genome.fa.s20.2.7.7.80.10.50.1000.130.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  130  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)
42941544--42941577	11	3.1	11	91	0	59	17	32	2	47	1.63
42941540--42941590	22	2.4	21	81	18	61	19	29	1	49	1.60
42942798--42942822	7	3.6	7	100	0	50	28	0	12	60	1.32
42943191--42944427	621	2.0	621	92	0	2071	26	28	22	23	1.99
42944604--42944658	21	2.6	21	91	2	83	45	30	1	21	1.62
42944717--42944790	22	3.4	22	90	3	123	44	31	0	24	1.54
42944861--42944915	22	2.5	22	87	0	83	49	27	1	21	1.60
42944889--42945270	112	3.3	110	71	19	313	46	18	2	32	1.61
42944995--42945049	21	2.6	21	91	2	83	40	32	3	23	1.72
42945049--42945100	26	2.0	26	88	7	79	50	0	0	50	1.00
42944609--42945158	131	4.2	131	85	4	686	46	20	2	31	1.62
42945217--42945269	14	3.7	14	73	14	54	47	30	0	22	1.52
42945220--42945333	21	5.0	21	82	15	138	42	32	0	24	1.55
42945220--42945275	29	1.9	29	96	0	103	42	32	0	25	1.55
42945246--42945333	42	2.1	42	97	0	167	43	32	0	23	1.54
42945220--42945266	15	3.2	15	77	17	62	42	31	0	25	1.55
42945334--42945385	26	2.0	26	88	7	79	50	0	0	50	1.00
42945402--42945456	22	2.5	22	93	0	92	47	29	1	21	1.61
42945279--42945514	125	1.9	123	84	3	312	47	20	1	30	1.58
42945306--42945712	216	1.8	218	91	5	667	46	17	1	33	1.60
42945523--42946025	134	4.0	131	76	16	553	46	16	1	34	1.59
42945651--42946246	112	5.3	109	78	14	541	46	16	1	35	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42945742--42945794	14	3.7	14	71	14	54	47	28	0	24	1.52
42945872--42945924	22	2.4	22	93	0	88	45	30	1	22	1.63
42945763--42946012	131	1.9	133	92	2	423	46	18	1	34	1.59
42945883--42946218	105	3.2	105	97	0	618	46	15	1	36	1.54
42946216--42946283	22	3.1	22	93	2	111	44	27	2	25	1.68
42946226--42946292	21	3.2	21	91	4	100	37	32	2	26	1.72
42946093--42947020	153	6.2	154	82	12	1190	44	20	1	32	1.62
42946350--42946415	21	3.1	21	86	4	96	45	27	4	22	1.72
42946091--42947002	281	3.2	280	87	9	1355	45	19	1	33	1.62
42946505--42946566	21	2.9	21	90	4	97	45	29	1	24	1.63
42946497--42946573	22	3.6	21	87	6	111	42	32	1	23	1.62
42946652--42946721	21	3.3	21	92	4	106	42	31	1	24	1.63
42946804--42946876	22	3.4	22	90	3	121	43	34	1	20	1.60
42946353--42947020	155	4.4	155	92	3	1072	44	21	2	31	1.64
42946892--42946931	7	5.9	7	85	14	57	47	0	0	52	1.00
42946350--42947020	307	2.2	305	91	3	1093	44	21	2	31	1.64
42946948--42947038	22	4.1	22	88	4	121	45	29	2	23	1.65
42946652--42947061	154	2.8	145	86	6	396	44	23	1	29	1.64
42947093--42947155	16	3.8	16	76	19	74	53	11	0	34	1.36
42947109--42947174	19	3.6	19	76	19	86	51	10	0	37	1.37
42947088--42947175	35	2.5	35	100	0	176	50	12	0	37	1.41
42948443--42948492	3	16.3	3	95	4	91	32	2	0	66	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42948576--42948625	26	1.9	26	87	0	73	42	12	2	44	1.53
42948704--42948752	21	2.3	23	76	20	61	38	6	0	55	1.25
42953131--42953254	61	2.0	61	96	0	230	27	23	22	26	2.00
42953610--42953728	30	4.0	30	92	0	184	26	48	3	21	1.65
42953614--42953728	60	1.9	60	94	0	203	26	48	3	21	1.66
42954242--42954367	23	5.5	23	69	17	66	34	4	3	57	1.36
42954321--42954373	14	3.8	13	76	18	54	35	3	1	58	1.27
42954396--42954454	25	2.5	24	78	10	68	33	8	6	50	1.59
42954412--42954460	25	2.0	25	91	0	80	34	8	6	51	1.57
42954440--42954495	19	2.8	20	75	8	60	32	7	5	55	1.50
42954610--42954657	16	3.1	15	90	6	69	31	2	2	64	1.16
42954610--42954661	8	6.5	8	82	8	61	30	1	1	65	1.14
42958885--42958947	31	2.0	31	100	0	126	33	22	12	31	1.91
42962061--42962150	46	2.0	45	93	0	144	30	13	31	24	1.93
42963147--42963217	35	2.0	35	88	0	106	21	23	23	30	1.99
42963213--42963245	14	2.4	14	94	0	57	18	18	6	57	1.60
