genome.fa.s24.2.7.7.80.10.50.1000.128.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: D11
Parameters: 2 7 7 80 10 50 1000
Length:  73211361

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   231   232   233   234   235   236   237   238   239   240   

This is table  128  of  240  ( 28759 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)
39787732--39787776	20	2.2	20	92	0	72	17	17	15	48	1.81
39787987--39788012	3	8.7	3	100	0	52	34	0	65	0	0.93
39789535--39789563	14	2.1	14	100	0	58	44	6	20	27	1.77
39796123--39796266	40	3.6	40	83	1	173	35	15	30	18	1.92
39799656--39800072	26	16.0	26	79	7	429	38	17	16	27	1.91
39799656--39800072	52	8.0	52	83	4	477	38	17	16	27	1.91
39800274--39800323	26	1.9	26	83	0	64	24	24	18	34	1.96
39800762--39800796	18	1.9	18	88	11	54	40	17	8	34	1.80
39806862--39807008	56	2.6	55	82	8	172	27	18	28	25	1.98
39808358--39808532	27	6.4	27	84	3	181	30	28	14	26	1.95
39808379--39808532	82	1.9	81	87	4	229	29	27	14	27	1.96
39808358--39808532	54	3.2	54	81	6	201	30	28	14	26	1.95
39816455--39816629	27	6.4	27	84	3	181	30	28	14	26	1.95
39816476--39816629	82	1.9	81	87	4	229	29	27	14	27	1.96
39816455--39816629	54	3.2	54	81	6	201	30	28	14	26	1.95
39821686--39821805	26	4.6	26	86	0	168	38	20	15	25	1.92
39829443--39829705	40	6.6	40	86	3	309	27	28	20	23	1.99
39833911--39834022	51	2.2	51	80	3	118	32	28	15	24	1.95
39833975--39834159	50	3.6	50	82	2	181	34	26	15	24	1.95
39834030--39834159	52	2.6	50	85	2	152	35	27	13	23	1.92
39835110--39835135	10	2.6	10	100	0	52	26	23	0	50	1.50
39835690--39835883	55	3.6	53	77	3	174	20	24	18	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39864818--39864858	16	2.6	16	92	0	64	48	2	2	46	1.28
39867972--39868070	28	3.5	28	95	0	171	31	27	21	20	1.98
39867963--39868079	28	4.2	28	90	3	157	34	25	20	19	1.96
39868195--39868259	25	2.6	25	97	2	123	44	23	16	15	1.86
39868387--39868932	27	20.3	27	77	9	442	18	19	20	41	1.90
39869806--39869925	56	2.1	56	98	0	231	45	9	23	22	1.81
39871056--39871278	40	5.6	40	86	5	292	24	21	28	25	1.99
39871056--39871311	119	2.2	119	81	7	288	25	21	27	25	1.99
39877753--39877872	56	2.1	56	98	0	231	45	9	23	22	1.81
39878999--39879223	40	5.7	40	83	5	260	25	21	26	25	2.00
39879052--39879246	80	2.5	78	83	5	223	27	20	26	26	1.99
39882278--39882311	16	2.2	15	89	5	50	55	0	0	44	0.99
39888929--39888957	15	1.9	15	100	0	58	37	27	13	20	1.91
39892889--39892939	26	2.0	26	88	0	75	37	15	21	25	1.93
39899648--39900430	50	15.7	50	70	3	453	30	20	22	26	1.98
39899853--39900376	150	3.5	150	84	1	602	30	20	22	26	1.98
39899653--39900493	100	8.4	100	82	1	851	30	20	22	27	1.98
39900475--39900598	51	2.4	51	83	0	158	26	16	25	32	1.96
39900475--39900930	169	2.7	169	86	2	592	28	16	26	28	1.97
39901740--39901784	23	2.0	23	81	0	54	22	2	13	62	1.42
39902070--39902145	36	2.1	36	80	11	84	38	9	1	51	1.42
39902411--39902449	3	13.0	3	100	0	78	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39905052--39905236	51	3.6	51	78	5	205	26	18	25	28	1.98
39907919--39908015	47	2.0	47	84	2	122	28	15	24	30	1.96
39910751--39910929	51	3.5	50	76	2	153	25	18	26	28	1.98
39917003--39917053	26	1.9	27	88	4	77	23	23	21	31	1.98
39918857--39919051	29	6.7	29	78	5	151	23	23	13	40	1.90
39918886--39919071	58	3.2	58	74	4	142	23	23	13	39	1.90
39918886--39919071	87	2.1	87	81	2	212	23	23	13	39	1.90
39919328--39919669	169	2.0	169	98	0	657	35	19	7	37	1.81
39929110--39929159	24	2.0	26	85	14	70	30	2	6	62	1.31
39929144--39929356	24	9.3	23	68	17	106	34	7	3	53	1.48
39929145--39929266	45	2.7	46	79	11	117	35	9	1	54	1.42
39929191--39929344	69	2.2	69	78	11	165	35	7	3	53	1.48
39929310--39929368	24	2.4	23	77	22	59	35	1	3	59	1.24
39932972--39933016	15	3.0	15	86	0	63	75	6	4	13	1.15
