genome.fa.s17.2.7.7.80.10.50.1000.137.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  137  of  185  ( 22116 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)
42393219--42393261	22	2.0	22	100	0	86	32	9	4	53	1.53
42395741--42395778	20	1.9	20	88	0	58	47	7	5	39	1.55
42395741--42395784	21	2.2	20	83	4	52	45	6	6	40	1.57
42399223--42399314	31	2.8	34	79	12	95	30	14	11	43	1.81
42409847--42409925	27	2.8	27	73	7	68	18	21	18	40	1.92
42411139--42411209	29	2.5	29	77	8	83	45	22	15	16	1.85
42416868--42417051	26	7.1	26	73	6	149	22	16	26	34	1.95
42416881--42417007	51	2.5	52	83	3	159	22	15	25	37	1.93
42416881--42417051	77	2.2	78	82	4	202	22	15	25	35	1.94
42434705--42434829	62	2.0	62	100	0	250	34	9	14	41	1.78
42437452--42437478	14	1.9	14	100	0	54	29	18	14	37	1.91
42437617--42437662	6	7.5	6	92	2	56	0	60	0	39	0.97
42437617--42437658	19	2.2	19	86	0	57	0	61	0	38	0.96
42449112--42449138	14	1.9	14	100	0	54	29	18	14	37	1.91
42449278--42449323	6	7.5	6	92	2	56	0	60	0	39	0.97
42449278--42449319	19	2.2	19	86	0	57	0	61	0	38	0.96
42451222--42451282	29	2.1	28	81	3	68	22	16	18	42	1.89
42453138--42453177	20	2.0	20	95	0	71	45	12	10	32	1.75
42453128--42453192	34	1.9	33	82	14	80	44	9	9	36	1.68
42462034--42462198	69	2.4	69	82	6	217	33	18	24	23	1.96
42467479--42467534	28	2.0	28	92	0	94	32	21	12	33	1.91
42472102--42472127	13	2.0	13	100	0	52	69	0	15	15	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42481355--42481405	25	2.0	25	85	7	68	21	17	21	39	1.93
42481361--42481444	25	3.4	25	73	4	71	23	15	20	40	1.90
42483259--42483289	14	2.1	15	94	5	55	64	0	0	35	0.94
42485125--42485157	17	1.9	17	88	11	50	30	21	0	48	1.50
42485339--42485382	21	2.2	20	83	4	52	34	27	0	38	1.57
42488556--42488601	24	1.9	24	86	8	67	34	8	4	52	1.52
42488844--42488922	28	2.8	29	79	9	99	30	10	2	56	1.45
42496409--42496433	8	3.1	8	100	0	50	12	12	0	76	1.04
42500143--42500236	44	2.1	44	88	0	134	32	21	20	25	1.97
42500068--42500337	142	1.9	142	90	1	434	34	17	19	28	1.94
42505026--42505067	21	2.0	20	82	13	50	45	14	16	23	1.84
42515153--42515697	272	2.0	272	98	0	1063	26	17	20	36	1.94
42530755--42530820	22	2.9	22	69	18	55	46	0	1	51	1.10
42530777--42530826	18	2.6	19	77	22	52	46	0	2	52	1.12
42530847--42530877	15	2.0	16	93	6	55	61	0	0	38	0.96
42531011--42531074	30	2.1	30	82	2	74	31	14	4	50	1.63
42537104--42537143	20	2.0	20	95	4	73	40	5	0	55	1.22
42537101--42537149	19	2.6	18	87	9	71	42	6	2	48	1.39
42544545--42544741	32	6.3	32	79	6	197	39	18	18	23	1.93
42544558--42544712	61	2.5	60	81	7	175	37	18	20	24	1.94
42544558--42544739	93	2.0	93	83	2	231	38	18	19	24	1.93
42544750--42544801	26	2.0	26	84	0	68	40	21	23	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42544915--42544972	24	2.4	24	91	0	89	46	20	8	24	1.78
42544927--42545024	24	4.1	24	82	0	106	43	20	8	27	1.80
42545042--42545394	27	13.5	27	74	9	212	23	20	19	36	1.95
42545116--42545148	16	2.1	16	94	0	57	24	18	12	45	1.83
42545062--42545192	70	1.9	70	83	3	174	25	19	17	38	1.93
42545042--42545229	97	1.9	97	82	4	236	26	19	17	37	1.93
42545133--42545392	81	3.2	80	79	5	256	21	20	20	36	1.95
42545329--42545434	54	2.0	54	87	7	153	18	22	18	39	1.92
42545331--42545444	27	4.2	27	81	12	135	21	20	18	40	1.92
42551201--42551266	29	2.3	29	97	0	123	15	31	0	53	1.42
42552162--42552212	25	2.0	25	96	0	93	23	9	21	45	1.82
42560136--42560174	20	2.0	20	90	5	62	41	7	0	51	1.31
42561833--42561879	24	1.9	25	82	4	60	38	12	8	40	1.74
42561987--42562104	62	2.0	62	83	5	152	51	6	5	36	1.50
42562083--42562143	20	3.3	19	74	17	56	55	3	1	39	1.26
