87	0	90	44	12	7	34	1.72
44016139--44016176	20	1.9	20	89	10	60	34	5	7	52	1.53
44016435--44016549	41	2.9	41	88	6	164	33	4	7	53	1.49
44018068--44018139	24	3.1	23	69	20	60	50	0	0	50	1.00
44023292--44023372	42	2.0	42	85	7	112	23	20	14	40	1.90
44023293--44023358	21	3.2	21	68	10	55	22	19	16	40	1.91
44036930--44037604	70	9.6	70	76	2	496	30	26	16	26	1.97
44047198--44047366	70	2.4	70	80	3	187	30	30	18	20	1.96
44047988--44048258	131	2.0	134	91	2	440	47	17	7	28	1.73
44051996--44052039	21	2.1	21	83	8	54	13	11	0	75	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44052028--44052083	20	3.1	17	74	23	51	32	1	1	64	1.14
44052096--44052153	22	2.6	22	94	0	98	37	18	3	39	1.68
44052258--44052300	15	2.5	17	78	21	54	46	9	2	41	1.48
44052269--44052311	15	2.9	15	92	0	68	48	4	0	46	1.22
44055014--44055185	67	2.6	66	81	7	170	31	16	29	22	1.96
44055038--44055221	67	2.8	64	78	8	203	28	16	30	23	1.96
44058277--44058312	16	2.2	16	95	0	63	30	0	13	55	1.39
44065152--44065265	6	18.8	6	93	0	183	17	14	14	53	1.73
44067460--44067487	6	4.7	6	100	0	56	35	0	0	64	0.94
44068559--44068616	29	2.0	29	93	3	100	46	6	0	46	1.29
44075388--44075631	114	2.2	111	80	6	249	59	14	3	22	1.49
44081879--44081932	16	3.4	16	81	0	63	40	3	25	29	1.73
44085844--44086013	46	3.7	46	83	7	197	22	29	18	29	1.98
44087590--44087618	15	2.0	15	93	6	51	68	0	0	31	0.89
44090870--44090922	27	1.9	27	84	3	70	41	13	11	33	1.80
44090879--44090996	27	4.4	27	82	4	105	40	18	10	30	1.84
44090874--44090996	54	2.3	54	79	9	135	39	18	9	31	1.83
44090960--44091024	27	2.4	27	84	0	76	40	24	4	30	1.75
44090974--44091038	27	2.4	27	89	2	96	30	29	3	36	1.73
44090995--44091070	38	2.0	38	89	0	116	25	34	5	35	1.78
44091035--44091170	27	5.0	27	84	3	175	28	21	9	40	1.84
44091093--44091205	27	4.2	27	80	0	64	34	19	8	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44091161--44091216	27	2.1	27	86	0	76	42	16	8	32	1.79
44091235--44091295	25	2.3	26	86	10	81	32	19	26	21	1.97
44093835--44094001	91	1.8	91	91	5	275	34	20	14	30	1.92
44094576--44094651	37	2.1	37	97	0	143	43	7	34	14	1.74
44095069--44095113	17	2.5	18	85	10	65	35	20	15	28	1.93
44096854--44096889	13	2.8	13	86	0	54	58	0	2	38	1.13
44098167--44098219	19	2.7	19	82	2	61	67	1	3	26	1.17
44098177--44098276	10	10.4	9	71	18	60	66	2	0	32	1.03
44098218--44098276	9	6.4	9	72	16	50	66	1	0	32	1.02
44098219--44098275	29	2.1	27	87	12	82	64	1	0	33	1.04
44098758--44098782	12	2.1	12	100	0	50	32	0	0	68	0.90
44098905--44098961	29	2.0	29	82	6	71	35	5	7	52	1.51
44101779--44101844	21	3.0	23	77	18	77	37	9	22	30	1.85
44101765--44101846	21	3.7	22	75	15	71	39	9	21	29	1.86
44104999--44106829	917	2.0	916	100	0	3653	31	16	20	31	1.94
44107703--44107792	18	4.9	19	90	9	152	36	14	11	37	1.82
44107706--44107800	19	5.3	19	87	10	112	37	12	12	36	1.82
44108144--44108416	45	6.1	45	78	5	284	24	26	16	32	1.96
44108278--44108605	78	4.1	79	83	11	345	24	24	18	32	1.97
44108356--44108624	78	3.4	78	91	2	459	24	24	18	32	1.97
44109080--44109303	41	5.2	41	61	24	104	31	28	15	25	1.96
44109049--44109437	87	4.5	87	96	0	688	30	28	15	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44109121--44109525	44	9.2	44	66	17	207	29	28	15	26	1.96
44110526--44110576	13	3.9	13	87	5	68	7	7	0	84	0.78
44110526--44110576	19	2.6	20	82	17	63	7	7	0	84	0.78
44118724--44118795	31	2.2	32	80	7	83	56	1	9	31	1.40
44118723--44118805	32	2.6	32	77	11	80	57	1	8	32	1.36
44118769--44118811	22	2.1	19	83	12	50	62	0	6	30	1.21
44118837--44118871	17	2.0	18	88	5	54	65	0	0	34	0.93
44123210--44123369	42	3.8	42	83	8	191	28	25	15	31	1.96
44132039--44132347	153	2.0	152	91	0	501	36	11	19	33	1.88
44138064--44138169	55	1.9	55	86	3	151	21	29	23	25	1.99

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