genome.fa.s7.2.7.7.80.10.50.1000.123.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_chr3
Parameters: 2 7 7 80 10 50 1000
Length:  100348136

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   

This is table  123  of  290  ( 34714 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)
41825332--41825452	61	2.0	61	83	0	152	39	4	14	40	1.68
41825720--41825842	62	2.0	62	95	0	219	33	34	21	10	1.87
41826681--41826760	23	3.7	23	73	23	66	23	8	1	66	1.27
41826739--41826789	15	3.5	15	73	13	52	29	11	0	58	1.33
41838371--41838578	90	2.3	91	87	4	314	27	22	22	27	1.99
41838461--41838767	135	2.3	135	88	0	443	30	20	20	27	1.98
41838461--41838803	135	2.5	135	83	3	316	31	21	21	25	1.98
41840237--41840266	14	2.1	14	93	0	51	26	10	0	63	1.26
41840333--41840412	30	2.6	32	71	9	78	28	5	2	63	1.28
41842575--41843012	221	2.0	220	87	2	628	25	13	19	40	1.89
41849825--41849871	22	2.1	22	84	0	58	55	8	4	31	1.49
41855227--41855261	9	3.9	9	88	0	52	45	0	2	51	1.16
41855225--41855269	13	3.4	13	84	3	54	46	0	4	48	1.22
41857789--41857816	11	2.5	11	100	0	56	78	7	7	7	1.09
41858191--41858265	25	3.2	25	65	27	72	37	6	17	38	1.76
41858190--41858282	46	2.0	46	93	0	159	38	5	15	40	1.70
41864703--41864731	14	2.0	15	93	6	51	48	0	3	48	1.18
41868027--41868065	14	2.9	14	84	3	53	56	12	0	30	1.37
41869893--41869944	26	2.0	26	92	0	86	32	7	5	53	1.53
41874486--41874533	24	2.0	24	87	0	69	45	8	8	37	1.64
41874791--41874842	24	2.2	24	83	13	63	42	0	0	57	0.98
41874793--41874842	25	2.0	25	85	14	68	42	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41878424--41878468	21	2.1	21	95	0	81	37	2	13	46	1.55
41884893--41884949	24	2.4	24	96	0	105	26	29	15	28	1.96
41888257--41888299	18	2.4	18	80	7	52	48	11	16	23	1.78
41892054--41892122	22	3.1	22	83	8	79	17	21	15	44	1.86
41892920--41892968	24	2.1	24	88	7	75	40	2	0	57	1.10
41892924--41892975	22	2.2	24	83	6	72	42	3	1	51	1.31
41893323--41893351	12	2.3	13	94	5	51	6	13	3	75	1.13
41895488--41895563	37	2.1	36	83	11	93	55	3	1	39	1.27
41895915--41895961	24	1.9	24	82	4	58	38	2	6	53	1.39
41904920--41905004	41	2.1	41	89	8	129	37	20	16	25	1.93
41904919--41905016	41	2.3	40	82	17	112	40	20	15	23	1.90
41905202--41905265	7	9.0	7	77	3	56	23	1	28	46	1.61
41905218--41905268	15	3.5	15	81	2	59	21	1	29	47	1.62
41905697--41905738	18	2.6	16	81	11	50	47	0	4	47	1.23
41909743--41909814	31	2.3	32	84	13	89	25	2	2	69	1.15
41909767--41909813	19	2.5	19	76	10	51	21	2	4	72	1.12
41909822--41909850	11	2.7	11	94	5	51	48	0	10	41	1.37
41912827--41913049	40	5.6	40	86	3	245	26	27	20	24	1.99
41912981--41913058	40	1.9	41	82	10	97	26	28	21	23	1.99
41920738--41921000	40	6.6	40	88	3	325	26	27	20	24	1.99
41923676--41923702	8	3.4	8	100	0	54	37	0	51	11	1.37
41925965--41926008	4	10.2	4	81	13	52	70	4	2	22	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41925965--41925991	13	2.1	13	100	0	54	77	0	0	22	0.76
41925965--41926008	17	2.5	18	88	3	63	70	4	2	22	1.17
41927677--41928128	45	9.6	45	66	12	174	26	23	20	29	1.99
41927641--41927854	96	2.2	96	89	0	320	28	23	19	28	1.98
41927671--41928132	239	1.9	239	86	0	656	26	23	20	29	1.99
41927910--41928092	96	1.9	96	85	2	251	27	21	20	30	1.98
41942211--41942244	18	1.9	17	94	5	59	35	0	0	64	0.94
41942403--41942428	11	2.4	11	100	0	52	19	0	0	80	0.71
41946733--41946758	2	13.0	2	100	0	52	50	0	0	50	1.00
41951127--41951179	4	12.8	4	76	7	52	49	0	3	47	1.19
41951143--41951176	13	2.6	13	85	0	50	47	0	2	50	1.16
41952862--41953190	82	4.0	82	98	0	622	39	6	2	51	1.41
41957922--41957957	17	2.1	17	100	0	72	52	16	5	25	1.65
41958189--41958216	5	5.6	5	100	0	56	17	0	0	82	0.68
41961799--41961979	40	4.6	40	89	2	267	25	25	23	25	2.00
