genome.fa.s25.2.7.7.80.10.50.1000.45.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  45  of  196  ( 23409 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)
12354109--12354291	43	4.2	44	84	6	205	24	27	20	27	1.99
12354615--12354684	21	3.3	21	86	4	97	7	40	17	35	1.77
12354726--12354771	21	2.2	21	92	0	74	2	36	19	41	1.64
12354640--12354832	87	2.2	87	88	5	284	11	29	18	40	1.86
12357231--12357261	16	1.9	16	93	0	53	32	6	25	35	1.82
12358794--12358838	23	2.0	23	82	8	56	40	31	6	22	1.80
12357535--12359481	797	2.4	799	89	7	2963	38	17	9	34	1.83
12360123--12360220	40	2.4	42	77	8	103	17	16	22	43	1.87
12366135--12366179	16	2.7	17	79	6	56	60	0	0	40	0.97
12366049--12366168	41	2.9	41	82	4	152	56	0	1	41	1.09
12366580--12366615	17	2.1	17	89	0	54	47	2	0	50	1.15
12367099--12367138	19	2.1	19	85	4	53	35	2	0	62	1.09
12367105--12367184	29	2.7	29	79	14	83	37	1	1	60	1.13
12367105--12367174	28	2.4	29	84	11	90	40	1	0	58	1.07
12374010--12374509	168	3.0	166	86	2	687	38	17	20	23	1.93
12377676--12377715	18	2.3	18	87	8	57	65	7	0	27	1.20
12379255--12379313	22	2.7	22	82	7	59	45	13	20	20	1.84
12383347--12383397	18	2.8	18	75	3	57	39	47	1	11	1.52
12383495--12383588	9	10.4	9	82	8	120	25	9	22	42	1.83
12383495--12383588	27	3.5	27	88	2	136	25	9	22	42	1.83
12395020--12395063	22	2.0	22	91	8	72	20	13	15	50	1.78
12395031--12395078	22	2.2	22	85	3	62	22	18	12	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12400736--12400803	18	3.9	17	73	21	61	10	14	0	75	1.06
12400893--12400953	8	7.2	8	77	14	52	6	8	1	83	0.87
12400893--12400953	17	3.6	16	78	8	59	6	8	1	83	0.87
12400898--12400957	10	6.2	9	81	12	50	5	10	1	83	0.87
12401896--12401941	22	2.0	24	91	8	78	73	0	8	17	1.07
12406354--12406389	17	2.1	18	89	5	56	75	5	13	5	1.17
12407282--12407411	21	6.0	22	87	7	187	16	20	23	40	1.92
12407282--12407411	44	3.0	45	87	7	198	16	20	23	40	1.92
12415860--12415915	25	2.2	25	78	6	60	32	21	25	21	1.98
12416509--12416551	21	2.0	21	86	0	59	41	16	0	41	1.48
12428058--12428251	42	4.6	42	82	8	216	29	25	15	28	1.96
12430492--12430560	24	2.9	24	80	4	68	50	7	5	36	1.54
12430659--12430688	3	10.0	3	100	0	60	66	0	0	33	0.92
12432279--12432782	44	10.8	45	67	19	230	28	21	18	32	1.97
12432231--12432782	142	3.9	142	93	0	910	28	21	17	32	1.96
12439469--12439496	3	9.3	3	100	0	56	67	0	0	32	0.91
12450348--12450388	21	2.0	21	81	18	50	31	19	26	21	1.97
12458433--12458482	24	2.1	24	92	0	82	26	34	20	20	1.96
12458622--12458693	29	2.4	30	83	4	83	23	26	36	13	1.93
12459573--12459609	18	2.1	18	94	0	65	54	2	5	37	1.38
12460528--12460557	14	2.1	15	93	6	53	66	0	6	26	1.16
12460592--12460684	45	2.2	42	77	19	102	67	2	6	23	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12460623--12460767	53	2.8	52	74	11	134	67	2	9	20	1.29
12463704--12463765	27	2.4	25	78	15	63	32	19	4	43	1.72
12471212--12471836	50	12.6	49	75	8	496	24	20	22	32	1.97
12471138--12471836	100	7.0	100	88	4	796	25	20	22	32	1.98
12493629--12493678	19	2.6	19	80	0	64	38	8	0	54	1.30
12495756--12495805	24	2.0	25	84	3	66	28	22	8	42	1.81
12498883--12498924	13	3.3	13	93	3	68	83	0	16	0	0.65
12500116--12500374	137	1.9	137	80	1	304	35	18	15	30	1.92
12500280--12500399	51	2.6	45	74	18	109	42	18	11	27	1.85
12502258--12502310	19	2.8	19	76	0	61	35	7	3	52	1.48
12511013--12511139	66	1.9	69	85	8	181	52	2	5	39	1.37
12511355--12511399	15	3.0	15	86	0	63	53	17	22	6	1.67
12511376--12511433	20	2.9	20	80	10	73	53	13	20	12	1.72
12511355--12511433	40	2.0	40	82	5	97	53	15	21	10	1.71
12518759--12518792	13	2.6	13	85	0	50	38	5	5	50	1.51
