genome.fa.s19.2.7.7.80.10.50.1000.43.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   

This is table  43  of  230  ( 27491 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)
11655567--11655673	39	2.7	39	79	4	117	40	20	27	12	1.88
11660895--11661062	92	1.8	92	90	0	273	18	41	20	19	1.90
11661329--11661363	18	2.0	18	88	5	54	80	0	11	8	0.92
11662335--11662409	3	25.3	3	72	12	57	33	5	2	58	1.34
11662334--11662409	20	3.7	19	73	14	55	32	6	2	57	1.38
11662354--11662404	23	2.2	23	85	0	66	37	1	1	58	1.20
11679196--11680675	29	54.3	29	77	13	1101	33	1	22	42	1.62
11679333--11679388	23	2.4	23	93	0	94	25	1	26	46	1.63
11679443--11680658	23	45.4	23	72	20	490	33	0	22	42	1.60
11682821--11682854	14	2.3	15	90	5	52	67	2	0	29	1.05
11683050--11683091	22	1.9	22	90	0	66	33	0	33	33	1.58
11683063--11683121	30	2.0	30	96	0	109	32	0	35	32	1.58
11683041--11683143	52	2.0	51	84	5	136	33	0	32	33	1.65
11683092--11683162	22	3.2	22	90	7	108	36	1	28	33	1.66
11687304--11687371	25	2.7	24	79	16	75	50	1	7	41	1.39
11691843--11691869	6	4.5	6	100	0	54	14	0	14	70	1.17
11703430--11703477	25	1.9	24	83	8	60	52	2	4	41	1.32
11714340--11714367	11	2.5	11	100	0	56	10	17	14	57	1.65
11716876--11716944	33	2.1	33	91	5	113	42	36	7	14	1.73
11719065--11719103	21	1.9	20	84	5	51	46	7	17	28	1.76
11719072--11719114	16	2.8	16	78	3	52	46	9	16	27	1.77
11719250--11719285	16	2.2	17	90	9	58	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11726527--11726559	9	3.7	9	88	12	50	57	12	0	30	1.35
11729847--11729875	9	3.3	9	95	4	51	72	0	6	20	1.07
11731321--11731355	9	3.9	9	88	11	54	88	8	2	0	0.61
11731321--11731354	17	1.9	18	94	5	61	88	8	2	0	0.62
11731396--11731464	27	2.6	27	90	0	102	23	31	28	15	1.95
11731742--11731775	11	3.0	11	91	4	50	35	0	2	61	1.11
11731751--11731898	61	2.4	63	77	17	152	35	0	9	54	1.38
11732505--11732549	18	2.5	18	85	0	63	28	4	46	20	1.69
11734929--11734957	14	2.1	14	100	0	58	55	0	6	37	1.27
11736048--11736116	28	2.5	28	95	2	122	47	0	10	42	1.37
11736156--11736203	19	2.5	19	86	0	60	64	8	0	27	1.22
11736893--11737027	5	27.4	5	70	19	70	0	34	0	64	0.99
11736910--11737055	18	7.5	21	72	17	86	0	32	0	66	0.97
11736884--11737038	10	15.9	10	70	14	85	0	32	0	66	0.97
11736879--11737046	38	4.5	38	80	12	170	1	33	0	65	1.00
11736978--11737021	14	3.1	14	86	0	61	0	36	0	63	0.95
11736909--11737058	10	15.1	10	68	14	51	0	32	0	66	0.97
11736978--11737059	28	2.7	30	74	22	82	0	34	0	65	0.93
11737107--11737183	27	2.9	27	88	0	100	15	28	27	28	1.96
11743054--11743097	3	14.7	3	100	0	88	68	0	0	31	0.90
11750599--11750774	96	1.8	96	90	0	280	34	13	17	34	1.89
11758602--11758665	33	2.0	32	90	3	101	39	25	9	26	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11758884--11759080	41	4.8	41	91	5	308	27	22	21	28	1.99
11760614--11760638	13	1.9	13	100	0	50	68	24	0	8	1.16
11765694--11765757	33	2.0	32	90	3	101	39	25	9	26	1.86
11765972--11766168	41	4.8	41	91	5	308	28	22	20	28	1.98
11767706--11767730	13	1.9	13	100	0	50	68	24	0	8	1.16
11770840--11770917	39	2.0	39	85	5	104	73	0	24	2	0.96
11788127--11788169	23	2.0	22	86	9	61	41	4	9	44	1.57
11788251--11788321	26	2.6	27	84	8	81	66	5	26	1	1.22
11789174--11789253	25	3.3	25	86	5	112	17	27	18	36	1.94
11789186--11789277	22	4.0	22	79	10	96	17	27	17	38	1.92
11790831--11790888	20	2.8	21	76	10	66	36	22	10	31	1.88
11793079--11793111	17	1.9	17	88	11	50	45	0	3	51	1.16
11794382--11794450	32	2.2	32	94	0	120	14	17	26	42	1.87
11799213--11799269	29	2.0	29	82	0	69	17	29	26	26	1.97
11799357--11799481	63	2.0	63	88	0	187	26	25	27	20	1.99
11799357--11799505	63	2.4	63	84	4	176	24	27	28	19	1.99
