genome.fa.s4.2.7.7.80.10.50.1000.164.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  164  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)
53789387--53789412	13	2.0	13	100	0	52	15	38	30	15	1.88
53793980--53794024	22	2.0	22	87	8	65	46	11	4	37	1.60
53793987--53794032	22	2.1	22	84	8	58	41	15	6	36	1.73
53801770--53801815	23	2.0	23	84	12	60	45	10	6	36	1.65
53801777--53801821	23	2.0	23	82	8	56	40	13	8	37	1.76
53809847--53810140	38	7.0	38	71	19	210	29	14	25	29	1.95
53809884--53810093	47	4.6	47	80	11	267	29	15	24	30	1.95
53809927--53810133	85	2.4	85	95	0	369	29	14	26	29	1.95
53815228--53815309	42	2.0	42	87	0	119	26	13	24	35	1.92
53827840--53827877	12	3.2	12	88	0	58	39	0	60	0	0.97
53828999--53829243	127	1.9	127	83	4	316	42	19	14	23	1.88
53829963--53830033	32	2.3	31	87	2	97	53	1	8	36	1.40
53830051--53830118	36	2.0	34	81	16	79	63	4	0	32	1.14
53831676--53831705	15	1.9	16	93	6	53	16	0	10	73	1.09
53833369--53834181	405	2.0	405	99	0	1599	28	17	18	34	1.94
53836335--53836374	21	1.9	21	84	0	53	30	22	20	27	1.98
53841933--53841971	3	13.0	3	83	0	51	0	28	2	69	1.02
53841925--53841971	15	3.0	15	90	6	67	2	27	2	68	1.13
53842056--53842136	29	2.8	29	74	9	83	24	9	14	50	1.73
53848640--53848695	20	2.8	20	78	13	69	57	1	0	41	1.09
53848632--53848716	39	2.2	37	80	12	100	56	4	0	38	1.20
53848632--53848716	19	4.4	19	77	15	86	56	4	0	38	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53849714--53849743	14	2.1	14	93	0	51	50	0	3	46	1.18
53851519--53851733	41	5.2	40	79	9	184	30	18	24	26	1.98
53851529--53851733	82	2.5	81	80	7	243	29	18	24	27	1.98
53852261--53852323	7	9.0	7	82	0	63	44	34	3	17	1.65
53852397--53852477	41	2.0	41	90	4	128	35	13	27	23	1.92
53852500--53852581	7	11.6	7	74	7	58	24	2	21	51	1.60
53852527--53852581	22	2.6	21	80	5	65	21	1	23	52	1.56
53852668--53852716	22	2.3	23	82	13	68	22	0	34	42	1.54
53853138--53853192	14	3.9	14	73	17	51	21	3	32	41	1.71
53854290--53854331	19	2.3	18	87	4	57	11	9	23	54	1.66
53857521--53857645	43	2.9	44	86	4	175	24	18	25	31	1.98
53857857--53857883	13	2.1	13	100	0	54	25	0	0	74	0.83
53858082--53858115	17	1.9	18	88	5	52	55	0	0	44	0.99
53858145--53858201	30	1.9	29	85	3	78	47	1	0	50	1.11
53859681--53859716	13	2.7	13	95	4	63	75	2	0	22	0.94
53868045--53868085	21	2.0	21	100	0	82	14	43	19	21	1.87
53870614--53870678	23	2.7	24	83	7	78	63	4	0	32	1.15
53872194--53872360	58	2.9	58	95	0	298	37	7	19	35	1.81
53873902--53873956	21	2.7	21	83	10	69	41	3	0	54	1.18
53893625--53894037	98	4.2	98	78	7	376	24	26	19	29	1.99
53893674--53893943	148	1.8	149	82	3	346	25	25	20	29	1.99
53893619--53893999	50	7.7	51	76	8	274	24	26	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53895318--53895505	53	3.5	54	76	5	182	19	24	18	37	1.94
53898945--53898969	12	2.1	12	100	0	50	40	0	0	60	0.97
53899106--53899641	265	2.0	268	88	4	794	27	19	19	33	1.96
53902583--53903025	47	9.4	47	93	1	717	32	8	29	29	1.87
53903144--53903222	37	2.1	37	88	4	115	25	18	30	25	1.98
53905086--53905188	43	2.4	43	95	0	188	24	15	33	26	1.95
53905170--53905243	29	2.6	29	86	4	96	27	16	31	25	1.96
53905554--53905744	80	2.4	82	81	8	198	26	22	26	25	2.00
53905558--53905749	40	4.8	40	79	8	153	26	21	27	25	1.99
53909278--53909721	47	9.4	47	93	1	717	32	8	29	29	1.87
53909278--53909721	190	2.4	188	92	0	744	32	8	29	29	1.87
53909840--53909918	37	2.1	37	88	4	115	25	18	30	25	1.98
53912818--53912850	15	2.1	16	88	5	50	57	3	33	6	1.38
53920281--53920336	28	2.0	28	89	0	85	17	17	23	41	1.90
53922473--53922529	20	2.8	20	83	5	60	54	5	14	26	1.61
53939239--53939318	24	3.4	24	79	11	94	32	15	22	30	1.94
