genome.fa.s5.2.7.7.80.10.50.1000.101.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   

This is table  101  of  318  ( 38109 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)
32953900--32954252	126	2.8	125	85	3	465	35	18	19	26	1.94
32955430--32955515	42	2.0	42	100	0	172	52	6	4	36	1.49
32955947--32955982	18	2.0	18	94	0	63	38	2	27	30	1.71
32956600--32956651	7	7.4	7	93	0	86	57	11	1	28	1.44
32956787--32956831	20	2.3	19	81	11	54	48	4	4	42	1.43
32957821--32957865	22	2.0	22	91	8	74	35	0	24	40	1.56
32961362--32961510	25	5.9	24	71	9	91	30	6	4	58	1.42
32961446--32961501	26	2.2	25	87	3	76	32	1	3	62	1.23
32961333--32961513	52	3.4	49	70	11	128	29	8	3	58	1.43
32961467--32961537	36	1.9	37	82	2	90	25	2	5	66	1.27
32961455--32961575	63	2.0	61	83	6	154	25	4	4	65	1.31
32962313--32962359	19	2.4	20	96	3	87	51	17	10	21	1.75
32962386--32962531	27	5.7	26	82	11	176	30	3	1	64	1.18
32967693--32967736	19	2.2	20	88	11	65	84	0	9	6	0.79
32968634--32968826	89	2.2	89	84	1	253	34	17	17	30	1.93
32968723--32968975	133	1.9	133	86	1	364	30	18	21	29	1.97
32968855--32969031	89	2.0	89	83	2	221	34	15	19	29	1.93
32968697--32968978	44	6.4	44	69	6	165	33	17	20	28	1.95
32968723--32969054	133	2.5	132	80	5	303	32	17	20	29	1.96
32969124--32969303	45	3.9	45	78	8	198	33	15	20	30	1.94
32969164--32969336	51	3.5	51	75	10	180	32	17	19	30	1.94
32969120--32969585	96	4.9	96	74	9	385	33	17	19	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32969366--32969643	44	6.1	45	71	8	141	33	18	19	28	1.96
32971267--32971626	27	14.5	24	68	18	136	30	5	3	61	1.33
32971267--32971414	52	2.9	49	74	8	134	31	6	4	58	1.41
32971440--32971626	27	7.1	26	81	11	195	30	4	1	63	1.23
32971487--32971536	21	2.5	20	78	15	57	32	2	0	66	1.03
32973584--32973649	25	2.6	25	85	0	96	7	31	19	40	1.80
32973668--32973740	36	2.0	36	100	0	146	13	13	16	56	1.68
32981168--32981198	3	10.3	3	100	0	62	67	0	0	32	0.91
32981315--32981376	29	2.2	28	80	11	72	67	1	4	25	1.19
32986619--32986777	37	4.3	38	76	13	170	38	19	19	22	1.94
32989567--32989600	17	2.1	16	89	10	52	47	0	8	44	1.34
32990727--32990880	24	6.4	24	85	3	204	24	14	29	32	1.94
32990727--32990880	48	3.2	48	91	1	238	24	14	29	32	1.94
32990727--32990905	24	7.4	25	81	10	99	25	13	29	31	1.94
32990727--32990904	72	2.5	72	82	7	175	24	14	29	32	1.94
32997151--32997184	17	2.1	16	89	10	52	47	0	8	44	1.34
32998310--32998466	24	6.5	24	85	2	210	23	14	29	32	1.94
32998310--32998490	72	2.5	72	84	5	224	23	13	30	32	1.94
32998311--32998491	24	7.5	24	82	6	97	24	13	30	31	1.94
32998310--32998466	48	3.3	48	91	1	244	23	14	29	32	1.94
33000102--33000716	44	13.9	44	74	6	368	29	22	16	31	1.96
33000212--33000660	178	2.5	178	89	1	659	29	22	16	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33000109--33000714	89	6.8	89	80	2	542	29	22	16	30	1.96
33002629--33002736	43	2.5	43	76	10	114	33	15	22	28	1.95
33012777--33012832	22	2.5	22	97	0	103	19	33	32	14	1.92
33013571--33013614	18	2.4	18	88	0	61	40	15	11	31	1.83
33014895--33014919	13	1.9	13	100	0	50	60	0	0	40	0.97
33018086--33018138	26	2.0	26	82	7	63	26	15	20	37	1.92
33019622--33019729	26	4.2	26	91	0	171	37	23	6	33	1.80
33022971--33023012	18	2.3	19	83	4	50	0	26	4	69	1.08
33023333--33023362	3	10.0	3	92	0	51	33	0	3	63	1.11
33023491--33023563	32	2.3	30	84	11	85	50	5	4	39	1.44
33031290--33031339	15	3.3	15	78	13	50	78	2	2	18	0.95
33033577--33034031	227	2.0	227	100	0	910	29	20	14	36	1.91
33034801--33034849	8	6.1	8	88	9	64	69	0	0	30	0.89
33037807--33038168	131	2.8	131	84	2	404	32	17	19	30	1.95
33041091--33041255	87	1.9	87	91	0	267	29	23	16	29	1.97
