genome.fa.s12.2.7.7.80.10.50.1000.177.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_chr13
Parameters: 2 7 7 80 10 50 1000
Length:  91551117

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   

This is table  177  of  276  ( 33102 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)
58350422--58350453	14	2.4	13	90	10	55	18	6	12	62	1.50
58351155--58351199	17	2.8	17	75	18	51	26	13	0	60	1.34
58353275--58353308	17	2.0	17	100	0	68	47	11	35	5	1.65
58355170--58355346	27	6.5	28	80	7	161	30	27	15	27	1.96
58355170--58355346	55	3.3	54	80	4	187	30	27	15	27	1.96
58355191--58355345	82	1.9	80	84	5	204	30	27	15	27	1.96
58375307--58375407	50	2.0	50	98	0	193	44	14	9	30	1.78
58378258--58378442	40	4.7	40	80	6	198	24	26	22	25	2.00
58385226--58385342	58	2.0	58	100	0	234	32	20	10	36	1.86
58386515--58386697	79	2.3	81	82	7	214	24	27	23	24	2.00
58386494--58386697	40	5.1	40	80	8	220	24	27	23	25	2.00
58393457--58393488	14	2.4	13	90	10	55	18	6	12	62	1.50
58399101--58399605	40	12.6	40	94	0	877	24	27	20	27	1.99
58405238--58405422	41	4.6	41	83	4	216	27	27	21	24	1.99
58407873--58407932	27	2.2	27	96	0	111	30	23	15	31	1.95
58416715--58416837	47	2.6	47	83	2	140	31	9	32	26	1.89
58416960--58417038	37	2.1	37	90	0	122	24	18	31	25	1.98
58418468--58418534	23	3.2	23	64	24	65	22	22	29	25	1.99
58418254--58418605	40	8.8	40	91	0	524	23	20	29	26	1.99
58421827--58422049	40	5.7	40	81	8	219	25	22	27	24	2.00
58421827--58422049	80	2.8	79	85	4	274	25	22	27	24	2.00
58425287--58426307	47	21.7	47	98	0	1911	32	8	29	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58428456--58428519	26	2.5	26	89	5	94	31	21	18	28	1.97
58428812--58428883	34	2.2	33	82	7	83	30	19	20	29	1.97
58429133--58429173	16	2.4	18	80	8	50	19	2	9	68	1.29
58432193--58432282	24	3.8	24	79	2	92	24	22	16	36	1.94
58432193--58432309	23	5.0	23	73	9	103	24	22	16	36	1.94
58432178--58432309	47	2.7	47	79	9	151	25	21	16	35	1.95
58433981--58434377	27	14.7	27	80	7	351	27	22	9	39	1.86
58433981--58434377	54	7.4	55	86	5	440	27	22	9	39	1.86
58433983--58434376	81	4.9	81	86	4	521	27	23	9	39	1.86
58434386--58434581	27	7.3	26	81	5	203	35	18	20	25	1.96
58434386--58434577	54	3.6	54	86	4	255	35	18	21	25	1.95
58434780--58434862	27	3.1	26	87	5	112	19	21	21	37	1.94
58434950--58435008	22	2.7	22	81	0	64	20	22	22	35	1.96
58435173--58435246	27	2.8	27	85	6	89	17	24	21	36	1.95
58435386--58435415	6	5.0	6	100	0	60	16	16	16	50	1.79
58436368--58436522	76	2.0	76	96	0	283	40	12	10	36	1.78
58439303--58439381	37	2.1	37	88	4	115	25	30	18	25	1.98
58439500--58439785	47	6.1	47	91	0	437	26	30	10	32	1.90
58447683--58447905	79	2.8	78	82	9	265	24	27	22	25	2.00
58447683--58447905	39	5.7	40	86	8	266	24	27	22	25	2.00
58453076--58453155	40	2.0	40	97	0	151	23	30	15	31	1.95
58479755--58479861	56	1.9	56	98	0	205	33	15	23	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58480985--58481018	17	2.0	17	88	0	50	29	20	8	41	1.82
58481096--58481129	3	11.3	3	87	12	52	67	0	29	2	1.05
58489271--58489480	40	5.3	39	89	4	242	25	21	27	25	1.99
58489218--58489480	120	2.2	120	82	4	309	25	21	27	25	1.99
58489219--58489515	80	3.7	80	81	6	230	26	21	27	24	1.99
58496538--58496760	40	5.6	40	87	3	254	25	20	27	26	1.99
58496612--58496795	79	2.3	80	82	3	221	26	20	27	25	1.99
58498793--58498862	34	2.1	34	97	0	131	38	15	14	31	1.88
58502855--58502943	38	2.4	38	92	1	144	39	11	16	32	1.84
58509042--58509106	22	3.0	22	80	8	78	30	23	26	20	1.98
58509246--58509329	41	2.0	41	95	0	150	26	27	22	23	2.00
58509561--58509652	27	3.4	27	87	3	114	27	14	18	40	1.89
58509604--58510320	27	26.7	28	80	8	572	31	10	20	37	1.87
58509604--58510294	54	12.9	54	83	4	673	30	10	20	37	1.87
