genome.fa.s25.2.7.7.80.10.50.1000.55.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  55  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)
15372709--15372824	58	2.0	58	100	0	232	46	12	15	25	1.80
15377013--15377072	23	2.6	23	76	12	61	31	1	16	50	1.55
15377121--15377154	17	2.1	17	89	10	54	29	2	0	67	1.05
15377545--15377597	26	2.0	26	85	0	70	33	0	9	56	1.32
15383062--15383176	35	3.3	36	72	10	103	26	20	22	30	1.98
15386444--15386621	27	6.6	27	85	3	214	30	28	14	26	1.95
15386465--15386620	82	1.9	81	89	3	242	30	28	14	26	1.95
15394469--15394646	27	6.6	27	85	3	214	30	28	14	26	1.95
15394490--15394645	82	1.9	81	89	3	242	30	28	14	26	1.95
15400430--15400523	45	2.1	45	90	4	145	31	23	19	25	1.98
15400536--15400685	75	2.0	75	88	3	221	30	29	16	24	1.97
15404137--15404318	51	3.6	50	82	6	224	28	14	26	30	1.95
15404136--15404325	101	1.9	102	88	1	292	28	14	26	30	1.95
15404134--15404357	101	2.2	102	82	2	272	30	13	26	29	1.94
15406083--15406139	26	2.2	26	83	0	69	29	21	22	26	1.99
15406096--15406148	26	2.0	26	88	3	79	26	20	22	30	1.98
15408241--15408424	77	2.4	77	82	7	230	33	11	10	44	1.75
15408242--15408451	77	2.7	77	82	5	228	31	11	10	46	1.74
15416281--15416331	20	2.5	20	81	6	59	29	11	15	43	1.82
15416817--15416855	14	2.8	14	100	0	78	25	12	7	53	1.65
15417698--15417813	58	2.0	58	98	0	223	46	11	15	26	1.79
15422505--15422557	26	2.0	26	85	0	70	33	0	9	56	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15441103--15441157	26	2.1	26	86	0	74	34	21	20	23	1.97
15441323--15441648	27	12.3	26	80	5	314	21	16	19	43	1.88
15441324--15441648	80	4.1	81	83	5	403	21	16	18	43	1.88
15441308--15441648	107	3.2	107	82	4	397	21	16	19	42	1.89
15442418--15442519	51	2.0	50	92	1	168	26	23	14	35	1.94
15447152--15447209	12	4.8	11	80	17	62	82	1	13	1	0.82
15447158--15447209	6	8.5	6	79	12	61	82	0	15	1	0.75
15447159--15447213	26	2.1	26	90	6	85	80	0	18	1	0.81
15448056--15448567	143	3.6	142	84	3	625	30	17	23	28	1.97
15449997--15450030	4	8.2	4	96	3	59	26	0	0	73	0.83
15450052--15450091	18	2.2	19	82	13	57	27	7	2	62	1.35
15455871--15456078	44	4.5	44	70	12	155	26	21	23	28	1.99
15455718--15456227	143	3.6	143	89	1	763	28	21	22	27	1.99
15455923--15456132	45	4.5	45	68	13	154	27	21	25	24	2.00
15457456--15457487	12	2.8	12	95	4	57	31	6	0	62	1.20
15457441--15457499	27	2.3	26	85	8	77	32	5	0	62	1.17
15458643--15458686	17	2.5	18	82	14	56	45	2	0	52	1.13
15460890--15460946	23	2.5	22	80	13	62	64	10	1	22	1.34
15463824--15464012	50	3.7	50	80	12	204	23	29	20	26	1.99
15463824--15464010	100	1.8	103	82	9	247	23	29	20	26	1.99
15471380--15471457	26	3.0	26	96	0	138	20	16	21	41	1.91
15477398--15477493	49	2.0	49	97	0	183	21	16	26	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15487123--15487153	16	1.9	16	93	0	53	51	0	0	48	1.00
15487187--15487223	16	2.3	17	81	13	51	54	0	5	40	1.24
15490891--15490969	38	2.1	38	97	0	149	25	8	10	55	1.62
15494870--15494899	15	2.0	15	100	0	60	33	0	6	60	1.23
15495170--15495211	18	2.3	18	88	8	59	21	0	4	73	1.01
15495177--15495240	32	2.1	30	82	8	76	18	4	3	73	1.14
15522948--15522991	22	2.0	22	100	0	88	18	27	13	40	1.88
15530019--15530060	21	2.0	21	86	9	59	42	7	0	50	1.30
15532657--15532718	30	2.1	30	90	0	97	48	3	1	46	1.28
15538773--15539244	157	3.0	156	92	1	757	35	5	20	37	1.77
15542888--15543076	95	2.0	95	92	0	315	30	17	17	34	1.94
15553243--15553274	16	2.0	16	93	0	55	25	15	0	59	1.36
15553404--15553495	46	2.0	47	85	6	125	32	26	17	23	1.97
15553505--15553695	51	3.8	51	80	6	226	30	27	16	24	1.97
15553503--15553687	101	1.8	102	85	3	266	31	27	17	24	1.97
