genome.fa.s9.2.7.7.80.10.50.1000.104.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  104  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)
33655991--33656043	14	3.7	14	87	2	70	39	43	1	15	1.57
33656053--33656135	14	5.8	14	75	9	78	50	21	2	25	1.61
33656053--33656135	29	2.9	28	85	3	94	50	21	2	25	1.61
33656075--33656142	14	4.8	14	75	10	57	52	20	0	26	1.46
33656594--33656682	7	12.0	7	81	7	61	62	1	0	35	1.02
33656601--33656670	8	9.1	8	84	9	92	67	1	0	31	1.00
33656592--33656677	22	3.8	22	84	6	91	66	1	0	32	1.00
33656601--33656677	15	5.1	15	82	3	91	64	1	0	33	1.01
33656764--33656802	18	2.2	17	86	4	51	79	0	2	17	0.84
33661059--33661106	20	2.4	21	82	10	64	22	2	6	68	1.23
33661225--33661371	43	3.5	43	87	2	219	23	20	29	26	1.99
33661673--33661823	52	2.9	52	80	7	180	30	8	18	42	1.80
33664658--33664821	23	7.1	23	86	2	204	29	26	19	24	1.98
33669147--33669415	46	5.7	47	78	11	225	27	17	30	24	1.97
33670962--33671143	28	6.5	28	94	0	276	32	29	12	25	1.93
33677844--33677899	11	5.5	11	71	16	57	37	10	19	32	1.86
33677833--33677899	20	3.3	20	93	0	116	35	10	20	32	1.87
33677949--33678069	24	5.0	24	89	4	172	29	19	21	29	1.97
33685859--33685906	25	1.9	25	87	8	71	31	25	16	27	1.97
33685943--33686009	20	3.3	20	91	0	107	32	13	20	32	1.92
33686059--33686141	24	3.4	24	94	3	139	32	18	21	27	1.96
33686059--33686135	25	3.1	25	94	3	138	33	18	19	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33690012--33690196	40	4.7	40	82	6	207	24	21	28	25	1.99
33690065--33690229	79	2.1	79	82	6	192	26	20	27	25	1.99
33694865--33694907	23	1.9	23	85	4	61	34	2	18	44	1.63
33703028--33703060	13	2.6	13	95	4	59	45	21	0	33	1.52
33704736--33704846	44	2.6	43	81	7	118	22	18	23	35	1.96
33704741--33704871	42	3.0	42	76	14	126	22	17	24	35	1.95
33726935--33727025	43	2.1	43	84	9	116	23	14	30	31	1.94
33731248--33731594	40	8.6	40	91	2	543	23	27	20	28	1.99
33738857--33739201	40	8.6	40	92	1	548	23	27	20	27	1.99
33744629--33744681	27	2.0	26	82	10	63	28	16	20	33	1.95
33744664--33744939	81	3.4	78	79	9	243	42	20	7	29	1.80
33744672--33744921	54	4.6	53	76	9	204	43	21	6	28	1.78
33744664--33744951	27	10.7	27	74	9	180	42	21	7	28	1.80
33745221--33745298	41	1.9	41	94	0	138	21	24	29	24	1.99
33745707--33745757	22	2.3	24	77	19	65	15	15	19	49	1.80
33748411--33748487	27	2.8	26	81	11	84	31	16	19	32	1.94
33748476--33748534	26	2.2	27	90	3	93	37	13	13	35	1.84
33748690--33748760	28	2.6	27	88	2	97	50	19	4	25	1.65
33748476--33748791	27	11.7	27	75	6	174	40	16	10	32	1.83
33749062--33749178	41	2.9	41	89	0	171	22	21	30	25	1.98
33749319--33749383	22	3.0	22	75	8	69	21	26	21	30	1.98
33756982--33757065	43	2.0	43	83	4	107	26	21	27	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33758397--33758444	25	1.9	24	84	16	62	43	2	6	47	1.40
33765420--33765679	40	6.5	40	93	2	425	20	23	28	27	1.99
33765420--33765718	120	2.5	119	88	4	406	21	22	28	27	1.99
33773794--33773920	40	3.3	38	86	11	179	20	23	29	25	1.99
33785398--33785468	33	2.1	35	82	10	85	42	11	25	21	1.86
33802458--33802513	29	2.0	28	89	3	85	37	8	23	30	1.85
33802938--33803110	46	3.7	46	77	14	194	24	21	25	28	1.99
33802935--33803105	93	1.8	93	92	2	290	23	21	26	28	1.99
33809527--33809620	27	3.5	27	86	0	125	27	24	8	39	1.84
33811584--33811675	27	3.4	27	90	0	148	29	25	6	39	1.81
33813667--33813721	27	2.0	27	92	0	92	27	25	9	38	1.86
33817580--33817617	19	2.0	20	85	15	53	39	23	0	36	1.55
33817846--33818011	46	3.6	45	78	12	176	28	28	19	22	1.98
33817847--33818017	93	1.8	93	91	0	279	29	28	19	22	1.98
33822001--33822038	19	2.0	20	85	15	53	39	23	0	36	1.55
33822268--33822438	93	1.8	93	90	5	274	29	26	20	23	1.99
