genome.fa.s25.2.7.7.80.10.50.1000.159.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_chr12
Parameters: 2 7 7 80 10 50 1000
Length:  101062743

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   

This is table  159  of  297  ( 35593 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)
53969745--53969769	5	5.0	5	100	0	50	80	0	20	0	0.72
53969908--53969954	24	2.0	24	87	4	69	27	2	6	63	1.30
53972404--53972549	37	4.0	37	93	1	242	24	21	16	36	1.94
53972513--53972781	46	5.6	46	84	10	340	28	22	14	34	1.93
53972556--53972775	52	4.3	52	85	8	299	27	22	14	35	1.93
53972513--53972781	98	2.7	98	93	0	457	28	22	14	34	1.93
53978565--53978633	16	4.0	16	71	22	59	28	0	0	71	0.87
53978576--53978628	23	2.4	23	84	6	65	32	0	0	67	0.91
53978564--53978636	37	2.0	36	84	7	94	30	0	0	69	0.88
53980281--53980342	29	2.1	29	85	11	83	56	8	0	35	1.29
53980311--53980400	24	4.0	23	69	15	64	56	3	1	38	1.23
53982069--53982098	7	4.3	7	100	0	60	26	13	13	46	1.80
53985766--53985803	18	2.0	20	85	10	53	63	5	0	31	1.17
53987312--53987374	31	2.0	31	87	6	92	38	6	7	47	1.58
53991832--53991862	16	1.9	16	93	0	53	48	6	6	38	1.55
53992027--53992083	18	3.1	19	80	10	64	38	1	5	54	1.33
54000957--54000981	6	4.2	6	100	0	50	80	0	0	20	0.72
54004833--54004861	15	1.9	15	100	0	58	44	6	34	13	1.71
54004832--54004871	21	1.9	21	89	0	62	45	7	35	12	1.70
54016945--54016977	16	2.1	16	100	0	66	54	0	12	33	1.37
54021895--54021939	22	2.0	22	83	8	56	53	17	6	22	1.67
54026585--54026632	26	1.9	26	83	8	64	58	6	10	25	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54032348--54032619	135	2.0	135	97	0	517	30	14	16	37	1.89
54032616--54032877	130	2.0	130	97	0	497	42	15	16	25	1.88
54032848--54033405	277	2.0	277	99	0	1107	34	21	14	29	1.94
54037073--54037136	33	1.9	33	96	0	119	39	12	10	37	1.78
54042783--54042829	21	2.2	22	92	3	78	21	19	38	21	1.94
54047254--54047335	30	2.7	30	92	0	128	47	7	20	24	1.75
54051921--54051998	15	5.2	15	67	11	61	44	7	21	25	1.79
54051917--54051998	30	2.7	30	94	0	137	46	7	21	24	1.77
54052972--54053004	6	5.5	6	100	0	66	84	0	0	15	0.61
54067493--54067548	19	2.9	19	78	5	60	55	3	0	41	1.17
54067514--54067577	19	3.2	20	87	10	80	57	1	0	40	1.08
54068920--54068977	29	2.0	29	83	6	73	44	12	0	43	1.41
54070703--54070727	13	1.9	13	100	0	50	56	0	0	44	0.99
54073802--54073831	8	3.8	8	95	0	51	70	0	0	30	0.88
54075676--54075765	43	2.1	43	100	0	180	24	33	24	17	1.96
54086150--54086263	56	2.0	55	80	9	124	59	2	0	37	1.11
54086213--54086259	15	3.1	15	77	17	51	63	0	0	36	0.94
54086200--54086287	31	2.6	33	80	12	99	61	0	0	38	0.96
54087185--54087341	51	3.1	50	93	1	260	31	15	24	29	1.95
54088457--54088520	29	2.2	28	86	2	83	46	14	10	28	1.77
54088675--54088720	23	2.0	23	84	12	60	45	10	6	36	1.65
54088682--54088726	23	2.0	23	82	8	56	40	13	8	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54090574--54090615	22	1.9	22	85	0	57	52	9	19	19	1.72
54098749--54098782	4	8.0	4	90	9	50	23	0	2	73	0.97
54098732--54098791	22	2.7	22	73	19	61	26	0	6	66	1.16
54099984--54100021	15	2.5	15	83	8	51	68	0	5	26	1.11
54100433--54100457	3	8.3	3	100	0	50	32	0	0	68	0.90
54106163--54106217	27	2.0	27	96	0	101	54	0	7	38	1.28
54108784--54108847	27	2.4	27	84	5	85	45	0	0	54	0.99
54108800--54108845	8	5.2	9	77	12	51	39	0	0	60	0.97
54116840--54116866	14	1.9	14	100	0	54	59	0	7	33	1.25
54127038--54127097	30	2.0	30	90	0	93	18	23	16	41	1.90
54128183--54128210	4	7.0	4	100	0	56	0	25	0	75	0.81
54131416--54131458	1	43.0	1	100	0	86	0	0	0	100	0.00
54136736--54137070	168	2.0	167	94	0	589	42	11	18	27	1.84
54149299--54149350	22	2.4	19	75	25	50	57	1	1	38	1.21
