genome.fa.s9.2.7.7.80.10.50.1000.180.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  180  of  259  ( 31025 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)
58365514--58365568	28	2.0	28	100	0	110	32	7	27	32	1.84
58379256--58379304	17	2.6	19	81	15	57	20	10	0	69	1.17
58381709--58381774	28	2.3	29	80	12	73	30	9	1	59	1.38
58384960--58385023	30	2.1	30	81	16	71	37	3	3	56	1.31
58387696--58387729	17	1.9	18	88	5	52	58	0	2	38	1.13
58387862--58387901	22	1.9	21	85	10	55	42	12	12	32	1.80
58390316--58390374	28	2.1	28	80	0	64	25	3	5	66	1.28
58391577--58391632	22	2.5	22	94	2	94	48	5	10	35	1.61
58392123--58392215	46	2.0	46	81	8	109	41	1	1	55	1.14
58392163--58392273	34	3.2	35	81	11	104	42	2	0	54	1.14
58392187--58392259	21	3.5	22	78	15	75	42	1	0	56	1.08
58392317--58392349	14	2.3	15	94	5	59	42	0	0	57	0.98
58392627--58392668	16	2.8	15	82	10	50	54	0	4	40	1.21
58398878--58398962	42	2.0	42	100	0	170	35	9	22	32	1.86
58401629--58401720	29	3.2	28	87	1	105	22	15	32	29	1.95
58402987--58403019	18	1.9	17	88	11	50	45	12	15	27	1.81
58407950--58408001	21	2.5	22	81	15	65	11	3	21	63	1.43
58408156--58408287	45	3.0	45	83	6	160	28	19	16	35	1.94
58408171--58408330	44	3.6	44	81	2	160	31	18	17	32	1.94
58408171--58408381	88	2.3	89	77	9	194	31	18	17	32	1.94
58409339--58409400	30	2.1	30	96	0	115	24	14	24	37	1.93
58414364--58414504	3	47.3	3	72	12	94	58	3	6	31	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58414675--58414700	12	2.2	12	100	0	52	42	0	7	50	1.31
58415012--58415175	81	2.0	81	98	0	319	44	4	28	21	1.73
58415668--58415710	17	2.5	17	88	3	59	27	0	6	65	1.18
58416638--58416921	43	6.5	43	69	18	183	21	24	21	32	1.98
58416728--58417001	44	6.3	42	69	7	172	21	23	21	33	1.97
58416770--58417001	87	2.7	87	94	0	401	19	24	22	33	1.97
58424135--58424195	9	6.8	9	84	0	68	31	8	18	42	1.79
58424350--58424374	12	2.1	12	100	0	50	16	24	36	24	1.94
58428122--58428293	93	1.8	93	94	0	308	27	29	21	21	1.99
58428115--58428290	46	3.8	46	79	12	207	28	28	21	21	1.98
58428164--58428302	47	3.0	46	75	16	144	29	28	19	22	1.98
58447751--58447894	3	48.3	3	73	12	100	58	3	6	31	1.40
58448062--58448087	12	2.2	12	100	0	52	42	0	7	50	1.31
58448396--58448555	80	2.0	79	96	2	295	45	5	29	20	1.72
58449041--58449087	17	2.7	17	87	9	60	31	0	6	61	1.21
58450003--58450286	43	6.5	43	69	18	183	21	24	21	32	1.98
58449953--58450156	86	2.3	86	81	9	218	22	25	21	30	1.98
58450093--58450366	44	6.3	42	69	7	172	21	23	21	33	1.97
58450135--58450366	87	2.7	87	94	0	401	19	24	22	33	1.97
58457505--58457565	9	6.8	9	84	0	68	31	8	18	42	1.79
58457721--58457745	12	2.1	12	100	0	50	16	24	36	24	1.94
58461502--58461673	93	1.8	93	94	0	308	27	29	21	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58461495--58461670	46	3.8	46	79	12	207	28	28	21	21	1.98
58461544--58461682	47	3.0	46	75	16	144	29	28	19	22	1.98
58469609--58469641	4	8.2	4	100	0	66	75	0	0	24	0.80
58469739--58469870	3	44.3	3	69	13	67	56	3	7	31	1.45
58469724--58469773	21	2.5	20	81	12	59	62	6	4	28	1.37
58470311--58470355	22	1.9	22	86	13	63	57	0	4	37	1.19
58479881--58479933	21	2.5	21	75	6	54	15	7	16	60	1.57
58481791--58481916	63	2.0	63	84	6	166	19	12	24	42	1.86
58481980--58482683	235	2.9	232	85	4	868	33	10	19	36	1.86
58484128--58484379	96	2.6	96	83	5	305	27	31	15	25	1.95
58486069--58486129	29	2.1	29	96	0	113	52	18	6	22	1.68
58487914--58487974	31	2.0	31	93	0	104	44	8	9	37	1.68
58491309--58491367	29	2.0	29	86	3	82	37	5	6	50	1.51
58498665--58498690	9	2.9	9	100	0	52	88	0	0	11	0.52
58503923--58503954	15	2.1	15	100	0	64	25	6	21	46	1.74
