genome.fa.s18.2.7.7.80.10.50.1000.176.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_D05
Parameters: 2 7 7 80 10 50 1000
Length:  63323194

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   

This is table  176  of  199  ( 23841 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)
56454521--56454554	16	2.1	16	88	5	50	76	5	14	2	1.09
56455248--56455296	18	2.7	18	93	0	80	36	0	8	55	1.30
56455250--56455297	3	16.0	3	82	0	60	35	0	6	58	1.23
56455250--56455297	12	4.0	12	91	0	69	35	0	6	58	1.23
56455438--56455509	24	2.9	24	78	15	67	44	0	22	33	1.53
56455654--56455749	39	2.5	39	80	6	108	20	23	28	27	1.99
56463978--56464348	106	3.5	106	97	0	697	35	20	12	31	1.90
56466871--56466994	65	2.0	64	87	4	180	36	21	12	29	1.91
56472087--56472114	14	2.0	14	100	0	56	35	7	21	35	1.81
56477826--56477874	23	2.1	23	100	0	98	55	8	0	36	1.30
56477833--56477880	23	2.1	23	92	0	69	56	6	2	35	1.36
56486940--56486998	23	2.6	23	100	0	118	55	8	0	35	1.30
56490710--56490816	55	1.9	55	85	10	148	40	12	6	41	1.68
56490710--56490823	54	2.1	55	82	11	137	38	13	6	42	1.69
56490881--56490954	31	2.4	32	88	4	107	48	8	22	20	1.75
56491441--56491676	42	5.5	43	72	9	162	28	26	16	27	1.97
56491429--56491758	129	2.6	129	83	6	427	29	26	17	26	1.98
56497609--56497726	9	13.1	9	71	18	86	32	2	18	46	1.63
56497611--56497748	16	7.9	16	72	16	96	34	2	16	47	1.59
56497609--56497753	25	5.5	25	70	20	89	34	2	17	45	1.63
56497661--56497753	34	2.7	34	80	6	98	37	2	15	45	1.58
56497789--56497831	22	2.0	22	90	9	70	13	18	23	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56497925--56498238	43	7.3	43	92	2	452	30	30	18	19	1.96
56499135--56499219	40	2.1	40	84	4	109	49	14	5	30	1.66
56499321--56499480	86	1.9	86	91	0	266	43	15	8	31	1.77
56499574--56499748	86	2.0	87	83	1	217	46	16	5	30	1.70
56505194--56505251	14	4.1	14	80	4	55	34	39	0	25	1.56
56505246--56505275	14	2.1	14	93	0	51	40	30	3	26	1.72
56505355--56505395	21	1.9	22	90	5	66	46	21	0	31	1.52
56505720--56505856	40	3.4	41	80	3	127	18	21	22	36	1.95
56505942--56505991	16	2.7	19	73	20	52	32	4	12	52	1.57
56505956--56506009	16	3.3	16	86	2	72	33	1	16	48	1.57
56506369--56506412	22	2.0	23	82	8	56	50	2	6	40	1.42
56506287--56506420	70	1.9	70	90	0	214	48	5	5	40	1.50
56506353--56506461	55	2.0	55	98	0	209	51	5	3	39	1.43
56506399--56506575	70	2.5	70	91	4	279	50	5	6	38	1.50
56506502--56506543	21	2.0	22	85	4	59	47	0	9	42	1.36
56506287--56506533	125	2.0	125	95	1	442	48	5	5	40	1.49
56506454--56506559	24	4.5	24	69	18	80	50	4	7	37	1.52
56507997--56508036	12	3.3	12	83	13	55	57	12	7	22	1.60
56508380--56508436	12	4.8	12	76	4	62	22	1	45	29	1.63
56508378--56508436	11	5.2	11	76	8	55	22	1	44	32	1.63
56508380--56508436	23	2.4	24	88	8	82	22	1	45	29	1.63
56508726--56508756	4	7.8	4	100	0	62	22	0	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56509331--56509421	35	2.5	36	76	15	98	40	47	4	7	1.52
56510331--56510492	86	1.9	84	91	2	261	34	30	17	17	1.93
56514979--56515062	30	2.8	29	75	12	80	40	7	8	44	1.62
56516002--56516031	15	2.1	15	93	6	53	50	0	0	50	1.00
56519207--56519238	15	2.1	15	100	0	64	56	0	6	37	1.25
56524241--56524311	31	2.3	31	85	2	90	36	9	9	43	1.71
56526324--56526357	6	5.3	6	86	13	50	55	0	0	44	0.99
56526324--56526357	14	2.6	13	86	13	52	55	0	0	44	0.99
56527305--56527753	109	4.1	108	84	7	554	41	14	14	29	1.85
56528112--56528709	107	5.4	109	86	5	787	29	16	14	38	1.89
56530162--56530194	16	2.0	17	88	5	50	36	15	12	36	1.84
56531301--56531332	3	10.7	3	100	0	64	31	0	0	68	0.90
56538933--56539097	88	1.9	89	82	7	210	46	20	10	23	1.81
56539274--56539411	19	7.3	19	69	14	63	60	1	3	34	1.23