33041274--33041593	44	7.3	44	88	3	423	25	30	16	27	1.97
33041274--33041592	132	2.4	132	90	1	496	26	30	16	27	1.97
33049953--33050130	27	6.6	27	84	5	180	29	28	15	26	1.96
33049974--33050129	82	1.9	81	88	3	233	29	28	15	26	1.96
33060703--33060740	19	2.0	19	85	10	51	55	28	0	15	1.41
33062504--33062548	12	3.6	13	77	16	51	55	0	4	40	1.20
33062925--33062953	9	3.2	9	100	0	58	62	0	13	24	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33063702--33063894	50	3.8	51	71	8	162	30	10	19	39	1.86
33070050--33070094	12	3.6	13	77	16	51	55	0	4	40	1.20
33070471--33070499	9	3.2	9	100	0	58	62	0	13	24	1.32
33071147--33071339	50	3.8	51	71	8	162	30	10	19	39	1.86
33073402--33073441	19	2.1	19	100	0	80	35	10	10	45	1.71
33074200--33074244	11	3.8	11	81	16	54	17	0	4	77	0.92
33076186--33076287	48	2.1	48	85	0	141	29	21	16	32	1.95
33076271--33076355	37	2.3	36	86	6	116	27	24	16	31	1.96
33078608--33078664	28	2.0	28	96	0	105	26	19	15	38	1.92
33085659--33085690	16	2.0	16	93	0	55	28	6	12	53	1.62
33089245--33089304	30	2.0	31	83	3	77	40	20	25	15	1.90
33093747--33093782	3	12.0	3	87	0	54	30	2	36	30	1.72
33094355--33094379	12	2.1	12	100	0	50	60	8	0	32	1.26
33104502--33104544	20	2.0	22	91	8	72	60	2	0	37	1.10
33104502--33104552	20	2.4	21	87	12	70	60	3	0	35	1.15
33104508--33104551	21	2.1	21	87	8	63	63	4	0	31	1.14
33108381--33108422	14	2.9	15	75	13	52	28	11	0	59	1.33
33108816--33108901	30	2.9	30	98	0	163	29	0	12	58	1.35
33111525--33111563	20	2.0	20	89	0	60	61	10	2	25	1.41
33112171--33112222	21	2.6	21	82	11	65	69	9	1	19	1.26
33112187--33112255	23	3.1	23	73	19	58	68	7	1	23	1.23
33113428--33113495	30	2.3	29	87	2	109	26	51	5	16	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33113438--33113490	17	3.4	17	68	26	53	22	49	7	20	1.74
33113977--33114028	24	2.2	23	83	10	61	36	3	0	59	1.16
33114054--33114112	25	2.3	26	80	8	77	37	5	1	55	1.32
33114101--33114194	25	3.9	23	75	13	73	30	6	5	57	1.46
33114134--33114197	25	2.5	24	85	7	74	31	4	6	57	1.44
33121196--33121290	30	3.1	30	73	11	86	41	11	1	46	1.47
33127182--33127228	22	2.2	21	85	14	62	46	8	17	27	1.76
33127212--33127257	11	4.4	11	81	8	51	45	0	26	28	1.54
33129384--33129457	13	5.7	13	78	0	67	36	22	6	33	1.81
33146582--33146672	45	2.0	45	100	0	182	35	13	0	51	1.41
33147254--33147297	22	2.0	22	86	0	61	34	11	11	43	1.77
33147276--33147320	18	2.5	18	85	0	63	33	17	15	33	1.92
33148125--33148189	22	3.0	21	77	4	58	6	13	6	73	1.21
33168456--33168601	73	2.0	73	98	0	283	32	12	11	43	1.78
33168465--33168619	73	2.1	72	90	4	220	32	14	10	41	1.80
33173745--33173800	15	3.7	15	74	9	60	41	28	5	25	1.77
33173945--33173983	16	2.4	17	83	12	55	64	15	0	20	1.30
33184689--33185086	48	7.9	48	87	9	528	34	6	28	30	1.83
33184713--33185022	158	2.0	156	96	1	575	35	5	27	31	1.80
33185207--33185309	37	2.8	37	95	0	179	23	19	32	25	1.98
33186375--33186661	127	2.3	127	79	2	310	39	18	16	25	1.91
33186790--33186843	23	2.5	23	82	8	60	61	7	0	31	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33187044--33187089	15	2.9	15	90	6	65	67	0	6	26	1.15
33187059--33187160	14	7.2	13	72	25	59	64	1	7	25	1.31
33187054--33187175	29	4.2	30	69	16	76	63	1	7	27	1.30
33187108--33187172	23	2.8	23	70	23	55	64	3	6	26	1.32
33195798--33195829	16	2.0	16	93	0	55	43	3	12	40	1.58
33201469--33201521	21	2.5	21	93	0	88	30	39	9	20	1.84
33201903--33201967	17	3.8	16	76	12	58	23	1	4	70	1.14
33202696--33202766	19	3.5	19	73	14	70	45	5	8	40	1.58
33202698--33202769	20	3.2	25	61	35	63	45	5	6	41	1.54
33202705--33202776	22	3.4	22	74	14	87	45	6	8	38	1.61

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   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318