genome.fa.s4.2.7.7.80.10.50.1000.131.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  131  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)
42026152--42026506	47	7.6	47	79	10	304	23	29	19	27	1.98
42035369--42035420	18	2.9	18	69	11	52	38	9	1	50	1.46
42036594--42036709	28	4.2	28	76	7	103	24	23	13	38	1.91
42036603--42036707	56	1.9	55	84	5	140	24	22	12	40	1.89
42041911--42042095	79	2.3	81	80	10	211	26	28	22	23	1.99
42041892--42042095	40	5.1	40	78	9	202	25	27	22	24	2.00
42050095--42050279	79	2.3	81	81	8	218	25	28	22	23	1.99
42050076--42050279	40	5.1	40	81	8	229	25	27	22	24	1.99
42058484--42058546	25	2.5	25	76	0	72	28	19	23	28	1.98
42059933--42059966	17	2.0	17	88	0	50	47	11	17	23	1.81
42080419--42080612	51	3.9	51	87	6	283	30	25	12	30	1.93
42080634--42080715	24	3.2	26	86	13	116	25	25	13	35	1.93
42087179--42087427	51	4.9	51	87	2	331	29	25	12	32	1.92
42087180--42087427	101	2.4	102	88	0	354	29	25	12	32	1.93
42087438--42087536	49	2.0	49	92	0	162	31	22	17	29	1.96
42087512--42087583	24	3.0	24	89	4	101	27	20	15	36	1.93
42088632--42088839	51	4.1	51	91	2	330	30	23	14	30	1.95
42088632--42088839	101	2.0	102	91	2	339	30	23	14	30	1.95
42104252--42104422	44	3.8	44	72	10	130	23	28	21	27	1.99
42105177--42105202	12	2.2	12	100	0	52	57	15	11	15	1.65
42108951--42109078	28	4.5	28	85	2	157	28	11	26	32	1.92
42108951--42109078	57	2.2	57	86	2	168	28	11	26	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42112132--42112219	45	2.0	45	88	0	131	23	10	25	40	1.86
42114041--42114159	52	2.3	52	95	0	220	26	23	15	35	1.94
42114041--42114156	24	4.4	27	83	15	163	25	24	14	35	1.94
42124586--42124661	40	1.9	40	88	0	116	15	14	34	35	1.88
42126726--42127028	43	7.1	43	84	1	349	31	24	18	25	1.98
42126682--42127028	86	4.0	86	80	4	344	31	24	19	25	1.98
42126670--42127028	129	2.8	129	81	2	384	32	23	19	24	1.98
42127727--42127762	14	2.6	14	86	4	56	47	13	2	36	1.58
42132276--42132317	9	4.7	9	87	0	66	30	0	21	47	1.51
42132340--42132421	30	2.9	27	78	16	103	37	2	12	47	1.54
42132693--42132723	14	2.2	14	94	0	53	32	6	22	38	1.80
42134975--42135025	9	5.7	9	82	15	61	54	31	7	5	1.53
42134975--42135030	26	2.2	26	96	0	103	55	32	7	5	1.50
42134984--42135015	17	1.9	16	93	6	55	56	34	6	3	1.40
42135112--42135156	19	2.4	19	88	0	63	40	6	46	6	1.56
42139911--42139985	29	2.6	29	82	2	89	26	17	29	26	1.97
42139919--42139995	29	2.7	29	78	8	84	25	16	28	28	1.97
42151229--42151378	43	3.5	43	79	3	158	31	24	16	28	1.96
42156540--42156622	42	2.0	43	82	2	105	31	27	16	24	1.97
42159562--42159807	117	2.1	116	87	2	359	25	23	23	26	2.00
42167185--42167503	162	2.0	162	95	0	575	42	16	10	30	1.81
42173095--42173126	14	2.4	13	90	10	55	62	12	6	18	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42183160--42183254	47	2.0	47	83	4	120	24	27	16	31	1.97
42187608--42187708	50	2.0	50	86	0	139	26	21	20	30	1.98
42188347--42188394	20	2.4	20	89	0	78	18	33	33	14	1.91
42202195--42202293	42	2.3	44	79	10	116	29	14	22	34	1.93
42202160--42202316	85	1.8	85	81	12	198	26	16	24	31	1.96
42202171--42202316	43	3.4	42	72	14	113	26	17	23	32	1.97
42210434--42210500	9	7.7	9	78	9	68	32	0	17	49	1.48
42210407--42210490	36	2.4	34	96	4	150	34	0	16	48	1.47
42212100--42212255	48	3.4	45	81	12	151	25	17	31	25	1.97
42212128--42212296	48	3.6	48	82	9	163	26	15	31	26	1.96
42237462--42237554	47	2.0	48	93	2	161	20	21	27	30	1.98
42237634--42237700	35	1.9	35	90	0	107	35	5	10	47	1.62
42238132--42238199	34	2.0	35	82	8	86	57	4	1	36	1.28
42238242--42238279	20	2.0	20	89	5	60	68	5	0	26	1.11
42238237--42238293	19	3.1	18	76	14	53	68	3	0	28	1.06