53944391--53944431	20	2.0	20	100	0	82	51	9	9	29	1.67
53945440--53945471	11	2.9	11	95	0	55	31	0	50	18	1.48
53952400--53952437	19	2.0	20	85	15	53	39	23	0	36	1.55
53952666--53952836	93	1.8	93	85	0	243	30	28	19	21	1.98
53953256--53953315	30	2.0	30	90	0	93	31	25	5	38	1.77
53961086--53961141	25	2.2	26	87	6	80	35	21	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53961538--53961628	24	3.8	24	95	1	146	32	2	37	27	1.69
53963019--53963105	27	3.2	26	77	9	86	17	20	22	39	1.92
53963020--53963122	54	1.9	53	84	5	136	19	21	19	39	1.92
53966425--53967581	47	24.1	47	87	4	1612	31	12	29	26	1.93
53966525--53966599	23	3.2	23	62	23	57	29	10	32	28	1.90
53966425--53967581	339	3.4	339	91	1	1821	31	12	29	26	1.93
53967267--53967342	24	3.2	24	62	23	61	28	13	32	25	1.93
53967391--53967465	23	3.2	23	62	23	57	29	10	32	28	1.90
53967557--53967645	46	1.9	46	83	0	115	33	10	32	23	1.88
53967790--53967898	37	2.9	37	94	0	182	23	19	30	26	1.98
53969152--53969543	40	9.8	40	88	1	543	23	20	28	26	1.99
53969753--53969861	57	1.9	57	86	1	155	24	19	27	28	1.98
53973587--53974598	47	21.1	47	88	4	1457	30	12	30	25	1.93
53973948--53974022	22	3.3	22	64	29	57	30	13	30	25	1.94
53973587--53974598	241	4.2	236	89	3	1479	30	12	30	25	1.93
53974284--53974359	24	3.2	24	62	23	61	28	13	32	25	1.93
53974572--53974662	46	2.0	46	84	0	119	32	9	31	25	1.89
53974807--53974915	37	3.0	36	91	4	173	23	19	31	25	1.98
53977466--53977727	39	6.7	40	86	7	319	25	22	26	24	2.00
53985493--53985754	39	6.7	40	87	7	337	25	22	27	24	2.00
53987152--53987227	22	3.4	22	70	15	66	34	18	21	26	1.96
53988428--53989252	138	6.1	138	86	4	1149	40	8	5	45	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53988428--53989252	266	3.0	270	86	5	1128	40	8	5	45	1.58
53994781--53994845	27	2.4	27	87	5	96	27	12	20	40	1.88
53994795--53994858	27	2.4	27	78	7	67	26	18	20	34	1.96
53995212--53995250	18	2.2	18	95	0	69	23	20	15	41	1.90
53995220--53995258	18	2.2	18	90	0	60	23	20	15	41	1.90
53998695--53998729	17	2.1	17	89	5	54	51	0	20	28	1.47
53999066--53999114	25	2.0	25	83	0	62	38	0	16	44	1.48
53999536--53999579	15	2.8	17	74	19	51	54	0	22	22	1.45
54004340--54004602	131	2.0	130	80	7	293	38	14	12	34	1.84
54009118--54009222	1	105.0	1	67	0	57	83	0	10	5	0.79
54009121--54009223	6	17.0	6	74	18	72	82	0	11	5	0.83
54009118--54009214	5	19.8	5	80	16	71	83	0	10	6	0.80
54010351--54010921	143	4.0	142	87	1	784	29	19	23	27	1.98
54019223--54019307	42	2.0	42	97	0	161	40	4	5	49	1.48
54019277--54019306	15	2.0	15	93	0	51	50	0	10	40	1.36
54019229--54019329	42	2.4	42	86	5	132	39	1	8	49	1.45
54019335--54019362	10	2.8	10	100	0	56	32	7	0	60	1.24
54024698--54024757	30	2.0	30	90	0	93	38	8	25	28	1.84
54028510--54028573	5	12.6	5	78	20	62	20	4	0	75	0.99
54028510--54028573	17	3.8	16	82	15	76	20	4	0	75	0.99
54028510--54028573	22	2.9	21	82	15	76	20	4	0	75	0.99
54030059--54030088	15	2.0	15	93	0	51	50	0	10	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54041058--54041142	40	2.2	40	84	2	109	28	31	22	17	1.97
54041213--54041321	47	2.3	46	87	7	150	27	29	10	33	1.89
54043783--54043823	20	2.0	20	85	9	55	46	17	7	29	1.74
54045067--54045144	34	2.3	35	82	14	101	25	21	25	26	2.00
54046758--54046938	79	2.3	81	82	7	219	24	27	22	25	2.00
54046758--54046938	40	4.6	40	82	6	217	24	27	22	25	2.00
54053676--54053829	42	3.6	42	80	5	184	30	14	25	29	1.95
54060296--54060342	15	3.1	15	79	14	51	55	4	4	36	1.39
54061688--54061773	40	2.2	39	83	6	102	26	16	29	27	1.97
54064376--54064510	49	2.7	50	80	6	159	31	17	31	20	1.95

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