genome.fa.s9.2.7.7.80.10.50.1000.195.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   

This is table  195  of  259  ( 31025 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)
62398617--62398674	29	2.1	27	93	6	98	53	12	0	34	1.38
62408783--62408812	3	10.0	3	100	0	60	33	33	0	33	1.58
62410155--62410189	16	2.2	16	89	0	52	37	2	0	60	1.12
62412796--62412827	13	2.5	13	94	0	55	0	12	3	84	0.74
62414154--62414229	21	3.3	21	67	22	62	25	17	27	30	1.97
62414124--62414301	49	3.6	49	93	0	302	25	17	26	29	1.97
62414088--62414301	49	4.3	49	89	2	295	26	18	26	29	1.98
62415723--62415772	26	1.9	26	91	0	82	56	2	14	28	1.49
62420423--62420471	23	2.1	23	84	0	62	26	4	2	67	1.19
62420608--62420835	89	2.6	88	81	2	294	36	10	28	24	1.88
62423671--62423762	45	2.0	45	100	0	184	28	19	8	43	1.80
62424512--62425163	216	3.0	216	96	0	1205	26	13	19	40	1.89
62426142--62426237	26	3.7	26	75	6	79	55	5	8	31	1.52
62426518--62426577	2	30.0	2	80	6	68	51	5	1	41	1.33
62426676--62426746	3	23.7	3	88	5	108	63	1	1	33	1.12
62426802--62426944	25	5.8	25	71	10	98	55	4	6	33	1.44
62426937--62426965	14	2.0	15	93	6	51	68	0	0	31	0.89
62426938--62426970	16	2.0	17	88	5	50	69	3	0	27	1.03
62426942--62427004	26	2.5	26	81	2	83	57	7	1	33	1.37
62427230--62427274	21	2.1	21	83	0	54	57	2	2	37	1.23
62428290--62428441	70	2.2	70	93	2	261	15	3	39	41	1.65
62431732--62431776	5	8.6	5	90	9	72	82	0	0	17	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62431732--62431776	22	2.0	22	100	0	90	82	0	0	17	0.68
62431737--62431772	17	2.1	17	100	0	72	83	0	0	16	0.65
62437777--62437885	50	2.1	52	86	6	152	32	11	13	43	1.79
62438033--62438105	9	8.6	9	68	25	52	24	1	19	54	1.52
62439961--62440013	26	1.9	29	85	11	76	30	7	9	52	1.61
62439948--62440013	27	2.4	29	78	14	79	30	6	9	54	1.56
62440106--62440135	3	10.0	3	100	0	60	33	0	0	66	0.92
62461096--62461132	2	18.5	2	88	0	56	51	0	0	48	1.00
62463851--62464437	291	2.0	291	99	0	1165	46	11	12	29	1.76
62468224--62468270	19	2.3	22	75	17	57	44	4	10	40	1.59
62468446--62468486	21	1.9	22	85	5	57	39	0	7	53	1.29
62468579--62468619	5	8.6	5	89	10	68	39	0	0	60	0.96
62470052--62470081	6	4.8	6	95	4	51	63	0	20	16	1.31
62470389--62470415	6	4.5	6	100	0	54	18	18	14	48	1.82
62470395--62470503	45	2.4	45	92	0	182	18	18	20	43	1.89
62470372--62470504	45	2.8	49	80	12	159	18	20	21	40	1.91
62470666--62470833	18	9.3	18	77	4	97	40	10	11	38	1.75
62470666--62470797	54	2.4	54	82	2	140	41	10	12	35	1.77
62470695--62470852	54	2.9	55	81	3	160	37	10	13	37	1.79
62470685--62470931	18	13.3	18	72	9	129	37	10	14	37	1.81
62474907--62474999	46	2.0	46	93	0	159	34	26	5	33	1.79
62476645--62476688	19	2.3	18	81	11	52	38	9	4	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62478455--62478497	17	2.6	16	89	10	68	60	0	2	37	1.10
62482719--62482781	25	2.5	26	80	10	69	57	6	1	34	1.34
62482985--62483027	15	2.9	14	80	13	50	41	2	0	55	1.12
62492826--62492928	41	2.5	41	90	0	161	38	19	22	19	1.93
62493805--62493956	79	1.9	77	88	5	225	22	36	3	36	1.73
62493803--62493990	79	2.4	77	81	8	220	22	37	3	37	1.70
62494024--62494098	25	3.0	25	82	0	87	12	37	22	28	1.90
62506019--62506064	24	1.9	24	91	8	76	71	2	0	26	0.97
62506061--62506190	30	4.4	30	83	6	142	33	20	2	43	1.65
62518713--62518742	14	2.1	14	93	0	51	23	6	3	66	1.30
62518657--62519222	87	6.7	86	81	8	586	29	15	19	35	1.93
62518577--62519222	171	3.9	168	79	10	624	29	16	19	34	1.94
62519003--62519267	79	3.4	75	81	6	273	31	15	20	32	1.94
62518984--62519313	78	4.3	76	79	10	298	28	16	18	36	1.93
62519453--62519498	24	1.9	24	95	0	83	71	2	0	26	0.97
62519495--62519623	30	4.4	29	75	7	109	31	23	3	41	1.72
