genome.fa.s25.2.7.7.80.10.50.1000.99.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  99  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)
35696996--35697077	30	2.7	31	81	5	105	64	1	21	12	1.33
35698940--35699036	30	3.2	30	73	2	97	28	26	14	29	1.95
35702218--35702419	61	3.4	59	82	6	180	32	14	22	30	1.93
35702274--35702419	61	2.4	61	88	0	229	32	13	21	32	1.92
35702627--35702672	14	3.1	15	81	9	58	50	4	15	30	1.63
35707529--35707663	69	2.0	69	90	0	216	37	21	22	18	1.94
35708964--35709165	61	3.4	59	82	6	180	32	14	22	30	1.93
35709020--35709165	61	2.4	61	88	0	229	32	13	21	32	1.92
35709373--35709418	14	3.1	15	81	9	58	50	4	15	30	1.63
35714275--35714409	69	2.0	69	90	0	216	38	21	21	18	1.93
35718342--35718400	29	2.0	29	86	0	82	16	11	33	37	1.86
35718491--35718542	24	2.2	24	89	0	77	40	5	5	48	1.51
35718491--35718554	24	2.7	23	83	9	74	40	6	7	45	1.58
35719301--35719334	13	2.6	13	100	0	68	8	41	26	23	1.83
35725135--35725649	258	2.0	258	97	0	978	41	6	17	34	1.75
35725634--35726189	278	2.0	278	98	0	1085	36	10	18	35	1.85
35726775--35726865	32	2.8	32	76	12	87	29	6	25	38	1.81
35727004--35727149	27	5.5	26	66	8	80	26	13	26	33	1.94
35727004--35727121	27	4.5	26	71	7	85	26	13	27	33	1.94
35727027--35727149	53	2.3	53	94	0	219	26	13	26	34	1.93
35736569--35736606	20	1.9	20	88	0	58	36	31	13	18	1.89
35739908--35739957	24	2.1	23	85	10	66	52	2	2	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35743196--35743242	24	2.1	23	88	11	71	55	0	0	44	0.99
35743593--35743631	10	3.8	10	83	6	51	74	0	5	20	1.01
35744000--35744151	76	2.0	75	92	1	250	30	21	11	36	1.89
35745937--35745967	7	4.3	7	95	4	53	48	0	25	25	1.52
35746986--35747071	42	2.0	42	88	0	127	29	18	30	22	1.97
35749675--35749852	27	6.6	27	84	3	205	29	28	15	26	1.96
35749696--35749851	82	1.9	81	88	3	233	29	28	15	26	1.96
35751653--35751771	45	2.6	45	81	7	127	21	22	12	42	1.87
35756148--35756513	46	8.0	46	94	0	563	37	14	24	22	1.92
35756808--35756856	24	2.0	24	96	0	89	28	6	20	44	1.75
35759695--35759766	33	2.2	33	82	2	81	30	26	20	22	1.98
35759794--35759876	31	2.7	31	92	3	134	28	25	15	30	1.96
35760095--35760164	25	2.8	25	93	0	113	24	22	25	27	2.00
35761092--35761177	27	3.1	27	76	17	95	34	9	16	39	1.80
35761155--35761278	27	4.6	27	80	6	135	29	6	20	43	1.77
35761179--35761311	54	2.5	54	81	4	144	30	10	19	39	1.85
35761310--35761374	27	2.4	27	86	0	85	40	9	24	26	1.85
35766155--35766244	44	2.0	44	97	0	171	45	24	4	25	1.72
35767959--35768027	28	2.5	28	88	9	97	31	26	14	27	1.95
35776669--35776711	22	2.0	22	95	0	77	39	11	18	30	1.86
35782516--35782663	64	2.2	68	78	10	160	31	16	28	22	1.96
35782540--35782723	67	2.8	64	77	10	187	28	15	30	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35786965--35787011	24	1.9	25	86	4	69	21	27	10	40	1.86
35788859--35789039	79	2.3	81	82	7	219	25	21	26	25	2.00
35788861--35789039	40	4.5	40	81	6	195	26	21	25	26	2.00
35788908--35789072	79	2.1	79	82	6	192	27	21	26	25	1.99
35791392--35791436	20	2.2	20	84	11	56	53	2	20	24	1.57
35793767--35793826	27	2.2	27	87	0	84	45	18	8	28	1.78
35797022--35797061	19	2.1	19	85	0	53	42	12	7	37	1.71
35798025--35798065	22	1.9	21	85	5	55	63	4	19	12	1.46
35800864--35801020	27	5.9	26	84	8	192	29	12	21	37	1.89
35800868--35801020	53	2.9	54	87	4	220	28	11	20	38	1.88
35800868--35801020	80	1.9	81	95	1	281	28	11	20	38	1.88
35802462--35802508	24	1.9	25	82	4	60	27	38	10	23	1.88
35826696--35827074	190	2.0	190	98	0	731	25	25	20	29	1.99
35830487--35830682	39	4.9	39	83	5	216	25	27	21	26	1.99
35831441--35831739	152	2.0	153	99	0	591	27	25	7	39	1.82
