genome.fa.s4.2.7.7.80.10.50.1000.127.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  127  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)
40551389--40551572	67	2.8	64	77	8	194	29	17	29	22	1.97
40554218--40554249	15	2.0	17	88	11	50	25	0	31	43	1.55
40557332--40557389	29	2.0	29	96	0	107	39	12	6	41	1.69
40560892--40560924	14	2.4	14	95	5	59	33	6	0	60	1.21
40563990--40564050	19	3.3	18	80	17	63	40	3	4	50	1.40
40563889--40564355	241	2.0	238	85	4	635	37	10	7	45	1.65
40568885--40568953	16	4.3	16	71	12	61	44	13	13	28	1.80
40568928--40568974	16	3.1	15	82	17	53	36	10	14	38	1.81
40569108--40569144	17	2.2	17	90	0	56	45	24	5	24	1.74
40589162--40589191	11	2.7	11	94	0	51	60	3	0	36	1.14
40595368--40595539	93	1.8	93	92	0	290	26	29	21	22	1.99
40595361--40595536	46	3.8	46	75	12	189	27	28	21	22	1.99
40598276--40598343	27	2.5	27	83	4	84	35	25	23	16	1.95
40604451--40604488	16	2.4	16	95	0	67	55	0	23	21	1.44
40615512--40615646	29	4.8	28	77	7	137	25	31	14	28	1.94
40615512--40615646	57	2.4	56	81	5	137	25	31	14	28	1.94
40636164--40636197	16	2.1	16	100	0	68	32	23	29	14	1.94
40637973--40638173	40	5.1	40	91	3	318	23	22	27	25	2.00
40653178--40653419	40	6.1	40	90	1	346	23	22	27	26	2.00
40656520--40656742	47	4.8	47	80	8	242	23	30	18	27	1.98
40656518--40656786	140	1.9	141	86	6	386	24	29	18	27	1.98
40656520--40656786	94	2.8	93	79	9	276	24	29	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40657123--40657179	30	1.9	30	88	0	87	26	24	14	35	1.93
40665206--40665386	24	7.5	24	87	2	247	32	32	13	21	1.92
40667113--40667287	49	3.5	49	84	1	152	26	17	25	29	1.98
40667159--40667287	49	2.6	49	91	0	195	24	17	27	30	1.97
40669745--40669778	17	2.0	17	94	0	59	38	5	0	55	1.24
40676057--40676191	24	5.6	24	86	3	173	32	33	14	20	1.92
40676057--40676191	72	1.9	72	85	3	191	32	33	14	20	1.92
40677514--40677547	17	2.0	17	94	0	59	38	5	0	55	1.24
40677897--40678105	46	4.5	45	79	4	168	23	27	18	30	1.98
40677938--40678108	92	1.8	93	82	6	222	23	27	18	29	1.98
40686824--40686853	15	2.0	15	93	0	51	36	0	10	53	1.35
40690312--40690580	46	5.8	46	73	14	239	22	19	28	28	1.98
40690358--40690526	47	3.6	47	70	10	166	23	18	28	28	1.98
40690308--40690572	93	2.8	93	91	0	440	22	20	29	28	1.98
40694752--40694886	48	2.8	48	81	3	155	25	18	30	25	1.98
40694711--40694882	49	3.5	48	76	7	168	27	18	29	25	1.98
40698522--40698601	32	2.5	33	74	10	83	26	21	26	26	1.99
40717737--40717968	49	4.7	49	80	5	268	31	27	17	24	1.97
40720399--40720452	27	2.0	27	88	0	81	38	5	14	40	1.70
40720678--40720910	49	4.7	50	80	2	263	26	17	26	30	1.97
40720684--40720910	101	2.3	98	82	5	276	26	17	25	30	1.97
40722876--40722928	23	2.3	23	93	0	88	33	22	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40722929--40722968	15	2.7	15	96	0	71	37	27	0	35	1.57
40728295--40728446	27	5.6	27	92	3	232	26	13	28	30	1.94
40728295--40728446	55	2.8	55	93	0	250	26	13	28	30	1.94
40736321--40736472	27	5.6	27	93	3	241	26	13	28	30	1.94
40736321--40736472	55	2.8	55	94	0	259	26	13	28	30	1.94
40744295--40744449	72	2.2	72	87	0	229	33	18	27	20	1.96
40747947--40748016	35	2.0	35	91	0	113	34	20	10	35	1.86
40772943--40773037	40	2.4	39	85	3	129	38	37	11	11	1.78
40782163--40782253	6	15.3	6	81	11	107	17	3	0	79	0.87
40782422--40782513	45	2.0	45	95	0	166	43	18	21	16	1.88
40785188--40785220	13	2.6	13	90	4	50	39	0	12	48	1.40
40789841--40790022	47	3.8	47	80	2	184	23	28	21	26	1.99
40790624--40790686	31	2.1	31	84	3	83	33	23	6	36	1.80
40798310--40798363	25	2.1	27	83	10	69	33	5	1	59	1.31
40800628--40800704	38	2.0	38	97	0	145	29	9	15	45	1.77
