genome.fa.s15.2.7.7.80.10.50.1000.35.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   

This is table  35  of  222  ( 26535 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)
10538636--10538699	20	3.3	20	71	20	64	25	3	3	68	1.18
10540905--10540950	25	1.9	25	86	8	69	47	0	2	50	1.13
10541056--10541104	20	2.5	20	93	0	80	61	4	0	34	1.15
10547238--10547280	10	4.3	10	84	0	59	51	20	0	27	1.48
10550621--10550661	20	2.0	20	100	0	82	39	14	19	26	1.90
10553324--10553359	18	2.0	18	100	0	72	16	38	16	27	1.90
10557114--10557166	26	2.0	26	81	0	61	32	13	24	30	1.93
10557318--10557342	9	2.8	9	100	0	50	68	24	0	8	1.16
10559782--10559922	70	2.0	70	100	0	282	40	14	15	29	1.87
10562463--10562508	23	2.0	23	87	4	67	43	15	8	32	1.77
10562956--10563368	131	3.1	132	87	2	616	25	25	20	28	1.99
10563361--10563565	89	2.3	89	77	0	221	25	20	24	28	1.99
10563517--10564319	45	18.2	45	72	10	426	27	21	18	32	1.97
10563517--10564326	89	9.2	89	72	10	285	27	21	18	32	1.97
10563799--10564222	178	2.4	178	86	2	573	26	23	17	32	1.97
10564645--10564723	24	3.3	24	90	0	131	30	22	12	34	1.92
10565635--10565677	15	2.9	14	83	10	50	6	4	2	86	0.79
10570900--10570936	16	2.3	16	85	0	56	67	0	8	24	1.17
10571518--10571575	22	2.6	22	84	7	73	43	17	3	36	1.66
10571531--10571588	19	2.8	20	84	10	64	39	17	6	36	1.76
10573269--10573320	25	2.0	26	92	3	88	34	17	11	36	1.86
10573453--10573487	6	5.8	6	89	0	52	20	28	0	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10573445--10573488	18	2.4	18	92	0	70	18	27	2	52	1.57
10575742--10575978	74	3.3	74	73	5	259	30	23	23	22	1.99
10575843--10575918	35	2.2	35	79	6	84	35	23	22	18	1.96
10575673--10575918	69	3.5	69	71	5	204	30	22	24	22	1.99
10575672--10575975	143	2.1	143	89	1	457	30	22	23	23	1.99
10578433--10578551	54	2.2	54	83	3	150	17	30	23	28	1.97
10578774--10578798	11	2.3	11	100	0	50	28	24	16	32	1.96
10582306--10582402	27	3.6	27	81	4	106	40	17	17	24	1.91
10582517--10582738	109	2.0	109	93	0	381	19	17	31	31	1.95
10582731--10582782	26	2.0	26	92	0	86	17	21	25	36	1.94
10582889--10583008	28	4.3	28	88	5	190	21	23	23	31	1.98
10584906--10585205	27	11.2	27	82	2	327	41	20	18	19	1.90
10584914--10585163	80	3.1	79	85	6	308	40	22	18	18	1.91
10584903--10585205	107	2.8	106	82	5	342	41	20	18	19	1.90
10584903--10585205	134	2.3	133	82	6	378	41	20	18	19	1.90
10589154--10589290	62	2.2	62	82	2	168	23	22	29	24	1.99
10590479--10590556	28	2.8	28	84	0	102	60	12	7	19	1.56
10591947--10592014	29	2.3	30	80	5	77	57	2	2	36	1.29
10591990--10592035	20	2.3	20	84	0	56	60	2	4	32	1.28
10592008--10592052	20	2.2	20	84	0	54	62	0	2	35	1.08
10597013--10597075	25	2.5	25	89	0	99	26	23	22	26	2.00
10601374--10601419	5	9.2	5	95	0	83	36	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10608777--10608821	5	9.2	5	90	4	74	37	0	2	60	1.09
10609630--10609675	3	15.3	3	81	0	56	36	0	2	60	1.09
10612223--10612806	300	1.9	299	89	1	893	30	21	16	31	1.95
10615426--10615459	16	2.2	16	89	5	52	32	5	0	61	1.20
10617325--10617354	3	10.0	3	100	0	60	33	0	0	66	0.92
10619949--10620015	27	2.6	26	85	4	91	52	2	23	20	1.61
10630445--10630584	37	4.2	34	65	27	84	40	0	2	56	1.19
10630518--10630570	18	2.9	18	94	2	88	37	1	1	58	1.20
10630730--10630822	44	2.1	46	87	4	136	36	29	4	30	1.77
10632025--10632540	51	10.5	51	81	9	552	16	6	46	30	1.72
10632025--10632540	153	3.5	152	84	8	724	16	6	46	30	1.72
10632283--10632599	87	3.5	87	79	14	361	17	6	45	30	1.74
10632022--10632599	186	3.0	186	88	5	778	15	6	46	30	1.72
10632232--10632489	135	1.9	136	93	2	446	15	6	46	31	1.72
10633972--10634057	42	2.0	44	88	4	131	51	2	4	41	1.35
