genome.fa.s4.2.7.7.80.10.50.1000.124.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  124  of  255  ( 30512 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)
39613031--39613064	15	2.1	15	89	10	50	44	2	0	52	1.16
39615204--39615301	27	3.5	28	90	2	135	26	13	28	31	1.94
39615232--39615314	27	3.0	27	87	5	96	30	12	25	32	1.92
39615204--39615315	28	4.0	27	83	6	98	28	12	25	33	1.92
39628643--39628690	14	3.4	14	81	16	55	35	10	16	37	1.83
39629154--39629192	19	2.1	19	85	9	53	58	2	0	38	1.12
39629183--39629224	20	2.0	22	86	9	61	54	0	0	45	0.99
39639427--39639587	56	2.8	56	80	7	182	19	17	31	31	1.95
39651083--39651303	40	5.6	40	86	4	288	23	23	28	25	2.00
39651083--39651303	80	2.8	79	89	4	320	23	23	28	25	2.00
39655513--39656451	468	2.0	468	94	0	1637	32	14	23	28	1.95
39664109--39664151	22	2.0	22	86	4	61	53	11	0	34	1.37
39667753--39667824	36	2.0	36	86	0	99	51	8	8	31	1.62
39667824--39667914	45	2.0	45	89	4	139	39	9	14	36	1.79
39667644--39667900	139	1.9	133	88	6	392	44	10	11	33	1.76
39668353--39668411	21	2.8	21	81	2	73	8	18	38	33	1.81
39675624--39675750	68	1.9	68	83	6	168	22	28	16	32	1.96
39686903--39686929	12	2.2	12	100	0	54	40	0	7	51	1.30
39690247--39690327	30	2.7	30	96	0	144	29	8	27	34	1.87
39693922--39694140	45	4.9	45	78	3	190	45	15	17	21	1.85
39693923--39694090	90	1.9	90	83	2	221	45	15	17	21	1.85
39697587--39697768	48	3.8	47	76	8	197	23	31	18	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39697589--39697779	96	2.0	96	89	0	292	24	30	18	26	1.98
39698697--39698736	15	2.7	16	85	11	50	40	32	0	27	1.57
39699354--39699466	23	4.8	23	74	10	95	33	17	21	27	1.96
39702639--39702735	42	2.3	42	83	0	113	23	35	22	18	1.96
39707794--39707951	23	6.7	23	78	5	129	29	20	16	33	1.95
39714278--39714367	28	3.2	27	81	13	103	33	22	23	21	1.97
39714278--39714367	27	3.2	28	80	13	105	33	22	23	21	1.97
39714473--39714539	28	2.4	28	89	0	107	31	7	26	34	1.84
39715021--39715065	23	2.0	22	83	8	56	33	31	15	20	1.93
39722071--39722160	28	3.2	27	80	13	103	33	22	23	21	1.97
39722071--39722160	27	3.2	28	78	13	105	33	22	23	21	1.97
39722282--39722358	28	2.8	28	97	0	145	29	7	23	38	1.83
39726129--39726267	23	5.8	23	75	13	113	23	21	20	35	1.96
39726154--39726279	23	5.3	24	78	11	136	21	22	19	36	1.95
39726139--39726268	48	2.7	47	83	9	156	23	21	20	35	1.96
39729610--39729654	22	2.1	22	83	4	56	42	20	2	35	1.64
39745316--39745581	40	6.7	40	96	0	480	30	19	27	21	1.98
39745316--39745581	119	2.2	120	95	1	480	30	19	27	21	1.98
39748703--39748754	26	2.0	26	96	0	95	36	19	13	30	1.90
39748991--39749143	73	2.1	75	86	6	215	23	29	21	25	1.99
39751035--39751454	37	11.5	37	78	8	279	38	14	19	27	1.90
39751039--39751454	110	3.8	108	77	8	315	38	14	19	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39751035--39751454	73	5.7	73	79	6	343	38	14	19	27	1.90
39751067--39751393	146	2.2	145	82	4	381	38	15	18	26	1.91
39751711--39751742	6	4.9	7	92	7	50	71	0	0	28	0.86
39756933--39756985	22	2.4	23	81	12	67	28	3	22	45	1.70
39759800--39759928	46	2.8	46	91	0	204	19	21	28	30	1.98
39763895--39764078	50	3.7	49	81	4	190	26	16	25	30	1.97
39765077--39765191	44	2.7	43	79	6	133	23	18	29	28	1.98
39772163--39772188	12	2.2	12	100	0	52	15	23	38	23	1.92
39775033--39775075	17	2.4	18	80	3	52	9	0	13	76	1.01
39775043--39775074	6	5.5	6	96	3	57	0	0	15	84	0.63
39787964--39788023	31	1.9	32	89	3	95	16	28	33	21	1.95
39798532--39798770	55	4.5	54	78	8	242	35	17	24	21	1.95
39798539--39798741	108	1.9	110	86	4	295	33	18	25	23	1.97
39815477--39815626	67	2.2	67	81	8	171	32	17	28	21	1.96
39815501--39815684	67	2.8	64	77	8	194	29	17	29	22	1.97