15558156--15558191	18	2.0	18	89	10	56	27	25	2	44	1.68
15561567--15561720	28	5.5	28	94	0	256	33	28	11	25	1.91
15576965--15577118	28	5.5	28	96	0	265	33	27	11	26	1.91
15585048--15585199	28	5.5	28	91	3	238	34	28	11	25	1.91
15585048--15585224	54	3.2	55	87	4	232	34	28	11	25	1.91
15585048--15585197	82	1.8	81	91	1	246	34	28	12	25	1.91
15591851--15591877	6	4.5	6	100	0	54	0	70	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15595025--15595091	34	1.9	35	87	3	100	43	13	10	32	1.78
15599256--15599438	93	2.0	93	94	2	323	32	20	19	27	1.97
15600559--15600602	23	1.9	23	85	0	61	25	20	27	27	1.99
15602872--15602926	12	4.6	12	73	13	51	72	3	14	9	1.23
15602873--15602929	24	2.4	24	91	5	89	71	3	15	8	1.24
15608563--15608601	19	2.0	20	90	5	62	41	0	5	53	1.23
15612272--15612329	20	2.8	20	84	5	71	39	20	25	13	1.90
15615814--15615870	27	2.1	27	83	6	71	21	3	15	59	1.51
15622050--15622117	30	2.3	30	82	10	77	41	8	4	45	1.55
15638222--15638284	33	1.9	33	84	12	85	12	26	6	53	1.62
15638282--15638337	21	2.7	21	72	5	51	8	17	1	71	1.21
15638281--15638337	14	4.1	14	75	16	57	8	17	1	71	1.19
15638299--15638401	18	5.6	18	72	7	82	6	17	3	71	1.23
15638299--15638405	6	17.7	6	68	7	65	6	17	3	71	1.22
15639481--15639547	12	5.5	12	72	19	50	14	7	4	73	1.22
15641463--15641525	21	3.0	21	88	2	90	30	3	34	31	1.74
15641474--15641506	11	3.1	11	82	8	50	33	0	36	30	1.58
15644154--15644186	16	2.1	16	88	5	50	54	0	24	21	1.45
15646633--15646666	18	1.9	18	88	5	52	8	35	2	52	1.47
15646749--15646780	15	2.1	16	94	5	57	6	21	0	71	1.07
15647707--15647746	18	2.3	18	86	4	55	7	12	7	72	1.27
15647752--15647803	15	3.2	16	77	15	54	17	5	3	73	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15647722--15647813	41	2.2	39	81	16	98	15	7	3	73	1.18
15648121--15648153	16	2.1	16	88	5	50	54	3	24	18	1.57
15650017--15650060	22	2.0	22	95	0	79	34	4	36	25	1.76
15654942--15654985	22	2.0	22	95	0	79	34	4	36	25	1.76
15657957--15658008	19	2.8	19	74	11	54	69	7	9	13	1.37
15660618--15660689	33	2.1	34	89	2	110	40	6	12	40	1.70
15661788--15661844	30	1.9	30	85	7	80	38	15	10	35	1.82
15670160--15670193	18	1.9	18	88	5	52	8	35	2	52	1.47
15671356--15671408	13	3.9	13	92	5	79	16	9	1	71	1.21
15674851--15674901	15	3.5	15	83	2	68	1	19	1	76	0.98
15676927--15676961	17	2.1	17	94	0	61	25	5	5	62	1.40
15679936--15679983	11	3.8	12	82	17	62	70	0	10	18	1.15
15679938--15679983	14	3.4	14	86	13	62	73	0	8	17	1.07
15680908--15680953	18	2.5	18	80	16	58	71	4	17	6	1.24
15689973--15690016	22	2.0	22	95	0	79	34	4	36	25	1.76
15693482--15693546	20	3.3	19	73	16	51	38	16	21	23	1.93
15694018--15694064	20	2.3	20	81	0	58	23	12	34	29	1.92
15695247--15695284	19	2.0	19	100	0	76	36	21	21	21	1.95
15695983--15696015	14	2.4	14	90	5	50	78	3	3	15	0.99
15696056--15696102	11	3.8	12	86	13	69	70	0	10	19	1.16
15696058--15696102	13	3.5	13	88	11	67	73	0	8	17	1.08
15699545--15699582	19	2.0	19	100	0	76	36	21	21	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15701074--15701118	22	2.0	22	86	8	63	51	13	11	24	1.73
15711321--15711388	18	3.6	18	70	14	55	17	27	2	51	1.60
15712399--15712433	10	3.2	11	92	8	54	14	2	8	74	1.17
15712510--15712538	10	3.0	10	95	5	51	10	6	0	82	0.83
15713946--15713992	20	2.3	20	81	0	58	23	12	34	29	1.92
15720427--15720480	20	2.7	20	82	0	63	24	20	18	37	1.94
15720427--15720500	30	2.5	30	86	8	98	21	20	18	39	1.93
15720427--15720491	20	3.2	20	71	16	53	23	21	16	38	1.93
15722096--15722161	14	4.5	15	76	16	66	77	4	3	15	1.06
15722096--15722190	44	2.2	43	84	5	120	74	6	6	12	1.19

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