genome.fa.s20.2.7.7.80.10.50.1000.31.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  31  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)
9255968--9256018	10	4.9	10	77	17	59	31	0	0	68	0.90
9255977--9256001	13	1.9	13	100	0	50	44	0	0	56	0.99
9257477--9257921	148	3.1	148	93	3	728	27	7	10	54	1.61
9257867--9257952	32	2.6	33	85	7	113	24	8	5	61	1.46
9257903--9257952	16	3.2	15	75	8	55	20	6	6	68	1.33
9263274--9263326	10	4.9	10	82	17	70	32	0	0	67	0.91
9263277--9263327	11	4.5	11	83	11	68	29	0	0	70	0.87
9265492--9265559	31	2.2	31	84	5	84	36	2	1	58	1.22
9266239--9266293	21	2.6	20	77	11	56	41	1	0	56	1.10
9266310--9266344	10	3.6	10	84	7	54	62	2	0	34	1.10
9266446--9266497	22	2.3	23	83	12	72	59	1	0	38	1.08
9275950--9276042	18	5.2	18	90	0	150	27	24	16	31	1.96
9281590--9281620	15	2.1	15	100	0	62	29	0	12	58	1.35
9282300--9282334	15	2.2	16	90	10	54	65	5	5	22	1.36
9282428--9282453	12	2.2	12	100	0	52	15	23	34	26	1.94
9289277--9289322	22	2.1	22	88	8	67	23	2	4	69	1.17
9289295--9289332	17	2.2	17	90	0	58	21	2	5	71	1.19
9289279--9289352	38	1.9	39	83	8	98	27	1	4	67	1.16
9289587--9289648	29	2.3	26	81	15	65	50	1	0	48	1.10
9306190--9306254	23	2.9	22	88	6	87	13	6	41	38	1.70
9306833--9307370	132	4.1	132	93	0	851	29	24	16	28	1.97
9306833--9307340	44	11.5	45	76	4	410	29	25	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9320679--9320722	23	1.9	23	95	0	79	15	4	40	38	1.68
9337662--9337704	15	3.2	15	69	30	51	55	18	18	6	1.64
9337653--9337704	25	2.1	25	100	0	104	57	19	15	7	1.62
9340100--9340139	19	2.1	19	85	4	53	52	2	12	32	1.52
9340664--9340996	165	2.0	164	84	4	438	33	15	19	31	1.93
9350541--9351500	479	2.0	480	90	0	1510	31	19	16	31	1.95
9351946--9352547	249	2.3	256	82	6	707	34	6	6	52	1.52
9351943--9352556	128	4.8	128	84	6	733	34	6	6	53	1.52
9358446--9358489	22	2.0	22	82	8	54	2	50	0	47	1.13
9358454--9358504	22	2.4	21	83	9	59	1	47	0	50	1.12
9373408--9373513	53	2.0	53	98	0	203	40	13	19	26	1.88
9375547--9375589	21	2.0	21	95	0	77	30	27	13	27	1.95
9377796--9377881	43	2.0	43	97	0	163	26	11	24	37	1.90
9390306--9390356	24	2.1	24	92	0	84	35	1	39	23	1.66
9391581--9391692	27	4.2	26	83	7	134	16	23	23	37	1.93
9391581--9391692	54	2.1	54	88	3	163	16	23	23	37	1.93
9400106--9400169	30	2.2	29	97	2	119	25	17	23	34	1.96
9403223--9403336	44	2.5	47	85	5	144	25	32	17	24	1.97
9403166--9403336	92	1.8	93	82	7	222	25	30	18	25	1.98
9403124--9403456	140	2.4	140	79	8	320	25	30	18	25	1.98
9406673--9406726	15	3.7	14	82	7	54	46	35	0	18	1.50
9406686--9406729	7	6.1	7	84	5	61	45	36	0	18	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9406673--9406729	22	2.6	22	88	0	78	45	35	0	19	1.50
9407980--9408035	28	2.0	28	100	0	112	28	21	14	35	1.92
9415244--9415295	20	2.6	20	84	0	68	55	7	0	36	1.29
9426355--9426404	25	2.0	25	100	0	100	40	4	24	32	1.73
9427047--9427096	24	2.1	24	100	0	100	20	12	8	60	1.57
9428670--9428710	20	2.0	20	85	4	55	39	12	19	29	1.88
9433878--9433983	26	4.1	26	92	0	176	33	7	24	34	1.84
9435162--9435191	8	3.8	8	90	0	51	43	26	26	3	1.70
9435581--9435685	27	3.9	27	86	9	135	19	24	21	34	1.96
9440942--9441047	26	4.2	26	82	4	153	33	7	22	35	1.83
9440942--9441047	50	2.1	51	87	3	151	33	7	22	35	1.83
9442226--9442255	8	3.8	8	90	0	51	43	26	26	3	1.70
9442642--9442785	54	2.7	54	95	2	254	17	25	23	34	1.96
9442645--9442803	27	5.9	27	83	11	193	18	25	22	33	1.96
9442645--9442803	81	2.0	80	85	8	216	18	25	22	33	1.96