35831446--35831681	77	3.1	77	61	20	186	27	25	6	40	1.80
35831464--35831699	76	3.1	75	62	16	187	27	25	8	38	1.84
35842002--35842149	27	5.5	27	85	3	199	35	17	21	25	1.95
35842002--35842171	81	2.1	81	84	1	216	35	17	21	25	1.95
35842006--35842170	27	6.1	27	80	5	172	35	17	21	26	1.95
35842800--35842851	27	2.0	26	84	3	68	17	23	21	38	1.93
35844154--35844306	42	3.6	42	78	0	144	28	27	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35844154--35844323	84	2.0	84	81	4	200	30	27	15	27	1.96
35852079--35852140	23	2.6	24	75	12	65	66	0	4	29	1.12
35852152--35852203	22	2.5	20	85	11	77	75	1	0	23	0.91
35858548--35858594	20	2.5	18	83	12	67	40	10	10	38	1.75
35858555--35858594	20	2.0	20	100	0	80	40	10	10	40	1.72
35860215--35860288	36	2.1	36	94	0	130	45	21	12	20	1.83
35861647--35861704	30	1.9	30	100	0	116	34	25	17	22	1.96
35863655--35863686	12	2.6	13	85	14	50	40	0	50	9	1.35
35867300--35867416	59	2.0	57	83	8	146	28	10	42	18	1.83
35869363--35869404	20	2.3	19	84	15	54	28	26	7	38	1.82
35875426--35875537	57	2.0	57	96	0	206	23	17	20	38	1.93
35885415--35885449	17	2.1	17	88	0	52	48	8	2	40	1.49
35896991--35897065	37	2.0	37	89	0	114	41	28	12	18	1.86
35898334--35898361	11	2.5	11	100	0	56	50	7	0	42	1.30
35901303--35902154	2	426.0	2	100	0	1704	50	0	50	0	1.00
35902356--35902409	28	1.9	28	92	0	90	40	22	12	24	1.89
35904680--35904706	3	9.0	3	100	0	54	66	0	0	33	0.92
35904705--35904731	3	9.0	3	100	0	54	33	0	0	66	0.92
35907002--35907055	28	1.9	28	92	0	90	24	12	22	40	1.89
35907257--35907298	2	21.0	2	100	0	84	0	50	0	50	1.00
35910240--35910267	11	2.5	11	100	0	56	42	0	7	50	1.30
35923152--35923186	17	2.1	17	88	0	52	40	2	8	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35924999--35925077	37	2.1	37	90	0	122	25	31	18	24	1.98
35925196--35927950	47	58.6	47	99	0	5330	29	29	8	32	1.87
35931755--35932096	40	8.6	40	80	8	252	25	26	22	25	2.00
35937590--35937675	37	2.4	37	82	2	111	18	12	29	39	1.88
35940412--35940458	10	4.6	10	80	12	51	34	0	2	63	1.06
35942513--35942545	13	2.6	13	90	4	50	39	3	12	45	1.57
35946159--35946202	11	4.1	10	82	11	52	81	2	15	0	0.78
35948352--35948409	12	4.8	12	75	8	55	13	3	0	82	0.79
35948355--35948404	20	2.5	20	96	3	93	14	4	0	82	0.82
35948652--35948694	18	2.4	18	96	0	77	18	46	11	23	1.82
35949348--35949675	118	2.8	118	97	0	611	23	17	30	28	1.97
35949800--35949839	21	1.9	21	84	0	53	77	0	0	22	0.77
35949830--35949873	20	2.2	20	92	4	72	86	0	13	0	0.57
35949822--35949873	23	2.3	23	87	9	79	86	0	11	1	0.65
35950499--35950546	20	2.5	20	86	3	62	22	6	4	66	1.32
35960783--35960849	23	2.9	23	73	10	73	71	5	19	2	1.20
35964297--35964325	2	14.5	2	100	0	58	48	0	0	51	1.00
35965470--35965503	18	1.9	18	88	5	52	14	0	23	61	1.33
35972873--35973139	68	3.9	68	99	0	525	34	23	15	26	1.94
35980907--35980954	24	2.0	24	91	0	78	27	22	31	18	1.97
35980920--35980966	24	2.0	24	82	0	58	25	21	36	17	1.94
35981599--35981641	21	2.0	21	83	16	54	37	4	11	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35982111--35982258	40	3.7	40	85	0	170	22	14	26	35	1.93
35985821--35985870	23	2.2	23	81	0	55	58	0	4	38	1.17
35991037--35991083	25	1.9	24	91	4	76	68	6	0	25	1.13
35995021--35995047	13	2.1	13	100	0	54	14	37	33	14	1.88
35995399--35995431	13	2.5	13	100	0	66	42	33	6	18	1.75
36001471--36001572	36	2.8	36	71	11	109	28	16	18	36	1.93
36004389--36004516	39	3.3	39	85	0	184	32	20	25	21	1.98
36004388--36004542	78	2.0	76	81	5	177	31	21	25	21	1.98
36006175--36006200	13	2.0	13	100	0	52	69	7	7	15	1.35
36007358--36007391	11	3.0	11	87	8	50	41	26	0	32	1.56

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