genome.fa.s25.2.7.7.80.10.50.1000.163.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: Gbar_D12
Parameters: 2 7 7 80 10 50 1000
Length:  58873029

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   

This is table  163  of  196  ( 23409 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)
47857922--47858031	53	2.1	53	100	0	220	37	3	6	52	1.44
47859758--47859809	17	3.1	17	78	8	52	44	0	0	55	0.99
47876320--47876348	8	3.6	8	100	0	58	75	0	0	24	0.80
47876320--47876359	16	2.6	16	88	4	55	75	0	2	22	0.93
47876384--47876481	29	3.4	29	91	0	142	23	20	4	52	1.64
47876373--47876481	58	1.9	57	84	1	146	22	20	5	51	1.68
47876366--47876512	29	5.1	29	84	5	111	25	19	5	48	1.70
47877052--47877097	5	9.2	5	86	9	58	76	0	23	0	0.79
47877198--47877243	9	4.7	10	82	12	51	82	0	15	2	0.76
47877203--47877227	13	1.9	13	100	0	50	80	0	20	0	0.72
47877206--47877253	7	6.9	7	81	6	53	83	0	12	4	0.79
47877499--47877530	16	1.9	17	93	6	57	81	0	18	0	0.70
47880260--47880439	41	4.4	41	89	0	279	23	16	22	37	1.93
47880260--47880475	82	2.6	82	85	2	229	25	15	22	37	1.93
47888808--47888841	12	2.9	12	91	4	52	17	26	0	55	1.42
47889558--47889743	46	4.1	45	92	3	309	27	27	9	34	1.87
47890924--47890965	17	2.6	16	88	7	66	52	19	0	28	1.46
47899869--47900463	76	7.8	76	83	3	759	26	20	20	32	1.97
47899871--47900463	153	3.9	152	88	1	791	26	20	20	32	1.97
47900958--47901002	23	2.0	23	95	0	81	13	13	15	57	1.65
47901069--47901149	29	2.8	29	86	0	108	24	17	3	54	1.59
47901872--47901905	7	4.9	7	86	13	52	88	0	11	0	0.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47901879--47901917	8	5.0	8	87	12	55	87	0	10	2	0.65
47903243--47903276	3	12.0	3	87	12	54	67	0	32	0	0.91
47903242--47903275	11	3.1	11	87	12	52	70	0	29	0	0.87
47903234--47903272	19	2.1	19	90	9	62	69	0	30	0	0.89
47903301--47903333	4	8.2	4	100	0	66	75	0	24	0	0.80
47910188--47910218	12	2.6	12	89	0	53	74	9	0	16	1.07
47910220--47910248	15	1.9	15	100	0	58	0	24	0	75	0.80
47910221--47910268	18	2.5	19	83	10	62	0	31	0	68	0.90
47915405--47915436	16	1.9	17	93	6	57	75	3	0	21	0.95
47915366--47915452	27	3.2	27	71	12	72	63	2	3	31	1.23
47917326--47917382	23	2.5	22	83	8	71	61	1	1	35	1.17
47919165--47919205	19	2.0	21	86	9	59	41	19	24	14	1.89
47920850--47920939	39	2.2	40	84	3	110	37	3	6	52	1.44
47921937--47921963	2	13.5	2	100	0	54	51	48	0	0	1.00
47926970--47927030	32	2.0	31	83	6	79	36	3	21	39	1.70
47935686--47935732	22	2.1	22	84	7	60	36	2	4	57	1.30
47935771--47935842	16	4.7	16	67	10	60	52	8	1	37	1.40
47935805--47935927	35	3.3	35	78	16	149	48	9	3	38	1.52
47935805--47935879	33	2.2	34	88	4	107	50	9	1	38	1.43
47935786--47935939	76	2.0	77	91	5	249	48	9	5	37	1.57
47936182--47936212	5	6.0	5	96	3	53	77	3	0	19	0.90
47939338--47939413	20	3.8	19	71	10	62	35	9	0	55	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47939338--47939389	21	2.6	19	77	11	59	38	7	0	53	1.30
47940886--47940941	26	2.2	26	84	9	71	58	0	10	30	1.32
47942695--47943243	44	12.2	45	71	9	226	28	20	19	31	1.97
47942723--47942846	43	2.8	42	81	6	149	27	22	20	29	1.98
47942723--47943451	44	16.1	45	67	15	218	28	20	18	32	1.96
47942911--47943081	89	1.9	89	84	2	227	27	22	18	31	1.97
47942570--47943264	227	3.1	227	86	2	934	28	20	18	32	1.96
47943000--47943436	183	2.4	183	87	1	626	29	21	18	31	1.96
47942596--47943455	227	3.8	224	81	6	659	28	20	18	32	1.96
47943656--47943878	123	1.8	123	81	1	277	27	24	15	31	1.96
47944231--47944285	24	2.3	24	93	0	92	29	23	10	36	1.89
47950456--47950511	26	2.2	26	84	9	71	58	0	10	30	1.32
47952423--47952502	10	8.2	10	73	17	62	53	1	2	42	1.22
47952417--47952500	9	8.8	9	72	19	55	53	1	2	42	1.21
