genome.fa.s25.2.7.7.80.10.50.1000.126.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  126  of  214  ( 25680 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)
38407833--38407884	24	2.2	24	89	0	77	55	9	1	32	1.43
38409802--38409853	24	2.2	24	89	0	77	55	9	1	32	1.43
38424502--38424557	15	3.7	15	82	0	58	26	14	5	53	1.62
38424516--38424558	15	2.9	15	85	0	59	25	16	4	53	1.62
38425187--38425257	30	2.4	30	97	0	133	21	35	30	12	1.91
38425187--38425274	30	2.9	30	91	0	122	21	34	30	13	1.92
38427494--38427552	23	2.6	25	77	22	67	23	3	3	69	1.19
38427672--38427702	12	2.7	11	90	9	53	0	16	3	80	0.83
38447702--38447797	44	2.2	44	81	3	104	25	17	30	27	1.97
38466891--38466939	18	2.7	18	93	0	89	28	0	20	51	1.48
38466891--38466939	6	8.2	6	93	0	80	28	0	20	51	1.48
38468367--38468437	32	2.3	31	82	4	88	18	18	11	52	1.74
38474622--38474670	23	2.1	24	81	11	57	32	10	24	32	1.89
38474727--38474753	14	1.9	14	100	0	54	55	0	7	37	1.28
38475329--38475519	41	4.6	41	92	0	310	28	19	26	25	1.99
38481587--38481640	19	2.8	18	78	10	54	37	1	1	59	1.19
38483624--38483660	9	4.1	9	92	0	65	45	13	10	29	1.77
38484040--38484079	20	2.0	20	85	0	53	20	35	0	45	1.51
38486677--38486716	4	10.0	4	100	0	80	25	0	0	75	0.81
38498532--38499357	133	6.2	133	89	1	1244	28	16	25	29	1.97
38498532--38499357	399	2.1	398	93	0	1411	28	16	25	29	1.97
38509953--38510001	20	2.7	18	77	22	57	51	4	2	42	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38509951--38510056	37	2.9	37	75	18	96	53	4	2	38	1.36
38511638--38511668	16	1.9	16	93	0	53	74	9	6	9	1.23
38514419--38514473	19	2.7	19	81	10	65	76	3	1	18	1.02
38514674--38514702	13	2.1	14	93	6	51	75	0	3	20	0.94
38515093--38515144	21	2.5	21	82	14	63	65	1	1	30	1.14
38518261--38518305	23	2.0	23	82	8	56	71	4	0	24	1.05
38519094--38519154	26	2.3	26	81	13	88	27	18	11	42	1.84
38522760--38522811	18	2.9	18	94	0	86	44	17	15	23	1.86
38543815--38543913	11	9.9	11	71	22	60	56	0	2	41	1.11
38543840--38543929	29	2.9	30	80	9	85	57	0	2	40	1.11
38543782--38543923	41	3.5	41	81	10	175	59	0	1	38	1.12
38549730--38549770	18	2.3	18	87	8	57	65	0	0	34	0.93
38567634--38567665	16	2.0	16	100	0	64	43	18	12	25	1.85
38572598--38572638	21	2.0	21	85	0	55	34	2	19	43	1.64
38573085--38573187	26	4.0	26	75	13	106	16	20	24	38	1.92
38578269--38578318	16	3.1	16	77	11	57	36	26	4	34	1.75
38578511--38578614	41	2.6	41	84	1	138	33	21	18	26	1.96
38579515--38579600	4	20.8	4	73	19	70	1	22	1	75	0.94
38579515--38579600	9	9.3	9	79	15	88	1	22	1	75	0.94
38579513--38579600	42	2.1	42	85	12	119	1	22	1	75	0.94
38584212--38584347	39	3.4	39	73	6	130	36	17	22	23	1.94
38584561--38584635	21	3.5	22	75	8	75	28	0	30	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38584577--38584617	14	2.9	15	82	10	59	29	0	31	39	1.57
38584630--38584692	22	2.9	22	85	4	74	19	0	42	38	1.51
38584723--38584765	11	3.8	12	78	9	54	30	0	0	69	0.88
38584722--38584775	23	2.3	24	84	6	76	37	0	0	62	0.95
38584970--38585023	21	2.5	20	80	11	63	25	0	38	35	1.57
38589541--38589785	43	5.7	43	89	1	314	26	17	29	25	1.98
38589541--38589785	85	2.9	85	85	3	314	26	17	29	25	1.98
38590707--38590748	21	2.2	19	87	12	59	30	0	21	47	1.51
38591128--38591153	5	5.2	5	100	0	52	23	0	0	76	0.78
38593248--38593352	49	2.1	49	87	3	149	30	8	11	49	1.69
38594675--38594940	122	2.3	117	84	9	336	42	1	4	51	1.31
38594763--38594826	28	2.4	28	86	5	87	43	0	0	56	0.99
38595067--38595172	44	2.5	41	79	18	135	35	31	3	29	1.75
38595084--38595175	46	2.0	46	93	4	161	39	30	4	26	1.75
38595154--38595191	16	2.4	16	95	0	67	26	34	2	36	1.71
