genome.fa.s8.2.7.7.80.10.50.1000.100.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_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   

This is table  100  of  279  ( 33431 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)
32180180--32180226	6	7.8	6	90	0	58	19	63	2	14	1.40
32180341--32180382	12	3.5	12	83	0	57	28	45	11	14	1.80
32180482--32180528	24	2.0	24	83	8	60	36	40	8	14	1.77
32180532--32180581	21	2.4	21	79	0	64	16	64	0	20	1.30
32183339--32183373	18	1.9	18	100	0	70	40	2	28	28	1.71
32186352--32186413	27	2.2	30	75	18	71	56	17	0	25	1.41
32186777--32186809	16	2.1	16	94	0	57	69	6	6	18	1.30
32187733--32188032	44	6.7	45	75	5	207	30	21	17	31	1.96
32187686--32187989	133	2.3	133	79	3	333	30	18	17	33	1.94
32187733--32188080	89	3.9	89	79	4	337	29	20	17	32	1.96
32199852--32199884	17	1.9	17	93	0	57	72	0	6	21	1.05
32200581--32200608	14	2.0	14	100	0	56	71	7	0	21	1.09
32203164--32203247	39	2.2	38	85	12	111	30	0	2	66	1.04
32203143--32203242	47	2.1	49	83	12	129	29	1	3	67	1.12
32203223--32203274	27	2.0	27	85	11	72	32	1	1	63	1.16
32203319--32203374	10	5.4	10	78	16	51	26	3	3	66	1.25
32203319--32203364	22	2.1	22	92	8	76	26	2	4	67	1.21
32203319--32203354	11	3.2	12	88	11	58	25	0	5	69	1.10
32212599--32212715	15	8.1	14	72	17	62	26	7	0	64	1.26
32212587--32212694	29	3.8	28	73	22	82	26	7	1	63	1.31
32212662--32212707	15	2.9	15	90	6	65	26	6	0	67	1.15
32212630--32212751	52	2.4	54	74	18	125	27	7	0	64	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32213079--32213317	126	1.9	126	85	1	336	25	16	19	38	1.92
32214821--32214866	19	2.4	18	79	10	56	21	19	13	45	1.84
32214821--32214865	9	4.7	10	79	17	51	22	20	13	44	1.85
32217265--32217322	25	2.3	25	82	8	64	75	10	13	0	1.04
32219337--32219814	45	10.7	45	65	17	194	29	18	21	30	1.97
32219249--32219840	134	4.4	133	90	1	891	29	19	20	30	1.97
32219249--32219835	267	2.2	267	90	1	928	29	19	20	30	1.97
32219065--32219883	133	6.1	133	81	6	829	29	19	21	29	1.97
32219692--32220018	178	1.8	177	88	1	503	30	18	19	30	1.96
32219555--32220125	311	1.8	312	90	3	927	30	18	20	29	1.97
32219869--32220125	134	1.9	134	86	3	365	30	17	20	31	1.96
32220181--32220463	44	6.5	43	70	16	179	36	20	19	23	1.95
32220160--32220419	88	3.0	88	85	3	337	35	21	20	22	1.96
32220279--32220582	131	2.3	132	82	6	348	34	18	22	24	1.96
32221558--32221658	15	6.9	14	71	18	64	25	7	0	65	1.26
32221558--32221628	29	2.5	28	75	22	67	26	7	1	64	1.27
32221546--32221680	44	3.2	44	77	14	124	27	7	1	63	1.29
32222047--32222287	127	1.9	126	81	2	295	26	16	19	38	1.92
32225960--32225991	16	2.0	16	93	0	55	21	12	28	37	1.90
32232621--32232662	21	2.0	22	90	4	68	28	11	4	54	1.57
32233487--32233581	48	2.1	47	86	11	135	43	5	22	29	1.75
32238587--32238692	42	2.5	43	78	9	135	36	25	21	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32238587--32238682	21	4.5	21	84	2	111	37	26	21	14	1.92
32238587--32238694	21	5.0	22	74	9	89	37	25	22	15	1.93
32239063--32239120	15	3.8	15	88	2	89	51	12	0	36	1.39
32240737--32240857	44	2.7	43	78	6	125	28	23	19	28	1.98
32240737--32241431	143	4.9	143	87	1	917	28	21	19	31	1.97
32241305--32241476	45	3.8	45	71	6	118	27	22	19	30	1.98
32246850--32246882	16	2.1	16	88	11	50	21	6	12	60	1.53
32248799--32248839	21	2.0	21	95	0	73	14	24	29	31	1.95
32250241--32250300	27	2.2	27	96	0	111	50	43	0	6	1.28
32250265--32250300	17	2.2	17	90	5	56	50	44	0	5	1.25
32250841--32250866	13	2.0	13	100	0	52	23	23	7	46	1.78
32259945--32259983	10	3.9	10	83	12	53	69	2	10	17	1.28
32262348--32262396	23	2.1	23	84	3	62	57	0	16	26	1.40
32262460--32262515	22	2.5	21	82	8	67	53	1	14	30	1.51
32262449--32262518	33	2.1	33	84	5	88	52	1	17	28	1.53