40810299--40810346	25	1.9	25	82	0	60	12	14	25	47	1.79
40823990--40824069	39	2.1	39	100	0	160	22	35	15	27	1.94
40830187--40830260	29	2.6	29	86	4	96	25	31	16	27	1.96
40836132--40836198	28	2.4	28	89	0	98	29	25	11	32	1.92
40853567--40853689	45	2.9	42	79	9	133	26	18	26	29	1.98
40860743--40860914	93	1.8	93	93	0	299	28	28	20	22	1.99
40860738--40860910	46	3.7	46	78	10	199	29	27	20	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40861335--40861393	29	2.0	29	90	3	91	30	23	8	37	1.85
40868771--40868830	30	2.0	30	90	0	93	30	25	8	36	1.85
40869755--40869789	12	3.0	12	91	4	54	54	0	22	22	1.45
40869755--40869797	19	2.3	18	88	4	59	53	0	23	23	1.46
40874238--40874263	13	2.0	13	100	0	52	38	7	15	38	1.76
40878233--40878307	28	2.7	28	87	0	96	36	12	22	29	1.90
40884177--40884250	29	2.6	29	86	4	96	27	16	31	25	1.96
40904299--40904473	46	3.8	46	77	13	196	22	20	28	29	1.98
40913083--40913191	26	4.2	26	97	0	209	31	6	26	35	1.82
40916881--40916942	27	2.2	29	77	11	67	50	3	3	43	1.34
40917071--40917143	10	7.1	10	69	17	51	61	0	4	34	1.15
40917048--40917112	18	3.8	18	70	24	50	61	0	4	33	1.16
40927261--40927296	17	2.1	17	89	0	54	38	0	0	61	0.96
40927675--40927713	20	2.0	20	90	5	62	69	2	12	15	1.30
40928239--40928560	152	2.1	152	92	1	540	28	7	6	57	1.51
40928657--40928695	20	2.0	19	95	5	69	15	15	2	66	1.36
40932797--40932833	2	18.5	2	100	0	74	0	48	0	51	1.00
40934854--40934892	12	3.2	12	89	10	53	0	0	17	82	0.68
40936982--40937500	88	6.0	86	81	6	426	31	12	10	44	1.77
40937277--40937438	84	1.9	84	92	2	272	30	11	9	48	1.71
40937474--40937647	77	2.2	78	79	7	183	29	13	12	44	1.81
40938083--40938172	40	2.2	40	90	3	137	31	25	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40938186--40938286	40	2.5	40	80	0	112	32	18	21	26	1.97
40938542--40938592	14	3.6	14	76	5	50	19	0	31	49	1.49
40938542--40938593	21	2.5	21	84	6	61	21	0	30	48	1.51
40938805--40938831	14	1.9	14	100	0	54	7	0	55	37	1.28
40941051--40941104	23	2.5	22	87	6	74	59	7	1	31	1.36
40941054--40941122	3	22.3	3	76	5	66	62	5	1	30	1.27
40941586--40941623	11	3.2	12	88	11	60	47	0	52	0	1.00
40942490--40942514	7	3.6	7	100	0	50	64	0	0	36	0.94
40942497--40942554	22	2.6	22	77	0	71	62	5	0	32	1.18
40942488--40942543	29	1.9	29	85	0	76	67	5	0	26	1.11
40942490--40942543	14	3.8	14	75	4	54	66	5	0	27	1.13
40945154--40945190	8	4.5	8	89	3	56	40	2	2	54	1.29
40947147--40947176	15	1.9	16	93	6	53	53	3	6	36	1.44
40952712--40952772	30	2.0	30	83	0	77	31	22	8	37	1.84
40957158--40957218	30	2.0	30	83	0	77	31	22	8	37	1.84
40958910--40958967	28	2.0	29	93	3	100	32	1	0	65	1.03
40958900--40958959	15	4.2	15	75	10	63	30	0	0	70	0.88
40959003--40959053	12	4.5	12	72	22	56	31	0	1	66	1.03
40958911--40959053	28	4.5	30	74	18	96	32	2	2	62	1.21
40959080--40959120	13	2.9	15	75	10	50	41	4	0	53	1.22
40959087--40959134	21	2.3	21	78	7	53	41	4	2	52	1.32
40959670--40959743	31	2.4	31	78	13	82	64	2	2	29	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40964386--40964453	34	2.0	34	97	0	127	51	17	2	27	1.60
40964483--40964541	21	2.8	21	78	2	55	42	38	1	16	1.59
40964475--40964515	14	2.9	15	85	7	59	34	43	2	19	1.64
40964507--40964614	22	5.0	21	69	16	69	45	29	0	24	1.59
40964575--40964619	14	3.2	14	80	0	54	48	26	0	24	1.51
40964713--40964760	7	6.7	7	83	4	51	39	35	2	22	1.66
40964766--40964813	21	2.2	21	88	7	69	43	37	0	18	1.51
40964791--40964838	25	1.9	25	87	8	71	39	41	0	18	1.51
40964819--40964853	15	2.4	15	90	4	54	45	34	0	20	1.51
40964821--40964904	22	3.9	21	73	6	69	46	29	1	22	1.60

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