genome.fa.s4.2.7.7.80.10.50.1000.136.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  136  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)
43768272--43768374	43	2.4	43	98	0	197	26	34	15	23	1.94
43770239--43770317	37	2.1	37	90	0	122	25	31	18	24	1.98
43770436--43770629	47	4.1	47	89	1	271	27	30	9	31	1.89
43772959--43773208	125	2.0	125	99	0	491	22	16	28	33	1.95
43788917--43789092	27	6.6	27	81	7	171	29	27	15	27	1.96
43788943--43789091	81	1.9	80	87	7	221	28	27	16	27	1.97
43796951--43797128	27	6.6	27	84	3	205	29	28	15	26	1.96
43796972--43797127	82	1.9	81	88	3	233	29	28	15	26	1.96
43799528--43799597	35	2.0	36	82	2	88	44	18	11	25	1.83
43799656--43799763	35	3.1	35	81	10	139	43	18	8	29	1.79
43808667--43808797	39	3.3	39	82	1	163	32	19	25	22	1.98
43808669--43808823	78	2.0	77	81	3	177	31	20	25	22	1.98
43816544--43816674	39	3.3	39	82	3	156	31	19	26	22	1.98
43816546--43816700	78	2.0	77	84	3	204	30	20	26	23	1.98
43820699--43820790	42	2.2	43	86	5	125	27	21	19	31	1.97
43826924--43826971	23	2.1	23	96	0	87	37	25	4	33	1.75
43827965--43828067	37	2.8	37	93	0	179	25	32	19	23	1.98
43828208--43828689	48	10.0	48	90	0	757	31	24	6	37	1.80
43843511--43843688	27	6.6	27	83	3	205	26	15	28	29	1.96
43843512--43843667	82	1.9	81	88	3	233	26	15	28	29	1.96
43843508--43843688	82	2.2	81	83	2	229	27	15	27	29	1.96
43860616--43860710	34	2.8	35	79	10	99	28	24	25	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43868161--43868225	34	1.9	34	84	12	89	26	24	26	23	2.00
43869309--43869453	75	1.9	74	84	4	193	37	19	20	22	1.95
43869394--43869462	35	2.0	35	94	0	120	40	23	18	17	1.91
43872504--43872673	46	3.7	45	77	10	148	26	20	30	22	1.98
43877423--43877498	38	2.0	38	97	0	143	32	13	22	31	1.92
43878685--43878829	40	3.6	40	85	4	193	25	24	26	23	2.00
43881527--43881557	14	2.2	14	100	0	62	58	16	19	6	1.59
43881791--43881859	15	4.7	15	75	12	54	55	2	0	42	1.15
43894897--43895022	28	4.5	28	93	1	200	32	27	12	26	1.93
43905871--43905968	27	3.5	28	90	2	135	26	13	28	31	1.94
43905899--43905981	27	3.0	27	87	5	96	30	12	25	32	1.92
43905871--43905982	28	4.0	27	83	6	98	28	12	25	33	1.92
43908855--43908892	20	1.9	19	85	15	51	63	2	0	34	1.09
43910708--43910972	83	3.2	83	85	2	338	27	21	16	35	1.94
43910906--43911210	119	2.6	119	88	1	432	30	19	16	33	1.94
43911025--43911395	202	1.8	202	90	0	598	29	18	17	34	1.94
43911138--43911293	83	1.9	83	83	0	204	30	19	16	33	1.94
43910835--43911453	321	1.9	321	94	0	1087	29	19	16	34	1.94
43911221--43911452	119	1.9	119	92	1	394	30	18	16	34	1.93
43912296--43912339	21	2.1	22	87	8	65	4	20	0	75	0.98
43912303--43912348	21	2.2	21	88	7	67	2	15	0	82	0.76
43912305--43912348	14	3.3	13	84	12	54	2	15	0	81	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43936526--43936604	26	3.0	26	85	3	113	39	20	7	32	1.81
43936585--43936725	27	5.2	27	85	1	167	34	18	20	26	1.96
43937422--43937483	33	1.9	32	83	3	79	20	22	20	35	1.96
43941601--43941819	40	5.5	40	93	1	350	27	28	22	21	1.99
43943060--43943184	52	2.4	53	91	2	198	15	23	10	51	1.74
43949753--43950182	40	10.8	40	91	0	648	28	26	22	23	1.99
43951541--43951718	27	6.6	27	82	5	171	29	27	15	27	1.96
43951562--43951717	82	1.9	81	86	3	224	28	28	16	26	1.97
43954818--43954944	53	2.4	54	93	2	211	15	22	9	51	1.72
43955990--43956041	21	2.5	21	87	6	70	55	0	32	11	1.36
43958748--43958925	27	6.6	27	84	3	205	29	28	15	26	1.96
43958769--43958924	82	1.9	81	88	3	233	29	28	15	26	1.96
43963219--43963389	93	1.8	93	92	0	288	28	27	21	22	1.99
43963214--43963386	46	3.7	46	77	10	199	28	26	21	23	1.99
43968521--43968631	49	2.3	48	89	6	163	32	9	29	28	1.88
