genome.fa.s8.2.7.7.80.10.50.1000.145.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  145  of  279  ( 33431 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)
47127016--47127040	5	5.0	5	100	0	50	60	0	0	40	0.97
47146493--47146543	22	2.3	23	83	10	61	56	1	9	31	1.43
47157723--47157871	53	2.8	53	85	5	187	27	17	26	28	1.98
47165661--47165731	30	2.4	30	80	2	72	56	1	0	42	1.08
47165652--47165731	29	2.7	29	78	1	79	55	1	1	42	1.16
47167375--47167410	18	1.9	19	88	5	56	63	0	5	30	1.17
47169518--47169569	24	2.1	26	82	7	63	26	0	5	67	1.13
47169685--47169746	18	3.6	18	74	12	58	33	1	0	64	1.03
47176234--47176267	14	2.4	15	85	14	54	58	0	0	41	0.98
47176684--47176725	3	13.3	3	81	18	50	35	0	2	61	1.09
47176684--47176725	10	4.4	9	82	14	50	35	0	2	61	1.09
47176653--47176739	7	11.9	7	75	14	61	41	0	2	56	1.12
47178453--47178484	15	2.3	15	89	10	50	40	0	18	40	1.51
47179659--47179751	43	2.1	43	96	2	168	49	21	0	29	1.50
47180066--47180104	20	1.9	20	89	5	60	64	2	5	28	1.28
47182285--47182330	24	1.9	24	86	0	65	56	0	0	43	0.99
47183231--47183471	42	5.7	42	87	1	349	33	10	32	22	1.89
47197691--47197784	47	2.0	48	97	2	181	29	6	25	38	1.81
47199054--47199747	90	7.7	90	93	0	1039	22	29	17	29	1.97
47200921--47200957	13	2.8	13	95	0	65	40	16	8	35	1.78
47201258--47201314	23	2.4	24	85	5	80	54	17	15	12	1.71
47202460--47202544	42	2.0	42	100	0	170	35	14	4	45	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47211714--47211754	16	2.6	16	82	17	50	36	2	2	58	1.24
47214558--47214598	13	3.3	13	73	13	50	34	14	0	51	1.43
47214551--47214598	24	2.0	24	100	0	96	33	12	0	54	1.38
47214703--47214738	18	2.0	18	100	0	72	22	5	22	50	1.70
47231121--47231342	39	5.7	39	90	2	338	30	28	21	19	1.97
47231131--47231342	77	2.7	78	90	2	329	31	29	20	18	1.97
47233272--47233359	21	4.1	22	77	10	101	35	25	23	15	1.95
47233277--47233358	44	1.9	41	85	7	110	32	26	24	15	1.95
47233550--47233620	28	2.9	23	77	18	79	45	33	4	16	1.67
47233564--47233647	28	3.0	28	89	1	123	47	30	2	19	1.62
47234745--47234921	88	2.0	89	96	1	329	34	18	7	39	1.79
47236646--47236761	58	2.0	58	98	0	223	30	21	13	34	1.92
47237026--47237101	39	1.9	39	84	5	100	36	5	15	42	1.70
47239822--47239861	3	13.3	3	100	0	80	67	0	0	32	0.91
47239994--47240036	21	2.0	21	95	0	77	34	25	2	37	1.69
47240422--47240485	31	2.1	31	93	0	110	43	9	3	43	1.52
47242497--47242521	13	1.9	13	100	0	50	0	16	0	84	0.63
47254208--47254279	36	2.0	36	100	0	144	22	16	38	22	1.93
47303097--47303170	36	2.1	36	97	0	139	9	33	9	47	1.68
47338275--47338320	20	2.2	20	84	11	56	67	15	10	6	1.40
47338387--47338424	8	4.8	8	83	9	51	73	2	0	23	0.95
47339375--47339697	27	12.0	27	80	9	311	27	20	9	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47339370--47339696	108	3.0	108	88	0	447	27	20	9	42	1.83
47339713--47339899	27	6.9	27	82	0	203	35	16	20	27	1.94
47339705--47339899	54	3.6	54	84	2	230	35	15	20	28	1.93
47340327--47340391	22	3.0	21	77	6	67	20	21	23	35	1.96
47340550--47340651	27	3.8	27	85	5	116	19	23	20	36	1.95
47340550--47340651	54	1.9	53	83	2	132	19	23	20	36	1.95
47340800--47340843	19	2.3	19	84	0	52	22	22	11	43	1.85
47343080--47343111	13	2.4	14	94	5	57	37	0	9	53	1.34
47343524--47343575	21	2.5	21	83	0	68	26	21	48	3	1.67
47343816--47343874	31	1.9	31	89	0	91	16	5	20	57	1.58
47348756--47348808	18	2.6	20	77	20	56	33	3	11	50	1.56
47348949--47349007	25	2.4	24	80	8	64	28	23	18	28	1.98
47357033--47357065	7	4.9	7	88	7	50	18	0	0	81	0.68
47357033--47357065	13	2.5	13	95	0	57	18	0	0	81	0.68
47363516--47363547	11	3.0	11	95	4	57	62	0	0	37	0.95
47365035--47365083	24	2.0	24	84	7	64	32	20	16	30	1.94