47952722--47952771	17	2.9	17	81	18	59	34	6	2	58	1.34
47962243--47962281	17	2.3	17	90	0	60	10	48	23	17	1.78
47962865--47962938	37	2.0	37	100	0	148	10	32	21	35	1.88
47963252--47963291	12	3.2	12	89	3	53	32	5	0	62	1.17
47964184--47964584	108	3.7	108	94	1	664	29	16	20	34	1.94
47968678--47968737	17	3.5	17	86	9	86	80	8	0	11	0.92
47968674--47968741	35	1.9	36	93	3	120	77	10	0	11	0.98
47968678--47968741	9	7.3	9	81	18	82	79	9	0	10	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47968754--47968799	6	7.3	6	88	9	65	78	0	19	2	0.86
47969615--47969657	8	5.7	7	91	8	59	81	0	6	11	0.87
47969608--47969657	8	6.2	8	88	6	57	80	0	8	12	0.92
47969608--47969657	16	3.2	16	83	13	68	80	0	8	12	0.92
47970877--47971380	88	5.7	88	92	1	773	26	24	24	24	2.00
47971490--47971952	44	10.6	44	68	15	203	31	19	20	28	1.97
47971399--47971982	175	3.3	175	89	0	909	32	19	20	28	1.97
47972538--47972576	17	2.3	17	86	0	51	10	46	23	20	1.81
47973478--47973517	12	3.2	12	89	3	53	32	5	2	60	1.32
47974414--47974827	108	3.9	108	93	1	663	29	16	20	33	1.94
47979455--47979495	19	2.2	19	86	0	55	39	0	0	60	0.96
47985307--47985337	3	10.3	3	100	0	62	0	0	32	67	0.91
47986058--47986133	37	2.0	39	82	10	95	51	1	0	47	1.09
47986102--47986131	15	2.1	14	93	6	51	56	0	0	43	0.99
47986090--47986198	31	3.4	32	68	22	93	54	1	0	43	1.17
47995463--47995653	36	5.0	36	81	12	220	38	13	19	29	1.89
47995427--47995617	82	2.3	82	91	0	310	38	12	20	29	1.89
47995463--47995699	118	2.0	118	91	0	384	37	13	19	29	1.90
47996810--47997078	35	8.0	34	85	6	334	18	22	17	40	1.91
47996810--47997068	102	2.6	102	93	1	425	18	23	18	39	1.92
47996810--47997078	67	4.0	68	89	3	341	18	22	17	40	1.91
47999877--47999920	20	2.1	22	84	16	58	13	9	9	68	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48006101--48006292	50	3.9	50	74	10	162	18	26	20	35	1.95
48006100--48006179	25	3.2	25	80	0	97	21	26	17	35	1.95
48006183--48006289	24	4.4	23	71	16	65	15	25	23	35	1.94
48006253--48006371	50	2.4	50	80	5	125	26	22	18	31	1.97
48008121--48008208	25	3.5	25	77	0	86	32	21	27	18	1.96
48011179--48011335	51	3.1	50	82	6	208	31	26	15	26	1.96
48011185--48011352	51	3.3	50	80	6	187	32	25	15	26	1.96
48012516--48012547	16	1.9	17	93	6	57	43	9	0	46	1.35
48024807--48024850	16	2.8	16	86	3	63	40	0	4	54	1.21
48030692--48030791	49	2.0	49	100	0	200	28	22	14	36	1.92
48030834--48030974	43	3.3	42	79	6	124	32	25	16	25	1.96
48030847--48030978	42	3.1	42	80	5	122	33	22	17	26	1.96
48031679--48031720	12	3.5	12	75	12	50	23	42	0	33	1.55
48033478--48033503	5	5.2	5	100	0	52	61	0	19	19	1.35
48033877--48033917	21	1.9	22	85	14	59	68	2	4	24	1.22
48038297--48038381	25	3.4	25	76	14	77	18	30	21	29	1.97
48038334--48038394	25	2.4	25	80	2	77	19	24	22	32	1.97
48038334--48038403	25	2.8	25	74	10	70	22	22	24	30	1.99
48040354--48040576	51	4.4	51	93	1	376	30	24	13	32	1.93
48040354--48040576	101	2.2	102	93	0	376	30	24	13	32	1.93
48040650--48040682	17	1.9	17	88	11	50	45	21	0	33	1.52
48043587--48043612	7	3.7	7	100	0	52	11	11	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48046798--48046856	10	6.3	10	73	26	58	37	0	0	62	0.95
48046802--48046856	19	3.0	19	82	15	71	38	0	0	61	0.96
48046798--48046855	27	2.1	28	84	9	75	37	0	0	62	0.96
48048473--48048510	20	1.9	20	88	0	58	36	10	0	52	1.36
48049748--48049787	19	2.1	19	95	4	71	7	5	45	42	1.54
48055812--48056091	27	10.4	27	83	6	295	21	15	20	42	1.89
48055810--48056100	54	5.4	53	83	6	327	21	16	19	42	1.89
48055828--48056107	107	2.6	108	86	3	379	21	16	18	43	1.88
48059171--48059226	23	2.5	24	77	8	64	30	5	19	44	1.73
48063912--48063972	25	2.5	25	75	20	74	18	24	16	40	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