58504978--58505004	14	1.9	14	100	0	54	66	0	0	33	0.92
58506061--58506096	17	2.2	17	90	5	56	63	2	0	33	1.08
58507015--58507054	20	2.0	21	85	5	55	50	0	2	47	1.14
58507436--58507501	23	3.1	23	71	24	72	45	6	6	42	1.53
58520420--58520451	6	5.3	6	92	0	55	15	0	3	81	0.82
58526164--58526255	38	2.4	38	87	1	123	28	18	16	36	1.92
58529891--58529918	13	2.2	13	100	0	56	32	7	0	60	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58537764--58537793	15	2.0	15	100	0	60	20	13	0	66	1.24
58539058--58539103	14	3.0	15	84	12	58	28	2	2	67	1.14
58539524--58539571	24	2.0	24	84	8	62	64	6	0	29	1.18
58540184--58540285	44	2.3	43	93	3	177	40	5	1	51	1.37
58540420--58540448	13	2.2	13	100	0	58	55	6	0	37	1.27
58540483--58540557	22	3.3	23	74	10	64	42	4	1	52	1.28
58542873--58542901	14	2.1	14	100	0	58	44	6	0	48	1.29
58543591--58543622	13	2.3	15	89	10	50	21	0	3	75	0.95
58547923--58547949	12	2.2	12	100	0	54	51	0	0	48	1.00
58555355--58555408	21	2.5	21	73	8	56	48	1	3	46	1.30
58555556--58555600	24	1.9	24	81	4	56	42	11	0	46	1.39
58555582--58555627	24	2.0	23	83	12	58	45	4	0	50	1.21
58561579--58561643	19	3.6	19	78	12	75	52	0	0	47	1.00
58561577--58561643	18	3.8	18	73	15	68	52	0	0	47	1.00
58566272--58566327	22	2.5	22	80	8	60	51	0	1	46	1.11
58570950--58570991	22	1.9	22	95	0	75	45	11	4	38	1.62
58571419--58571443	11	2.3	11	100	0	50	44	20	0	36	1.52
58574703--58574758	24	2.3	24	87	3	76	37	0	0	62	0.95
58574705--58574756	11	4.5	11	81	9	68	34	0	0	65	0.93
58576880--58577107	46	5.0	46	89	4	277	42	14	21	21	1.87
58576881--58577095	92	2.3	92	88	4	310	43	13	21	21	1.86
58578495--58578522	13	2.2	13	100	0	56	35	0	14	50	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58580517--58580720	53	3.8	53	73	8	135	37	16	23	22	1.93
58587665--58587867	87	2.3	88	81	0	237	25	21	18	35	1.95
58589541--58589589	25	2.0	25	87	0	71	42	14	12	30	1.82
58596538--58596570	17	1.9	17	93	0	57	51	0	0	48	1.00
58599825--58599851	3	9.0	3	100	0	54	66	0	0	33	0.92
58600268--58600299	3	10.7	3	100	0	64	0	31	0	68	0.90
58603141--58603245	51	2.1	51	98	0	201	27	7	24	40	1.82
58608463--58608589	39	3.2	39	93	1	200	26	28	21	23	1.99
58617345--58617382	3	12.7	3	94	0	58	5	31	0	63	1.17
58624108--58624134	2	13.5	2	100	0	54	0	0	48	51	1.00
58625128--58625159	13	2.5	13	100	0	64	37	28	0	34	1.57
58629154--58629205	24	2.2	24	89	0	77	15	53	13	17	1.72
58629162--58629253	24	3.8	24	89	0	94	23	45	15	15	1.84
58629198--58629292	24	4.0	24	97	0	163	33	42	13	10	1.79
58632449--58632491	22	2.0	21	81	4	50	55	4	9	30	1.52
58634713--58634775	20	3.2	20	76	17	69	47	0	0	52	1.00
58634779--58634821	16	2.9	15	87	12	63	53	0	0	46	1.00
58634783--58634820	16	2.3	17	95	4	69	57	0	0	42	0.98
58636821--58636884	29	2.1	31	83	11	80	35	0	3	60	1.12
58636862--58636894	8	4.1	8	100	0	66	24	0	0	75	0.80
58642930--58642960	8	3.9	8	91	0	53	3	22	25	48	1.66
58644797--58644840	19	2.4	18	85	7	54	40	9	0	50	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58646570--58646668	28	3.4	27	70	20	74	25	28	20	26	1.99
58646570--58646704	60	2.2	59	82	8	148	25	25	20	28	1.99
58648291--58648334	19	2.4	18	85	7	54	40	9	0	50	1.34
58652515--58652578	28	2.3	28	100	0	128	32	15	6	45	1.71
58652515--58652586	28	2.6	28	93	4	110	31	16	6	44	1.74
58652515--58652596	28	2.9	28	89	3	76	32	15	8	42	1.78
58652566--58652656	18	5.1	18	75	0	83	37	18	10	32	1.86
58654033--58654079	19	2.5	18	86	6	67	8	14	4	72	1.24
58654093--58654133	21	2.0	21	85	0	55	51	2	0	46	1.14
58654089--58654134	13	3.5	13	80	19	51	54	2	0	43	1.12

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