genome.fa.s4.2.7.7.80.10.50.1000.40.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: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Length:  81554553

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   

This is table  40  of  253  ( 30316 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)
10262590--10262801	40	5.3	39	83	5	264	27	28	20	23	1.99
10262590--10262801	80	2.7	80	91	0	345	27	28	20	23	1.99
10270632--10270842	40	5.3	39	83	6	264	27	28	20	23	1.99
10270632--10270842	79	2.7	80	91	2	345	27	28	20	23	1.99
10274900--10274934	3	11.7	3	100	0	70	0	34	0	65	0.93
10274990--10275031	21	2.0	21	95	0	75	23	28	21	26	1.99
10294345--10294390	20	2.3	20	82	10	51	78	4	10	6	1.08
10294962--10295035	28	2.7	27	81	6	85	63	1	2	32	1.17
10298010--10298118	26	4.2	26	91	2	175	35	22	7	33	1.82
10303380--10303431	25	2.0	26	85	3	70	25	13	23	38	1.91
10304913--10305021	26	4.2	26	91	2	175	35	22	7	33	1.82
10306210--10306291	28	2.9	28	87	0	101	40	13	17	29	1.87
10314618--10314671	28	1.9	28	92	0	90	44	9	14	31	1.77
10318773--10318809	10	3.5	11	82	17	51	40	0	0	59	0.97
10318730--10318818	20	4.3	20	79	12	92	38	1	3	57	1.23
10322954--10323025	15	5.0	14	74	12	65	29	8	0	62	1.24
10322912--10323025	29	4.0	28	68	14	79	27	7	2	62	1.36
10322982--10323042	29	2.1	29	84	9	79	31	9	0	59	1.30
10325235--10325276	19	2.2	19	83	8	50	21	23	16	38	1.93
10331347--10331393	24	2.0	24	83	4	60	55	2	0	42	1.12
10333852--10333897	23	2.0	23	100	0	92	39	17	13	30	1.87
10336541--10336593	23	2.3	23	86	0	70	50	32	5	11	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10337921--10337976	28	2.0	28	85	0	76	17	12	8	60	1.57
10338070--10338127	3	20.0	3	80	7	66	27	1	5	65	1.23
10338060--10338142	20	3.8	21	76	9	62	27	4	6	61	1.40
10338068--10338116	26	2.0	26	88	8	75	28	2	4	65	1.22
10340636--10340728	47	2.0	47	80	0	105	41	9	4	44	1.57
10340659--10340731	38	2.0	38	81	10	89	42	6	4	46	1.49
10343005--10343125	3	39.7	3	74	9	93	57	2	8	32	1.42
10344822--10345064	131	1.9	131	88	1	371	38	20	16	24	1.92
10349625--10349680	24	2.3	24	73	11	60	44	1	0	53	1.11
10355414--10355483	5	14.2	5	93	3	124	41	0	20	38	1.52
10356880--10356920	21	1.9	22	90	5	66	68	0	29	2	1.03
10356877--10356919	18	2.4	19	80	11	63	69	0	27	2	1.00
10363307--10363359	15	3.8	13	75	18	52	30	3	0	66	1.10
10363302--10363372	30	2.4	29	76	6	88	29	2	0	67	1.05
10363306--10363366	14	4.3	14	76	10	52	29	3	0	67	1.07
10363304--10363628	150	2.2	146	92	2	533	27	5	7	59	1.47
10363491--10363743	117	2.2	115	90	3	384	26	6	8	58	1.51
10363852--10363886	13	2.7	13	81	0	52	22	0	5	71	1.07
10363607--10364447	145	5.8	146	91	3	1319	27	5	7	58	1.48
10364142--10364176	13	2.7	13	81	0	52	22	0	5	71	1.07
10364454--10364484	14	2.1	15	94	5	55	45	3	0	51	1.17
10364945--10364975	6	5.2	6	92	0	53	0	19	0	80	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10364936--10364983	18	2.7	18	80	0	60	0	27	0	72	0.84
10364942--10364975	12	2.8	12	95	0	59	0	20	0	79	0.73
10365002--10365047	3	15.7	3	95	4	85	0	34	0	65	0.93
10366338--10366390	27	2.0	27	85	7	72	43	7	16	32	1.76
10366742--10366783	21	2.0	22	90	4	68	54	2	0	42	1.13
10367003--10367080	36	2.3	35	85	14	101	41	5	10	43	1.61
10370861--10370888	2	14.0	2	100	0	56	50	50	0	0	1.00
10374799--10374838	13	3.2	13	82	7	55	70	2	0	27	1.01
10377015--10377063	25	1.9	26	83	4	64	32	0	4	63	1.13
10378212--10378259	24	2.0	24	83	0	60	27	33	0	39	1.57
10382331--10382383	20	2.8	19	78	18	58	64	0	0	35	0.94
10382331--10382383	9	5.5	10	76	17	58	64	0	0	35	0.94
10385914--10385996	29	2.8	28	67	8	67	48	6	2	43	1.40
10386544--10386602	22	2.6	22	82	12	59	59	3	1	35	1.24
