genome.fa.s4.2.7.7.80.10.50.1000.140.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  140  of  255  ( 30512 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)
45169623--45169708	41	2.1	41	100	0	172	23	10	19	46	1.81
45177987--45178294	47	6.5	47	93	2	510	32	8	29	28	1.87
45202338--45202431	29	3.2	29	95	0	170	21	38	23	17	1.93
45205239--45205295	23	2.5	24	74	8	64	45	7	14	33	1.71
45205570--45205618	21	2.3	21	89	0	71	14	22	42	20	1.88
45209155--45209278	43	2.9	43	84	1	151	21	29	20	27	1.98
45210983--45211012	15	2.1	15	93	6	53	36	26	6	30	1.82
45215472--45215568	43	2.3	43	92	0	149	26	31	19	21	1.97
45220198--45220252	28	1.9	29	88	3	85	20	43	21	14	1.87
45228247--45228340	41	2.3	41	85	1	118	51	7	21	20	1.72
45230423--45230471	23	2.1	23	81	7	55	34	0	6	59	1.22
45230494--45230536	20	2.2	20	87	8	61	48	0	2	48	1.14
45230843--45230883	13	3.2	13	83	13	57	73	0	19	7	1.07
45230848--45230911	12	5.3	12	75	14	51	70	0	18	10	1.16
45234438--45234471	12	2.8	13	86	13	54	52	2	0	44	1.16
45245848--45246112	47	5.7	46	75	15	208	26	18	31	23	1.97
45245849--45246112	94	2.8	95	79	8	256	26	18	31	23	1.97
45250567--45250615	9	6.0	8	78	21	57	51	14	0	34	1.43
45250571--45250620	24	2.1	24	96	0	91	54	16	0	30	1.42
45259661--45259697	17	2.2	17	90	0	56	40	5	2	51	1.39
45282539--45282563	10	2.5	10	100	0	50	56	8	0	36	1.29
45289124--45289148	4	6.2	4	100	0	50	24	0	0	76	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45305313--45305485	46	3.7	46	78	13	210	21	21	27	28	1.99
45305310--45305480	93	1.8	93	96	0	315	21	21	28	28	1.99
45305709--45305746	19	2.0	20	85	15	53	36	0	23	39	1.55
45312857--45313027	46	3.8	45	77	13	197	21	20	27	30	1.98
45312854--45313022	91	1.8	92	93	1	295	21	20	28	29	1.98
45313248--45313285	19	2.0	20	85	15	53	36	0	23	39	1.55
45317207--45317250	21	2.1	21	82	0	52	52	18	13	15	1.75
45317889--45317927	20	2.0	20	94	0	69	20	35	28	15	1.93
45317889--45317939	20	2.5	20	87	0	66	21	27	31	19	1.97
45319049--45319081	17	2.0	17	94	5	59	36	15	0	48	1.45
45319361--45319588	46	5.0	46	86	4	282	20	24	14	40	1.90
45345605--45345765	44	3.7	44	76	17	172	19	21	29	29	1.98
45345601--45345764	88	1.9	89	89	6	262	19	21	29	29	1.98
45345983--45346020	19	2.0	20	85	15	53	36	0	23	39	1.55
45353082--45353254	46	3.7	46	77	13	201	21	20	27	30	1.98
45353079--45353249	93	1.8	93	94	0	306	21	21	28	29	1.98
45353478--45353515	19	2.0	20	85	15	53	36	0	23	39	1.55
45357450--45357493	21	2.1	21	82	0	52	52	18	13	15	1.75
45358133--45358171	20	2.0	20	94	0	69	20	35	28	15	1.93
45358133--45358183	20	2.5	20	87	0	66	21	27	31	19	1.97
45359297--45359329	17	2.0	17	94	5	59	36	15	0	48	1.45
45359609--45359836	46	5.0	46	86	4	282	20	24	14	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45366931--45367486	288	1.9	288	87	1	810	28	29	15	26	1.96
45376333--45376406	39	1.9	37	86	5	103	27	9	2	60	1.41
45378273--45378509	49	4.8	49	81	7	282	29	26	18	25	1.98
45378275--45378516	99	2.5	98	85	6	328	28	27	19	24	1.98
45384167--45384206	15	2.7	15	88	0	62	55	10	17	17	1.69
45386993--45387234	49	4.9	50	76	8	242	28	26	19	26	1.98
45387007--45387239	100	2.3	101	84	5	287	28	27	18	24	1.98
45389545--45389590	5	9.4	5	86	11	60	19	2	0	78	0.86
45389546--45389607	20	3.0	21	84	11	74	22	1	0	75	0.88
45389552--45389605	28	1.9	28	85	7	74	24	1	0	74	0.92
45390586--45390777	99	1.9	99	88	4	289	30	13	22	32	1.93
45391434--45391481	10	4.8	10	87	10	71	25	8	2	64	1.32
45392205--45392285	39	2.1	39	90	6	130	25	11	2	60	1.43
45393765--45393848	31	2.7	31	79	1	87	19	15	7	58	1.60
45398359--45398548	96	2.0	96	93	0	326	26	20	14	38	1.91
45399145--45399180	16	2.4	16	86	13	51	11	11	0	77	0.99
