genome.fa.s9.2.7.7.80.10.50.1000.164.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  164  of  259  ( 31025 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)
53315773--53315852	40	2.0	40	100	0	160	27	12	22	37	1.90
53321855--53321890	17	2.2	17	90	5	56	47	0	0	52	1.00
53322469--53322598	64	2.0	65	98	1	253	13	10	13	61	1.57
53328580--53328618	19	2.0	20	90	9	64	64	0	0	35	0.94
53328748--53328847	21	4.7	21	77	11	71	56	2	5	37	1.33
53328766--53328848	43	1.9	43	81	13	100	55	1	6	37	1.32
53329095--53329130	12	3.0	12	91	0	54	66	0	5	27	1.13
53331221--53331280	31	1.9	31	86	6	86	33	5	20	41	1.74
53332995--53333031	10	3.6	10	88	3	56	86	0	13	0	0.57
53332993--53333023	16	1.9	16	93	0	53	90	0	9	0	0.46
53332984--53333031	23	2.1	23	84	7	62	83	2	14	0	0.74
53336823--53336864	22	1.9	22	90	0	66	59	14	16	9	1.60
53340800--53340836	11	3.4	11	84	0	56	75	16	5	2	1.10
53343028--53343185	21	7.6	21	82	5	178	18	20	14	46	1.84
53343028--53343185	42	3.8	42	87	5	223	18	20	14	46	1.84
53343028--53343199	63	2.8	61	82	5	197	18	20	14	46	1.84
53351364--53351394	16	1.9	16	93	0	53	77	0	0	22	0.77
53354431--53354633	46	4.3	48	88	7	265	35	14	21	28	1.92
53354365--53354633	98	2.7	98	93	0	457	34	14	22	28	1.93
53354597--53354742	37	4.0	37	91	1	233	36	16	21	25	1.94
53355515--53355559	3	15.3	3	82	13	58	26	0	0	73	0.84
53355515--53355559	19	2.3	20	88	7	67	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53356765--53356872	51	2.1	51	100	0	216	39	11	22	26	1.87
53357675--53357878	46	4.4	46	89	0	309	40	11	23	24	1.88
53357843--53357907	30	2.2	30	86	5	87	46	18	20	15	1.84
53359377--53359484	26	4.2	26	92	0	180	32	7	24	36	1.83
53367092--53367139	12	4.2	11	79	10	51	77	0	4	18	0.93
53372477--53372509	13	2.6	13	90	4	50	48	12	0	39	1.40
53382529--53382632	21	5.2	21	67	13	85	13	26	22	37	1.91
53382511--53382650	39	3.6	39	91	0	217	13	25	23	37	1.92
53383968--53384146	31	5.4	32	77	16	161	29	20	25	24	1.99
53384169--53384262	46	2.0	47	81	4	109	22	17	30	29	1.96
53385643--53385683	17	2.4	17	100	0	82	46	9	12	31	1.74
53387507--53387630	39	3.2	39	94	0	203	12	25	25	37	1.90
53394138--53394214	26	2.9	26	72	14	68	42	11	15	29	1.82
53411214--53411260	19	2.5	20	79	10	62	29	17	25	27	1.97
53420829--53420875	24	2.0	24	91	0	76	51	17	8	23	1.72
53421279--53421335	27	2.1	27	86	0	78	24	15	42	17	1.88
53421646--53421697	27	1.9	27	88	0	77	50	1	7	40	1.42
53424485--53424641	64	2.5	64	94	1	271	42	5	7	44	1.57
53426989--53427207	107	2.0	110	86	8	309	54	8	4	32	1.50
53428562--53428615	20	2.8	18	81	15	63	29	0	1	68	1.00
53429137--53429169	15	2.2	16	89	10	52	6	18	0	75	1.00
53442198--53442260	13	5.2	12	70	22	51	36	1	0	61	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53442197--53442260	9	7.2	9	72	20	55	35	1	0	62	1.05
53446349--53446572	113	2.0	113	96	0	412	36	14	17	31	1.91
53449058--53449116	30	2.0	30	96	0	109	25	5	11	57	1.54
53456239--53456283	22	2.0	22	82	0	54	77	15	0	6	0.96
53456401--53456437	19	1.9	19	94	0	65	40	10	16	32	1.83
53456429--53456474	21	2.1	22	84	8	58	36	4	15	43	1.66
53456416--53456474	22	2.7	23	79	7	61	38	5	16	38	1.71
53461584--53461616	9	3.7	9	88	12	50	87	0	12	0	0.53
53461574--53461616	7	5.9	7	82	17	52	86	0	13	0	0.58
53461573--53461614	22	1.9	22	95	0	75	85	0	14	0	0.59
53462564--53463127	44	12.9	43	71	14	291	28	15	26	29	1.96
53462540--53463294	87	8.7	87	76	11	626	28	16	26	29	1.96
53462540--53463384	175	4.9	173	76	11	757	28	15	26	29	1.96
53462652--53463386	253	2.9	253	86	4	1003	28	15	26	29	1.96
53463250--53463353	44	2.4	44	81	1	129	30	12	25	30	1.93
