genome.fa.s9.2.7.7.80.10.50.1000.130.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  130  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)
42161738--42163102	682	2.0	682	93	0	2329	32	27	14	26	1.95
42170704--42170753	26	1.9	26	88	8	75	56	6	14	24	1.60
42171574--42171912	50	7.0	50	86	7	439	27	11	21	39	1.87
42171628--42171888	92	2.8	92	87	5	344	27	9	21	40	1.85
42171586--42171849	142	1.9	141	94	0	465	26	10	21	40	1.87
42178603--42178641	9	4.4	9	80	6	53	0	15	0	84	0.62
42178603--42178642	15	2.6	16	88	7	57	0	17	0	82	0.67
42181265--42181423	77	2.1	77	86	2	221	20	20	38	20	1.93
42192356--42192410	19	2.9	19	77	17	62	40	1	1	56	1.21
42194713--42194839	42	3.0	43	90	2	211	29	25	19	24	1.98
42194709--42194842	43	3.1	43	90	2	225	29	26	20	23	1.98
42199421--42199619	41	4.9	41	82	3	206	22	23	20	34	1.97
42199954--42200073	43	2.8	42	82	12	145	29	27	19	24	1.98
42203179--42203209	16	1.9	16	93	0	53	22	9	6	61	1.50
42204025--42204151	67	1.9	67	95	0	227	38	11	6	43	1.67
42207809--42207851	18	2.3	19	80	8	52	55	0	2	41	1.12
42207824--42207875	18	2.8	18	85	8	61	50	0	1	48	1.12
42207903--42207958	22	2.7	21	86	8	71	50	10	0	39	1.37
42207903--42207959	21	2.8	20	84	10	71	50	10	0	38	1.37
42211182--42211227	3	15.3	3	100	0	92	34	0	0	65	0.93
42217022--42217076	22	2.5	22	76	2	58	45	3	10	40	1.57
42218492--42218538	15	3.2	15	87	3	60	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42218527--42218591	28	2.3	27	77	12	69	55	3	4	36	1.36
42222020--42222065	23	2.0	23	84	12	60	45	10	6	36	1.65
42222027--42222071	23	2.0	23	82	8	56	40	13	8	37	1.76
42226897--42226946	25	2.0	24	92	3	82	42	4	0	54	1.19
42226913--42226954	20	2.1	20	82	8	50	40	2	0	57	1.12
42234326--42234374	20	2.5	20	86	0	71	51	0	4	44	1.20
42234462--42234501	20	2.0	20	95	0	71	42	15	12	30	1.83
42247334--42247397	22	2.8	23	81	9	69	67	25	0	7	1.17
42262987--42263045	22	2.6	22	89	2	82	20	23	16	38	1.92
42267199--42267281	39	2.1	41	84	4	107	26	16	25	31	1.97
42273657--42273698	7	6.0	7	85	0	57	35	0	35	28	1.58
42273657--42273698	14	3.0	14	92	0	66	35	0	35	28	1.58
42273658--42273698	21	2.0	21	90	9	66	34	0	36	29	1.58
42288430--42288502	30	2.4	30	79	6	76	50	0	1	47	1.09
42288778--42288852	33	2.3	33	95	0	132	45	17	10	26	1.81
42291669--42291718	25	2.0	26	84	4	66	64	12	12	12	1.51
42298677--42298734	27	2.2	25	82	14	64	56	1	0	41	1.09
42301938--42302189	129	2.0	129	86	3	355	26	18	20	35	1.95
42329715--42329776	28	2.2	28	79	0	70	22	20	29	27	1.99
42329726--42329778	15	3.7	15	80	10	65	18	24	32	24	1.97
42329741--42329765	13	1.9	13	100	0	50	16	28	32	24	1.96
42329815--42329868	21	2.6	20	82	5	63	40	16	18	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42330077--42330129	25	2.1	25	82	0	61	39	22	16	20	1.92
42331350--42331446	48	2.0	48	100	0	194	16	26	12	44	1.83
42334883--42334994	27	4.2	26	80	11	118	38	22	23	16	1.93
42334883--42334994	54	2.1	54	83	3	136	38	22	23	16	1.93
42341773--42341804	16	2.0	16	93	0	55	31	9	6	53	1.58
42342805--42342883	27	3.0	27	81	9	99	35	22	25	16	1.95
42345128--42345198	29	2.4	29	95	0	133	22	16	23	36	1.94
42345205--42345336	65	2.0	65	83	2	167	18	14	31	36	1.90
42359966--42360024	30	1.9	31	86	3	84	22	38	0	38	1.54
42360002--42360237	125	1.9	127	86	5	345	23	45	0	30	1.56
42360774--42360842	30	2.3	30	92	0	111	23	26	15	34	1.95
42360974--42361007	18	1.9	18	88	5	52	52	2	0	44	1.16
42364465--42364540	39	2.0	38	82	7	91	38	9	1	51	1.42
42365252--42365279	12	2.3	12	100	0	56	17	10	7	64	1.47
42365395--42365426	15	2.1	15	100	0	64	40	6	25	28	1.79
42367957--42368051	41	2.3	40	82	5	109	65	7	2	25	1.30