42963227--42963389	75	2.2	75	87	4	231	26	17	20	34	1.95
42963377--42963409	14	2.4	14	94	0	57	18	18	6	57	1.60
42963182--42963734	164	3.4	164	98	0	1063	25	18	20	36	1.95
42963302--42963478	89	2.0	88	87	4	257	25	18	19	36	1.94
42963391--42963553	75	2.2	75	87	4	231	26	17	20	34	1.95
42963541--42963573	14	2.4	14	94	0	57	18	18	6	57	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42963466--42963642	89	2.0	88	87	4	257	25	18	19	36	1.94
42963555--42963701	73	2.0	74	86	5	206	27	17	22	32	1.96
42969061--42969148	44	2.0	44	100	0	176	43	9	18	29	1.80
42975036--42975083	19	2.6	18	83	9	53	68	0	27	4	1.07
42984554--42984832	40	7.0	40	97	0	522	30	19	21	27	1.98
42984801--42984861	32	1.9	32	100	0	122	32	19	22	24	1.97
42995458--42995617	41	3.9	41	68	9	119	19	18	26	35	1.95
42995829--42996007	41	4.3	41	66	23	104	18	18	25	36	1.94
42995870--42996043	41	4.2	41	65	19	117	17	17	27	37	1.92
42995771--42996110	125	2.7	125	97	0	637	16	17	28	37	1.92
42996096--42996212	41	2.9	41	75	12	107	19	14	30	35	1.92
42998916--42999099	30	6.1	30	96	0	323	42	6	23	27	1.78
43003646--43003765	44	2.7	44	84	3	152	29	25	16	28	1.97
43003773--43004289	134	3.8	134	91	2	822	30	22	19	27	1.98
43004237--43004586	86	4.1	86	91	0	520	26	24	23	25	2.00
43004399--43004532	42	3.1	42	61	23	98	23	23	26	26	2.00
43005014--43005220	108	1.9	108	86	2	290	47	11	16	24	1.79
43005543--43005592	7	7.4	7	76	14	52	4	16	0	80	0.87
43006020--43006087	13	5.7	12	81	6	68	2	8	5	82	0.93
43006029--43006088	13	4.6	13	81	8	77	1	10	5	83	0.87
43006029--43006089	26	2.5	24	89	5	86	1	9	6	81	0.92
43007318--43007499	62	3.0	62	93	0	303	32	4	21	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43010197--43010372	46	3.8	46	75	12	189	22	19	28	30	1.98
43015600--43015639	7	5.6	7	82	5	53	32	0	2	65	1.06
43016069--43016227	43	3.7	43	72	9	135	26	18	24	30	1.98
43026480--43026541	31	2.0	31	90	0	97	25	8	27	38	1.84
43030926--43031197	40	6.8	40	90	1	418	23	28	21	26	1.99
43030926--43031205	122	2.3	122	90	1	431	24	27	21	26	1.99
43033394--43033467	37	2.0	37	100	0	148	51	2	5	40	1.39
43033824--43033886	30	2.1	30	96	0	117	31	7	25	34	1.85
43036776--43036829	28	1.9	28	100	0	108	35	22	3	38	1.72
43039227--43039365	43	3.3	43	78	9	133	28	17	24	29	1.98
43045675--43045812	43	3.2	43	77	10	122	30	20	20	28	1.97
43046721--43046851	6	21.3	6	70	16	90	48	12	19	19	1.81
43046742--43046851	31	3.5	31	92	0	175	47	12	20	20	1.82
43047069--43047119	27	1.9	26	88	4	75	37	17	25	19	1.94
43047346--43047479	27	5.0	27	86	0	178	23	20	20	35	1.96
43047476--43047576	27	3.7	27	86	1	148	40	7	22	28	1.82
43047529--43047616	27	3.3	26	80	6	77	32	7	20	38	1.82
43047568--43047647	27	3.0	27	83	3	99	30	11	21	37	1.88
43047657--43047725	27	2.6	27	97	0	120	28	7	20	43	1.78
43047657--43047767	27	4.1	27	85	2	100	27	12	19	39	1.88
43047630--43047748	54	2.2	53	77	7	125	30	11	19	38	1.87
43047706--43047774	27	2.6	27	83	0	84	26	15	20	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43052075--43052390	144	2.2	142	87	3	447	23	28	19	28	1.98
43052075--43052390	48	6.6	48	77	5	318	23	28	19	28	1.98
43053586--43053904	48	6.6	48	74	5	243	22	26	18	31	1.97
43053674--43053903	96	2.4	96	82	4	268	23	26	19	31	1.98
43053532--43053912	144	2.7	143	79	4	390	23	26	18	30	1.98
43059012--43059468	47	9.6	47	93	2	729	27	29	8	33	1.87
43059277--43059352	22	3.3	22	66	16	64	26	30	10	32	1.90
43059033--43059468	190	2.3	190	93	2	727	27	29	9	33	1.88
43059012--43059445	237	1.8	235	93	2	746	27	29	9	33	1.88
43065865--43066249	144	2.7	144	77	3	362	24	26	17	30	1.97

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