genome.fa.s20.2.7.7.80.10.50.1000.163.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  163  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)
54207527--54207574	21	2.3	21	82	3	53	33	2	4	60	1.27
54209878--54209927	17	2.7	20	78	18	70	10	0	44	46	1.37
54214917--54215059	48	3.0	48	84	2	171	28	27	20	23	1.99
54217914--54218528	155	4.0	154	80	6	739	29	18	21	29	1.97
54218386--54218479	40	2.3	39	79	15	102	28	20	24	26	1.99
54218956--54219008	21	2.5	21	90	3	88	43	30	3	22	1.71
54219355--54219402	7	6.4	7	79	11	51	22	0	29	47	1.51
54219454--54219488	15	2.4	14	90	4	52	17	0	37	45	1.48
54219610--54219715	7	14.9	7	72	3	50	20	0	36	41	1.59
54219777--54219829	14	3.7	14	75	5	52	22	0	28	49	1.50
54219834--54219896	29	2.1	30	85	8	85	20	3	47	28	1.65
54220013--54220063	26	2.0	24	85	14	68	43	9	3	43	1.56
54220010--54220062	18	3.1	17	83	5	63	43	9	3	43	1.55
54220177--54220212	17	2.2	17	95	5	65	22	0	5	72	1.05
54221195--54221233	10	3.7	10	83	12	51	12	12	2	71	1.24
54221308--54221337	13	2.2	14	94	5	53	76	10	0	13	1.01
54221509--54221666	85	1.9	85	90	1	255	25	18	11	44	1.83
54223643--54224543	64	14.1	64	99	0	1793	37	12	4	45	1.62
54224592--54224662	24	3.0	24	91	0	115	29	19	7	43	1.77
54224836--54224909	29	2.6	29	93	4	123	47	1	0	51	1.09
54224836--54224920	15	5.8	15	71	20	81	45	1	0	52	1.08
54225025--54225452	9	47.6	9	70	15	149	46	14	2	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54225026--54225426	18	21.7	18	68	15	171	46	14	2	37	1.57
54225021--54225432	62	6.5	63	68	22	236	45	14	2	37	1.57
54225086--54225170	44	1.9	44	85	4	118	48	15	0	36	1.45
54225165--54225218	26	2.1	26	100	0	108	46	14	3	35	1.63
54225323--54225397	17	4.4	17	86	3	105	50	8	2	38	1.46
54225310--54225390	35	2.3	35	89	0	126	48	11	3	37	1.57
54225411--54225464	26	2.1	26	100	0	108	46	14	3	35	1.63
54225096--54225488	62	6.3	61	71	18	256	45	15	2	37	1.58
54228520--54228650	54	2.4	53	78	2	145	33	12	22	31	1.92
54228520--54228650	27	4.9	27	78	1	129	33	12	22	31	1.92
54228590--54228666	27	2.9	27	84	3	84	31	14	23	31	1.94
54231887--54232031	72	2.0	72	98	0	281	37	11	22	28	1.88
54232077--54232156	30	2.7	29	80	7	88	36	15	25	23	1.93
54232197--54232276	30	2.7	30	82	0	106	43	11	23	21	1.84
54239582--54239757	28	6.3	28	91	2	239	34	27	12	25	1.92
54243825--54244017	40	4.8	40	88	2	239	24	21	28	25	1.99
54243822--54244017	80	2.5	80	87	1	268	25	20	28	25	1.99
54255991--54256210	46	4.8	44	76	12	176	29	17	29	24	1.97
54255942--54256212	93	2.9	90	77	8	251	30	17	26	24	1.97
54265089--54265231	38	3.7	38	79	3	171	16	20	30	32	1.95
54275522--54276165	322	2.0	322	98	0	1234	31	16	26	24	1.96
54277761--54277938	27	6.6	27	83	3	205	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54277762--54277917	82	1.9	81	88	3	233	26	15	28	29	1.96
54277758--54277938	82	2.2	81	83	2	229	27	15	27	29	1.96
54282816--54282840	13	1.9	13	100	0	50	40	24	4	32	1.73
54296676--54296726	25	2.1	24	81	3	57	47	19	0	33	1.50
54311182--54311359	27	6.6	27	84	3	205	29	28	15	26	1.96
54311203--54311358	82	1.9	81	88	3	233	29	28	15	26	1.96
54319245--54319422	27	6.6	27	84	3	205	29	28	15	26	1.96
54319266--54319421	82	1.9	81	88	3	233	29	28	15	26	1.96
54330877--54331246	27	13.7	27	88	1	472	30	14	16	38	1.88
54331239--54331301	27	2.3	27	83	5	74	42	15	17	23	1.88
54331336--54331385	23	2.2	23	82	13	59	26	16	18	40	1.90
54331690--54331782	35	2.7	35	88	1	143	37	18	17	26	1.93
54331692--54331814	34	3.6	34	84	3	149	34	20	18	26	1.96
54340814--54340880	26	2.6	26	75	0	71	16	11	28	43	1.83
54340893--54340960	34	2.0	34	94	0	118	25	11	17	45	1.82
54340877--54340963	34	2.9	29	73	17	77	22	10	21	44	1.82
