genome.fa.s14.2.7.7.80.10.50.1000.39.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: D01
Parameters: 2 7 7 80 10 50 1000
Length:  64473564

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   

This is table  39  of  213  ( 25468 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)
10276160--10276406	88	2.8	88	83	3	293	32	17	20	29	1.96
10276160--10276406	132	1.9	132	88	3	381	32	17	20	29	1.96
10283890--10283923	15	2.3	15	90	10	52	35	29	17	17	1.93
10284687--10284758	21	3.4	22	66	22	64	48	18	15	18	1.81
10284693--10284795	42	2.5	42	86	0	134	47	18	15	18	1.83
10288783--10288844	3	20.7	3	100	0	124	32	0	0	67	0.91
10298743--10298768	13	2.0	13	100	0	52	7	30	46	15	1.74
10298987--10299039	11	4.5	11	75	11	52	32	5	1	60	1.31
10299650--10300046	200	2.0	200	96	0	740	28	12	25	32	1.92
10301106--10301151	8	5.8	8	76	19	51	39	2	0	58	1.10
10301164--10301259	40	2.3	40	89	3	147	63	8	28	0	1.23
10302515--10302622	24	4.5	24	86	6	132	16	21	21	40	1.91
10302527--10302623	47	2.0	46	86	5	131	15	21	21	41	1.90
10308043--10308106	32	2.0	32	93	0	110	50	10	1	37	1.47
10308392--10308423	10	3.2	10	95	0	55	65	6	0	28	1.16
10310182--10310211	5	6.0	5	96	0	51	43	36	20	0	1.52
10311100--10311168	9	7.4	9	75	8	59	28	4	1	65	1.21
10311317--10311524	84	2.6	83	80	6	230	35	10	14	40	1.80
10314295--10314349	13	4.7	12	76	19	53	5	12	0	81	0.84
10314280--10314328	14	3.5	15	78	13	59	6	16	2	75	1.09
10314295--10314349	21	2.4	21	82	14	56	5	12	0	81	0.84
10314278--10314342	28	2.5	28	87	9	93	6	13	1	78	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10314298--10314351	11	4.7	12	78	19	53	5	12	0	81	0.85
10314312--10314366	28	2.0	28	81	0	65	7	9	5	78	1.10
10314908--10314986	41	1.9	41	86	0	113	13	25	37	22	1.91
10316547--10316705	53	3.0	52	85	3	194	37	12	22	27	1.90
10316856--10316922	27	2.4	29	80	11	70	23	19	28	28	1.98
10320821--10320854	8	4.2	8	88	11	52	0	20	0	79	0.73
10320821--10320858	15	2.4	16	87	12	53	0	21	0	78	0.74
10320938--10320970	16	2.0	17	88	5	50	48	0	3	48	1.17
10328321--10328363	21	2.0	22	90	4	70	30	34	23	11	1.90
10336584--10336659	37	2.1	37	97	0	143	27	11	27	32	1.92
10338051--10338500	228	2.0	228	89	0	695	27	15	22	34	1.94
10340436--10340468	17	1.9	17	100	0	66	48	0	3	48	1.17
10342301--10342342	17	2.4	18	77	18	52	59	0	4	35	1.19
10350052--10350081	8	3.9	8	95	4	53	36	0	0	63	0.95
10351171--10351217	24	1.9	25	91	4	78	40	8	2	48	1.45
10351246--10351273	4	7.0	4	100	0	56	50	0	0	50	1.00
10354459--10354493	3	11.7	3	88	11	54	68	0	2	28	1.04
10379231--10379322	46	2.0	46	100	0	184	36	13	13	36	1.83
10380609--10380689	41	2.0	41	97	0	153	48	14	7	29	1.71
10383782--10383815	17	1.9	18	88	5	52	50	5	29	14	1.67
10384563--10384633	35	2.1	34	94	2	124	54	14	15	15	1.71
10390747--10390799	24	2.4	21	90	9	79	62	0	5	32	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10422934--10422966	13	2.6	13	85	4	50	12	6	0	81	0.85
10424273--10424692	218	1.9	215	89	1	651	29	15	19	35	1.93
10424251--10424692	110	4.1	107	91	2	643	30	14	18	35	1.92
10425620--10425654	16	2.2	16	89	0	52	22	17	17	42	1.88
10436016--10436142	44	2.9	45	76	6	134	32	15	22	29	1.95
10438759--10438795	17	2.1	18	90	5	58	45	5	5	43	1.49
10439959--10439994	14	2.7	13	91	8	63	0	16	13	69	1.19
10441233--10441652	218	1.9	215	90	2	671	29	16	19	34	1.94
10441226--10441652	110	4.0	108	90	3	666	30	16	19	34	1.94
10442381--10442461	34	2.3	35	93	6	139	28	2	2	66	1.17
10442381--10442477	34	2.8	34	86	7	117	27	3	2	67	1.17
10457421--10457455	13	2.7	13	95	0	61	34	17	25	22	1.96
10468819--10468881	30	2.2	30	88	5	94	49	15	12	22	1.79
10469778--10469893	34	3.5	31	78	15	117	43	0	12	43	1.43
