genome.fa.s20.2.7.7.80.10.50.1000.38.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: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

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   

This is table  38  of  199  ( 23844 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)
11738341--11738384	21	2.1	21	100	0	88	34	4	22	38	1.75
11745786--11745849	30	2.3	27	81	10	76	40	1	0	57	1.08
11747035--11747063	15	1.9	15	100	0	58	41	0	13	44	1.44
11748150--11748190	21	2.0	21	85	0	55	12	9	19	58	1.61
11748935--11748973	16	2.5	16	88	12	55	69	0	28	2	1.02
11756538--11756563	2	13.0	2	100	0	52	0	50	0	50	1.00
11766620--11766663	20	2.3	20	88	7	65	27	4	0	68	1.09
11784676--11784700	13	1.9	13	100	0	50	16	16	4	64	1.44
11793454--11793919	35	13.1	35	72	15	271	44	10	12	32	1.77
11793454--11793919	18	26.1	18	72	15	317	44	10	12	32	1.77
11793418--11793919	71	7.0	72	75	12	310	43	10	12	33	1.76
11793596--11793784	104	1.8	103	89	3	299	42	11	12	33	1.78
11794009--11794059	17	2.9	18	77	16	70	45	9	11	33	1.74
11794009--11794059	18	2.9	17	77	5	66	45	9	11	33	1.74
11794737--11794801	30	2.2	30	83	8	80	40	7	20	32	1.80
11796154--11796210	20	2.8	20	80	15	55	26	1	3	68	1.15
11797931--11798008	12	7.4	11	72	21	60	60	0	3	35	1.15
11797905--11797996	40	2.2	42	92	7	154	61	1	2	34	1.15
11816709--11816734	2	13.0	2	100	0	52	50	0	50	0	1.00
11821823--11821892	31	2.3	31	79	0	77	40	12	12	34	1.82
11824328--11824456	30	4.2	31	90	4	115	60	0	3	36	1.12
11824330--11824417	41	2.1	43	89	4	135	59	0	3	37	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11824352--11824457	30	3.5	29	92	5	158	59	0	3	36	1.16
11824330--11824387	11	5.4	11	75	21	52	60	0	1	37	1.07
11828064--11828137	20	4.0	20	73	20	79	28	9	13	48	1.73
11828049--11828149	34	2.9	34	95	1	175	30	8	13	46	1.74
11828044--11828153	14	6.9	15	68	23	57	30	9	15	44	1.77
11828236--11828274	20	2.0	20	94	0	69	48	2	0	48	1.15
11830531--11830556	11	2.4	11	100	0	52	61	15	0	23	1.33
11830744--11830793	25	2.0	25	88	0	73	58	4	34	4	1.36
11830853--11830904	24	2.2	24	82	0	59	42	0	55	1	1.10
11831253--11831329	37	2.1	37	92	0	127	33	15	16	33	1.91
11840847--11840906	30	2.0	31	86	3	86	40	0	40	20	1.52
11841200--11841229	9	3.3	9	90	0	51	36	23	13	26	1.92
11841769--11841816	18	2.6	19	80	9	55	72	4	4	18	1.17
11842185--11842219	3	11.7	3	88	11	54	65	0	0	34	0.93
11844159--11844363	27	7.6	27	85	4	252	29	28	15	26	1.96
11847884--11847939	3	18.7	3	100	0	112	33	0	32	33	1.58
11848827--11848902	40	1.9	40	83	5	100	28	21	30	19	1.97
11848982--11849196	41	5.2	41	83	1	243	14	22	25	37	1.92
11848982--11849221	41	5.8	40	76	7	169	16	22	23	37	1.94
11849044--11849219	82	2.1	81	81	5	201	17	23	22	36	1.95
11848982--11849261	123	2.3	123	79	3	278	16	22	23	36	1.94
11849779--11849816	15	2.5	15	86	0	58	21	0	42	36	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11850080--11850106	14	1.9	14	100	0	54	37	3	14	44	1.63
11851149--11851220	37	1.9	37	83	13	94	19	1	43	36	1.60
11854263--11854293	6	5.0	6	96	4	53	64	0	3	32	1.09
11854292--11855133	31	28.8	31	76	15	714	46	10	2	40	1.51
11854341--11854385	22	2.1	21	95	4	81	46	11	0	42	1.39
11854397--11854441	22	2.0	22	95	0	81	46	11	0	42	1.39
11854326--11854434	25	4.3	25	76	14	107	44	11	1	42	1.50
11854452--11854559	22	5.1	22	70	22	88	49	11	0	38	1.45
11854571--11854615	22	2.0	22	95	0	81	46	11	0	42	1.39
11854845--11854914	22	3.0	22	89	6	95	44	10	1	44	1.46
11854829--11854907	25	3.3	25	92	5	128	43	10	2	44	1.51
11854925--11855059	22	6.1	22	69	22	86	47	11	1	40	1.48
11855071--11855115	22	2.0	22	95	0	81	46	11	0	42	1.39
11854609--11855148	56	9.3	57	87	7	461	46	10	2	40	1.52