58509604--58510294	161	4.3	160	83	4	784	30	10	20	37	1.87
58511649--58511770	43	2.9	42	80	2	145	31	16	23	27	1.96
58520559--58520589	15	2.1	15	93	0	53	19	0	25	54	1.44
58521346--58521714	168	2.2	168	83	2	461	26	15	27	30	1.96
58521346--58521731	43	9.1	43	82	5	453	26	15	27	30	1.96
58523802--58523859	29	1.9	31	86	6	84	36	3	24	36	1.72
58529416--58530426	83	12.3	83	97	1	1833	22	22	29	26	1.99
58532404--58532529	43	2.9	43	81	0	162	38	18	15	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58532505--58532554	25	2.0	25	92	0	82	36	20	16	28	1.93
58532530--58532764	43	5.5	42	80	5	184	40	17	17	25	1.90
58532530--58532774	86	2.8	86	80	3	224	41	16	16	25	1.89
58532614--58532781	43	3.9	43	86	1	203	39	17	18	24	1.91
58534359--58534402	19	2.5	18	82	13	56	45	15	2	36	1.59
58535062--58535135	37	2.0	37	94	0	130	36	6	6	50	1.56
58539304--58539346	21	2.0	21	95	0	77	46	0	27	25	1.53
58540466--58540519	24	2.2	24	83	0	63	16	31	37	14	1.89
58548164--58549153	43	23.7	43	78	10	737	17	32	34	15	1.91
58548105--58548623	85	6.1	85	83	6	453	17	34	32	15	1.92
58548105--58549153	128	8.4	127	77	12	752	17	32	33	15	1.92
58548164--58549153	85	11.9	86	77	12	876	17	32	34	15	1.91
58548598--58548721	65	1.9	65	90	3	196	16	29	37	15	1.90
58548555--58548759	107	1.9	107	84	4	270	17	30	36	16	1.91
58548515--58548806	150	1.9	151	86	3	410	17	31	35	15	1.91
58548427--58549140	235	3.0	234	81	7	702	16	31	35	15	1.90
58550770--58550848	29	2.7	29	82	5	97	26	32	15	25	1.95
58552731--58552977	43	5.8	42	91	2	370	17	31	34	17	1.93
58552731--58552983	85	3.0	84	88	2	373	17	31	33	16	1.93
58552731--58553020	128	2.3	127	86	3	413	17	32	33	17	1.93
58552727--58553068	43	8.1	42	83	6	128	18	32	31	17	1.94
58553409--58553474	24	2.8	23	83	4	78	22	36	33	7	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58554686--58554710	13	1.9	13	100	0	50	32	16	20	32	1.94
58558303--58558371	34	2.0	34	100	0	138	27	20	20	31	1.97
58562205--58562340	51	2.7	51	75	0	146	41	12	5	40	1.67
58563247--58563536	96	3.0	96	94	0	499	11	34	17	35	1.87
58563857--58563924	29	2.3	30	89	7	111	19	27	20	32	1.97
58565254--58565384	51	2.6	51	78	0	145	41	11	6	39	1.68
58566379--58566661	142	2.0	142	99	0	557	21	31	20	26	1.98
58567074--58567166	47	2.0	47	93	0	159	20	27	20	31	1.97
58576371--58577028	85	7.8	84	78	8	352	18	32	32	16	1.93
58576364--58577068	128	5.5	127	81	4	649	18	32	31	17	1.94
58576364--58577068	43	16.6	43	80	6	566	18	32	31	17	1.94
58577373--58577443	24	2.9	25	83	6	92	22	35	35	7	1.81
58589049--58589242	96	2.0	96	85	4	257	12	32	17	37	1.88
58595827--58596863	43	24.6	43	82	5	1027	17	31	33	17	1.93
58595768--58596863	85	13.0	85	82	6	800	17	31	33	17	1.93
58596720--58596830	42	2.7	41	81	4	123	20	35	27	17	1.95
58601017--58601088	35	2.1	35	92	5	119	37	12	23	26	1.90
58604495--58604960	47	9.9	47	96	1	817	30	8	30	31	1.86
58606187--58606240	27	2.0	27	96	0	99	40	3	24	31	1.72
58606373--58606595	40	5.6	40	89	0	311	24	21	27	26	1.99
58607922--58608022	50	2.0	50	100	0	202	34	19	21	23	1.96
58609835--58610245	47	8.7	47	97	0	750	32	8	30	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58610364--58610442	37	2.1	37	90	0	122	24	18	31	25	1.98
58612207--58612315	43	2.5	45	80	11	136	28	16	10	44	1.80
58612289--58612403	44	2.6	44	77	1	122	23	20	12	43	1.85
58614807--58614926	46	2.6	45	84	9	145	28	19	30	22	1.98
58616242--58616281	21	2.0	21	95	5	73	15	40	25	20	1.90
58616927--58616988	20	3.1	20	76	0	70	29	22	14	33	1.94
58616924--58617076	42	3.7	42	81	5	177	25	22	16	35	1.95
58617054--58617120	33	2.0	33	88	0	98	19	16	22	41	1.90
58617022--58617167	75	1.9	76	83	1	186	21	21	19	36	1.95
58617086--58617190	42	2.5	43	82	3	131	22	22	19	35	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