genome.fa.s9.2.7.7.80.10.50.1000.169.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  169  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)
54818615--54818640	8	3.2	8	100	0	52	26	26	0	46	1.53
54820086--54820128	21	2.0	21	100	0	86	34	13	9	41	1.77
54825994--54826075	43	1.9	43	90	5	130	31	28	18	21	1.97
54840079--54840183	6	17.5	6	73	11	72	23	16	14	45	1.84
54841447--54841494	6	7.7	6	78	17	53	79	0	16	4	0.89
54841447--54841494	13	3.8	12	76	17	53	79	0	16	4	0.89
54857015--54857081	34	2.0	34	88	2	100	28	23	22	25	1.99
54860995--54861093	42	2.4	42	83	8	130	20	33	29	17	1.95
54869493--54869608	45	2.6	45	90	1	189	31	19	24	25	1.98
54869745--54869952	27	7.7	27	82	0	245	43	15	13	27	1.84
54874221--54874374	29	5.3	29	82	4	157	23	27	11	37	1.89
54875784--54875952	40	4.2	40	90	2	243	26	26	20	26	1.99
54875784--54876008	80	2.8	80	83	4	240	26	25	21	26	2.00
54880373--54880616	40	6.1	40	83	6	264	25	26	22	25	2.00
54888374--54888617	40	6.1	40	83	6	264	25	26	22	25	2.00
54892592--54892649	16	3.6	16	92	0	98	51	27	13	6	1.66
54900286--54900378	43	2.2	41	83	12	109	30	25	17	26	1.97
54910968--54911070	37	2.8	37	95	0	179	24	33	20	22	1.97
54911203--54911322	48	2.5	48	91	0	204	30	27	6	35	1.83
54911308--54911455	47	3.1	47	94	0	242	25	28	12	33	1.92
54911354--54911427	22	3.2	22	63	29	55	22	29	16	31	1.96
54915491--54915893	40	10.0	40	89	2	608	26	29	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54915489--54915895	82	5.0	82	95	0	696	26	28	21	23	1.99
54917178--54917280	37	2.8	37	96	0	188	24	32	20	23	1.98
54917413--54917532	48	2.5	48	90	0	195	30	26	7	35	1.84
54917470--54917761	47	6.1	47	88	4	401	26	28	11	33	1.92
54917539--54917616	25	3.2	25	64	29	69	29	29	10	30	1.90
54924489--54924600	46	2.4	46	81	8	129	35	15	20	28	1.93
54925995--54926197	46	4.4	45	76	3	154	27	21	17	33	1.96
54928632--54928923	27	10.8	27	83	2	354	29	21	7	41	1.81
54928632--54928923	54	5.4	54	87	2	399	29	21	7	41	1.81
54928955--54929051	27	3.6	27	80	4	115	40	21	9	28	1.84
54928955--54929079	27	4.6	27	79	7	103	40	20	8	29	1.83
54928975--54929135	54	2.9	54	81	6	164	40	18	8	32	1.81
54929008--54929137	27	4.7	27	77	11	113	43	18	6	31	1.77
54929182--54929255	27	2.7	27	76	12	71	37	20	20	21	1.94
54929195--54929259	27	2.4	27	82	5	78	35	18	24	21	1.96
54929966--54930032	20	3.3	20	93	4	109	38	10	19	31	1.85
54930082--54930217	52	2.7	51	93	5	224	27	21	23	27	1.99
54930082--54930217	26	5.3	26	88	3	190	27	21	23	27	1.99
54930350--54930441	42	2.2	42	88	0	130	30	13	20	35	1.91
54930465--54930543	31	2.5	31	95	0	140	30	18	25	25	1.98
54932298--54932326	2	14.5	2	100	0	58	51	48	0	0	1.00
54941722--54941771	26	1.9	26	95	0	91	32	20	10	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54942670--54942703	15	2.2	16	89	5	52	64	0	2	32	1.08
54946738--54946802	20	3.4	19	80	6	78	61	0	1	36	1.05
54946739--54946802	19	3.3	20	80	10	80	60	0	1	37	1.06
54946772--54946814	18	2.5	17	82	10	52	53	2	0	44	1.13
54946814--54946853	20	2.0	20	90	0	62	55	5	0	40	1.22
54949470--54949523	21	2.6	21	93	0	99	22	33	31	12	1.92
54958951--54958999	20	2.4	21	96	3	91	38	24	0	36	1.56
54959996--54960059	31	2.1	31	96	0	119	37	18	0	43	1.51
54961581--54961634	28	1.9	28	96	0	99	40	18	9	31	1.82
54966125--54966221	47	2.1	47	98	0	185	22	19	19	38	1.94
54972614--54972658	12	3.8	12	96	0	81	33	26	26	13	1.93
54993094--54993152	29	2.0	29	100	0	118	33	16	10	38	1.83
55006115--55006140	13	2.0	13	100	0	52	15	30	38	15	1.88
55010468--55010513	22	2.0	24	84	16	62	39	6	0	54	1.26
55018488--55018517	6	5.2	6	96	4	53	16	0	0	83	0.65
55020778--55020811	16	2.1	17	94	5	61	41	0	11	47	1.40