45400286--45400338	24	2.2	24	89	0	79	11	32	5	50	1.61
45406486--45406906	105	4.0	105	99	0	824	34	19	15	30	1.93
45407814--45407862	19	2.6	18	78	9	53	57	2	2	38	1.22
45409517--45409637	38	3.2	38	86	3	163	27	25	14	33	1.94
45421871--45422233	46	7.7	48	75	8	223	27	18	29	24	1.98
45421870--45422233	94	3.8	96	74	13	283	27	18	29	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45435312--45435355	23	1.9	23	95	0	79	54	9	13	22	1.67
45436289--45436341	21	2.5	22	79	11	67	33	22	16	26	1.96
45436361--45436406	22	2.0	22	87	8	65	39	19	10	30	1.86
45445132--45445192	28	2.2	30	82	11	76	36	3	9	50	1.52
45448538--45448761	47	4.8	48	77	10	180	21	29	19	29	1.98
45448541--45448801	46	5.6	46	76	11	167	22	28	19	29	1.98
45448541--45448798	140	1.8	140	81	4	324	22	28	18	29	1.98
45448677--45448803	47	2.8	43	77	11	128	22	27	19	29	1.98
45450520--45450593	30	2.5	30	95	0	130	28	36	18	16	1.93
45451907--45451951	21	2.1	21	87	0	63	37	8	6	46	1.61
45452119--45452179	32	1.9	32	86	6	88	44	11	8	36	1.71
45453185--45453209	10	2.5	10	100	0	50	28	0	0	72	0.86
45453190--45453232	17	2.6	17	82	17	63	34	0	0	65	0.93
45453188--45453251	10	7.6	9	79	13	50	32	0	0	67	0.91
45457921--45457976	21	2.7	21	88	0	85	25	7	37	30	1.82
45461500--45461652	32	4.8	32	86	0	225	46	9	12	32	1.73
45461500--45461652	64	2.4	64	92	0	252	46	9	12	32	1.73
45462870--45462905	18	2.0	18	100	0	72	44	11	16	27	1.82
45463945--45463980	19	1.9	19	94	5	65	38	13	19	27	1.90
45466563--45466674	40	2.8	40	86	2	154	29	20	22	27	1.98
45466579--45466759	40	4.5	40	87	4	213	24	18	26	29	1.98
45471236--45471385	66	2.3	65	82	6	162	26	10	17	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45471254--45471385	66	2.0	65	85	4	176	26	11	17	44	1.82
45477373--45477453	41	2.0	41	82	4	101	20	20	39	18	1.93
45481182--45481211	11	2.7	11	94	0	51	83	0	3	13	0.77
45485037--45485212	46	3.8	45	79	12	205	21	21	28	28	1.98
45485135--45485207	24	3.1	24	61	28	57	19	23	28	28	1.98
45485034--45485204	93	1.8	93	93	0	297	21	21	29	28	1.98
45494383--45494505	53	2.3	54	92	2	203	52	9	21	17	1.73
45495633--45495850	79	2.8	78	86	5	291	26	22	27	24	2.00
45495639--45495840	39	5.2	40	86	6	272	25	21	27	25	1.99
45496071--45496114	22	2.0	21	83	16	54	31	18	13	36	1.90
45502410--45502529	50	2.4	51	92	4	199	50	10	21	17	1.75
45504735--45504879	40	3.7	40	81	6	172	26	20	27	25	1.99
45504749--45504902	80	2.0	77	81	8	177	26	20	27	25	1.99
45512870--45513052	40	4.6	40	80	6	194	24	21	28	26	1.99
45512921--45513085	79	2.1	79	80	6	183	26	20	27	26	1.99
45524434--45524604	93	1.8	93	93	0	297	28	28	21	22	1.99
45524431--45524601	46	3.7	46	76	13	188	29	27	21	22	1.99
45545879--45545998	59	2.0	59	95	0	213	32	20	15	32	1.93
45552411--45552569	43	3.7	43	71	16	134	25	18	26	29	1.98
45566150--45566301	43	3.5	43	78	13	145	24	19	25	30	1.98
45567888--45568002	39	2.9	40	86	2	160	31	25	20	23	1.98
45575886--45576017	40	3.3	40	89	3	196	30	25	21	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45579678--45579805	35	3.5	35	74	12	114	32	24	11	32	1.91
45587612--45587718	20	5.3	20	94	2	180	35	10	19	34	1.86
45587634--45587710	9	7.9	9	72	16	64	35	9	20	35	1.85
45587767--45587827	25	2.4	26	76	15	65	31	22	21	24	1.98
45588036--45588137	31	3.1	31	74	17	96	39	16	21	22	1.92
45588053--45588151	38	2.6	39	92	6	168	41	15	19	24	1.89
45594225--45594488	40	6.7	40	89	4	349	25	22	27	25	2.00
45594226--45594521	80	3.7	77	82	10	289	26	21	27	24	2.00
45597814--45597880	20	3.3	20	95	4	118	35	10	19	34	1.86
45597825--45597880	11	5.5	11	75	16	66	35	10	19	33	1.87

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