54149422--54149468	17	2.8	18	78	18	57	72	0	2	25	0.96
54149433--54149477	17	2.8	16	83	12	56	75	0	2	22	0.91
54153280--54153339	31	1.9	32	86	3	86	38	0	5	56	1.21
54153301--54153355	24	2.2	26	93	6	96	41	0	3	54	1.18
54170681--54170774	46	2.0	46	97	0	179	46	12	10	29	1.76
54174624--54174667	13	3.5	13	75	12	56	59	6	2	31	1.36
54174621--54174677	24	2.5	23	91	5	89	59	5	3	31	1.36
54174621--54174692	22	3.2	22	84	4	72	59	4	5	30	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54174761--54174794	15	2.3	15	89	0	50	52	14	0	32	1.42
54174755--54174814	19	2.8	20	76	19	52	55	10	3	31	1.50
54174964--54175003	16	2.4	16	87	4	53	57	5	2	35	1.34
54175689--54175734	3	15.3	3	86	0	65	60	0	4	34	1.16
54178278--54178338	21	3.0	21	69	13	56	52	3	1	42	1.27
54178278--54178340	20	3.2	20	69	13	58	50	3	1	44	1.27
54178848--54178872	13	1.9	13	100	0	50	56	0	0	44	0.99
54180632--54180691	24	2.5	23	76	7	57	70	5	16	8	1.31
54184117--54184150	17	2.0	17	94	0	59	44	50	0	5	1.26
54188756--54188789	17	2.0	17	94	0	59	44	50	0	5	1.26
54200043--54200214	52	3.2	53	80	11	176	31	27	15	25	1.96
54203005--54203101	3	31.3	3	69	15	56	58	3	6	31	1.38
54203063--54203099	19	1.9	19	94	0	65	62	5	5	27	1.39
54205449--54205528	40	2.0	40	97	0	151	32	25	8	33	1.86
54212487--54212548	29	2.1	29	82	5	72	30	3	4	61	1.33
54213455--54213516	33	1.9	32	83	3	79	40	14	8	37	1.76
54215810--54216017	47	4.3	48	72	13	156	35	24	12	28	1.91
54215856--54215969	53	2.1	55	84	7	146	36	21	10	30	1.88
54215810--54216018	100	2.1	102	81	5	246	35	23	11	28	1.91
54225072--54225276	73	2.8	73	90	0	322	27	16	24	31	1.96
54225287--54225515	74	3.1	73	88	4	302	31	15	19	34	1.93
54227906--54227945	21	1.9	21	89	0	62	37	2	2	57	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54228018--54228068	24	2.1	25	85	3	68	35	0	7	56	1.28
54229891--54229939	17	2.7	18	78	18	57	28	6	0	65	1.16
54233080--54233138	18	3.2	18	80	9	66	52	1	0	45	1.10
54239891--54239928	18	2.1	18	90	0	58	42	21	15	21	1.89
54240258--54240336	9	8.8	9	97	0	131	22	10	29	37	1.87
54240497--54240521	12	2.1	12	100	0	50	16	24	36	24	1.94
54247063--54247101	21	1.9	20	84	5	51	30	2	2	64	1.21
54247542--54247580	20	1.9	20	84	5	51	33	2	2	61	1.23
54247559--54247618	30	2.0	30	83	6	77	46	0	0	53	1.00
54249716--54249740	13	1.9	13	100	0	50	92	0	8	0	0.40
54260101--54260154	28	1.9	28	100	0	108	42	9	11	37	1.73
54268460--54268679	110	2.0	110	100	0	440	29	20	15	35	1.93
54270068--54270110	22	2.0	21	82	13	52	62	4	2	30	1.28
54274603--54274628	7	3.7	7	100	0	52	15	23	0	61	1.33
54274604--54274654	25	2.0	25	85	7	68	11	17	1	68	1.29
54274603--54274656	7	8.1	7	82	12	51	14	18	1	64	1.37
54274631--54274661	14	2.2	14	94	0	53	16	12	6	64	1.47
54286955--54287061	28	3.8	28	88	0	151	30	23	10	35	1.88
54295136--54295347	28	7.5	28	77	3	208	30	35	18	15	1.92
54295105--54295349	57	4.3	57	93	0	400	29	35	17	16	1.92
54295106--54295319	29	7.4	29	74	4	191	29	36	17	16	1.92
54297322--54297428	28	3.8	28	92	0	160	29	25	10	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54302128--54302238	54	2.1	54	98	0	213	30	12	13	43	1.81
54303273--54303345	28	2.6	28	78	10	85	47	4	1	46	1.30
54307908--54307946	13	3.0	13	92	7	62	20	30	25	23	1.98
54309792--54309924	35	3.6	38	81	9	152	31	10	23	34	1.89
54309796--54309884	40	2.4	34	85	10	97	33	8	24	32	1.87
54312123--54312326	74	2.7	75	85	4	261	32	20	20	26	1.97
54312204--54312323	40	3.2	40	64	23	96	34	17	20	28	1.95
54312123--54312358	75	3.2	74	84	3	242	33	19	20	26	1.97
54312218--54312387	35	4.7	35	73	7	153	31	21	21	25	1.98
54315492--54315858	46	8.0	46	88	2	468	22	23	13	41	1.88

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297