56539293--56539341	20	2.5	20	86	0	62	61	0	2	36	1.08
56539332--56539394	26	2.3	26	79	12	65	63	3	4	28	1.30
56539351--56539400	17	2.9	17	81	3	64	62	2	6	30	1.31
56539709--56539749	21	2.0	21	90	0	64	31	7	2	58	1.38
56542831--56542896	33	2.0	33	100	0	132	24	24	15	36	1.93
56546385--56546794	126	3.3	124	93	2	676	33	19	20	26	1.97
56547024--56547057	15	2.3	15	100	0	68	44	8	26	20	1.81
56551810--56551887	29	2.6	30	81	4	95	14	15	38	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56558065--56558144	35	2.2	37	88	8	119	22	6	12	58	1.56
56558221--56558539	66	5.2	63	67	23	207	42	2	5	48	1.42
56558256--56558563	61	5.1	61	68	17	248	42	2	6	48	1.40
56558183--56558592	120	3.4	120	95	1	716	43	2	4	49	1.37
56558428--56558483	15	3.8	15	79	13	55	46	0	1	51	1.11
56558544--56558594	18	3.0	18	78	18	56	47	0	0	52	1.00
56558728--56558765	16	2.4	16	95	0	67	28	31	0	39	1.57
56558789--56558858	16	4.4	16	94	0	95	32	34	0	32	1.58
56563769--56563886	56	2.1	58	85	6	161	43	18	11	26	1.85
56564544--56564574	16	1.9	16	93	0	53	45	16	6	32	1.72
56565596--56565635	20	2.0	20	90	9	64	55	0	0	45	0.99
56567325--56567393	19	3.6	19	79	11	68	34	11	0	53	1.37
56567359--56567434	39	1.9	39	82	12	93	32	9	1	56	1.39
56570848--56570891	18	2.4	18	82	14	54	15	2	2	79	0.93
56576172--56576236	33	2.0	33	82	11	80	60	3	7	29	1.40
56576521--56576566	21	2.1	22	88	4	67	47	6	2	43	1.41
56579100--56579146	20	2.3	21	78	10	53	23	2	4	70	1.16
56583228--56583425	105	1.9	104	80	4	227	28	27	14	29	1.95
56584855--56584901	18	2.6	18	83	12	53	46	2	0	51	1.13
56584859--56584901	17	2.5	17	82	17	54	44	2	0	53	1.13
56584892--56584930	18	2.2	18	90	0	60	53	2	0	43	1.14
56584859--56584928	8	8.2	8	76	14	52	47	2	0	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56585746--56585792	22	2.1	23	85	14	64	57	0	0	42	0.98
56589441--56589477	16	2.3	17	81	13	51	40	0	0	59	0.97
56592733--56592772	3	13.3	3	94	0	71	65	0	2	32	1.06
56592811--56592859	20	2.5	20	77	16	57	24	4	4	67	1.26
56598991--56599175	17	10.6	17	72	14	137	45	9	12	31	1.75
56599005--56599170	35	4.8	34	78	12	144	46	9	12	31	1.73
56599022--56599173	53	2.8	53	80	10	152	46	9	12	31	1.75
56599453--56599485	5	6.6	5	86	13	50	63	0	0	36	0.95
56599453--56599485	11	3.3	10	88	12	50	63	0	0	36	0.95
56599453--56599486	16	2.2	15	94	5	59	64	0	0	35	0.94
56599664--56599696	16	2.1	16	94	5	59	0	15	0	84	0.61
56599655--56599707	24	2.2	24	83	6	63	0	20	0	79	0.74
56599672--56599710	13	3.1	13	81	3	53	0	17	0	82	0.68
56600026--56600081	4	15.0	4	78	17	59	0	25	0	75	0.81
56600009--56600081	11	6.4	11	79	16	69	0	26	0	73	0.83
56600000--56600085	30	2.9	29	76	11	93	1	25	0	73	0.91
56599997--56600048	26	2.0	26	85	11	70	1	23	0	75	0.91
56600719--56600753	13	2.7	13	90	0	61	40	45	0	14	1.45
56600863--56600939	9	8.6	9	89	0	100	23	9	27	40	1.84
56600855--56600939	18	4.7	18	89	0	125	24	8	27	40	1.83
56601293--56601393	29	3.5	29	86	4	123	45	2	22	28	1.67
56601540--56601569	6	5.0	6	91	0	51	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56601601--56601639	18	2.2	18	90	0	60	53	0	0	46	1.00
56602586--56602631	21	2.1	23	92	8	78	39	0	0	60	0.97
56604600--56604762	44	3.6	43	83	14	209	29	22	15	31	1.95
56604652--56604750	51	1.9	51	91	4	164	28	23	16	32	1.96
56611509--56611583	37	2.0	37	100	0	150	21	12	21	45	1.84
56617206--56617277	35	2.1	35	100	0	144	33	8	23	34	1.85
56619327--56619568	105	2.3	105	97	0	448	28	29	12	28	1.93
56623146--56623244	41	2.7	36	77	18	89	42	13	7	37	1.71
56623175--56623262	41	2.2	41	97	2	169	39	19	6	34	1.78
56623322--56623402	36	2.2	37	82	2	101	43	14	6	35	1.71

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