genome.fa.s9.2.7.7.80.10.50.1000.125.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  125  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)
40488162--40488397	27	8.8	27	78	5	194	41	21	8	29	1.82
40488156--40488422	81	3.3	80	83	4	313	41	20	8	29	1.82
40488433--40488484	27	1.9	27	92	7	88	40	11	13	34	1.81
40488538--40488626	27	3.3	27	85	6	108	33	19	26	20	1.96
40488550--40488630	28	3.0	27	85	7	101	30	20	27	20	1.98
40489433--40489582	26	5.8	26	87	0	221	27	22	22	28	1.99
40489433--40489582	52	2.9	52	92	1	257	27	22	22	28	1.99
40489727--40489818	42	2.2	42	92	0	148	29	14	21	34	1.93
40489842--40489920	31	2.5	31	86	8	115	29	17	26	26	1.98
40494782--40494825	22	2.0	22	83	12	56	56	6	6	29	1.51
40494961--40495015	15	3.7	15	75	20	53	60	1	5	32	1.30
40495147--40495226	5	16.4	5	72	19	53	63	1	0	35	1.02
40495149--40495217	26	2.7	26	77	11	79	65	1	0	33	1.02
40494983--40495182	89	2.2	89	79	11	203	58	0	6	34	1.28
40495109--40495226	33	3.3	33	75	12	83	61	0	3	33	1.18
40498445--40498622	27	6.6	27	82	7	173	27	14	28	29	1.95
40498446--40498596	82	1.9	81	87	4	223	27	15	28	28	1.96
40498442--40498622	82	2.2	81	82	2	220	27	14	28	29	1.96
40500996--40501208	45	4.9	45	78	6	188	32	26	17	23	1.97
40507937--40508032	44	2.2	44	86	3	131	32	30	10	27	1.90
40510613--40510683	33	2.1	34	84	2	90	28	22	21	28	1.99
40525428--40525686	27	9.6	27	77	5	164	29	27	15	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40525428--40525685	54	4.8	54	81	1	266	29	27	15	27	1.96
40525481--40525685	81	2.5	81	95	0	365	28	26	16	28	1.97
40529433--40529472	17	2.4	17	87	8	55	35	0	0	65	0.93
40538717--40538764	20	2.4	20	100	0	96	54	0	14	31	1.41
40540165--40540192	13	2.2	13	100	0	56	32	0	0	67	0.91
40540322--40540383	29	2.1	30	91	8	101	58	11	4	25	1.53
40540957--40540994	9	4.2	9	93	0	67	47	18	10	23	1.79
40540960--40541003	18	2.4	18	96	0	79	45	13	11	29	1.79
40540960--40541003	9	4.9	9	88	0	61	45	13	11	29	1.79
40540960--40541012	18	2.9	18	88	5	63	49	15	9	26	1.74
40540957--40541013	27	2.1	27	83	0	69	49	17	8	24	1.75
40541715--40541752	19	2.0	19	89	0	58	31	13	23	31	1.93
40542670--40542739	26	2.9	22	75	19	68	22	17	2	57	1.53
40542600--40542771	86	2.0	84	87	4	247	26	18	2	52	1.57
40542606--40542803	86	2.3	86	83	5	242	25	18	3	53	1.58
40543918--40543970	16	3.6	15	78	21	67	60	7	1	30	1.35
40545758--40545879	42	2.9	42	85	0	154	32	22	18	26	1.97
40545805--40545965	42	3.8	42	82	5	166	27	23	18	29	1.98
40545805--40545965	85	1.9	85	83	7	211	27	23	18	29	1.98
40545758--40545975	84	2.6	86	80	7	216	31	22	17	27	1.97
40545808--40545983	85	2.1	85	81	8	198	30	22	17	30	1.97
40546855--40546883	13	2.1	14	93	6	51	55	10	0	34	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40551985--40552095	9	12.6	9	81	5	120	32	0	21	45	1.52
40553155--40553207	24	2.2	24	93	0	88	50	3	3	41	1.38
40554522--40554617	47	2.0	47	93	0	165	40	14	10	34	1.80
40555317--40555351	16	2.1	17	94	5	63	68	5	0	25	1.11
40555654--40555699	8	6.0	8	85	5	51	39	43	0	17	1.49
40555658--40555699	15	2.7	16	85	7	59	42	42	0	14	1.45
40555658--40556002	7	47.4	7	69	10	68	44	32	0	22	1.56
40555713--40555764	22	2.4	22	81	15	72	42	34	0	23	1.54
40555749--40555924	80	2.2	80	95	0	316	43	33	0	22	1.57
40555709--40556007	29	10.4	28	69	6	130	45	30	0	23	1.56
40555870--40555924	21	2.5	22	85	2	76	40	41	0	18	1.50
40555904--40555939	15	2.4	15	90	0	54	44	33	0	22	1.53
40555919--40556001	14	5.8	14	77	9	78	49	25	0	25	1.51
40556330--40556825	155	3.3	152	75	10	527	31	20	18	29	1.97
40556597--40556643	24	2.0	24	86	0	67	21	25	23	29	1.99
40556330--40556761	139	3.0	139	81	8	499	31	19	19	29	1.97
