genome.fa.s12.2.7.7.80.10.50.1000.112.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  112  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)
35494194--35494219	3	8.7	3	100	0	52	69	0	0	30	0.89
35497303--35497506	94	2.2	94	90	0	327	31	20	11	36	1.88
35501634--35501672	17	2.3	17	100	0	78	41	17	30	10	1.83
35514952--35514996	19	2.3	20	84	3	65	48	0	13	37	1.42
35516044--35516164	29	4.2	29	71	8	93	26	8	2	62	1.36
35516097--35516148	15	3.5	15	82	10	63	30	7	0	61	1.24
35516054--35516166	58	1.9	58	80	7	131	27	7	1	62	1.33
35516298--35516450	3	51.3	3	73	14	104	30	5	2	62	1.31
35516359--35516462	49	2.1	50	81	12	126	29	4	3	61	1.34
35519302--35519339	19	2.0	19	85	10	51	18	10	0	71	1.14
35521423--35522248	413	2.0	413	100	0	1652	34	20	21	23	1.96
35523459--35523489	9	3.3	9	91	8	53	90	0	9	0	0.46
35523459--35523489	10	3.2	10	95	4	55	90	0	9	0	0.46
35524916--35524970	26	2.1	26	100	0	110	23	16	29	30	1.96
35527172--35527215	23	1.9	23	81	9	54	20	18	6	54	1.66
35530391--35530656	40	6.7	40	92	1	374	25	28	21	24	1.99
35538446--35538630	79	2.3	82	84	7	238	25	27	22	24	2.00
35538427--35538630	40	5.1	40	82	8	238	25	27	22	25	2.00
35540780--35541119	44	7.7	44	70	6	195	29	18	27	24	1.98
35540780--35541184	177	2.3	178	90	0	623	28	18	26	26	1.98
35541177--35541597	45	9.4	44	73	8	314	33	18	20	28	1.96
35541175--35541614	134	3.3	133	88	3	641	34	17	20	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35541263--35541659	89	4.4	87	72	11	248	35	18	20	26	1.95
35541617--35541883	133	2.0	133	86	1	374	31	22	18	27	1.97
35541177--35541816	45	14.3	44	69	9	233	33	19	19	27	1.96
35541617--35541915	133	2.2	132	82	5	345	31	22	18	27	1.97
35542756--35542826	15	4.9	14	73	19	56	26	7	1	64	1.27
35542756--35542826	29	2.5	28	75	22	67	26	7	1	64	1.27
35542819--35542861	15	2.7	16	85	10	61	30	9	0	60	1.28
35542939--35542980	4	10.2	4	82	10	50	26	2	2	69	1.13
35543006--35543175	3	56.7	3	71	15	104	28	5	2	63	1.28
35545620--35545668	20	2.7	18	77	22	57	51	2	2	44	1.24
35545691--35545716	6	4.3	6	100	0	52	69	0	0	30	0.89
35558290--35558323	17	1.9	18	88	5	52	50	5	5	38	1.51
35558840--35558907	25	2.7	24	75	22	68	38	1	1	58	1.16
35587692--35587953	39	6.7	40	88	7	337	24	27	22	25	2.00
35591768--35591829	23	2.9	20	74	11	61	24	20	19	35	1.96
35597367--35597424	26	2.3	26	81	3	64	24	20	18	36	1.95
35597374--35597431	26	2.2	26	78	0	62	27	15	17	39	1.90
35598680--35598735	28	2.0	28	96	0	103	30	25	16	28	1.96
35604695--35604752	30	1.9	30	85	0	80	37	8	24	29	1.85
35607097--35607202	53	2.0	53	98	0	203	34	7	17	39	1.79
35609225--35609282	30	1.9	30	89	0	89	39	6	24	29	1.81
35609732--35609858	68	1.9	68	85	6	177	33	14	27	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35612712--35612745	17	2.1	17	88	5	52	32	5	5	55	1.48
35613798--35613834	9	4.1	9	85	0	56	48	13	8	29	1.71
35620320--35620345	6	4.3	6	100	0	52	19	0	0	80	0.71
35620826--35621384	274	2.0	277	90	1	883	42	14	10	32	1.79
35622310--35622347	14	2.9	13	81	11	51	18	13	10	57	1.63
35623499--35623539	21	1.9	22	85	5	57	34	7	2	56	1.40
35632271--35632309	21	1.9	20	89	5	60	61	0	0	38	0.96
35632255--35632314	29	2.0	30	81	9	70	61	1	0	36	1.06
35639647--35639730	44	1.9	44	85	4	116	21	19	29	29	1.97
35643105--35643278	46	3.8	46	78	9	153	22	29	20	28	1.98
35644505--35644624	46	2.6	47	85	6	156	25	29	18	27	1.98
35645936--35645971	14	2.6	14	95	0	63	69	2	0	27	1.02
35649648--35649696	16	3.2	16	75	16	50	44	0	0	55	0.99
35649899--35649937	12	3.1	12	88	7	51	28	0	2	69	1.02
35650391--35650467	39	2.0	40	82	7	95	35	6	3	54	1.45