41965978--41966043	13	5.5	13	77	20	72	46	15	0	37	1.46
41965978--41966052	23	3.3	23	94	0	123	48	14	0	37	1.45
41966922--41966956	17	2.0	17	88	5	52	68	2	0	28	1.04
41970596--41970655	30	2.0	30	96	0	111	40	8	20	31	1.82
41976061--41976092	6	5.3	6	92	0	55	71	0	12	15	1.14
41976073--41976201	57	2.3	57	89	5	190	50	6	17	24	1.71
41980185--41980235	12	4.2	12	75	5	50	15	31	1	50	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41980226--41980281	20	2.7	20	83	13	69	8	21	1	67	1.27
41980226--41980280	19	2.6	21	86	11	69	9	21	1	67	1.28
41999894--41999950	25	2.3	25	87	6	80	31	26	19	22	1.98
42002484--42002652	46	3.6	46	85	3	205	31	21	24	22	1.98
42002659--42002696	17	2.2	17	100	0	76	36	7	39	15	1.77
42002778--42002906	49	2.7	49	79	1	125	26	20	28	24	1.99
42003317--42003430	57	2.0	57	89	3	176	22	24	7	44	1.79
42010557--42010869	46	6.6	46	75	11	208	30	17	27	23	1.97
42010606--42010821	98	2.2	98	82	7	264	30	18	28	22	1.97
42010560--42010821	46	5.5	49	78	7	240	30	17	28	23	1.97
42010560--42010871	49	6.5	48	75	8	223	30	17	27	23	1.97
42013999--42014023	13	1.9	13	100	0	50	8	0	16	76	1.02
42014164--42014197	16	2.1	16	100	0	68	38	17	0	44	1.49
42017592--42017634	21	2.2	20	84	16	54	34	0	0	65	0.93
42020546--42020598	26	2.0	26	96	0	97	45	18	24	11	1.82
42022080--42022161	39	2.1	39	88	2	121	41	19	14	24	1.89
42053769--42053854	24	3.5	24	79	1	82	39	18	20	20	1.93
42057802--42057904	37	2.8	36	82	5	107	32	14	23	30	1.94
42064671--42064695	13	1.9	13	100	0	50	24	16	24	36	1.94
42070982--42071119	43	3.3	43	75	8	138	28	26	16	27	1.97
42078692--42078831	43	3.3	42	78	5	147	29	26	15	29	1.96
42080169--42080211	21	2.0	21	82	8	52	34	4	16	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42090674--42090779	26	4.1	26	88	0	167	34	6	22	35	1.80
42093440--42093625	87	2.2	86	87	1	255	26	31	18	23	1.97
42093440--42093625	43	4.3	43	84	1	255	26	31	18	23	1.97
42093751--42093797	19	2.5	19	76	10	51	72	4	2	21	1.12
42095804--42095881	39	2.0	39	97	0	147	47	12	26	12	1.78
42098660--42098693	18	1.9	18	88	5	52	44	2	2	50	1.32
42099489--42099542	15	3.7	15	76	16	51	40	35	1	22	1.65
42099500--42099541	22	2.0	21	85	4	57	40	38	0	21	1.53
42099846--42100046	41	4.9	41	87	1	271	19	22	23	34	1.97
42100501--42100643	62	2.3	62	85	2	180	39	11	13	34	1.81
42101140--42101198	13	4.6	13	74	21	54	55	3	1	38	1.26
42103491--42103699	87	2.4	88	79	11	221	27	17	12	41	1.86
42104189--42104255	20	3.3	20	75	8	64	32	2	2	61	1.26
42104199--42104267	20	3.5	19	71	15	59	34	2	2	59	1.27
42104279--42104336	29	2.0	29	84	15	77	41	1	0	56	1.09
42104668--42104800	3	44.3	3	100	0	266	66	0	0	33	0.92
42104984--42105236	42	6.0	42	100	0	506	40	7	7	45	1.59
42105947--42105996	26	2.0	26	92	7	86	32	14	12	42	1.82
42105795--42106131	178	1.9	178	88	2	507	31	12	14	42	1.82
42105794--42106131	91	3.8	89	84	7	416	31	12	14	42	1.82
42106235--42106271	13	2.9	12	88	11	56	72	0	2	24	0.97
42110198--42110359	53	3.3	50	81	10	190	25	15	29	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42117683--42117886	52	4.0	52	77	6	177	25	14	27	31	1.95
42121494--42121551	30	1.9	30	89	0	89	34	12	25	27	1.91
42121885--42122199	50	6.6	50	72	12	177	27	18	29	24	1.98
42123882--42123911	14	2.1	14	100	0	60	73	0	0	26	0.84
42124747--42124809	33	1.9	32	90	3	99	39	25	9	25	1.86
42130633--42130711	37	2.1	37	90	0	122	25	31	18	24	1.98
42130830--42131287	47	9.7	47	96	0	792	29	28	8	33	1.87
42141163--42141210	25	1.9	25	86	0	69	52	22	14	10	1.72
42147474--42147597	49	2.5	49	85	3	151	23	29	19	27	1.98
42147626--42147740	48	2.4	48	85	0	149	28	26	18	26	1.98

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