10635811--10635835	13	1.9	13	100	0	50	36	16	16	32	1.90
10640896--10640922	13	2.1	13	100	0	54	33	14	22	29	1.94
10641156--10641294	75	1.9	75	82	0	179	33	17	21	27	1.96
10641816--10641846	3	10.3	3	100	0	62	64	0	0	35	0.94
10644492--10644539	19	2.4	19	82	6	51	66	4	4	25	1.27
10647239--10647480	50	4.8	50	90	3	371	20	31	22	25	1.98
10647575--10647604	13	2.3	13	94	0	51	50	13	3	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10653197--10653358	41	4.0	41	89	1	218	22	27	20	29	1.98
10654197--10654225	11	2.7	11	94	5	51	0	20	0	79	0.74
10654194--10654225	16	1.9	17	93	6	57	0	21	0	78	0.76
10660366--10660527	41	4.0	41	90	1	227	22	27	20	29	1.98
10661372--10661400	11	2.7	11	94	5	51	0	20	0	79	0.74
10661369--10661400	16	1.9	17	93	6	57	0	21	0	78	0.76
10662663--10662687	13	1.9	13	100	0	50	68	24	0	8	1.16
10664560--10664802	50	4.8	50	91	0	369	20	30	23	25	1.98
10664897--10664926	13	2.3	13	94	0	51	50	13	3	33	1.58
10665140--10665195	29	1.9	29	85	7	78	30	25	3	41	1.72
10668795--10668882	20	4.3	20	74	7	79	42	22	23	11	1.86
10670294--10670344	26	2.0	24	88	7	75	29	11	7	50	1.67
10672171--10672284	54	2.1	54	86	3	158	46	20	14	19	1.84
10672166--10672284	27	4.4	27	76	9	127	46	19	15	19	1.84
10672182--10672300	54	2.2	54	84	3	150	45	22	11	20	1.83
10672310--10672366	25	2.2	25	84	9	71	21	14	21	43	1.87
10676658--10676707	25	2.0	25	100	0	100	40	8	16	36	1.77
10676974--10677016	21	2.0	21	100	0	86	39	18	9	32	1.83
10677736--10677798	33	1.9	33	86	0	90	46	11	14	28	1.78
10677949--10677993	15	3.0	15	77	9	56	20	13	0	66	1.24
10680228--10680292	31	2.1	32	82	2	78	40	1	1	56	1.18
10680240--10680400	59	2.6	62	74	16	154	40	4	1	52	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10680269--10680336	27	2.6	25	80	15	68	39	4	0	55	1.20
10684001--10684054	29	2.0	29	82	13	71	44	5	7	42	1.55
10684845--10684902	27	2.1	27	84	6	73	50	0	1	48	1.11
10684869--10684954	37	2.4	34	77	14	82	50	0	3	46	1.18
10686403--10687159	51	15.5	50	80	9	674	13	6	49	31	1.67
10686448--10686545	45	2.3	40	75	13	99	10	7	54	28	1.60
10686400--10687159	102	7.8	102	83	7	830	13	6	49	31	1.67
10686887--10686955	36	1.9	36	90	0	111	21	7	43	27	1.79
10686400--10687108	189	3.7	194	81	9	760	12	6	49	31	1.67
10686839--10687005	87	1.9	87	87	0	244	14	7	48	28	1.72
10686689--10687218	240	2.2	239	89	2	789	14	5	47	32	1.68
10692107--10692178	36	2.0	36	81	13	85	44	0	9	45	1.36
10694295--10694538	124	2.0	124	91	0	398	41	11	20	26	1.87
10698565--10698617	10	5.5	10	84	11	67	32	0	0	67	0.91
10714055--10714109	24	2.3	24	90	0	92	34	20	27	18	1.95
10714155--10714210	26	2.2	26	83	6	69	35	19	28	16	1.93
10715742--10715768	13	2.1	13	100	0	54	44	14	11	29	1.80
10723017--10723047	5	6.2	5	100	0	62	0	38	0	61	0.96
10724335--10724389	24	2.3	24	87	6	76	38	18	23	20	1.93
10724431--10724479	26	1.9	25	87	4	71	34	18	24	22	1.96
10726488--10726747	140	1.9	140	86	1	378	27	20	20	31	1.98
10728889--10728918	16	1.9	15	93	6	51	43	0	10	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10733052--10733198	35	4.5	35	71	14	132	25	21	15	37	1.93
10734869--10734918	3	16.7	3	100	0	100	66	0	0	34	0.92
10738127--10738281	50	3.2	48	71	20	135	27	21	18	31	1.97
10738082--10738247	44	3.6	44	74	17	149	26	18	19	35	1.95
10737939--10738778	282	3.0	282	82	2	981	27	20	19	33	1.96
10738597--10738754	50	3.3	49	70	20	134	29	22	16	31	1.96
10737939--10738770	94	8.9	94	81	2	837	27	20	19	33	1.96
10751794--10751999	107	1.9	107	81	6	243	30	6	3	59	1.40
10751939--10751988	22	2.3	22	83	10	66	28	6	4	62	1.37
10751904--10752064	48	3.2	51	80	9	145	27	5	4	61	1.39

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