genome.fa.s25.2.7.7.80.10.50.1000.42.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  42  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)
11602870--11602902	11	3.1	11	86	4	50	72	6	0	21	1.05
11603029--11603062	10	3.3	11	92	8	54	70	0	8	20	1.13
11603163--11603201	19	2.1	19	90	0	60	48	0	23	28	1.51
11603225--11603322	18	5.1	18	75	18	90	62	1	11	25	1.35
11603309--11603384	5	14.6	5	83	8	82	63	1	18	17	1.39
11603326--11603406	19	4.1	20	81	12	87	66	1	18	13	1.31
11603348--11603406	24	2.7	23	85	15	72	69	0	18	11	1.18
11603755--11603796	20	2.2	18	84	12	57	69	0	7	23	1.13
11603756--11603796	19	2.1	19	90	4	64	70	0	4	24	1.06
11603789--11603880	5	16.2	5	73	18	58	51	0	18	30	1.47
11603801--11603883	23	3.6	23	78	4	87	50	0	19	30	1.48
11603789--11603880	28	3.2	29	79	11	118	51	0	18	30	1.47
11603838--11603899	23	3.1	19	83	9	52	50	1	20	27	1.58
11603972--11604017	24	1.9	24	82	8	58	58	2	10	28	1.43
11604005--11604062	5	10.8	5	82	10	62	55	1	22	20	1.53
11604005--11604062	22	2.7	22	89	2	82	55	1	22	20	1.53
11604005--11604062	17	3.6	16	84	9	64	55	1	22	20	1.53
11606944--11606983	18	2.2	19	86	4	55	22	30	7	40	1.81
11609974--11610041	29	2.4	28	73	11	66	41	2	5	50	1.42
11610256--11610323	27	2.4	28	82	4	84	39	1	0	58	1.07
11610256--11610316	29	2.2	28	85	5	79	40	1	0	57	1.08
11612421--11612591	85	2.0	85	96	0	315	32	14	13	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11618926--11619053	53	2.4	53	89	2	195	28	21	28	22	1.99
11619611--11619647	17	2.2	17	95	0	65	32	13	24	29	1.93
11620719--11620795	27	2.9	27	84	0	100	24	29	22	23	1.99
11626740--11626775	7	5.3	7	90	6	56	86	0	13	0	0.58
11628075--11628119	11	3.9	11	77	11	54	44	35	2	17	1.62
11628089--11628132	13	3.5	13	75	12	56	43	34	4	18	1.70
11628078--11628132	24	2.3	24	100	0	110	43	34	3	18	1.67
11628253--11628319	27	2.5	27	90	2	91	28	8	20	41	1.83
11628263--11628319	18	3.2	17	82	7	69	28	10	21	40	1.86
11628245--11628311	18	3.8	18	81	13	68	28	8	20	41	1.83
11629275--11629323	22	2.2	23	88	3	73	48	2	2	46	1.25
11629272--11629329	22	2.9	21	73	16	61	46	3	3	46	1.36
11629377--11629441	19	3.5	19	71	12	71	40	4	9	46	1.57
11629318--11629497	96	1.9	95	92	1	306	40	9	7	43	1.65
11629538--11629563	6	4.3	6	100	0	52	15	0	46	38	1.46
11629587--11629705	15	8.2	15	71	19	83	21	0	31	45	1.58
11629599--11629740	27	5.1	27	76	12	144	21	0	34	43	1.58
11629574--11629861	59	4.8	58	72	17	234	21	0	32	44	1.58
11629778--11629836	27	2.2	27	84	3	75	25	0	33	40	1.56
11629614--11629900	119	2.3	124	85	8	392	20	1	33	44	1.59
11629801--11629878	33	2.4	33	95	0	138	20	1	35	42	1.61
11629673--11629877	92	2.2	88	76	13	214	21	0	34	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11630390--11630433	18	2.4	18	88	0	61	45	9	27	18	1.79
11632238--11632337	51	2.0	51	84	7	132	47	2	26	25	1.63
11632307--11632348	22	1.9	22	90	9	68	42	2	30	23	1.67
11632297--11632359	33	1.9	33	84	12	85	46	1	28	23	1.62
11632299--11632360	11	5.6	11	75	17	58	46	1	29	22	1.61
11632299--11632359	22	2.8	22	76	18	65	45	1	29	22	1.62
11633687--11633718	16	2.0	16	100	0	64	31	12	0	56	1.37
11634476--11634521	9	5.1	9	86	0	56	13	36	13	36	1.83
11638347--11638383	18	2.1	18	94	0	65	59	5	13	21	1.54
11641372--11641453	41	2.0	41	88	4	121	46	13	8	31	1.73
11645321--11645361	19	2.2	19	100	0	82	43	14	4	36	1.67
11652819--11652903	34	2.5	34	76	12	86	2	22	4	70	1.17
11663579--11663615	19	2.0	19	89	5	58	56	8	5	29	1.51
11663630--11663680	6	8.2	6	95	4	84	15	15	0	68	1.21
11663654--11663782	57	2.3	57	85	11	169	26	17	6	48	1.72
11677238--11677476	50	4.6	50	84	3	289	20	28	23	26	1.99
