genome.fa.s12.2.7.7.80.10.50.1000.172.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  172  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)
56390626--56390752	27	4.7	27	84	7	159	39	19	18	22	1.93
56390626--56390753	54	2.4	53	85	3	175	39	20	18	21	1.93
56391112--56391170	18	3.3	18	76	9	66	25	20	15	38	1.91
56396237--56396323	27	3.2	27	85	3	122	42	18	18	20	1.89
56396237--56396352	27	4.3	26	80	6	106	42	17	18	21	1.89
56396237--56396352	54	2.1	54	84	3	144	42	17	18	21	1.89
56396388--56396437	23	2.2	23	86	13	68	26	14	18	42	1.87
56406586--56406716	65	2.0	65	100	0	262	32	19	13	34	1.91
56416834--56416872	17	2.2	18	86	13	55	25	0	5	69	1.09
56416834--56416878	18	2.4	18	85	10	56	28	0	6	64	1.19
56417443--56417498	24	2.4	24	75	3	60	33	32	7	26	1.84
56418738--56418826	19	4.6	18	72	15	63	37	3	2	57	1.28
56432198--56432621	220	1.9	220	92	0	713	32	17	22	27	1.97
56432608--56432755	44	3.4	44	89	0	224	32	15	25	26	1.95
56434806--56434985	27	6.7	26	79	12	197	41	18	8	31	1.81
56434817--56434973	53	2.9	54	88	6	232	40	17	10	31	1.83
56434806--56434985	53	3.4	54	86	8	228	41	18	8	31	1.81
56434969--56435166	27	7.4	27	85	5	240	39	17	17	25	1.91
56434831--56435118	54	5.4	53	82	8	246	39	17	13	28	1.88
56434977--56435162	80	2.3	81	85	3	250	38	17	18	25	1.93
56435494--56435571	38	2.1	38	97	0	147	35	15	14	34	1.87
56441785--56441922	41	3.4	41	80	2	134	37	19	16	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56450127--56450153	12	2.2	12	100	0	54	55	7	7	29	1.55
56456789--56456825	5	7.2	5	93	6	65	2	56	40	0	1.13
56456857--56456912	24	2.3	25	81	6	71	66	7	0	26	1.18
56456869--56456933	19	2.9	23	84	13	75	67	6	0	26	1.13
56457705--56457818	42	2.7	42	83	1	138	31	22	21	23	1.98
56458721--56458749	13	2.1	14	93	6	51	55	10	0	34	1.34
56463800--56463827	5	5.6	5	100	0	56	39	0	17	42	1.50
56463839--56463978	9	15.6	9	73	10	108	32	0	21	46	1.52
56463840--56463978	65	2.2	61	83	11	174	32	0	21	46	1.52
56463844--56463978	56	2.5	57	83	8	174	32	0	21	45	1.52
56463964--56464066	49	2.1	49	92	0	170	44	6	9	38	1.64
56464141--56464179	19	2.0	20	85	9	55	33	0	7	58	1.26
56464944--56465054	54	2.1	54	98	0	213	36	6	10	46	1.64
56468232--56468581	165	2.1	165	84	3	436	24	21	18	35	1.95
56468498--56468581	40	2.1	40	82	2	98	21	21	21	35	1.96
56468631--56468738	40	2.7	40	88	0	144	29	20	17	32	1.96
56468914--56468965	7	7.4	7	91	0	77	48	30	0	21	1.51
56469208--56469271	7	9.0	7	77	3	65	48	28	0	23	1.51
56469377--56469448	15	5.0	14	73	6	63	20	0	29	50	1.49
56469378--56469461	7	11.7	7	77	7	53	21	0	29	48	1.50
56469745--56469985	41	5.9	41	83	0	268	26	20	19	33	1.97
56472503--56472679	60	2.9	62	76	11	163	28	25	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56475418--56475535	59	2.0	59	93	0	200	33	22	11	32	1.89
56478640--56479043	203	2.0	201	83	5	503	57	7	5	29	1.49
56480185--56480223	10	3.9	10	82	0	51	17	0	0	82	0.68
56480186--56480234	24	2.0	25	88	4	73	18	2	0	79	0.83
56480302--56480382	42	1.9	42	94	0	144	29	18	17	34	1.94
56480634--56480681	24	2.0	24	100	0	96	16	29	12	41	1.85
56480661--56480746	43	2.0	44	84	6	113	26	27	12	32	1.93
56480658--56481147	177	2.8	176	83	4	601	27	24	16	31	1.97
56490904--56491081	27	6.6	27	83	3	205	26	15	28	29	1.96
56490905--56491060	82	1.9	81	88	3	233	26	15	28	29	1.96
56490901--56491081	82	2.2	81	83	2	229	27	15	27	29	1.96
56498032--56498129	48	2.0	48	96	0	178	20	22	20	36	1.95
56502598--56503003	203	2.0	203	83	4	516	56	6	5	30	1.50
56517145--56517191	22	2.1	22	96	0	85	44	0	25	29	1.54
56517722--56517829	26	4.2	26	84	0	117	23	15	21	39	1.91
56525354--56525430	26	2.9	27	84	5	104	25	14	19	40	1.89