35652043--35652070	14	2.0	14	100	0	56	64	0	0	35	0.94
35658352--35658385	4	8.8	4	87	6	52	0	23	2	73	0.97
35658456--35658503	20	2.4	21	89	6	73	64	6	2	27	1.28
35662721--35662748	8	3.5	8	100	0	56	42	0	28	28	1.56
35664280--35664639	3	119.3	3	88	2	524	31	3	1	64	1.16
35664661--35664717	4	14.2	4	79	0	60	15	3	3	77	1.05
35665236--35665357	43	2.8	43	80	2	120	25	18	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35673208--35673440	39	6.0	39	89	0	340	24	29	24	22	1.99
35679342--35679498	43	3.7	43	72	7	140	26	17	23	31	1.97
35681551--35681608	29	2.0	29	96	0	107	31	15	13	39	1.86
35683163--35683221	28	2.1	28	96	0	109	47	8	16	27	1.76
35691027--35691190	47	3.5	47	93	0	265	28	31	7	32	1.86
35691077--35691155	25	3.3	25	66	16	76	31	29	5	34	1.79
35700394--35700478	41	2.1	41	93	0	143	37	18	32	10	1.85
35712150--35712183	16	2.1	16	100	0	68	14	17	35	32	1.91
35712618--35712669	24	2.2	24	92	0	86	55	7	1	34	1.39
35721256--35721535	41	6.8	41	90	5	363	27	20	24	28	1.99
35728954--35729109	41	3.8	41	89	6	235	28	20	22	28	1.98
35729340--35729404	33	2.0	33	81	0	76	29	9	26	35	1.87
35737887--35738056	90	1.9	91	87	3	254	24	20	15	40	1.91
35738310--35738461	29	5.3	29	76	4	132	25	30	15	28	1.95
35742568--35742598	10	3.1	10	100	0	62	12	29	0	58	1.35
35745685--35745730	23	2.0	23	95	0	83	45	0	0	54	0.99
35745984--35746024	20	2.1	20	90	4	66	51	0	0	48	1.00
35748906--35748959	18	2.8	18	75	21	56	70	1	3	24	1.13
35751554--35751673	62	1.9	62	96	0	222	33	9	20	36	1.85
35754836--35754868	11	2.8	12	90	4	50	66	3	0	30	1.06
35762528--35763115	130	4.5	130	83	3	673	31	16	12	38	1.87
35764188--35764247	29	2.1	29	96	0	111	33	23	16	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35764196--35764257	29	2.1	29	87	0	88	30	25	16	27	1.96
35766580--35766870	72	4.0	72	98	0	555	40	8	19	31	1.81
35789174--35789242	31	2.2	31	86	0	93	44	13	10	31	1.76
35800318--35800400	31	2.6	31	80	3	85	59	19	6	15	1.57
35800632--35800731	21	4.8	21	76	4	76	4	46	19	31	1.68
35806214--35806548	9	37.7	9	66	17	103	36	3	15	44	1.65
35806218--35806281	16	3.9	16	89	4	83	34	3	17	45	1.64
35806297--35806327	16	1.9	16	100	0	62	32	3	19	45	1.66
35806249--35806468	46	4.6	46	82	6	251	35	5	15	44	1.68
35806249--35806456	97	2.2	97	87	2	305	36	5	14	44	1.68
35806313--35806518	30	6.5	30	71	16	125	36	3	15	43	1.65
35806437--35806548	30	3.5	32	77	13	113	38	1	16	42	1.59
35806396--35806548	64	2.4	63	89	3	229	36	2	16	43	1.62
35806257--35806479	97	2.3	94	82	9	232	36	4	15	43	1.68
35806506--35806535	15	2.0	15	93	0	51	36	0	16	46	1.47
35806568--35806601	17	2.0	17	94	0	59	38	2	5	52	1.41
35808026--35808055	14	2.2	13	94	5	51	36	13	0	50	1.42
35811149--35811194	14	3.4	14	71	17	51	39	32	2	26	1.68
35811212--35811265	15	3.7	15	85	2	65	40	38	1	18	1.61
35811072--35811264	100	1.9	99	80	8	221	42	32	2	23	1.66
35811213--35811267	22	2.5	23	76	5	60	40	41	1	16	1.59
35812253--35812281	12	2.4	12	100	0	58	48	31	13	6	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35814071--35814314	53	4.6	53	77	7	178	21	24	17	36	1.94
35821875--35821993	39	3.1	39	91	0	184	28	21	23	26	1.99
35826134--35826158	5	5.0	5	100	0	50	40	0	20	40	1.52
35826513--35826545	11	2.9	12	86	13	52	33	0	0	66	0.92
35826669--35826731	30	2.1	30	96	0	117	60	12	0	26	1.33
35827588--35827785	66	3.0	66	82	3	240	49	13	24	12	1.77
35831754--35831801	18	2.5	19	80	12	55	56	4	0	39	1.19
35831741--35831802	27	2.2	29	86	11	85	58	4	0	37	1.20
35831770--35831805	19	1.9	19	88	5	56	55	5	0	38	1.23
35842285--35842365	42	1.9	42	87	0	117	48	12	6	33	1.66

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