42238654--42238845	72	2.7	72	78	9	198	46	13	5	34	1.65
42243901--42243944	22	2.0	22	82	8	54	59	11	2	27	1.44
42244749--42244795	25	1.9	24	91	4	76	59	2	8	29	1.39
42244865--42244904	20	2.0	20	100	0	80	40	15	5	40	1.68
42245215--42245315	40	2.5	40	84	6	125	19	21	15	42	1.89
42245224--42245351	40	3.2	40	82	3	123	20	21	14	42	1.88
42251810--42252008	99	2.0	99	99	0	389	41	4	18	35	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42252229--42252386	67	2.4	65	77	8	162	30	16	29	23	1.96
42266477--42266540	30	2.2	29	94	2	110	25	15	23	35	1.94
42267277--42267451	87	2.0	87	95	0	314	30	4	22	42	1.72
42277469--42277518	22	2.3	21	80	12	57	56	2	0	42	1.11
42279072--42279189	51	2.3	50	85	5	155	27	16	5	50	1.68
42279194--42279227	10	3.4	10	95	0	59	17	17	0	64	1.29
42280428--42280460	13	2.6	13	90	4	50	15	0	3	81	0.80
42286023--42286074	23	2.4	22	79	17	56	65	0	30	3	1.10
42300086--42300114	13	2.2	13	100	0	58	55	13	0	31	1.39
42303931--42304285	47	7.6	45	72	15	224	23	29	20	27	1.99
42303927--42304282	94	3.8	93	78	10	359	23	29	19	27	1.98
42308006--42308037	14	2.4	13	90	10	55	62	12	6	18	1.50
42308435--42308574	52	2.7	51	87	6	201	17	25	27	29	1.98
42316573--42316625	13	4.1	13	95	0	79	20	33	26	18	1.96
42317170--42317308	71	2.0	71	95	0	251	42	5	24	27	1.77
42318151--42318196	21	2.2	21	100	0	92	36	21	15	26	1.93
42331259--42331285	12	2.2	12	100	0	54	14	29	0	55	1.40
42333148--42333615	54	9.0	54	73	13	240	22	23	16	38	1.93
42333169--42333607	55	8.5	54	70	17	240	22	23	17	37	1.94
42333594--42333715	47	2.6	47	92	0	190	24	25	13	36	1.93
42333221--42333702	250	1.9	248	90	2	759	23	23	16	36	1.95
42333169--42333804	298	2.1	299	84	6	815	23	23	16	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42342435--42342490	29	2.0	29	85	3	78	53	10	19	16	1.71
42342435--42342507	27	2.6	28	81	10	71	54	10	15	19	1.69
42342460--42342625	29	5.9	27	68	15	102	57	7	14	19	1.61
42342532--42342593	31	2.0	32	90	3	99	64	6	14	14	1.47
42346406--42346445	14	2.9	14	78	14	55	35	2	0	62	1.09
42349444--42349555	40	2.8	40	77	10	97	30	24	16	28	1.97
42350708--42350740	12	2.8	12	95	0	57	3	33	33	30	1.73
42355835--42355899	20	3.2	20	76	8	60	41	0	1	56	1.08
42356684--42356719	14	2.6	14	95	0	63	30	16	5	47	1.70
42361540--42361578	17	2.3	17	91	8	62	38	0	0	61	0.96
42361540--42361580	16	2.4	17	84	12	57	39	0	0	60	0.96
42362127--42362174	23	2.1	23	100	0	96	25	20	8	45	1.79
42367465--42367499	17	2.0	18	94	5	63	37	0	0	62	0.95
42368171--42368212	19	2.3	19	84	12	52	54	4	11	28	1.57
42368965--42369026	27	2.3	26	78	8	70	51	11	0	37	1.38
42374313--42374360	20	2.5	20	86	10	64	66	2	6	25	1.26
42374355--42374416	27	2.3	26	81	8	79	51	9	0	38	1.35
42376417--42376547	52	2.5	52	92	0	217	58	7	12	21	1.58
42386281--42386322	18	2.4	18	80	4	50	64	0	0	35	0.94
42386269--42386320	26	2.0	26	88	3	77	65	1	0	32	1.04
42386269--42386337	28	2.5	28	81	11	72	62	1	0	36	1.04
42397580--42397634	27	2.0	29	85	7	78	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42397925--42397979	28	1.9	29	88	3	85	56	9	0	34	1.31
42398783--42398817	17	2.1	17	88	0	52	51	0	0	48	1.00
42398777--42398818	21	2.0	21	81	9	50	52	0	2	45	1.13
42405135--42405180	23	2.0	23	95	0	83	36	4	13	45	1.63
42406261--42406310	15	3.4	15	73	15	59	64	2	20	14	1.39
42406254--42406313	29	2.1	29	100	0	120	61	5	20	13	1.50
42406482--42406519	16	2.4	16	90	0	58	15	23	0	60	1.35
42406737--42406778	17	2.4	17	88	11	59	35	2	0	61	1.09
42411786--42412041	40	6.4	40	88	4	342	26	26	21	24	1.99
42415553--42415628	35	2.1	35	95	2	134	44	7	17	30	1.77

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   254   255