38596122--38596152	9	3.4	9	90	0	53	25	12	22	38	1.90
38597155--38597222	10	7.0	10	73	6	50	41	2	10	45	1.53
38599561--38599616	29	1.9	29	85	0	76	39	7	16	37	1.76
38599760--38599796	18	2.1	18	100	0	74	45	0	27	27	1.54
38602961--38602991	8	3.9	8	91	0	53	58	0	0	41	0.98
38602958--38602992	16	2.2	16	100	0	70	54	0	0	45	0.99
38602958--38603001	16	3.0	15	87	9	56	56	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38610073--38610112	21	1.9	21	89	0	62	42	12	17	27	1.85
38618033--38618084	15	3.6	15	80	12	56	44	0	1	53	1.11
38617971--38618200	120	1.9	120	100	0	460	41	1	6	49	1.40
38617981--38618168	61	3.1	61	70	14	208	42	1	7	48	1.40
38618162--38618203	15	2.7	16	82	14	52	45	0	2	52	1.13
38618153--38618194	15	2.9	15	82	10	52	47	0	0	52	1.00
38618330--38618439	45	2.6	43	79	11	120	32	29	5	32	1.80
38618420--38618487	16	4.2	16	92	0	109	35	35	0	29	1.58
38621197--38621261	32	2.0	32	100	0	130	24	3	9	63	1.39
38623537--38623602	29	2.3	29	80	15	75	43	1	3	51	1.26
38627785--38627820	18	2.0	18	88	0	54	55	2	0	41	1.14
38637446--38637485	19	2.0	20	85	4	55	37	12	2	47	1.55
38637769--38637819	27	1.9	27	88	11	79	21	9	11	56	1.63
38641193--38641238	19	2.4	18	86	10	65	26	21	13	39	1.90
38643721--38643790	35	2.0	35	86	8	97	41	21	5	31	1.76
38644012--38644114	41	2.5	41	87	0	134	25	25	20	29	1.99
38644050--38644129	41	2.0	41	84	0	106	27	23	20	28	1.99
38644737--38644780	21	2.1	21	95	0	79	43	13	11	31	1.80
38651307--38651376	35	2.0	35	86	8	97	41	21	5	31	1.76
38651598--38651700	41	2.5	41	85	0	134	25	25	20	29	1.99
38651636--38651715	41	2.0	41	84	0	106	27	23	20	28	1.99
38651973--38652003	12	2.5	12	94	5	53	38	3	0	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38652325--38652368	21	2.1	21	95	0	79	43	13	11	31	1.80
38660222--38660312	44	2.1	44	91	0	146	30	17	24	27	1.97
38660234--38660346	44	2.6	44	81	8	124	32	17	20	29	1.96
38660439--38660723	50	5.6	50	72	10	204	32	22	20	24	1.98
38660428--38660622	100	1.9	100	83	7	252	30	24	21	23	1.99
38660428--38660648	100	2.2	99	81	9	227	32	23	21	23	1.98
38662528--38662567	19	2.0	20	85	4	55	37	12	2	47	1.55
38662849--38662899	27	1.9	27	88	11	79	21	9	11	56	1.63
38673396--38673559	51	3.2	51	92	0	283	32	15	22	28	1.95
38674187--38674499	155	2.0	156	94	0	556	30	10	21	38	1.87
38675434--38675545	20	5.6	20	69	12	68	34	16	30	18	1.93
38675398--38675661	40	6.6	40	86	0	350	34	17	29	18	1.94
38676894--38676946	25	2.1	25	92	0	88	62	1	0	35	1.06
38676894--38676940	13	3.8	12	76	18	51	61	2	0	36	1.08
38682713--38682753	21	2.0	21	90	0	64	29	21	29	19	1.98
38693035--38693090	18	3.1	19	82	12	64	58	0	0	41	0.98
38693041--38693118	27	3.0	24	81	14	84	52	0	1	46	1.08
38693058--38693126	34	2.0	34	82	5	84	52	0	1	46	1.09
38694011--38694074	31	2.1	31	85	5	85	35	15	10	37	1.83
38696643--38696674	13	2.3	15	89	10	50	6	18	0	75	1.01
38697671--38697730	30	2.0	31	83	9	79	41	0	38	20	1.52
38698023--38698053	9	3.4	9	90	0	53	38	22	12	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38701159--38701203	4	11.2	4	100	0	90	48	26	0	24	1.51
38702988--38703335	181	1.9	179	86	4	493	39	20	10	29	1.86
38708857--38708932	30	2.5	32	76	10	95	34	9	2	53	1.46
38709861--38710015	41	3.8	41	87	3	197	18	21	27	32	1.96
38710112--38710162	26	2.0	26	84	0	66	58	5	11	23	1.55
38710574--38710612	21	1.9	21	89	5	62	20	0	38	41	1.53
38710510--38710663	80	2.0	76	85	5	209	32	0	21	45	1.57
38710594--38710842	87	2.8	89	94	3	439	26	1	25	46	1.60
38710854--38710900	14	3.4	14	80	16	53	31	0	27	40	1.57
38711518--38711561	21	2.2	20	88	12	63	79	0	6	13	0.92

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