56526655--56526774	45	2.6	44	82	8	134	29	18	26	25	1.98
56535185--56535224	21	2.0	21	85	5	55	12	32	27	27	1.93
56541280--56541492	47	4.5	46	79	10	195	28	17	28	24	1.98
56543521--56543735	46	4.6	47	78	7	201	28	18	29	24	1.98
56543700--56543833	49	2.7	50	76	11	150	23	20	30	26	1.98
56546857--56546929	27	2.8	26	79	6	76	38	15	20	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56549791--56549833	18	2.4	18	80	7	52	32	0	39	27	1.57
56552200--56552577	188	2.0	188	100	0	756	21	18	19	39	1.92
56562300--56562351	18	2.9	18	75	11	61	36	32	5	25	1.80
56562281--56562338	27	2.1	27	81	6	64	36	31	6	25	1.83
56567739--56567767	14	2.0	15	93	6	51	55	20	0	24	1.44
56569907--56569977	28	2.4	29	79	4	72	32	19	2	45	1.65
56574491--56574522	13	2.3	15	89	10	50	18	34	9	37	1.83
56577449--56577505	28	2.0	29	82	3	71	31	24	3	40	1.72
56587341--56587383	23	1.9	22	90	4	68	46	13	2	37	1.57
56588067--56588136	28	2.4	29	81	9	90	34	10	10	45	1.71
56588510--56588597	41	2.1	41	97	0	167	27	4	14	53	1.60
56588955--56589031	38	2.0	38	97	0	145	45	6	5	42	1.52
56589634--56589715	43	1.9	42	97	2	155	21	12	14	51	1.75
56590397--56590556	43	3.8	43	74	9	168	30	17	24	28	1.97
56590397--56590553	82	1.9	83	84	3	210	30	17	23	28	1.97
56590541--56590634	42	2.2	41	80	9	109	30	26	13	28	1.94
56590794--56591018	111	2.0	111	100	0	450	56	9	10	22	1.62
56591271--56591458	94	2.0	94	97	0	358	38	21	17	22	1.93
56591562--56591650	23	3.9	23	92	0	142	37	24	7	30	1.84
56596194--56596221	10	2.8	10	100	0	56	32	0	46	21	1.52
56596616--56596676	30	2.0	30	96	0	113	26	11	36	26	1.90
56598828--56598885	28	2.1	28	100	0	116	31	3	24	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56599177--56599210	18	1.9	18	88	5	52	17	5	2	73	1.16
56605093--56605159	27	2.5	26	83	7	82	65	1	2	29	1.16
56605098--56605171	37	2.0	38	81	7	89	60	2	2	33	1.25
56605167--56605214	21	2.1	24	85	11	66	54	6	0	39	1.26
56611294--56611335	19	2.2	20	91	4	68	33	19	0	47	1.49
56614268--56614308	21	2.0	21	85	0	55	41	2	4	51	1.36
56615176--56615345	46	3.7	46	75	13	186	28	27	21	22	1.99
56615181--56615351	93	1.8	93	92	0	288	28	27	21	22	1.99
56615767--56615826	30	2.0	30	90	0	93	30	25	8	36	1.85
56620486--56620613	28	4.5	28	88	2	175	28	12	25	32	1.92
56620486--56620613	57	2.2	57	88	2	186	28	12	25	32	1.92
56628438--56628609	40	4.3	40	88	2	222	25	27	21	25	1.99
56628440--56628662	40	5.6	39	83	5	216	25	27	21	25	1.99
56628438--56628662	80	2.8	79	80	7	240	25	27	21	25	1.99
56628594--56628671	40	1.9	41	82	10	97	26	28	20	24	1.99
56636384--56636606	40	5.6	39	82	7	209	26	27	21	25	1.99
56636538--56636615	40	1.9	41	82	10	97	26	28	20	24	1.99
56638547--56638604	29	2.0	29	89	0	89	20	32	18	27	1.97
56642296--56642414	62	1.9	62	100	0	238	49	10	1	38	1.46
56648384--56648591	53	3.9	53	75	3	182	38	16	22	22	1.93
56654879--56654927	24	2.0	24	96	0	89	59	18	16	6	1.57
56658714--56658784	37	1.9	37	88	0	106	29	28	18	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56659948--56660587	47	13.6	47	96	0	1154	29	28	8	34	1.86
56663220--56663435	49	4.4	49	89	5	330	29	28	7	33	1.85
56663225--56663415	96	2.0	96	92	4	323	28	30	8	31	1.88
56666606--56666665	30	2.0	30	93	0	102	11	28	25	35	1.91
56674949--56675018	31	2.3	30	95	4	131	52	5	27	14	1.63
56679533--56679614	41	2.0	41	100	0	164	29	14	19	36	1.92
56681107--56681140	17	1.9	17	88	5	50	14	44	29	11	1.81
56693488--56693536	22	2.2	22	78	7	55	40	2	38	18	1.62
56694297--56694353	26	2.3	26	82	8	75	22	26	15	35	1.94
56710664--56711046	191	2.0	191	94	0	667	38	9	23	27	1.86

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