12520901--12520925	12	2.1	12	100	0	50	76	0	0	24	0.80
12521236--12521260	7	3.6	7	100	0	50	76	12	0	12	1.04
12521521--12521576	26	2.2	25	87	9	78	67	0	32	0	0.91
12521735--12521770	7	5.0	7	90	6	54	80	0	19	0	0.71
12522090--12522128	10	3.8	10	93	3	60	79	0	20	0	0.73
12522090--12522137	11	4.4	11	85	15	64	81	0	18	0	0.70
12522090--12522137	22	2.2	22	89	10	73	81	0	18	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12522091--12522136	10	4.5	11	86	8	53	80	0	19	0	0.71
12522532--12522587	17	3.2	17	80	9	67	35	12	8	42	1.74
12522532--12522587	19	3.1	18	77	7	60	35	12	8	42	1.74
12528717--12528756	7	5.7	7	88	8	55	87	2	0	10	0.63
12528725--12528766	13	3.3	13	90	3	59	85	4	2	7	0.80
12528716--12528758	21	2.0	22	90	4	70	86	2	0	11	0.67
12529643--12531021	78	18.0	77	86	4	1638	28	17	21	32	1.96
12529622--12531019	153	9.2	152	85	5	1619	27	17	21	33	1.96
12532136--12532189	6	9.5	6	72	11	51	77	0	22	0	0.76
12532136--12532191	22	2.5	22	82	8	69	78	0	21	0	0.75
12532513--12532560	7	6.9	7	81	9	62	85	0	14	0	0.60
12532916--12532971	17	3.2	17	80	9	67	35	8	10	44	1.71
12532916--12532971	19	3.1	19	85	7	73	35	8	10	44	1.71
12538493--12538544	25	2.0	26	85	10	72	25	1	23	50	1.60
12538615--12538685	7	10.4	7	75	6	65	19	1	35	43	1.60
12539355--12539412	12	4.8	12	76	0	53	29	44	1	24	1.63
12541171--12541249	16	5.0	16	75	13	74	46	17	1	34	1.56
12541208--12541248	13	2.8	15	85	14	59	46	19	0	34	1.50
12541306--12541378	16	4.9	15	68	28	57	50	19	1	28	1.56
12541320--12541388	19	3.8	20	72	20	78	50	20	0	28	1.48
12541322--12541405	35	2.4	35	97	0	159	50	20	0	29	1.49
12541305--12541505	59	3.3	59	82	8	228	47	17	2	31	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12541447--12541505	27	2.3	25	85	5	73	47	16	3	32	1.64
12546982--12547032	21	2.4	21	86	0	66	37	17	41	3	1.68
12546916--12547108	87	2.2	87	87	3	273	38	18	31	11	1.86
12547082--12547121	21	1.9	21	89	0	62	32	17	42	7	1.77
12546960--12547125	87	1.9	87	83	3	199	38	19	31	10	1.86
12547444--12547873	43	10.1	42	74	4	263	25	22	22	29	1.99
12552149--12552193	12	3.8	12	93	0	81	22	0	11	66	1.22
12552149--12552192	6	7.3	6	89	0	70	20	0	11	68	1.20
12561000--12561038	15	2.6	15	80	15	53	25	7	7	58	1.52
12564746--12564791	24	1.9	24	86	0	65	45	15	26	13	1.82
12572970--12573697	44	16.8	42	71	14	337	30	19	22	27	1.98
12572891--12573480	84	6.8	82	71	14	309	30	19	22	27	1.98
12573016--12573343	173	1.9	173	81	7	398	29	20	22	27	1.98
12572886--12573697	217	3.7	216	90	1	1203	30	19	22	27	1.98
12575575--12575613	15	2.6	15	80	15	53	25	7	7	58	1.52
12589311--12589692	50	7.6	50	89	0	557	21	31	20	26	1.98
12589249--12589692	150	3.0	150	87	0	593	22	30	19	27	1.98
12589709--12589801	48	1.9	48	82	0	114	25	25	20	27	1.99
12593019--12593159	70	2.0	70	98	0	273	36	16	12	34	1.87
12599063--12599196	31	4.4	31	85	4	191	45	17	5	30	1.73
12599063--12599219	62	2.5	62	86	4	183	45	17	7	29	1.76
12599782--12599810	11	2.7	11	94	5	51	68	0	3	27	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12604244--12604369	17	6.7	17	67	25	58	38	1	0	59	1.13
12604273--12604379	11	10.4	11	68	29	67	37	2	0	59	1.12
12604255--12604388	40	3.3	40	97	2	252	35	2	0	61	1.13
12604362--12604401	21	1.9	21	89	0	62	37	2	0	60	1.11
12604361--12604419	22	2.8	21	80	14	59	40	1	3	54	1.27
12604988--12605013	13	2.0	13	100	0	52	61	0	0	38	0.96
12620432--12620526	25	3.8	25	78	0	100	32	21	24	22	1.98
12620426--12620538	50	2.3	49	86	3	154	36	21	22	20	1.95
12620426--12620564	25	5.6	25	74	10	83	37	20	21	20	1.95
12624967--12625004	20	2.0	20	90	10	62	65	0	0	34	0.93

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