42368034--42368102	28	2.5	27	79	6	75	62	0	7	30	1.22
42376409--42376434	3	8.7	3	100	0	52	69	0	0	30	0.89
42379267--42379307	18	2.3	18	91	0	64	65	9	4	19	1.40
42381264--42381298	17	2.0	18	88	5	54	37	5	14	42	1.69
42385813--42385866	27	2.0	27	100	0	108	22	18	11	48	1.79
42389683--42389825	74	1.9	74	86	0	205	26	23	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42398474--42398545	29	2.4	30	77	15	76	47	4	1	47	1.30
42398526--42398555	15	2.0	15	93	0	51	66	3	0	30	1.07
42409420--42409612	47	4.0	48	81	8	187	23	17	27	31	1.97
42413406--42413583	27	6.6	27	84	3	205	29	28	15	26	1.96
42413427--42413582	82	1.9	81	88	3	233	29	28	15	26	1.96
42415636--42415730	29	3.2	28	72	19	84	49	11	14	24	1.76
42415646--42415800	59	2.6	60	86	4	215	51	9	14	23	1.72
42427274--42427332	26	2.3	26	84	0	73	32	8	13	45	1.74
42436020--42436197	27	6.6	27	83	3	205	26	15	28	29	1.96
42436021--42436176	82	1.9	81	88	3	233	26	15	28	29	1.96
42436017--42436197	82	2.2	81	83	2	229	27	15	27	29	1.96
42440768--42441009	50	4.8	50	83	4	283	29	26	19	24	1.98
42451132--42451166	17	2.1	17	89	5	54	57	0	5	37	1.23
42455615--42455647	15	2.2	15	89	10	50	84	0	0	15	0.61
42458379--42458491	56	2.0	56	91	0	181	52	15	8	23	1.70
42459842--42459873	13	2.3	15	89	10	50	25	0	6	68	1.12
42459931--42459956	13	2.0	13	100	0	52	30	23	7	38	1.83
42465110--42465232	47	2.6	47	82	6	135	30	17	26	25	1.97
42467837--42468041	46	4.4	46	77	9	166	27	17	29	25	1.98
42467837--42468140	94	3.2	94	80	7	294	28	19	27	24	1.99
42467837--42468140	48	6.4	47	73	8	195	28	19	27	24	1.99
42469794--42469825	14	2.3	14	100	0	64	34	31	15	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42474452--42474508	30	1.9	30	88	0	87	31	7	28	33	1.84
42474846--42475014	48	3.6	45	73	12	144	31	17	26	24	1.97
42474892--42475014	46	2.6	46	81	8	124	32	17	26	23	1.97
42479379--42479419	21	2.0	21	95	0	73	0	53	19	26	1.45
42484852--42484923	9	8.2	9	77	9	69	36	0	16	47	1.47
42484856--42484930	34	2.2	34	85	4	98	34	0	16	49	1.46
42485056--42485196	9	15.7	9	65	24	66	38	2	14	44	1.60
42485061--42485170	30	3.6	30	73	13	100	38	3	14	43	1.63
42485094--42485180	16	5.6	16	73	5	79	37	3	14	43	1.63
42485064--42485180	62	1.9	62	92	0	198	37	3	14	44	1.62
42485295--42485677	99	3.9	99	94	0	651	51	3	7	37	1.48
42485552--42485732	56	3.1	56	74	12	184	53	2	5	38	1.39
42485592--42485784	62	3.2	60	74	14	200	55	2	5	36	1.35
42485552--42485784	118	2.0	118	91	1	378	53	2	6	37	1.39
42485651--42485694	19	2.4	19	96	3	81	68	0	0	31	0.90
42485881--42486057	87	2.0	87	100	0	354	25	15	18	40	1.90
42488803--42488828	12	2.2	12	100	0	52	50	23	7	19	1.73
42491632--42491717	40	2.2	40	86	0	127	23	22	22	32	1.98
42491734--42491916	94	1.9	95	84	3	244	22	19	20	36	1.95
42491851--42491998	40	3.7	40	83	1	172	23	22	21	32	1.98
42491847--42492016	80	2.1	80	78	8	184	22	22	21	33	1.97
42491993--42492074	41	2.0	41	85	4	112	18	25	19	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42495648--42495698	20	2.5	20	96	0	93	21	25	33	19	1.97
42501802--42501856	22	2.5	22	88	5	85	12	29	34	23	1.92
42516610--42516683	27	2.7	27	87	4	96	39	24	9	27	1.86
42516638--42516842	27	7.6	27	86	1	259	35	20	20	23	1.96
42516948--42516978	16	1.9	16	93	0	53	29	19	16	35	1.93
42521020--42521057	19	2.0	20	89	5	60	44	13	2	39	1.57
42528419--42528469	20	2.5	21	78	15	63	45	13	0	41	1.44
42532513--42532612	47	2.2	46	82	8	114	47	12	9	32	1.72
42536619--42536883	10	27.8	10	67	18	86	59	3	3	33	1.29
42536608--42536882	19	14.5	18	69	18	134	58	3	3	34	1.31

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