11805070--11805100	9	3.4	9	90	0	53	25	12	22	38	1.90
11805240--11805313	29	2.5	30	95	4	141	21	47	0	31	1.51
11805424--11805483	30	2.0	31	83	3	77	18	35	1	45	1.60
11805854--11805923	18	3.9	17	71	17	52	40	2	0	57	1.14
11810152--11810210	21	2.8	21	71	19	68	45	13	20	20	1.84
11810152--11810295	42	3.4	41	81	3	153	44	15	19	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11812138--11812211	28	2.6	28	84	2	103	29	10	25	33	1.90
11813689--11813737	13	4.2	12	80	17	50	77	4	0	18	0.92
11813689--11813737	6	8.3	6	76	19	50	77	4	0	18	0.92
11813848--11813909	31	2.0	32	84	9	83	27	14	20	37	1.92
11815680--11815719	21	1.9	21	85	10	55	52	2	35	10	1.48
11815748--11815804	3	19.0	3	96	0	105	68	0	31	0	0.90
11816017--11816071	19	2.9	18	77	17	58	74	0	16	9	1.06
11816029--11816066	20	1.9	20	94	0	67	76	0	13	10	1.02
11818421--11818502	18	4.4	19	76	13	50	34	14	3	47	1.62
11818455--11818503	18	2.7	18	83	0	71	40	16	0	42	1.48
11826070--11826117	24	2.0	24	95	0	87	31	16	10	41	1.82
11831442--11831538	22	4.4	21	74	14	72	15	26	19	38	1.92
11833914--11833943	15	1.9	16	93	6	53	26	3	0	70	1.03
11834277--11834310	16	2.1	16	94	0	59	35	0	0	64	0.94
11837266--11837333	32	2.1	32	83	0	82	30	10	10	48	1.71
11837540--11837591	24	2.2	24	85	0	68	38	3	7	50	1.50
11841915--11841966	24	2.2	24	89	0	77	38	3	5	51	1.44
11842639--11842690	26	2.0	26	100	0	104	42	7	11	38	1.70
11845673--11845713	22	1.9	22	90	5	66	24	14	26	34	1.94
11846290--11846349	20	3.0	20	80	4	59	31	26	8	33	1.86
11848974--11849009	18	2.1	18	94	5	65	33	11	13	41	1.80
11848963--11849009	18	2.8	16	81	12	58	42	12	12	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11849011--11849046	17	2.2	16	90	5	54	47	11	2	38	1.54
11848974--11849056	37	2.2	37	80	2	94	38	10	9	40	1.73
11849028--11849068	22	2.0	20	85	9	55	46	7	4	41	1.53
11849081--11849212	21	6.8	20	64	18	55	42	9	12	35	1.75
11849131--11849338	17	11.6	18	67	18	76	42	8	12	36	1.73
11849078--11849187	37	2.9	38	76	16	120	42	10	14	32	1.79
11849129--11849212	21	4.2	20	75	17	84	41	5	11	40	1.66
11849129--11849288	60	3.0	51	80	10	153	42	8	11	36	1.73
11849188--11849288	51	2.0	50	86	1	139	42	9	10	36	1.73
11849242--11849334	34	2.7	35	81	8	109	40	8	13	36	1.76
11849241--11849412	18	9.4	18	66	19	63	43	9	12	34	1.75
11849257--11849373	18	6.5	17	68	24	71	43	9	14	32	1.77
11849312--11849403	39	2.4	38	87	3	121	46	11	10	30	1.75
11849817--11849856	21	1.9	21	94	0	71	42	20	20	17	1.89
11849881--11849968	7	12.1	7	81	11	88	0	19	3	77	0.91
11849878--11849982	7	13.9	8	80	15	59	0	20	2	76	0.92
11850247--11850290	18	2.4	18	88	0	70	6	27	47	18	1.73
11850334--11850368	6	5.8	6	90	10	54	0	17	0	82	0.66
11850335--11850401	12	5.6	11	81	10	53	0	26	0	73	0.84
11850334--11850367	17	1.9	18	94	5	61	0	17	0	82	0.67
11850344--11850405	3	22.0	3	80	9	69	0	29	0	70	0.87
11850422--11850465	18	2.5	18	82	10	56	0	43	34	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11850484--11850541	20	3.0	20	80	9	68	0	37	0	62	0.96
11850768--11850884	30	3.9	29	77	11	94	44	3	21	30	1.69
11850783--11850884	30	3.4	30	83	2	125	44	3	21	30	1.70
11850880--11850916	15	2.4	16	90	4	58	24	0	2	72	0.97
11851158--11851369	54	3.9	54	94	3	356	37	17	16	28	1.92
11851456--11851488	13	2.4	14	95	5	59	69	9	9	12	1.36
11851449--11851496	14	3.5	14	85	5	62	62	8	10	18	1.52
11851572--11852163	72	8.2	72	95	2	1019	34	17	17	30	1.93
11851572--11852159	145	4.1	145	95	2	1056	34	18	17	30	1.93
11851572--11852163	289	2.0	291	94	2	1059	34	17	17	30	1.93

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   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230