11678092--11678256	49	3.4	49	79	8	158	29	15	24	30	1.96
11678825--11678874	25	2.0	25	100	0	100	32	32	16	20	1.94
11682214--11682324	28	4.0	28	82	2	134	30	17	16	36	1.91
11682214--11682324	56	2.0	56	85	3	152	30	17	16	36	1.91
11682882--11682952	34	2.1	34	92	5	117	35	19	4	40	1.71
11683490--11683554	32	2.0	32	100	0	130	32	12	3	52	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11684886--11684982	18	5.3	18	78	12	92	61	1	3	34	1.18
11684919--11684983	8	7.5	8	74	16	58	69	0	3	27	1.03
11684996--11685035	21	1.9	22	90	10	66	55	0	7	37	1.29
11685066--11685105	20	2.0	20	85	5	53	52	0	5	42	1.23
11685090--11685148	28	2.1	29	81	9	68	71	0	1	27	0.96
11685410--11685485	36	2.1	35	88	7	109	28	7	2	60	1.38
11689211--11689264	27	2.0	27	85	0	72	48	5	7	38	1.55
11690840--11690891	19	2.7	20	82	8	63	44	15	3	36	1.65
11691400--11691434	18	1.9	18	88	0	52	85	0	8	5	0.73
11693998--11694036	12	3.2	12	85	0	51	20	23	5	51	1.67
11694298--11694430	50	2.7	50	79	2	151	22	28	21	27	1.99
11696692--11696778	43	2.0	43	97	0	165	24	20	21	33	1.97
11699242--11699267	2	13.0	2	100	0	52	0	50	0	50	1.00
11700238--11700314	32	2.4	32	82	6	95	29	32	10	27	1.90
11700492--11700743	52	4.8	52	78	0	236	39	17	13	30	1.87
11702155--11702211	26	2.2	26	90	6	89	43	8	14	33	1.76
11706356--11706396	21	2.1	19	86	9	55	39	4	14	41	1.67
11724911--11724942	16	2.0	16	93	0	55	53	0	0	46	1.00
11725455--11725505	25	2.0	25	100	0	102	33	15	27	23	1.95
11748744--11749063	29	11.1	29	77	4	245	25	16	21	36	1.94
11750737--11750780	16	2.7	17	79	10	56	25	4	0	70	1.06
11754711--11754739	14	2.1	14	100	0	58	48	6	24	20	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11758501--11758541	7	5.4	7	83	16	55	14	4	0	80	0.87
11761966--11762295	164	2.0	165	84	5	436	36	20	10	32	1.87
11766615--11766650	3	12.3	3	94	5	65	0	30	0	69	0.89
11769047--11769090	17	2.5	18	78	14	56	34	2	2	61	1.21
11769050--11769082	16	1.9	17	88	11	50	33	3	3	60	1.27
11793896--11793989	25	3.8	24	78	10	100	24	25	20	29	1.99
11793883--11794030	49	3.0	49	82	3	172	26	23	20	29	1.99
11793894--11794030	25	5.5	24	72	20	95	26	24	21	27	1.99
11805397--11805574	27	6.6	27	77	6	137	30	28	15	25	1.96
11805397--11805574	54	3.3	54	78	7	164	30	28	15	25	1.96
11813336--11813513	27	6.6	27	77	6	137	30	28	15	25	1.96
11813336--11813513	54	3.3	54	78	7	164	30	28	15	25	1.96
11824258--11824286	3	9.7	3	100	0	58	31	0	0	68	0.89
11824287--11824472	73	2.5	73	99	0	363	27	6	24	40	1.80
11828689--11828735	3	15.7	3	95	0	85	29	0	2	68	1.02
11832532--11832594	20	3.0	20	84	6	81	42	22	25	9	1.83
11835511--11835561	3	16.7	3	79	4	57	60	1	5	31	1.31
11836901--11837073	45	3.9	45	71	13	142	27	24	19	28	1.99
11836990--11837085	45	2.1	45	81	7	106	23	25	20	30	1.99
11837059--11837972	97	9.4	97	83	5	868	29	23	16	29	1.96
11837066--11837973	342	2.7	341	85	4	1188	29	23	16	29	1.96
11837636--11838026	97	4.0	97	82	2	275	31	23	15	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11838004--11838626	44	13.8	45	72	12	270	29	23	18	28	1.98
11838148--11838626	44	10.8	44	75	9	316	29	23	18	28	1.98
11838244--11838633	89	4.4	89	76	7	267	28	24	19	27	1.98
11838244--11838625	132	2.9	133	80	6	409	28	24	19	27	1.98
11838149--11838579	221	1.9	222	80	6	500	29	24	18	28	1.98
11838956--11839013	24	2.4	24	97	0	107	25	29	12	32	1.92
11839916--11840044	44	3.0	44	89	1	197	14	22	18	44	1.86
11841951--11841982	16	2.0	16	93	0	55	25	15	0	59	1.36
11842210--11842346	47	2.8	51	82	7	183	29	27	17	25	1.97
11844213--11844276	25	2.4	27	82	10	69	4	17	1	76	1.03

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