43968616--43968645	14	2.1	14	100	0	60	30	0	36	33	1.58
43968567--43968694	63	2.0	63	100	0	256	32	6	30	31	1.82
43968542--43968743	112	1.8	112	96	0	377	33	7	28	30	1.86
43968630--43969141	47	10.8	47	93	1	817	33	8	28	29	1.86
43968630--43969141	190	2.7	190	93	1	857	33	8	28	29	1.86
43969260--43969338	37	2.1	37	90	0	122	24	18	31	25	1.98
43972161--43972329	40	4.2	40	82	4	99	25	26	23	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43972184--43972369	41	4.6	41	87	3	234	24	25	24	25	2.00
43972214--43972367	81	1.9	82	87	4	231	25	24	24	25	2.00
43975454--43975838	168	2.3	168	84	0	493	33	23	14	28	1.94
43975481--43975825	56	6.2	56	87	0	465	33	23	14	28	1.94
43975813--43976094	43	6.6	43	88	0	420	28	29	16	25	1.97
43977518--43977587	25	2.8	23	83	12	77	25	20	22	31	1.98
43977538--43977594	25	2.4	25	85	5	64	29	21	19	29	1.97
43980267--43980451	40	4.6	40	92	1	291	23	23	27	25	2.00
43980263--43980483	80	2.8	79	85	7	286	26	22	25	25	2.00
43980710--43980753	22	2.0	21	83	16	54	31	18	13	36	1.90
43994586--43994619	14	2.5	13	86	9	50	67	11	2	17	1.34
44010059--44010348	40	7.3	40	82	8	326	23	20	28	27	1.99
44013458--44013627	40	4.3	40	89	2	218	25	22	27	24	2.00
44013485--44013662	79	2.2	80	80	3	191	25	22	28	24	2.00
44021444--44021713	40	6.8	41	86	5	358	23	21	28	25	1.99
44024367--44024406	20	2.0	21	90	5	64	70	0	12	17	1.18
44026080--44026119	6	6.5	6	82	5	53	17	5	0	77	0.94
44046173--44046315	53	2.7	53	79	4	153	25	25	16	33	1.95
44056988--44057018	16	1.9	16	93	0	53	35	22	0	41	1.54
44056985--44057024	20	2.0	20	85	0	53	37	22	0	40	1.54
44057213--44057465	55	4.8	53	79	7	196	22	24	16	35	1.94
44060185--44060283	43	2.3	43	82	6	112	21	17	28	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44062425--44062602	27	6.6	27	83	3	205	26	15	28	29	1.96
44062426--44062581	82	1.9	81	88	3	233	26	15	28	29	1.96
44062422--44062602	82	2.2	81	83	2	229	27	15	27	29	1.96
44068707--44068790	42	2.0	43	85	2	116	13	21	36	28	1.91
44075134--44075201	34	2.0	34	100	0	136	32	23	11	32	1.91
44096595--44096624	12	2.6	12	94	5	53	40	26	0	33	1.57
44099020--44099204	40	4.7	40	80	6	198	24	23	27	24	2.00
44099073--44099237	79	2.1	79	82	6	192	26	21	27	24	1.99
44107167--44107343	78	2.2	80	82	5	209	24	22	28	24	1.99
44107168--44107349	40	4.6	39	78	10	192	24	21	28	24	1.99
44107220--44107382	78	2.1	78	81	6	188	26	20	28	25	1.99
44108325--44108365	20	2.0	20	95	0	73	24	17	14	43	1.86
44121994--44122294	80	3.8	79	88	3	367	26	28	20	23	1.99
44122024--44122294	120	2.3	120	85	5	363	27	29	19	23	1.98
44121994--44122241	40	6.3	40	92	2	376	26	29	20	23	1.99
44122226--44122303	40	1.9	41	82	10	97	26	28	21	23	1.99
44125307--44125344	18	2.1	18	95	0	67	13	10	26	50	1.73
44126331--44126513	41	4.5	41	81	8	212	35	25	19	19	1.95
44132825--44133090	77	3.5	76	85	4	356	19	39	4	37	1.71
44135507--44135684	79	2.2	81	93	2	306	52	8	4	34	1.53
44137538--44137570	11	2.9	12	86	13	52	33	0	0	66	0.92
44137572--44137611	18	2.2	18	86	8	55	67	15	0	17	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44140226--44140281	28	2.0	28	82	10	69	62	0	8	28	1.25
44140808--44140873	19	3.2	21	87	6	64	36	19	9	34	1.84
44140825--44140886	19	3.2	19	95	4	106	35	17	9	37	1.83
44153876--44153910	17	2.0	18	94	5	63	37	22	11	28	1.89
44160833--44160924	42	2.2	42	90	0	139	34	20	14	30	1.92
44161070--44161166	26	3.8	26	90	1	144	27	22	23	25	2.00
44161057--44161166	51	2.2	49	87	8	150	27	22	21	28	1.99
44161057--44161166	26	4.4	25	86	4	134	27	22	21	28	1.99
44161216--44161302	20	4.3	20	92	2	140	31	18	10	40	1.84
44164733--44165008	47	5.9	47	89	0	426	32	10	29	28	1.90

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