53463520--53463783	44	6.0	43	72	11	196	30	17	25	26	1.97
53463460--53463735	134	2.0	136	87	3	396	31	17	24	26	1.97
53463457--53463735	44	6.2	46	70	12	175	31	17	24	26	1.97
53463564--53463778	90	2.4	90	92	1	351	30	18	24	26	1.98
53464226--53464316	19	4.9	19	90	8	152	38	10	15	35	1.83
53464234--53464323	35	2.5	37	87	10	134	38	11	15	34	1.83
53466311--53466351	9	4.6	9	85	14	50	26	0	2	70	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53469051--53469112	31	1.9	33	84	12	85	67	0	12	19	1.22
53472654--53472718	21	3.1	20	70	20	53	60	0	3	36	1.13
53473990--53474044	25	2.2	26	96	3	103	50	16	3	29	1.62
53477708--53477748	6	6.5	6	89	10	64	80	2	0	17	0.82
53477711--53477750	20	2.0	20	95	0	71	77	5	0	17	0.94
53477768--53477826	9	6.6	9	92	0	64	27	6	20	45	1.76
53486596--53486639	6	7.3	6	92	0	61	61	4	15	18	1.50
53488330--53488386	27	2.1	27	83	6	71	59	1	10	28	1.40
53497465--53497655	44	4.3	44	89	0	238	31	22	19	26	1.98
53499890--53499919	14	2.1	14	100	0	60	46	6	20	26	1.75
53501719--53501758	21	1.9	21	94	0	71	47	12	10	30	1.74
53503824--53504342	133	3.9	133	98	0	975	51	18	9	20	1.73
53507092--53507138	12	4.0	11	81	13	58	42	0	0	57	0.98
53507127--53507158	15	2.1	15	94	0	55	31	9	0	59	1.29
53508012--53508045	14	2.4	14	90	9	52	44	23	0	32	1.54
53508210--53508347	41	3.4	41	83	2	143	21	20	23	34	1.96
53512996--53513029	17	1.9	18	94	5	61	44	0	26	29	1.55
53514601--53514654	27	2.0	27	100	0	108	29	7	14	48	1.71
53515084--53515137	6	8.8	6	89	2	63	14	27	1	55	1.50
53517806--53517856	20	2.5	22	81	18	65	39	7	5	47	1.57
53519807--53519851	18	2.4	19	79	13	58	75	2	2	20	1.01
53523463--53523499	12	3.1	12	88	11	58	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53523882--53523926	21	2.1	21	84	8	56	60	0	4	35	1.17
53523950--53523983	12	2.9	12	95	4	61	61	0	0	38	0.96
53524285--53524445	17	8.9	18	84	5	202	36	14	11	37	1.82
53524285--53524437	35	4.3	35	91	2	243	35	14	11	37	1.83
53525774--53525840	33	2.0	33	100	0	134	31	8	20	38	1.84
53536957--53537038	41	2.0	41	100	0	164	39	14	21	24	1.91
53539193--53539235	21	2.0	22	86	13	63	55	2	0	41	1.12
53542375--53542456	36	2.3	37	78	4	96	45	24	7	23	1.78
53547411--53547438	6	4.7	6	100	0	56	28	0	0	71	0.86
53551826--53551868	21	2.0	22	86	13	63	55	2	0	41	1.12
53551838--53551884	15	3.1	16	76	11	55	55	2	0	42	1.12
53554485--53554564	23	3.7	23	75	13	96	36	22	5	36	1.76
53554486--53554574	42	2.1	42	97	2	171	34	23	4	37	1.75
53554509--53554574	19	3.3	19	71	17	62	34	24	4	36	1.76
53555036--53555156	36	3.4	36	78	10	122	42	27	12	18	1.86
53558956--53559014	24	2.5	24	88	0	82	35	23	15	25	1.94
53560991--53561045	27	2.1	27	93	3	94	38	9	1	50	1.45
53560981--53561048	13	5.2	13	80	7	75	41	11	1	45	1.50
53564238--53564281	13	3.3	13	81	12	54	13	15	15	54	1.71
53566550--53566678	38	3.4	38	91	4	197	21	22	24	31	1.99
53568327--53568522	94	2.1	94	92	1	322	36	21	14	27	1.93
53570678--53570718	21	1.9	22	85	5	57	36	2	0	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53578069--53578178	55	2.0	55	96	0	202	36	17	9	37	1.81
53584160--53584187	14	2.0	14	100	0	56	28	14	7	50	1.69
53586533--53586593	31	2.0	31	86	0	86	36	9	6	47	1.63
53587712--53587764	24	2.2	24	83	6	63	41	7	5	45	1.56
53589867--53589891	7	3.6	7	100	0	50	16	0	0	84	0.63
53589868--53589919	14	3.5	14	77	12	50	25	0	1	73	0.94
53590944--53590992	23	2.2	23	85	3	64	71	4	2	22	1.13
53597688--53597729	3	14.0	3	100	0	84	33	0	0	66	0.92
53600845--53600884	21	1.9	21	94	0	71	52	0	0	47	1.00
53605015--53605082	20	3.4	20	76	10	59	19	5	4	70	1.25

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