62520645--62520686	17	2.5	17	88	7	59	33	7	4	54	1.49
62520817--62520841	13	1.9	13	100	0	50	32	0	0	68	0.90
62520748--62520842	20	4.8	20	71	12	63	33	2	5	58	1.32
62539704--62539740	18	2.1	18	89	0	56	37	2	2	56	1.28
62540166--62540211	23	2.0	23	91	4	76	10	15	13	60	1.58
62542913--62542960	3	16.0	3	91	0	69	60	2	4	33	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62544160--62544193	17	2.0	17	100	0	68	5	0	41	52	1.25
62546414--62546487	32	2.3	32	100	0	148	24	41	22	10	1.86
62568908--62568967	19	3.3	18	69	21	54	31	8	3	56	1.45
62576803--62576955	76	2.0	76	100	0	306	37	18	22	21	1.94
62577038--62577084	22	2.1	22	88	0	67	36	6	23	34	1.80
62578164--62578215	26	2.0	26	100	0	104	50	11	26	11	1.73
62583345--62583385	13	3.1	14	75	10	50	46	7	17	29	1.74
62590134--62590168	16	2.2	17	90	10	56	62	0	14	22	1.31
62593531--62593571	13	3.1	14	75	10	50	46	14	19	19	1.84
62597713--62597756	10	4.7	9	80	8	52	11	4	2	81	0.92
62598556--62598604	25	2.0	24	84	4	62	44	10	8	36	1.68
62602341--62602441	27	3.7	27	87	0	130	31	23	6	37	1.82
62602321--62602444	27	4.6	27	77	7	108	33	21	8	37	1.83
62602436--62602845	27	15.3	27	88	0	563	33	20	20	24	1.97
62603272--62603327	22	2.5	22	75	11	60	19	21	21	37	1.94
62603494--62603595	27	3.8	27	78	7	100	21	23	19	35	1.96
62603743--62603800	25	2.3	25	81	0	71	22	20	12	44	1.84
62606827--62606857	16	1.9	16	93	0	53	19	6	9	64	1.45
62606961--62607000	18	2.2	18	86	0	53	25	5	2	67	1.23
62607859--62607936	9	8.3	9	76	17	54	20	2	2	74	1.06
62614727--62614767	16	2.4	16	92	8	64	68	0	4	26	1.10
62617098--62617162	32	2.0	32	100	0	130	30	6	24	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62618646--62618698	26	2.0	26	85	7	72	37	22	15	24	1.92
62620310--62620420	54	2.1	54	98	0	213	25	18	13	42	1.87
62624660--62624709	24	2.2	24	82	7	59	30	0	4	66	1.10
62628577--62628616	12	3.5	11	90	6	62	67	2	2	27	1.16
62628609--62628654	15	3.0	16	81	9	60	45	0	2	52	1.13
62628723--62628774	15	3.6	15	80	12	56	44	0	1	53	1.11
62628607--62629008	119	3.4	119	98	0	759	42	1	4	50	1.34
62628842--62628893	15	3.6	15	80	12	56	44	0	1	53	1.11
62628970--62629011	15	2.7	16	82	14	52	45	0	2	52	1.13
62628961--62629002	15	2.9	15	82	10	52	47	0	0	52	1.00
62629225--62629294	16	4.4	16	81	0	77	25	32	4	37	1.76
62634111--62634163	19	2.8	20	81	16	67	67	0	1	30	1.01
62634117--62634166	20	2.5	21	80	6	59	68	0	2	30	1.01
62635250--62635289	20	2.0	21	85	9	57	32	5	2	60	1.32
62653358--62653414	30	1.9	30	92	0	96	12	28	35	24	1.91
62664435--62664540	36	2.9	36	74	1	95	30	30	18	20	1.97
62664505--62664720	76	2.8	76	80	2	218	33	24	18	23	1.97
62670090--62670190	28	3.5	28	74	14	107	28	22	19	28	1.98
62670169--62670276	32	3.5	32	67	7	105	27	26	14	30	1.95
62670262--62670331	29	2.4	28	83	6	86	27	24	21	27	1.99
62670168--62670302	61	2.2	61	86	2	200	27	25	17	29	1.97
62671275--62671305	11	2.8	11	100	0	62	32	9	19	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62675634--62675689	26	2.1	27	83	3	69	57	0	1	41	1.09
62675634--62676058	185	2.3	184	90	0	643	41	9	8	40	1.67
62676003--62676059	26	2.1	27	87	3	80	54	0	5	40	1.23
62678448--62678484	18	2.1	18	100	0	74	40	10	10	37	1.75
62682053--62682113	32	1.9	32	100	0	122	31	9	13	45	1.75
62682971--62683033	30	2.1	30	90	0	99	26	3	11	58	1.47
62685899--62685927	12	2.3	13	94	5	51	48	0	0	51	1.00
62686200--62686280	24	3.3	26	80	13	82	41	2	0	55	1.13
62688288--62688326	18	2.2	18	90	9	62	51	5	0	43	1.24
62694663--62694691	10	3.0	10	95	5	51	51	0	0	48	1.00

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   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259