33822263--33822435	46	3.7	46	76	13	185	30	26	20	23	1.99
33826193--33826285	48	1.9	48	82	4	116	22	15	25	36	1.93
33827827--33827886	21	2.9	21	78	9	68	50	21	1	26	1.59
33827981--33828041	21	2.9	21	87	2	77	54	24	0	21	1.45
33832447--33832541	14	7.2	13	70	17	63	41	0	4	54	1.20
33832448--33832541	19	4.9	18	71	15	73	41	0	4	54	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33832447--33832561	39	2.9	39	90	1	176	41	0	3	54	1.17
33832466--33832561	20	4.9	19	70	11	77	42	0	2	55	1.11
33832507--33832573	29	2.3	28	87	7	98	44	0	0	55	0.99
33832509--33832563	15	3.7	15	71	22	53	47	0	0	52	1.00
33832842--33833134	9	33.7	9	82	7	329	44	22	0	32	1.56
33832951--33833014	22	3.1	22	86	13	100	42	29	0	28	1.56
33838625--33838683	21	2.8	21	89	0	82	27	15	54	3	1.57
33839026--33839163	43	3.2	42	84	2	177	28	31	18	22	1.97
33843428--33843598	46	3.7	46	84	7	190	28	17	29	23	1.97
33856043--33856265	39	5.7	40	85	8	266	25	22	27	24	2.00
33856043--33856265	79	2.8	81	84	9	282	25	22	27	24	2.00
33856043--33856298	79	3.3	79	81	10	217	26	21	27	24	1.99
33863972--33864155	40	4.6	41	81	12	208	25	22	27	25	2.00
33863972--33864155	79	2.3	81	82	11	222	25	22	27	25	2.00
33864024--33864188	79	2.1	79	82	8	194	26	21	27	24	1.99
33866597--33866784	49	3.8	49	82	2	250	27	17	25	29	1.97
33866596--33866779	100	1.8	100	92	0	314	26	17	26	29	1.98
33869693--33869791	39	2.5	40	95	3	182	29	26	17	27	1.97
33872687--33872735	24	2.0	25	88	4	73	22	20	16	40	1.91
33878075--33878251	27	6.5	27	83	5	178	28	27	16	27	1.97
33878095--33878250	82	1.9	81	86	3	224	28	28	16	26	1.97
33892901--33892978	29	2.7	28	84	11	104	25	14	30	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33892932--33893258	174	1.9	174	94	0	573	29	14	23	31	1.94
33899970--33900060	40	2.3	40	88	0	128	19	16	29	34	1.94
33900045--33900158	28	4.1	29	90	4	164	24	13	31	30	1.93
33902210--33902337	28	4.5	28	88	2	175	28	12	25	32	1.92
33902210--33902337	57	2.2	57	88	2	186	28	12	25	32	1.92
33914682--33914890	85	2.5	85	84	7	257	24	23	20	31	1.98
33914682--33914891	42	5.0	42	85	6	257	24	23	20	31	1.98
33917822--33917999	27	6.6	27	85	3	214	30	28	14	26	1.95
33917843--33917998	82	1.9	81	89	3	242	30	28	14	26	1.95
33925865--33926042	27	6.6	27	84	3	205	29	28	14	26	1.95
33925886--33926041	82	1.9	81	88	3	233	29	28	14	26	1.95
33929868--33929905	20	1.9	20	84	10	51	42	13	23	21	1.88
33931801--33932026	46	4.9	46	91	2	330	38	15	24	21	1.92
33931801--33932026	91	2.5	92	89	2	330	38	15	24	21	1.92
33937054--33937285	46	5.0	46	89	1	295	39	14	23	22	1.91
33945948--33946036	29	3.1	29	93	1	144	30	29	13	26	1.94
33946934--33947070	60	2.3	60	81	11	156	26	24	19	29	1.98
33951531--33951667	60	2.3	59	81	8	143	26	24	19	29	1.98
33952318--33952347	8	3.8	8	90	0	51	3	23	20	53	1.60
33953024--33953077	28	1.9	28	85	7	74	66	3	20	9	1.35
33953936--33953964	15	1.9	15	100	0	58	58	0	0	41	0.98
33957499--33957662	40	4.1	40	86	0	229	25	15	23	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33967739--33967832	47	2.0	47	95	0	170	36	18	11	34	1.87
33969232--33969288	18	3.4	17	75	20	57	68	0	3	28	1.06
33970302--33970380	31	2.5	31	97	0	149	26	25	18	29	1.98
33970589--33970670	24	3.4	24	83	5	85	28	21	21	28	1.99
33971577--33971805	27	8.4	27	78	8	153	31	9	19	39	1.83
33971683--33971838	54	2.9	54	82	3	172	30	10	21	37	1.87
33971655--33971838	81	2.3	81	81	7	205	29	10	21	38	1.86
33971683--33971845	27	6.0	27	80	7	143	29	11	22	36	1.89
33971841--33972001	27	6.0	27	88	0	196	42	5	19	31	1.75
33971837--33972009	54	3.2	54	87	0	229	42	6	20	31	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   256   
          257   258   259