10469956--10470349	126	3.1	125	85	3	508	37	15	16	30	1.90
10478312--10478361	25	2.0	25	96	0	91	22	24	28	26	1.99
10478340--10478574	42	5.5	44	75	10	188	22	16	25	35	1.95
10478339--10478572	85	2.8	84	86	1	317	22	16	25	35	1.94
10480919--10481678	397	1.9	396	81	5	926	35	12	17	34	1.88
10482421--10482601	51	3.3	57	81	12	236	44	6	19	30	1.75
10482577--10482601	6	4.2	6	100	0	50	68	0	16	16	1.22
10484937--10484980	20	2.2	21	88	8	65	9	22	0	68	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10490804--10490998	2	98.5	2	96	2	367	0	50	0	49	1.00
10491454--10491534	37	2.2	37	81	12	89	58	2	0	39	1.12
10491684--10491749	24	2.9	22	70	18	53	51	4	1	42	1.31
10495949--10496145	41	4.8	41	92	5	317	28	20	22	27	1.99
10496362--10496459	33	2.9	33	84	7	108	30	10	22	36	1.87
10506191--10506776	150	4.0	148	88	3	849	22	26	18	32	1.97
10508444--10508500	28	1.9	29	83	16	73	59	1	35	3	1.25
10512434--10512683	137	1.8	136	81	5	308	48	18	9	24	1.77
10534174--10534221	19	2.6	19	90	3	80	37	2	12	47	1.53
10539448--10539496	21	2.3	21	79	6	55	48	0	0	51	1.00
10539900--10539983	42	2.0	42	90	0	132	55	4	4	34	1.42
10541612--10541651	15	2.5	16	84	8	55	35	2	0	62	1.09
10552254--10552303	24	2.1	24	85	7	66	52	8	8	32	1.60
10554889--10554930	21	2.0	20	82	13	50	71	4	0	23	1.05
10560081--10560118	18	2.1	19	90	5	60	42	5	7	44	1.56
10560692--10560835	59	2.4	59	85	6	191	34	18	2	43	1.65
10560681--10560849	30	5.7	29	78	12	137	33	20	2	43	1.67
10561195--10561247	5	11.2	5	82	11	67	77	1	20	0	0.87
10561192--10561244	9	5.9	9	85	10	65	79	1	18	0	0.83
10561187--10561247	14	4.5	13	84	10	77	78	1	18	1	0.91
10561195--10561236	19	2.2	19	95	0	75	78	2	19	0	0.86
10561185--10561245	9	7.4	8	75	12	52	80	1	16	1	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10561336--10561402	7	9.0	7	81	15	64	80	0	19	0	0.71
10561339--10561402	11	6.1	11	76	20	57	81	0	18	0	0.70
10561335--10561402	18	3.8	18	72	16	70	79	0	20	0	0.73
10561335--10561402	21	3.4	21	75	20	74	79	0	20	0	0.73
10561658--10561727	19	3.7	19	68	24	58	75	0	24	0	0.80
10561659--10561703	16	2.8	16	78	21	58	75	0	24	0	0.80
10561679--10561723	23	1.9	24	90	4	74	77	0	22	0	0.76
10562041--10562082	20	2.2	20	87	12	61	40	9	11	38	1.75
10562258--10562299	18	2.3	18	83	0	57	42	9	11	35	1.74
10562344--10562662	18	17.7	18	67	20	116	33	11	10	44	1.75
10562313--10562428	55	2.1	55	85	6	155	37	12	6	43	1.69
10562328--10562517	54	3.5	53	78	13	165	32	13	8	45	1.73
10562536--10562590	21	2.6	21	83	13	69	40	14	12	32	1.84
10562571--10562601	16	1.9	16	93	0	53	25	12	12	48	1.77
10562551--10562660	34	3.1	35	81	13	111	34	9	11	44	1.73
10562513--10562621	58	1.9	57	83	9	141	35	9	11	43	1.74
10562546--10562621	20	3.8	20	68	15	59	38	9	11	40	1.74
10562608--10562661	17	3.3	16	78	21	51	35	7	12	44	1.71
10562571--10562692	54	2.3	53	79	13	142	31	9	13	44	1.77
10566067--10566112	12	3.5	13	78	21	51	58	4	0	36	1.18
10576976--10577014	19	2.0	20	85	5	53	61	2	0	35	1.10
10577458--10577518	32	1.9	32	83	6	79	45	13	11	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10579562--10579874	42	7.4	42	82	6	328	29	21	23	26	1.99
10579580--10579873	85	3.5	84	81	5	335	30	20	22	25	1.98
10580323--10580391	21	3.3	21	81	0	84	4	42	18	34	1.71
10582291--10582705	9	46.0	9	73	16	317	34	0	19	45	1.57
10582498--10582564	28	2.4	28	92	0	107	32	2	16	47	1.62
10582569--10582607	16	2.3	18	91	8	64	33	0	23	43	1.54
10582723--10582766	23	1.9	23	95	0	79	38	0	18	43	1.50
10582768--10582877	36	3.3	36	67	27	105	42	7	8	41	1.62
10582849--10582910	13	5.2	13	72	20	55	48	1	8	41	1.42
10585438--10585771	146	2.3	145	80	5	361	38	20	13	28	1.90

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