39935268--39935486	45	4.9	45	67	16	123	26	23	24	26	2.00
39935247--39935623	89	4.2	89	87	0	486	27	24	23	25	2.00
39935295--39935439	44	3.3	44	70	16	129	24	26	22	25	2.00
39935733--39936251	174	3.0	171	82	4	639	30	20	21	28	1.98
39935742--39936116	85	4.3	86	72	8	217	29	20	21	28	1.98
39935742--39936152	44	9.5	42	71	8	254	30	20	20	28	1.98
39935912--39936151	129	1.9	129	82	5	306	30	20	19	29	1.97
39936083--39936191	44	2.5	44	80	5	105	32	16	18	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39937632--39937746	23	4.9	24	76	12	96	32	7	4	55	1.48
39937629--39937780	47	3.3	46	75	10	123	33	6	3	56	1.41
39937658--39937779	46	2.7	46	76	13	117	35	7	2	54	1.41
39937588--39937790	24	8.7	23	71	10	128	33	6	4	54	1.47
39937704--39937857	69	2.2	69	78	11	165	35	7	4	52	1.49
39940141--39940191	26	2.0	26	84	0	66	41	15	17	25	1.89
39943904--39943936	17	1.9	17	100	0	66	60	24	9	6	1.49
39944284--39944314	7	4.4	7	100	0	62	45	12	0	41	1.42
39947867--39948319	47	9.6	47	92	1	710	32	8	29	29	1.87
39950452--39950526	38	2.0	38	86	5	107	30	18	26	24	1.98
39950580--39950921	40	8.6	40	91	0	551	25	21	27	25	2.00
39950906--39950937	16	2.0	16	100	0	64	25	31	25	18	1.98
39950922--39951023	40	2.5	40	87	0	141	23	21	28	26	1.99
39950826--39951002	96	1.8	96	93	0	309	24	22	25	27	1.99
39950922--39951036	40	2.9	40	85	0	140	23	20	28	26	1.99
39966322--39966352	16	1.9	16	93	0	53	54	9	0	35	1.33
39970077--39970271	43	4.5	43	81	4	187	41	22	12	23	1.88
39977828--39977866	4	9.8	4	82	0	51	17	23	5	53	1.63
39978120--39978253	50	2.7	50	82	0	142	19	27	22	30	1.98
39982147--39982177	14	2.2	14	100	0	62	45	25	0	29	1.54
39990454--39990521	27	2.5	27	85	0	100	23	23	23	29	1.99
39993928--39993985	17	3.6	17	75	11	59	36	3	1	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39993997--39994112	62	1.9	59	85	5	160	40	4	3	51	1.38
39994756--39994782	14	1.9	14	100	0	54	29	0	25	44	1.54
39995863--39995918	22	2.5	22	73	0	58	50	19	7	23	1.72
39996572--39996643	35	2.1	36	81	5	85	56	6	26	9	1.56
40000810--40000945	39	3.5	39	84	7	163	26	22	27	22	1.99
40000918--40000971	26	2.1	26	100	0	108	31	25	24	18	1.97
40000879--40001011	65	2.0	66	92	1	223	27	22	26	23	1.99
40000947--40001058	40	2.8	40	89	4	165	25	22	25	26	2.00
40031807--40031895	38	2.3	38	81	16	96	24	11	10	53	1.67
40033601--40033701	45	2.2	45	85	0	148	36	16	27	18	1.93
40033601--40033725	45	2.8	45	82	0	133	36	17	27	19	1.94
40036829--40036866	20	2.0	20	89	5	60	31	18	10	39	1.85
40040951--40041030	30	2.7	30	80	0	97	38	23	13	23	1.91
40050128--40050158	6	5.2	6	100	0	62	19	0	0	80	0.71
40051401--40051522	29	4.2	29	82	6	140	21	29	31	18	1.96
40053323--40053379	15	3.5	15	73	17	60	50	1	0	47	1.11
40053311--40053378	34	2.1	32	88	5	100	48	2	0	48	1.16
40056199--40056247	3	16.3	3	100	0	98	67	0	0	32	0.91
40059784--40059824	20	2.0	20	90	0	64	75	0	14	9	1.04
40072177--40072554	123	3.0	126	61	22	299	46	9	12	31	1.75
40072100--40072599	246	2.0	246	99	0	991	47	10	12	30	1.73
40075404--40075443	20	2.0	20	85	5	53	37	2	7	52	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40077740--40077765	13	2.0	13	100	0	52	7	23	30	38	1.83
40079268--40079303	14	2.7	13	91	4	54	36	2	0	61	1.11
40079271--40079303	13	2.4	14	90	5	50	36	3	0	60	1.12
40082973--40083743	23	33.8	23	73	7	428	40	25	4	30	1.74
40082973--40083743	46	16.9	46	75	4	503	40	25	4	30	1.74
40083010--40083227	113	1.9	114	82	8	275	40	26	4	28	1.74
40085616--40085666	26	2.0	25	88	7	77	29	9	9	50	1.67
40087405--40087447	21	2.0	21	100	0	86	37	4	18	39	1.72
40089251--40089367	39	3.0	39	91	0	180	38	17	9	34	1.83
40089471--40089555	43	2.0	43	97	0	161	30	28	16	24	1.96

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   231   232   233   234   235   236   237   238   239   240