39825665--39825747	43	1.9	43	85	0	112	30	28	18	22	1.97
39833043--39833230	40	4.7	40	90	3	299	24	22	27	25	2.00
39833043--39833263	80	2.8	80	85	6	299	25	22	26	24	2.00
39833043--39833263	119	1.9	119	85	5	313	25	22	26	24	2.00
39837512--39838606	47	23.1	47	92	3	1732	32	9	29	28	1.88
39837512--39838606	96	11.6	96	91	4	1719	32	9	29	28	1.88
39837512--39838606	143	7.7	143	93	2	1739	32	9	29	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39840560--39840633	29	2.6	29	91	0	112	27	16	31	25	1.96
39840640--39840747	51	2.1	51	100	0	216	33	16	9	40	1.80
39840997--39841231	40	5.9	40	82	4	210	23	22	28	25	1.99
39841081--39841147	23	3.2	23	60	24	56	26	22	25	25	2.00
39844551--39845943	47	29.1	49	92	3	2247	32	9	28	29	1.89
39844551--39845943	96	14.6	96	92	3	2233	32	9	28	29	1.89
39844551--39845943	143	9.7	143	94	2	2276	32	9	28	29	1.89
39846062--39846140	37	2.1	37	90	0	122	24	18	31	25	1.98
39853286--39853505	39	5.7	40	90	6	330	25	22	26	25	2.00
39860334--39860387	21	2.6	21	76	5	56	68	0	5	25	1.11
39861891--39861949	30	2.0	30	83	6	75	27	27	5	40	1.77
39864394--39864446	15	3.6	14	82	5	61	52	18	15	13	1.74
39871899--39871923	12	2.1	12	100	0	50	48	16	8	28	1.74
39875819--39875971	28	5.5	28	91	1	229	25	13	29	31	1.94
39875819--39875971	83	1.8	83	88	2	236	25	13	29	31	1.94
39883982--39884134	28	5.5	28	91	1	229	25	13	29	31	1.94
39883982--39884134	83	1.8	83	88	2	236	25	13	29	31	1.94
39886526--39886570	14	3.2	14	81	12	65	48	26	0	24	1.51
39886843--39886947	14	7.5	14	69	10	63	40	40	0	20	1.52
39886841--39886946	21	5.0	21	71	8	63	40	39	0	19	1.52
39886986--39887037	7	7.4	7	80	0	50	50	25	0	25	1.50
39887194--39887412	41	5.4	41	91	1	334	17	22	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39887467--39887492	12	2.2	12	100	0	52	46	30	15	7	1.74
39887945--39888007	30	2.1	30	100	0	126	31	12	9	46	1.74
39889721--39889813	46	2.0	46	93	0	159	33	23	17	25	1.96
39891636--39891703	29	2.3	29	89	0	100	25	20	22	32	1.98
39892292--39892332	20	2.0	20	85	0	55	51	9	9	29	1.67
39893774--39894250	40	11.9	40	93	0	794	23	28	20	27	1.99
39893774--39894342	120	4.9	120	90	3	819	24	28	20	27	1.99
39894256--39894342	40	2.2	40	97	0	165	24	29	20	25	1.99
39894150--39894342	106	1.8	106	96	2	361	25	28	19	25	1.99
39901908--39901959	16	3.4	16	73	10	54	34	1	5	57	1.33
39901907--39901963	30	1.9	29	89	3	87	36	1	5	56	1.32
39902232--39902269	16	2.4	16	86	8	51	50	0	0	50	1.00
39906991--39907372	47	8.1	47	92	0	548	31	9	30	27	1.89
39907491--39907569	37	2.1	37	88	0	113	25	18	30	25	1.98
39909422--39909524	43	2.4	43	98	0	197	23	15	34	26	1.94
39909506--39909579	29	2.6	29	89	4	105	25	16	32	25	1.96
39909890--39910085	40	4.9	40	87	0	257	22	22	29	25	1.99
39913550--39914075	47	11.1	47	95	0	818	31	10	30	28	1.90
39914238--39914316	37	2.1	37	88	0	113	24	17	31	26	1.97
39917782--39917938	47	3.4	46	76	11	178	22	29	19	28	1.98
39920049--39920269	40	5.6	40	82	6	254	25	27	20	26	1.99
39920049--39920265	79	2.7	80	84	6	264	26	26	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39932854--39932950	24	4.1	24	81	2	106	32	38	10	18	1.85
39932854--39932916	23	2.7	24	85	5	83	31	39	9	19	1.83
39938371--39938497	50	2.5	51	89	1	184	34	15	23	25	1.95
39938473--39938621	31	4.8	31	89	0	226	26	20	27	25	1.99
39938640--39938810	47	3.6	47	83	4	184	27	14	27	30	1.95
39940428--39940469	20	2.2	20	83	12	52	23	7	4	64	1.38
39941565--39941612	25	2.0	24	91	4	78	43	4	2	50	1.33
39947168--39947246	37	2.1	37	90	0	122	25	31	18	24	1.98
39947364--39947634	47	5.6	49	92	4	446	30	29	8	31	1.87
39947620--39947648	14	2.1	14	100	0	58	20	31	27	20	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