10388145--10388251	29	3.7	29	83	0	142	46	26	7	19	1.76
10389031--10389134	54	1.9	54	92	0	172	31	26	8	32	1.87
10397059--10397092	15	2.3	15	89	0	50	23	8	8	58	1.56
10399351--10399408	29	1.9	31	86	6	84	20	29	27	22	1.99
10404476--10404518	22	2.1	20	83	12	52	76	4	16	2	1.05
10417885--10417924	15	2.6	16	81	18	50	30	0	2	67	1.04
10427306--10427444	42	3.3	43	68	11	115	18	30	23	28	1.98
10427283--10427465	84	2.2	84	92	0	312	19	31	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10428133--10428181	24	2.0	24	92	0	80	14	10	34	40	1.79
10430951--10430996	21	2.2	21	88	0	65	21	34	26	17	1.95
10430961--10431030	21	3.3	21	85	0	86	20	31	22	25	1.98
10433213--10433369	81	1.9	81	84	2	208	33	21	22	22	1.98
10433214--10433369	41	3.8	40	88	2	195	33	21	22	22	1.97
10433439--10433472	16	2.1	17	88	5	52	52	29	0	17	1.45
10433382--10433496	53	2.1	55	82	3	135	47	29	0	21	1.57
10434253--10434311	7	8.3	7	75	14	50	76	3	0	20	0.93
10434253--10434327	14	5.3	14	78	12	55	72	4	0	24	1.02
10434270--10434326	8	7.5	8	84	11	75	73	1	0	24	0.92
10434270--10434328	23	2.6	22	84	5	82	71	1	0	27	0.96
10434270--10434331	15	4.1	15	83	6	63	70	1	0	27	0.96
10434395--10434432	18	2.2	16	90	9	58	73	0	2	23	0.95
10440896--10440940	23	2.0	23	86	0	63	17	35	31	15	1.92
10443318--10443382	32	2.0	32	100	0	130	30	6	24	38	1.80
10444914--10444964	26	2.0	26	84	7	68	37	23	15	23	1.93
10451043--10451079	19	1.9	19	100	0	74	48	5	10	35	1.61
10455609--10455753	60	2.4	60	90	0	218	36	13	24	25	1.92
10455955--10456206	76	3.3	75	81	6	285	31	11	17	38	1.87
10462440--10462474	16	2.3	15	90	9	54	28	0	2	68	1.04
10470576--10470609	16	2.2	16	94	5	61	26	5	14	52	1.64
10470854--10470886	15	2.1	16	88	5	50	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10473166--10473226	16	3.8	16	68	12	52	50	4	3	40	1.40
10473193--10473287	31	3.1	30	65	22	70	53	3	4	38	1.36
10474925--10474975	25	2.0	25	92	0	84	49	13	11	25	1.76
10480592--10480631	20	2.0	20	85	5	53	42	5	5	47	1.47
10488593--10488630	14	2.8	14	81	18	53	57	0	0	42	0.98
10488599--10488633	15	2.4	14	85	4	52	60	0	0	40	0.97
10499517--10499933	142	3.0	141	87	2	608	41	8	4	45	1.57
10500004--10500035	16	2.0	16	93	0	55	53	6	0	40	1.26
10502292--10502357	28	2.4	28	84	0	87	24	16	33	25	1.96
10502673--10503144	27	17.6	27	83	6	534	38	20	10	30	1.87
10503098--10503189	27	3.4	27	78	3	78	36	21	16	25	1.94
10511868--10511967	28	3.6	28	75	5	94	25	30	17	28	1.97
10524779--10524849	34	2.1	34	84	5	90	23	25	25	25	2.00
10534372--10534397	13	2.0	13	100	0	52	53	7	15	23	1.67
10536024--10536059	19	1.9	18	94	5	63	47	16	19	16	1.83
10536422--10536508	27	3.2	27	91	0	138	33	19	18	28	1.95
10537404--10537546	27	5.3	27	79	3	137	32	17	21	27	1.96
10537404--10537546	54	2.6	54	84	2	171	32	17	21	27	1.96
10537766--10537829	30	2.1	30	100	0	128	32	15	23	28	1.95
10538433--10538513	40	2.0	40	100	0	162	33	17	4	44	1.70
10538691--10538738	18	2.7	18	90	6	71	35	8	0	56	1.30
10538687--10538723	3	12.3	3	94	0	56	32	5	0	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10539577--10539633	26	2.2	25	81	9	62	61	3	3	31	1.30
10540288--10540325	16	2.2	18	86	9	53	34	5	2	57	1.35
10540945--10540987	7	6.4	7	86	5	54	48	0	11	39	1.40
10557515--10557569	27	2.0	27	86	6	76	49	10	0	40	1.38
10565990--10566024	18	2.0	18	94	5	63	54	5	11	28	1.59
10566740--10566799	10	6.0	10	84	11	79	68	1	8	21	1.25
10567456--10567637	96	1.9	97	89	1	285	30	25	14	29	1.95
10570139--10570187	3	17.7	3	76	23	54	73	0	0	26	0.83
10570140--10570189	13	3.7	13	82	10	64	74	0	0	26	0.83
10570142--10570199	18	3.4	17	88	11	84	77	0	0	22	0.77

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