32262446--32262515	17	4.2	17	73	14	65	52	1	15	30	1.51
32262708--32262766	28	2.1	28	84	9	75	57	0	15	27	1.38
32262757--32262926	21	7.9	21	68	24	88	61	0	12	25	1.31
32262819--32262888	29	2.5	28	81	9	72	58	0	12	28	1.35
32262759--32262926	94	1.8	91	83	11	225	61	0	13	25	1.32
32262750--32263008	18	13.6	18	69	22	113	59	0	13	26	1.37
32262845--32262985	5	26.2	5	70	21	63	58	0	12	27	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32262911--32262972	12	5.6	11	74	12	56	56	0	14	29	1.39
32262878--32263007	23	6.0	23	83	12	127	59	0	13	26	1.40
32263231--32263295	20	3.1	21	81	18	66	64	0	10	24	1.25
32263245--32263304	18	3.4	17	80	8	59	63	0	10	26	1.26
32263259--32263632	41	9.3	42	65	24	141	60	1	12	25	1.41
32263330--32263370	17	2.4	17	87	0	55	46	2	19	31	1.63
32263338--32263414	28	2.7	29	80	8	86	55	0	14	29	1.39
32263369--32263412	23	1.9	23	86	9	63	59	0	13	27	1.35
32263474--32263512	17	2.2	18	86	13	55	64	0	12	23	1.28
32263340--32263889	155	3.5	155	72	19	413	59	2	13	24	1.45
32263473--32263636	84	1.9	84	82	10	201	61	1	12	23	1.41
32263403--32263638	125	2.0	116	86	7	328	61	2	12	23	1.42
32263603--32263662	25	2.2	26	85	11	77	58	1	16	23	1.47
32263626--32264003	5	68.2	5	65	22	75	57	1	15	24	1.48
32263620--32263729	11	9.4	12	65	23	56	53	0	19	26	1.51
32263603--32263667	27	2.4	29	75	19	68	58	1	16	23	1.47
32263626--32264003	17	22.7	15	67	20	75	57	1	15	24	1.48
32263720--32263841	38	3.2	36	76	16	120	63	3	11	21	1.41
32263743--32263834	21	4.6	20	75	17	84	65	3	11	19	1.39
32263461--32263834	23	17.6	20	67	21	135	60	2	13	22	1.44
32263851--32263912	23	2.7	23	87	2	81	53	3	19	24	1.60
32263904--32263987	28	2.9	28	83	3	105	58	0	15	26	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32263811--32264003	28	6.9	25	73	16	100	57	1	15	25	1.45
32267843--32268070	40	5.7	40	96	0	411	31	20	26	21	1.98
32275806--32276015	40	5.3	39	89	4	242	25	21	27	25	1.99
32275753--32276015	120	2.2	120	82	4	309	25	21	27	25	1.99
32275754--32276050	80	3.7	80	81	6	230	26	21	27	24	1.99
32278659--32278702	18	2.5	17	85	10	54	18	2	2	77	0.98
32278660--32278702	10	4.0	10	87	9	50	18	2	2	76	1.00
32280331--32280399	27	2.6	27	97	0	129	27	23	17	31	1.97
32287387--32287452	29	2.2	30	81	7	82	48	6	10	34	1.62
32293333--32293357	13	1.9	13	100	0	50	44	0	0	56	0.99
32294110--32294134	12	2.1	12	100	0	50	60	0	40	0	0.97
32307948--32308196	124	2.0	124	81	2	295	38	13	12	35	1.83
32308104--32308128	11	2.3	11	100	0	50	64	0	0	36	0.94
32311038--32311084	3	15.3	3	78	12	51	63	0	6	29	1.19
32311033--32311084	18	2.7	19	82	14	63	65	0	5	28	1.16
32312129--32312611	44	10.6	44	69	10	150	26	21	19	31	1.97
32312406--32312608	44	4.6	43	75	7	183	28	20	20	30	1.98
32312348--32312552	89	2.3	89	81	0	221	27	23	18	31	1.97
32313471--32313502	4	8.2	4	93	6	57	0	21	0	78	0.76
32323240--32323290	24	2.1	24	85	0	66	41	3	39	15	1.66
32324544--32324586	18	2.4	18	80	7	52	11	23	39	25	1.88
32326196--32326245	18	2.8	18	87	0	73	30	16	10	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32327144--32327412	46	6.2	46	79	13	309	21	23	16	38	1.93
32327232--32327391	38	4.0	38	83	12	212	22	24	17	35	1.95
32327189--32327412	84	2.7	84	99	0	439	22	23	17	36	1.94
32327513--32327601	24	3.8	24	92	3	153	25	22	24	26	2.00
32327638--32327675	20	1.9	20	94	0	67	34	18	10	36	1.85
32327712--32327759	25	2.0	24	83	4	60	25	18	25	31	1.98
32335265--32335327	31	2.0	31	87	0	90	22	25	15	36	1.94
32335627--32335683	9	5.9	9	73	15	51	35	21	8	35	1.84
32335623--32335685	20	3.2	20	95	0	117	31	19	12	36	1.89
32335722--32335769	25	2.0	24	83	4	60	25	18	25	31	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