genome.fa.s17.2.7.7.80.10.50.1000.159.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  159  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)
48962712--48962741	12	2.5	12	100	0	60	50	0	13	36	1.42
48964820--48964868	25	2.0	25	83	0	62	20	30	18	30	1.96
48964912--48964974	25	2.5	25	82	5	74	25	20	17	36	1.94
48964957--48965019	25	2.6	25	78	9	76	22	23	22	31	1.98
48968156--48968198	19	2.2	20	84	12	54	34	9	2	53	1.46
48970800--48970829	12	2.5	12	94	0	51	36	36	0	26	1.57
48972138--48972162	3	8.3	3	100	0	50	32	0	0	68	0.90
48983239--48983288	17	2.8	18	75	6	57	42	6	24	28	1.78
48984850--48984892	20	2.2	20	100	0	86	23	16	13	46	1.83
48985564--48985613	25	2.0	26	84	11	68	34	26	28	12	1.92
48985777--48986221	27	16.4	27	77	11	216	19	15	20	43	1.87
48985791--48986229	81	5.4	81	79	10	385	19	15	20	44	1.87
48985966--48986030	33	2.0	33	90	0	103	18	13	21	46	1.84
48985843--48986084	84	2.9	86	81	7	248	21	16	19	43	1.88
48985791--48986229	54	8.1	54	81	8	372	19	15	20	44	1.87
48990588--48990617	14	2.1	15	93	6	53	76	0	10	13	1.01
48994997--48995027	16	1.9	16	100	0	62	51	0	9	38	1.35
48995000--48995041	20	2.2	18	91	8	66	52	0	4	42	1.22
49003818--49003854	18	2.0	19	89	5	58	54	0	5	40	1.24
49007816--49007862	11	4.5	10	80	15	51	42	0	34	23	1.54
49007805--49007882	22	3.7	21	80	13	79	38	1	34	25	1.64
49007817--49007882	22	3.0	22	84	4	80	39	0	36	24	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49014856--49014888	15	2.2	15	100	0	66	39	6	15	39	1.72
49015410--49015450	18	2.3	18	91	4	66	41	7	29	21	1.80
49017194--49017254	32	1.9	32	86	6	88	40	0	26	32	1.56
49022531--49022588	17	3.2	17	76	16	55	50	0	25	24	1.50
49029051--49029098	9	5.0	9	80	12	51	70	4	0	25	1.04
49036395--49036478	25	3.4	25	86	3	89	19	29	19	32	1.96
49036411--49036502	25	3.7	25	85	0	103	17	27	21	33	1.96
49037799--49037848	25	2.0	25	92	7	84	44	0	4	52	1.20
49038735--49038868	43	3.1	43	77	5	146	24	17	25	32	1.96
49053706--49053748	16	2.7	16	86	10	61	34	0	0	65	0.93
49054446--49054554	53	2.1	53	89	3	166	37	11	14	36	1.82
49055240--49055302	33	1.9	33	86	0	90	17	23	15	42	1.88
49062210--49062265	20	2.8	20	80	0	67	48	8	3	39	1.52
49066985--49067040	27	2.1	27	100	0	112	41	14	10	33	1.80
49078279--49078307	7	4.1	7	100	0	58	31	13	13	41	1.84
49086548--49086831	59	4.7	58	67	18	150	43	2	4	49	1.36
49086541--49086831	120	2.4	122	89	4	462	43	2	4	49	1.35
49086775--49086811	19	2.0	19	85	15	51	45	0	0	54	1.00
49086976--49087066	45	2.0	45	85	2	121	37	28	6	27	1.82
49087047--49087115	16	4.2	16	96	3	129	37	37	0	24	1.56
49087047--49087115	33	2.1	32	97	2	129	37	37	0	24	1.56
49087938--49087998	17	3.4	17	72	20	52	29	1	1	67	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49087935--49088001	19	3.6	19	73	15	59	31	1	1	65	1.10
49087938--49088021	36	2.3	37	80	17	97	29	2	1	66	1.11
49104180--49104237	31	1.9	31	85	3	82	43	3	8	44	1.51
49104717--49104742	3	8.7	3	100	0	52	30	0	0	69	0.89
49107788--49107957	45	3.8	45	99	0	333	24	17	20	37	1.94
49116801--49116869	32	2.2	31	84	7	86	17	11	15	55	1.70
49119305--49119443	46	3.0	46	90	0	224	28	25	10	35	1.88
49120601--49120648	17	2.9	17	90	3	71	54	18	0	27	1.44
49123143--49123202	31	1.9	32	89	3	95	33	8	15	43	1.76
49124329--49124371	22	2.0	22	85	0	59	55	9	13	20	1.66
49124969--49125016	5	9.6	5	88	6	71	37	0	2	60	1.09
49135143--49135211	30	2.2	32	80	15	90	56	4	4	34	1.39
49143243--49143281	17	2.2	18	95	4	71	74	7	0	17	1.05
49144673--49144716	21	2.0	21	87	12	63	59	0	0	40	0.98
49163937--49163975	16	2.6	14	84	11	51	23	2	0	74	0.94
49167622--49167675	20	2.7	20	73	2	54	35	5	11	48	1.62