47368076--47368144	30	2.3	30	82	2	75	47	8	8	34	1.65
47371484--47371534	23	2.5	20	82	17	68	27	15	13	43	1.85
47371489--47371533	23	2.0	23	100	0	90	26	17	15	40	1.90
47375034--47375058	5	5.0	5	100	0	50	40	0	0	60	0.97
47375449--47375501	19	2.9	18	80	5	70	41	5	5	47	1.51
47375494--47375595	22	5.0	22	66	16	60	33	0	4	60	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47375534--47375586	19	2.8	19	81	13	58	35	0	5	58	1.22
47375525--47375574	20	2.6	20	79	17	61	36	0	4	60	1.16
47375525--47375577	19	2.8	20	75	16	58	35	0	3	60	1.15
47375515--47375604	47	1.9	47	81	4	110	33	2	3	61	1.25
47387297--47387344	21	2.3	21	92	0	78	18	8	18	54	1.68
47389753--47389979	41	5.5	41	95	0	391	23	27	19	29	1.98
47389752--47390033	123	2.3	123	85	6	376	24	26	18	30	1.98
47395966--47396015	13	3.9	13	80	12	59	22	0	26	52	1.48
47395966--47396015	25	1.9	27	92	8	86	22	0	26	52	1.48
47395969--47396025	25	2.2	26	84	12	73	24	1	24	49	1.60
47396531--47396570	5	8.0	5	100	0	80	40	0	0	60	0.97
47406915--47407073	79	2.0	79	98	0	309	34	10	21	33	1.88
47409451--47409706	128	2.0	128	100	0	512	33	5	19	41	1.74
47421784--47421854	33	2.2	33	81	0	79	29	15	42	12	1.84
47421794--47421865	33	2.2	33	87	0	99	30	12	41	15	1.84
47423734--47423772	18	2.2	17	86	13	53	30	2	20	46	1.64
47423997--47424095	23	4.3	23	94	0	162	22	21	24	32	1.98
47428373--47428487	60	1.9	60	92	0	194	53	13	0	33	1.46
47428554--47428579	7	3.7	7	100	0	52	61	0	0	38	0.96
47428660--47428699	13	3.0	13	82	7	53	0	32	0	67	0.91
47438608--47438652	18	2.5	19	82	10	58	66	2	0	31	1.04
47440107--47440373	132	2.0	132	99	0	525	25	28	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47441392--47441432	18	2.3	18	91	0	64	63	2	14	19	1.41
47441412--47441458	15	3.1	15	87	0	67	57	2	14	25	1.49
47446064--47446111	22	2.3	20	86	13	62	22	20	25	31	1.98
47448161--47448217	20	2.8	20	89	0	78	22	29	0	47	1.52
47448888--47449013	40	3.2	40	98	0	243	45	26	15	12	1.82
47453554--47453607	18	3.1	17	80	17	65	40	1	1	55	1.21
47453561--47453604	9	4.9	9	86	8	54	38	2	2	56	1.24
47487740--47487836	45	2.2	45	98	0	185	23	12	8	55	1.63
47487755--47487850	45	2.1	44	88	7	140	22	13	7	56	1.62
47494055--47494245	102	1.9	99	81	8	228	32	18	23	25	1.97
47495516--47495584	16	4.2	16	96	3	129	26	0	36	37	1.57
47495516--47495584	33	2.1	32	97	2	129	26	0	36	37	1.57
47495565--47495655	45	2.0	45	85	2	121	27	6	28	37	1.82
47495820--47495854	18	2.0	17	88	5	52	54	0	0	45	0.99
47495803--47496429	120	5.2	120	95	1	1060	48	4	2	44	1.37
47496178--47496214	16	2.2	17	86	13	51	54	0	2	43	1.14
47496298--47496333	18	2.1	17	90	10	56	61	0	0	38	0.96
47501801--47501870	16	4.1	16	67	16	50	42	2	2	51	1.31
47511321--47511388	33	2.1	32	91	2	109	27	13	25	33	1.93
47514591--47514655	30	2.2	30	91	0	103	24	4	13	56	1.56
47519804--47519848	18	2.6	17	83	13	56	17	4	20	57	1.56
47524968--47525053	41	2.1	41	95	0	154	52	4	12	30	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47530340--47530563	104	2.2	104	93	1	378	31	31	19	17	1.95
47530892--47530955	30	2.2	29	81	10	76	29	28	6	35	1.82
47530899--47530955	30	1.9	30	85	3	80	29	24	7	38	1.82
47537791--47538055	103	2.6	104	91	0	424	29	30	20	19	1.97
47538383--47538447	30	2.2	29	81	8	76	30	27	6	35	1.81
47538390--47538447	30	1.9	30	85	0	80	31	24	6	37	1.82
47539893--47539923	13	2.4	13	94	0	53	80	0	3	16	0.83
47541197--47541534	103	3.3	103	88	4	502	18	19	28	32	1.96
47541262--47541343	27	2.8	28	87	10	103	14	23	30	31	1.94
47553680--47554015	103	3.3	103	90	2	480	31	28	20	18	1.96

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