54345125--54345169	20	2.2	20	100	0	90	44	20	17	17	1.87
54350990--54351054	29	2.2	29	97	0	121	23	29	30	16	1.96
54361133--54361161	13	2.2	13	100	0	58	31	51	6	10	1.62
54365419--54365784	189	1.9	189	100	0	732	28	23	9	38	1.85
54369865--54369921	26	2.2	26	90	6	89	43	24	19	12	1.85
54369865--54369933	26	2.8	25	82	10	70	43	23	18	14	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54371822--54371863	21	2.0	21	90	0	66	38	7	16	38	1.76
54380700--54380724	13	1.9	13	100	0	50	40	8	32	20	1.81
54383629--54383709	29	2.8	29	78	10	76	55	1	3	39	1.25
54383702--54383756	22	2.7	20	72	10	56	61	0	5	32	1.19
54384083--54384132	26	1.9	26	83	0	64	32	2	4	62	1.25
54384668--54384717	25	2.0	25	92	0	82	34	2	4	60	1.27
54384750--54384800	26	1.9	26	84	4	66	62	0	1	35	1.06
54385548--54385922	187	2.0	187	99	0	741	46	12	14	26	1.81
54390974--54391091	39	3.0	39	100	0	236	17	15	30	36	1.91
54394707--54394732	12	2.2	12	100	0	52	50	7	0	42	1.31
54395214--54395391	27	6.6	27	83	3	205	26	15	28	29	1.96
54395215--54395370	82	1.9	81	88	3	233	26	15	28	29	1.96
54395211--54395391	82	2.2	81	83	2	229	27	15	27	29	1.96
54396965--54397260	43	6.9	43	92	3	463	27	29	19	23	1.99
54409733--54409854	43	2.8	43	91	4	185	23	31	22	22	1.99
54410135--54410280	73	2.0	73	97	0	274	38	19	8	34	1.81
54411924--54412186	46	5.7	46	75	8	273	25	19	25	29	1.99
54411922--54412218	93	3.2	93	93	0	504	25	19	26	28	1.99
54414032--54414379	174	2.0	174	100	0	696	31	15	14	38	1.88
54415319--54415383	26	2.5	26	73	16	71	63	0	1	35	1.04
54426671--54426726	28	2.0	27	83	16	71	35	3	25	35	1.73
54427145--54427301	42	3.7	43	76	9	142	26	19	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54427692--54428073	207	1.8	207	97	0	728	30	8	18	42	1.79
54428645--54428736	45	2.0	45	100	0	184	29	15	16	39	1.89
54430761--54430999	42	5.5	42	71	9	124	29	28	15	25	1.96
54432012--54432055	20	2.3	20	88	7	65	13	36	31	18	1.90
54433807--54433899	40	2.3	40	83	3	116	31	25	16	26	1.96
54436411--54436461	19	2.7	19	90	0	84	43	13	23	19	1.87
54436406--54436534	25	5.4	25	77	12	128	44	10	22	21	1.83
54436430--54436541	50	2.2	50	88	3	172	44	12	21	21	1.85
54436406--54436534	44	2.8	44	79	11	125	44	10	22	21	1.83
54437504--54437651	80	1.9	80	91	0	242	20	27	20	31	1.98
54437504--54437651	40	3.7	40	86	0	206	20	27	20	31	1.98
54448492--54448546	28	2.0	28	100	0	110	27	0	25	47	1.52
54453630--54453696	35	2.0	33	85	11	91	62	1	4	31	1.24
54457248--54457355	26	4.2	26	95	0	189	33	7	23	36	1.83
54458938--54459049	27	4.2	26	84	7	134	16	23	23	36	1.94
54458938--54459049	54	2.1	54	86	3	154	16	23	23	36	1.94
54473412--54473455	16	2.7	16	82	10	54	81	0	11	6	0.86
54475131--54475195	34	2.0	34	84	6	89	30	26	16	26	1.97
54477036--54477143	26	4.2	26	90	4	173	36	23	7	33	1.83
54479201--54479562	46	7.8	46	77	16	381	21	19	29	29	1.98
54479198--54479555	93	3.8	93	98	0	682	21	20	29	28	1.98
54482772--54482810	15	2.7	15	92	4	62	35	2	5	56	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54491293--54491324	16	2.0	16	93	0	55	46	6	9	37	1.61
54497753--54497862	57	1.9	57	81	7	134	25	18	21	34	1.96
54501740--54501779	16	2.5	16	100	0	80	30	5	25	40	1.77
54508169--54508232	31	2.1	31	100	0	128	42	21	3	32	1.69
54508968--54509051	25	3.4	25	70	6	71	34	16	25	23	1.95
54509068--54509226	25	6.4	25	70	10	85	37	21	22	18	1.94
54509123--54509170	23	2.1	23	88	0	69	33	16	25	25	1.96
54509163--54509237	26	2.9	26	82	4	89	38	22	21	17	1.93
54512045--54512094	19	2.5	20	83	3	66	28	12	4	56	1.54
54514379--54514410	13	2.5	13	100	0	64	46	0	0	53	1.00

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