49177022--49177056	10	3.5	10	88	0	52	54	0	0	45	0.99
49179260--49179285	6	4.3	6	100	0	52	69	15	15	0	1.20
49183237--49183300	3	21.3	3	77	6	67	34	3	1	60	1.22
49187456--49187560	44	2.5	40	73	15	104	31	28	4	35	1.78
49187454--49187563	45	2.6	44	78	8	122	31	28	5	34	1.80
49187544--49187595	16	3.2	16	91	0	77	36	34	0	28	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49192150--49192203	19	2.9	18	78	10	56	50	5	0	44	1.25
49192150--49192188	18	2.1	19	85	4	53	53	5	0	41	1.23
49192372--49192402	16	1.9	16	93	0	53	38	6	6	48	1.55
49194966--49195016	2	25.5	2	100	0	102	0	49	0	50	1.00
49203187--49203224	16	2.4	16	100	0	76	21	15	34	28	1.94
49223720--49223780	27	2.3	27	80	5	70	19	29	24	26	1.99
49223985--49224064	40	2.0	40	100	0	160	27	12	10	50	1.72
49225957--49226031	39	1.9	39	86	0	105	40	8	5	46	1.56
49228835--49228880	19	2.4	19	88	3	65	36	0	0	63	0.95
49228835--49228880	9	4.7	10	81	13	60	36	0	0	63	0.95
49228843--49228904	9	6.7	9	73	12	54	37	0	1	61	1.06
49228853--49228928	38	2.0	39	84	7	102	39	0	3	56	1.18
49230154--49230200	15	2.8	17	75	18	53	31	4	4	59	1.36
49235155--49235191	19	1.9	19	89	10	58	32	5	0	62	1.18
49235311--49235368	24	2.4	24	86	13	84	18	8	1	70	1.21
49235513--49235576	29	2.2	29	85	2	83	40	9	20	29	1.84
49240449--49240768	112	3.0	105	91	6	493	37	15	17	30	1.90
49240935--49241215	103	2.7	101	85	4	402	30	18	13	37	1.89
49241198--49241222	11	2.3	11	100	0	50	0	8	0	92	0.40
49240935--49241217	102	2.8	102	86	3	415	30	18	13	37	1.89
49243535--49243584	26	1.9	26	84	8	66	52	0	6	42	1.26
49245237--49245265	4	7.2	4	100	0	58	24	0	0	75	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49245489--49245537	26	2.0	25	84	8	64	40	4	18	36	1.70
49249091--49249188	46	2.2	45	82	8	121	48	0	12	38	1.41
49250714--49250822	40	2.7	40	91	1	164	28	23	20	27	1.99
49250806--49250978	40	4.1	41	63	22	88	23	20	22	33	1.97
49250755--49251054	130	2.3	127	93	1	492	24	20	22	33	1.98
49252261--49252484	104	2.2	104	92	1	369	17	19	32	31	1.95
49252403--49252554	71	2.1	72	91	1	243	22	17	30	30	1.96
49266418--49266462	24	1.9	23	81	4	54	44	8	6	40	1.62
49267297--49267345	24	2.0	25	84	7	66	48	0	2	48	1.12
49277133--49277564	209	2.1	208	88	4	640	29	25	20	24	1.99
49278161--49278223	7	9.0	7	78	0	54	15	1	36	46	1.56
49278191--49278231	21	2.0	21	90	0	64	21	0	29	48	1.50
49278161--49278223	28	2.2	28	86	5	92	15	1	36	46	1.56
49278359--49278388	15	2.0	15	93	0	51	63	0	3	33	1.11
49279150--49279193	19	2.2	20	88	4	63	27	43	2	27	1.67
49279549--49279575	6	4.5	6	100	0	54	33	0	14	51	1.43
49286233--49286272	21	1.9	21	84	0	53	32	12	50	5	1.62
49286595--49286826	43	5.4	44	81	8	167	28	20	28	22	1.99
49286626--49286887	129	2.0	129	85	1	346	26	19	29	24	1.98
49286627--49286892	43	6.2	43	82	1	302	25	19	29	25	1.98
49291568--49291622	25	2.1	27	80	12	62	69	3	5	21	1.25
49296273--49296319	20	2.3	20	88	0	67	21	21	19	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49309887--49310110	104	2.2	104	92	1	369	17	19	32	31	1.95
49310029--49310179	70	2.1	71	91	2	241	21	17	30	30	1.96
49311556--49311815	44	5.9	44	76	2	236	31	26	14	27	1.95
49311555--49311820	132	2.0	132	95	0	478	30	26	14	28	1.95
49312707--49312756	22	2.2	23	89	7	75	2	14	4	80	0.95
49312707--49312758	17	2.9	17	85	5	59	1	13	3	80	0.93
49317333--49317414	43	1.9	43	80	9	96	39	10	26	23	1.88
49322359--49322421	26	2.3	28	83	8	85	34	3	0	61	1.12
49322387--49322425	19	2.1	18	85	4	51	38	2	0	58	1.12
49330795--49330833	16	2.5	15	88	12	53	71	0	0	28	0.86

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