55045195--55045245	24	2.2	23	82	10	59	76	15	1	5	1.07
55045861--55046051	37	5.0	37	83	14	246	26	22	15	35	1.94
55045969--55046195	51	4.7	46	87	8	253	28	21	14	35	1.93
55046011--55046195	51	3.6	50	89	5	266	28	21	14	36	1.92
55045969--55046195	99	2.3	96	86	8	298	28	21	14	35	1.93
55045969--55046226	99	2.7	96	80	14	288	28	20	14	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55049326--55049471	49	3.0	49	88	1	220	32	30	13	23	1.93
55050718--55050897	37	5.0	37	89	5	280	25	20	16	38	1.92
55050718--55050897	71	2.5	73	90	4	278	25	20	16	38	1.92
55050861--55051128	46	5.6	46	84	9	338	27	22	14	35	1.93
55050904--55051114	52	4.2	51	85	7	288	27	22	13	35	1.92
55050861--55051128	97	2.7	97	92	1	446	27	22	14	35	1.93
55062739--55062823	42	2.0	42	97	0	161	48	24	7	20	1.74
55067010--55067056	24	2.0	24	86	0	67	14	19	8	57	1.63
55067130--55067334	76	2.7	75	77	6	196	37	19	17	26	1.93
55071785--55071924	40	3.4	41	78	10	126	27	29	15	27	1.96
55073784--55073813	3	10.3	3	92	7	53	30	0	0	70	0.88
55074928--55075197	76	3.6	76	81	5	298	26	20	20	32	1.97
55075009--55075206	40	5.2	39	66	17	119	25	19	20	34	1.96
55074928--55075220	152	1.9	152	82	5	362	26	20	20	33	1.97
55077045--55077097	26	2.0	26	96	0	97	16	1	22	58	1.48
55078442--55078479	14	2.9	13	81	11	51	18	13	10	57	1.63
55083451--55083517	20	3.3	20	93	4	109	37	10	19	32	1.86
55083462--55083517	11	5.5	11	71	16	57	37	10	19	32	1.86
55083567--55083661	26	3.7	26	94	1	156	27	22	23	27	1.99
55087235--55087404	46	3.7	45	75	12	157	29	27	19	24	1.98
55087240--55087410	93	1.8	93	88	0	261	29	27	19	23	1.98
55089806--55089861	15	3.7	15	86	9	87	60	10	16	12	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55093302--55093519	40	5.5	40	88	2	307	24	22	27	25	1.99
55101534--55101711	40	4.5	40	87	3	245	24	23	27	24	2.00
55112057--55112081	9	2.8	9	100	0	50	68	0	0	32	0.90
55112573--55112682	10	11.3	10	72	13	70	40	1	3	54	1.28
55112604--55112687	19	4.4	19	77	7	80	40	2	3	53	1.31
55121922--55122152	50	4.7	49	79	4	230	29	27	17	25	1.97
55121920--55122152	49	4.7	49	78	7	202	30	27	17	25	1.97
55122400--55122453	27	2.0	27	85	0	72	38	14	5	40	1.70
55123304--55123364	32	1.9	31	90	3	95	29	11	21	37	1.88
55134838--55135049	40	5.4	40	89	4	292	24	20	28	25	1.99
55134832--55135049	79	2.8	80	86	6	297	25	21	27	25	1.99
55137764--55137934	93	1.8	93	93	0	297	28	28	21	22	1.99
55137759--55137931	46	3.7	46	76	13	192	29	27	20	22	1.99
55143928--55143955	8	3.5	8	100	0	56	42	21	21	14	1.88
55144069--55144108	21	2.0	20	90	5	62	20	20	40	20	1.92
55144454--55144510	9	5.8	10	76	15	57	36	8	19	35	1.83
55144453--55144527	20	3.8	20	91	6	111	37	9	18	34	1.83
55144472--55144527	11	5.5	11	71	16	57	37	10	19	32	1.86
55144577--55144648	26	2.8	26	85	2	92	30	23	19	26	1.98
55150807--55150983	55	3.2	55	89	0	246	31	29	12	26	1.93
55150807--55150958	27	5.6	27	92	3	232	30	28	13	27	1.94
55156568--55156685	40	3.0	40	92	0	200	34	29	20	15	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55162049--55162194	41	3.6	41	84	1	213	19	23	28	28	1.98
55176406--55176541	43	3.2	43	75	10	127	28	25	17	28	1.98
55179023--55179092	30	2.3	30	100	0	140	64	14	5	15	1.47
55189200--55189225	8	3.2	8	100	0	52	84	0	0	15	0.62
55196055--55196131	34	2.3	34	86	4	102	24	25	24	24	2.00
55196068--55196146	34	2.4	33	83	8	97	27	21	24	26	1.99
55199741--55199771	16	1.9	16	93	0	53	35	16	19	29	1.93
55200526--55200603	27	2.9	27	73	17	81	21	19	21	37	1.95
55200644--55200748	27	3.9	27	75	14	99	34	9	16	40	1.81
55200716--55200843	27	4.8	26	74	13	98	30	12	18	38	1.88

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