42562604--42562651	25	1.9	25	82	0	60	31	6	6	56	1.49
42566734--42566771	15	2.5	15	95	0	67	21	0	5	73	1.02
42566773--42566798	13	2.0	13	100	0	52	53	0	0	46	1.00
42566777--42566811	15	2.4	14	86	9	52	60	0	0	40	0.97
42566803--42566833	11	2.9	11	95	4	55	48	0	0	51	1.00
42570744--42570814	20	3.7	19	75	17	67	63	0	2	33	1.09
42570752--42570805	10	5.8	9	77	14	56	68	0	3	27	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42571016--42571073	26	2.2	26	84	6	71	32	3	3	60	1.30
42571092--42571133	19	2.2	20	80	16	54	40	0	0	59	0.97
42571641--42571690	21	2.4	21	86	0	64	46	4	20	30	1.69
42571654--42571695	21	2.0	21	90	0	66	47	4	16	30	1.67
42575335--42575373	18	2.2	18	86	9	53	41	23	10	25	1.86
42579317--42579838	263	2.0	261	91	1	839	31	23	16	28	1.96
42595329--42595516	97	1.9	97	94	0	331	32	15	18	32	1.93
42595488--42595711	41	5.5	41	93	0	358	28	23	22	25	1.99
42595489--42595743	123	2.1	123	84	1	332	28	22	22	26	1.99
42595501--42595756	82	3.1	82	88	1	280	27	22	23	26	2.00
42603729--42603915	41	4.6	41	88	0	266	27	21	24	26	1.99
42603880--42603968	41	2.2	41	81	0	106	30	19	24	25	1.98
42603729--42603956	123	1.9	123	80	3	271	28	21	23	25	1.99
42608747--42608879	37	3.6	37	76	8	144	31	14	19	34	1.92
42608749--42608906	74	2.1	74	91	0	253	32	12	18	36	1.89
42613648--42613740	46	2.0	46	100	0	186	41	15	10	32	1.81
42616725--42616763	19	2.1	19	85	9	53	33	7	10	48	1.66
42623746--42623774	6	5.0	6	91	8	51	0	31	0	68	0.89
42630128--42630160	17	1.9	17	93	0	57	57	9	12	21	1.62
42630586--42630624	18	2.2	18	85	0	51	20	35	5	38	1.75
42642028--42642081	27	2.0	28	81	3	65	37	14	29	18	1.91
42642729--42642767	18	2.1	18	85	9	51	33	5	5	56	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42650004--42650145	70	2.0	70	93	0	239	35	17	18	28	1.94
42651725--42651767	19	2.3	19	84	8	52	18	6	2	72	1.19
42651759--42651796	11	3.3	11	86	13	58	31	2	0	65	1.06
42651756--42651794	13	3.2	13	85	14	64	33	5	0	61	1.18
42651727--42651796	6	11.5	6	82	11	63	24	5	1	68	1.19
42654890--42655054	50	3.3	50	83	5	208	26	24	29	20	1.99
42655324--42655362	12	3.2	12	85	0	51	51	5	23	20	1.67
42662446--42662560	25	4.6	25	84	2	135	36	21	16	25	1.94
42662446--42662577	25	5.3	25	82	3	133	36	19	17	26	1.94
42664555--42664599	19	2.4	20	82	14	60	37	0	4	57	1.19
42664559--42664598	18	2.2	18	86	8	55	37	0	2	60	1.11
42665943--42665989	17	2.8	17	90	9	71	29	10	10	48	1.71
42666052--42666081	15	2.0	15	93	0	51	30	26	13	30	1.94
42666073--42666172	34	2.9	34	86	0	137	30	21	25	24	1.99
42669747--42669937	43	4.4	43	83	0	265	30	32	17	18	1.95
42669942--42670041	42	2.3	43	79	1	112	39	28	16	17	1.90
42671275--42671299	12	2.1	12	100	0	50	48	8	8	36	1.62
42671930--42671969	15	2.9	13	82	13	53	47	2	2	47	1.29
42675626--42675884	133	2.0	132	85	5	353	40	29	2	27	1.70
42675903--42675935	15	2.3	15	89	5	50	36	30	0	33	1.58
42676340--42676690	41	8.7	41	90	2	557	29	26	21	22	1.99
42676340--42676690	81	4.3	82	92	1	557	29	26	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42676340--42676690	122	2.9	123	91	2	566	29	26	21	22	1.99
42682258--42682350	18	5.2	18	93	0	159	27	23	16	32	1.96
42690178--42690206	12	2.5	12	94	5	51	6	13	0	79	0.93
42696376--42696497	44	2.8	44	83	2	147	28	25	18	27	1.98
42696607--42696715	44	2.5	44	80	3	112	31	24	18	25	1.98
42696375--42696770	218	1.8	218	88	1	614	26	26	19	27	1.99
42710669--42710698	14	2.1	14	100	0	60	60	13	13	13	1.60
42715552--42715613	30	2.1	30	81	0	70	16	30	6	46	1.72
42718780--42718831	24	2.2	24	85	0	68	53	9	3	32	1.51
42724989--42725018	11	2.6	11	94	5	51	36	3	0	60	1.14

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