11855136--11855237	9	12.3	9	66	21	53	44	16	0	38	1.55
11855093--11855168	34	2.2	33	81	9	82	43	13	1	42	1.52
11855115--11855201	41	2.1	42	78	8	88	41	13	2	42	1.57
11855148--11855226	34	2.3	34	82	0	95	44	13	1	40	1.52
11860659--11860785	66	1.9	66	90	6	204	40	18	25	14	1.89
11860661--11860805	66	2.2	66	86	7	197	42	17	27	13	1.86
11860788--11860848	21	2.9	21	82	0	68	36	19	40	3	1.68
11860796--11860888	21	4.4	21	83	2	107	37	16	41	4	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11861245--11861596	43	8.2	43	72	12	199	26	19	26	27	1.99
11861271--11861535	128	2.1	128	81	5	304	28	17	27	27	1.98
11861478--11861619	43	3.3	43	77	4	137	27	27	22	22	1.99
11861778--11861820	22	2.0	22	95	0	77	41	27	20	9	1.83
11873920--11873961	15	2.7	15	88	3	57	4	19	2	73	1.12
11873970--11874041	5	14.4	5	75	20	62	56	4	0	38	1.18
11873971--11874013	19	2.3	19	92	8	70	58	0	0	41	0.98
11873977--11874042	24	2.7	25	81	9	73	59	4	0	36	1.18
11876085--11876313	42	5.5	41	84	3	289	28	22	19	29	1.98
11876096--11876313	83	2.6	82	85	4	285	29	21	19	29	1.98
11876042--11876329	125	2.3	126	85	4	397	28	22	20	28	1.98
11880122--11880181	4	15.0	4	96	0	111	50	23	0	26	1.50
11882092--11882139	6	8.2	6	81	2	53	16	4	31	47	1.65
11889027--11889168	57	2.5	57	90	1	223	27	18	13	40	1.88
11897148--11897218	30	2.4	30	80	4	81	54	1	0	43	1.08
11898959--11899000	22	1.9	22	85	0	57	23	14	9	52	1.71
11906922--11906961	19	2.1	19	95	0	71	0	45	7	47	1.31
11909592--11909682	41	2.2	41	88	0	128	30	19	21	27	1.98
11910801--11910827	13	2.1	13	100	0	54	22	7	14	55	1.64
11912100--11912176	14	5.0	15	71	20	52	42	15	9	32	1.78
11912116--11912155	20	2.0	20	90	0	62	50	12	10	27	1.72
11912104--11912170	34	1.9	35	90	3	109	46	13	8	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11915057--11915100	22	2.0	23	86	4	63	36	6	13	43	1.71
11916139--11916297	87	1.8	84	80	12	189	47	6	11	33	1.66
11918945--11918990	18	2.6	17	83	6	56	65	2	2	30	1.16
11920514--11920557	16	2.8	16	85	0	61	22	13	18	45	1.84
11927904--11927955	14	3.8	13	77	7	59	34	0	3	61	1.14
11927895--11927958	27	2.7	23	78	19	76	35	0	3	60	1.12
11927902--11927956	27	2.0	27	92	0	92	38	0	3	58	1.16
11940440--11940604	57	2.9	57	97	0	303	35	25	13	25	1.93
11943288--11943347	29	2.1	29	84	6	77	55	3	1	40	1.27
11946377--11946428	27	1.9	27	88	7	79	44	15	1	38	1.58
11946377--11946436	27	2.3	26	83	13	70	45	15	1	38	1.56
11946997--11947029	16	2.1	16	88	5	50	45	9	12	33	1.73
11948565--11948603	20	1.9	21	85	15	55	71	0	25	2	0.98
11952721--11952780	29	2.1	29	84	6	77	55	3	1	40	1.27
11955969--11956016	25	2.0	24	84	8	62	41	6	0	52	1.27
11958614--11958660	16	3.0	16	73	14	53	53	8	6	31	1.57
11961552--11961593	22	1.9	23	85	9	61	57	0	0	42	0.99
11963335--11963481	75	2.0	75	97	0	276	25	19	12	41	1.87
11966938--11966984	22	2.1	22	85	14	62	65	4	6	23	1.33
11968795--11968966	44	3.8	44	71	16	127	30	18	17	33	1.94
11968757--11969258	94	5.3	94	82	4	483	31	18	18	31	1.95
11968803--11969245	187	2.4	187	82	5	518	32	19	17	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11974332--11974891	280	2.0	280	99	0	1102	29	22	20	27	1.99
11976446--11976478	12	2.8	12	90	4	50	18	9	3	69	1.28
11977139--11977205	3	22.3	3	76	0	62	32	8	1	56	1.39
11977139--11977205	12	5.6	12	80	0	71	32	8	1	56	1.39
11977583--11977638	27	2.2	25	83	6	67	32	5	0	62	1.18
11980162--11980538	99	3.6	99	86	10	479	28	17	19	35	1.94
11980261--11980538	109	2.6	109	93	1	472	28	18	19	33	1.95
11981085--11981135	3	17.0	3	87	0	66	60	1	0	37	1.08
11983121--11983158	19	2.0	19	85	10	51	7	10	5	76	1.15
11988195--11988271	29	2.6	29	79	4	82	45	15	12	25	1.82

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