9449226--9449300	26	2.8	26	81	4	78	34	21	12	32	1.90
9449405--9449456	27	1.9	27	88	7	79	19	25	23	32	1.97
9452882--9453034	11	15.6	10	65	23	60	63	3	2	30	1.26
9452978--9453062	19	4.5	18	78	16	84	64	4	2	28	1.26
9452992--9453070	28	2.9	28	87	11	94	67	5	1	26	1.19
9452867--9453061	8	20.6	9	66	23	73	65	4	2	28	1.24
9452992--9453062	9	7.9	8	78	21	70	67	4	1	26	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9452994--9453116	19	7.2	16	71	24	76	64	4	1	30	1.22
9452989--9453120	8	14.5	8	66	24	50	62	3	1	32	1.22
9455009--9455080	10	7.5	10	82	13	89	26	2	1	69	1.10
9455009--9455098	20	4.8	19	81	10	98	25	2	2	70	1.11
9455009--9455080	29	2.5	28	86	6	99	26	2	1	69	1.10
9455009--9455098	9	9.7	9	78	9	92	25	2	2	70	1.11
9455750--9455791	3	14.3	3	80	5	50	66	4	28	0	1.12
9469696--9469733	20	1.9	20	94	0	67	42	2	21	34	1.67
9469949--9470045	19	4.7	19	71	20	63	69	3	1	26	1.10
9469969--9470044	26	2.9	27	80	11	77	68	1	1	28	1.06
9469967--9470044	27	2.9	26	78	16	70	67	1	1	29	1.06
9469991--9470124	19	6.9	19	68	20	64	58	3	1	35	1.25
9474321--9474358	20	1.9	20	94	0	67	42	2	21	34	1.67
9474574--9474670	19	4.7	19	71	20	63	69	3	1	26	1.10
9474594--9474669	26	2.9	27	80	11	77	68	1	1	28	1.06
9474592--9474669	27	2.9	26	78	16	70	67	1	1	29	1.06
9474616--9474749	19	6.9	19	68	20	64	58	3	1	35	1.25
9482355--9482539	50	3.7	50	99	0	361	16	32	23	26	1.96
9482634--9482665	13	2.5	13	94	0	55	56	12	0	31	1.37
9482877--9482934	30	1.9	30	89	0	89	31	24	3	41	1.71
9484136--9484162	5	5.4	5	100	0	54	59	0	0	40	0.98
9487446--9487595	76	2.0	76	82	0	183	24	26	13	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9491935--9491964	15	1.9	16	93	6	53	63	0	6	30	1.20
9492048--9492087	20	2.2	17	86	13	53	65	0	35	0	0.93
9497434--9497551	37	3.1	37	65	13	87	26	26	12	34	1.92
9497870--9497921	8	6.4	8	87	10	61	84	0	7	7	0.77
9499089--9499126	19	2.0	19	94	0	67	31	23	10	34	1.89
9504644--9504902	73	3.5	73	98	0	500	41	24	6	27	1.79
9504903--9504964	3	20.7	3	96	0	106	70	0	0	29	0.87
9509295--9509323	3	9.7	3	100	0	58	68	0	0	31	0.89
9513483--9513536	27	1.9	29	85	7	76	44	1	7	46	1.42
9514621--9514662	20	2.1	20	86	0	57	47	0	7	45	1.30
9516498--9516555	24	2.6	21	80	20	64	41	0	1	56	1.09
9517279--9517314	16	2.4	15	90	9	56	11	16	0	72	1.12
9520778--9520802	7	3.6	7	100	0	50	12	16	0	72	1.13
9525817--9525932	24	4.8	24	92	3	189	36	4	37	21	1.73
9525810--9525939	24	5.4	24	88	7	153	38	4	37	19	1.72
9527316--9527426	27	4.2	26	85	5	141	17	23	21	37	1.93
9531148--9531187	18	2.2	18	90	0	62	17	27	20	35	1.95
9544422--9544587	24	6.8	25	71	11	85	33	16	28	21	1.95
9546109--9546164	28	2.0	28	100	0	112	46	17	10	25	1.80
9547148--9547231	42	2.0	42	90	0	132	20	22	13	44	1.86
9549558--9549617	25	2.4	25	77	5	68	33	20	30	16	1.94
9559409--9559437	5	5.8	5	100	0	58	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9562134--9562183	25	2.0	25	100	0	100	32	8	20	40	1.81
9562771--9562824	26	2.1	25	82	6	63	44	16	14	24	1.85
9563379--9563413	18	1.9	18	100	0	70	31	0	28	40	1.57
9566427--9566461	18	1.9	18	100	0	70	62	17	0	20	1.32
9569183--9569285	41	2.5	41	88	1	163	37	23	24	14	1.92
9569225--9569339	60	1.9	60	92	0	194	39	22	21	16	1.92
9569504--9569588	21	3.9	21	77	11	98	27	1	27	44	1.62
9569511--9569604	46	2.0	46	97	0	179	29	2	25	42	1.67
9569496--9569593	7	13.4	7	72	8	61	26	1	25	46	1.59
9569652--9569724	21	3.5	21	76	9	69	20	0	39	39	1.53

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