40556740--40556850	40	2.8	39	79	4	132	27	22	17	33	1.96
40556822--40556874	27	2.0	27	92	0	88	20	15	20	43	1.88
40559694--40559845	46	3.3	46	80	5	155	24	19	25	31	1.98
40559694--40559808	23	5.0	23	87	4	144	22	20	26	29	1.99
40559694--40559829	69	2.0	69	84	5	177	23	19	25	30	1.98
40559704--40559845	23	6.2	23	85	4	92	23	19	26	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40559693--40559845	69	2.2	69	81	4	175	24	18	24	31	1.98
40559836--40559911	25	3.2	25	62	24	63	17	19	21	42	1.90
40560292--40560366	36	2.1	36	100	0	150	44	8	16	32	1.76
40562439--40562518	37	2.2	37	86	4	108	27	31	17	23	1.97
40562649--40562899	47	5.4	47	87	2	328	25	32	10	31	1.90
40562656--40562929	94	2.9	93	83	4	241	27	31	9	31	1.89
40562649--40562930	141	2.0	140	81	8	326	27	31	9	31	1.89
40565586--40566006	40	10.6	40	91	3	638	25	28	22	24	1.99
40565586--40566006	119	3.5	119	92	2	650	25	28	22	24	1.99
40565586--40566006	159	2.6	159	91	3	670	25	28	22	24	1.99
40567802--40567881	37	2.2	37	86	4	108	27	31	17	23	1.97
40568012--40568262	47	5.4	47	87	2	328	25	32	10	31	1.90
40568019--40568292	94	2.9	93	83	4	241	27	31	9	31	1.89
40568012--40568293	141	2.0	140	81	8	326	27	31	9	31	1.89
40569505--40569545	21	1.9	22	85	5	57	24	14	0	60	1.34
40574533--40574765	27	8.7	26	74	8	83	39	19	10	30	1.85
40574530--40574766	80	3.0	80	88	1	323	39	19	10	30	1.85
40574530--40574766	54	4.4	53	76	7	194	39	19	10	30	1.85
40574583--40574766	27	6.9	27	79	6	185	39	19	9	30	1.84
40574669--40575104	54	8.1	54	78	8	345	38	16	17	27	1.91
40574758--40575104	107	3.2	107	86	3	475	37	16	19	26	1.92
40574758--40575100	161	2.1	161	89	2	519	37	16	19	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40574758--40575105	27	13.0	27	85	1	403	37	16	19	26	1.93
40575700--40575774	6	12.3	6	78	13	82	18	17	14	49	1.80
40578281--40578382	29	3.6	29	87	1	143	29	28	15	26	1.96
40578272--40578382	58	1.9	58	87	1	161	28	28	15	27	1.96
40578605--40578648	16	2.8	16	82	0	52	13	22	15	47	1.81
40585580--40585694	29	4.0	28	77	6	106	25	27	17	29	1.97
40585911--40585954	8	5.5	8	91	0	61	15	25	15	43	1.87
40588397--40588492	38	2.5	38	77	9	106	35	19	15	29	1.93
40589288--40589457	57	2.9	58	81	6	177	30	17	11	41	1.85
40591562--40591597	18	1.9	19	88	5	56	22	44	25	8	1.80
40592946--40592995	24	2.1	24	92	0	82	48	0	2	50	1.12
40592950--40593020	24	3.0	24	79	8	65	50	1	1	46	1.18
40610434--40610495	31	2.0	31	100	0	124	29	12	19	38	1.89
40618822--40618941	56	2.1	56	98	0	231	45	9	23	22	1.81
40620389--40620936	47	11.6	47	90	3	802	33	9	29	27	1.88
40620787--40620908	22	5.3	22	62	21	61	33	11	29	25	1.91
40623739--40623778	20	2.0	20	90	5	62	60	0	30	10	1.30
40625873--40625929	3	19.0	3	100	0	114	33	0	0	66	0.92
40626700--40626758	18	3.0	20	82	9	68	62	1	27	8	1.33
40628467--40628535	31	2.2	31	82	10	79	23	27	21	27	1.99
40633678--40633809	49	2.7	49	78	3	131	21	24	21	32	1.98
40634553--40634591	20	2.0	20	85	10	53	35	20	0	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40639105--40639136	16	2.0	16	93	0	55	53	0	6	40	1.26
40646781--40647300	47	11.1	47	91	2	778	32	8	30	28	1.87
40646891--40646965	23	3.2	23	62	23	57	32	5	32	30	1.80
40647419--40647497	37	2.1	37	88	0	113	24	17	31	26	1.97
40652746--40652784	13	3.1	12	85	10	51	69	2	12	15	1.30
40663220--40663404	40	4.6	39	80	7	187	26	26	21	25	2.00
40663220--40663402	79	2.3	79	80	10	194	26	26	21	25	1.99
40671087--40671270	39	4.7	40	87	7	243	25	27	22	25	2.00
40673475--40673801	48	6.8	47	82	4	350	37	26	16	20	1.93
40673475--40673801	96	3.4	96	84	0	440	37	26	16	20	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   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