genome.fa.s25.2.7.7.80.10.50.1000.131.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  131  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)
39205103--39205131	13	2.2	13	100	0	58	34	0	0	65	0.93
39207667--39207764	41	2.4	41	89	5	155	25	17	23	33	1.96
39208685--39208717	16	2.0	17	88	5	50	69	0	3	27	1.03
39212938--39213009	21	3.4	21	70	0	72	44	15	25	15	1.85
39212896--39213025	42	3.1	42	78	2	127	44	16	21	17	1.86
39214124--39214161	17	2.2	18	85	4	51	28	10	7	52	1.64
39215054--39215278	77	2.9	74	88	4	297	53	1	6	38	1.36
39215065--39215278	75	2.8	77	92	4	342	54	1	6	38	1.34
39215253--39215340	27	3.3	27	74	13	83	48	1	10	39	1.44
39215276--39215341	29	2.4	27	82	5	78	46	1	10	40	1.47
39217401--39217738	51	6.7	50	79	5	365	28	25	15	29	1.96
39217395--39217738	102	3.4	102	89	2	487	29	25	15	29	1.96
39220537--39220656	43	2.8	44	88	3	163	28	22	20	28	1.99
39220634--39220926	88	3.3	88	89	0	406	28	24	19	27	1.99
39220716--39220858	44	3.3	42	66	14	101	24	26	20	28	1.99
39221205--39221263	24	2.4	24	94	2	100	27	25	13	33	1.93
39222236--39222352	39	3.1	39	83	2	139	19	23	14	42	1.88
39222236--39222328	38	2.4	38	89	3	134	23	21	12	41	1.88
39231037--39231142	37	2.9	37	92	2	180	24	20	16	37	1.93
39231106--39231374	46	5.6	46	81	13	326	27	23	14	34	1.94
39231106--39231368	98	2.7	98	95	0	472	27	23	14	34	1.93
39234412--39234443	14	2.2	15	94	5	57	75	0	6	18	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39234640--39234775	2	70.0	2	67	8	57	50	0	7	41	1.35
39234679--39234776	29	3.2	30	81	7	117	51	1	7	40	1.36
39234810--39234846	19	1.9	19	88	0	56	62	2	2	32	1.23
39237460--39237493	17	1.9	18	88	5	52	70	8	2	17	1.25
39237557--39237590	17	1.9	18	94	5	61	0	29	0	70	0.87
39237553--39237600	21	2.3	21	82	10	62	0	31	0	68	0.90
39238322--39238368	23	2.0	23	84	8	60	27	4	4	63	1.31
39247424--39247466	23	1.9	23	85	4	61	60	11	6	20	1.54
39247677--39247718	21	2.0	21	85	4	57	35	4	0	59	1.19
39247710--39247765	29	1.9	30	85	7	80	46	1	5	46	1.36
39250931--39251048	32	3.7	31	79	3	112	44	17	14	22	1.85
39255854--39255903	22	2.4	21	83	9	66	30	10	6	54	1.58
39255862--39255911	22	2.3	22	92	0	82	32	12	4	52	1.57
39266426--39266501	33	2.3	32	77	6	80	34	17	22	26	1.96
39271730--39271780	21	2.4	21	96	0	93	29	3	29	37	1.75
39282225--39282356	43	3.1	43	84	1	158	33	21	16	28	1.95
39282192--39282394	43	4.7	42	78	6	149	31	25	16	26	1.97
39286280--39286305	13	2.0	13	100	0	52	38	15	7	38	1.76
39295632--39295880	50	4.8	50	85	4	284	20	29	24	26	1.99
39295631--39295880	100	2.4	104	88	6	357	20	29	24	26	1.99
39295975--39296006	13	2.5	13	94	0	55	56	12	0	31	1.37
39296218--39296275	30	1.9	30	89	0	89	31	24	3	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39303222--39303470	50	4.8	50	85	4	284	20	29	24	26	1.99
39303221--39303470	100	2.4	104	88	6	357	20	29	24	26	1.99
39303565--39303596	13	2.5	13	94	0	55	56	12	0	31	1.37
39303808--39303865	30	1.9	30	89	0	89	31	24	3	41	1.71
39305784--39305956	43	4.0	43	76	8	156	30	26	19	23	1.98
39305784--39305942	44	3.7	44	71	15	118	29	27	19	23	1.98
39305784--39305948	86	1.9	85	80	10	194	30	26	19	23	1.98
39306310--39306461	72	2.1	72	88	1	234	26	23	23	26	2.00
39306357--39306562	114	1.8	114	88	1	315	26	19	25	28	1.99
39306475--39306793	73	4.4	73	87	2	451	26	22	25	26	2.00
39306319--39307056	334	2.2	333	92	2	1214	25	21	25	27	2.00
39306809--39307056	73	3.4	72	84	3	325	24	21	25	28	1.99
39306630--39307284	187	3.5	187	70	13	552	24	22	26	26	2.00
39306548--39307168	261	2.4	261	88	1	926	24	22	26	27	2.00
39306956--39307517	114	4.9	114	86	1	743	25	20	26	27	1.99
39307747--39307794	22	2.2	21	77	3	51	20	0	33	45	1.52
39307832--39307880	7	6.9	7	81	11	55	16	0	34	48	1.46
39308127--39308166	14	2.8	16	82	17	52	27	0	32	40	1.57
39308147--39308228	21	3.9	21	70	4	67	31	0	32	35	1.58
39308207--39308234	14	2.0	14	100	0	56	28	0	35	35	1.58
39309508--39309535	12	2.3	12	100	0	56	14	0	10	75	1.06
39312148--39312283	43	3.2	43	86	0	128	22	17	26	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39312173--39312290	43	2.7	43	90	0	182	20	16	28	33	1.95
39323734--39323798	30	2.1	30	83	8	78	40	10	12	36	1.78
39325854--39325943	26	3.5	26	66	22	71	42	11	0	46	1.39
39325854--39325944	25	3.5	26	69	16	80	42	10	0	46	1.39
39326095--39326129	2	16.5	2	88	11	52	48	5	0	45	1.26
39326091--39326129	11	3.8	11	83	16	57	46	7	0	46	1.31
39326097--39326129	9	3.8	9	96	4	59	48	6	0	45	1.27
39326235--39326266	12	2.4	14	90	10	50	68	0	0	31	0.90
39331695--39331730	16	2.2	16	90	0	54	44	8	2	44	1.48
39336244--39336294	27	1.9	26	84	11	68	54	13	9	21	1.67
39336466--39336493	2	14.0	2	100	0	56	50	0	0	50	1.00
39336552--39336596	23	2.0	23	81	0	54	62	4	4	28	1.34
39340894--39340944	25	2.1	25	88	3	77	29	0	7	62	1.23
39341224--39341354	70	1.9	70	87	3	192	45	9	9	35	1.68
39360910--39360948	21	1.9	20	94	5	69	33	10	25	30	1.89
39366764--39366837	24	3.0	24	76	5	69	18	25	21	33	1.96
39369596--39369620	3	8.3	3	100	0	50	68	0	0	32	0.90
39372783--39372821	16	2.3	18	86	8	55	30	20	17	30	1.96
39374489--39374776	143	2.0	143	81	5	332	45	12	8	32	1.72
39377060--39377110	23	2.2	24	82	3	59	41	7	1	49	1.43
39385486--39385520	17	2.0	18	88	5	54	42	2	0	54	1.15
39386408--39386432	11	2.3	11	100	0	50	72	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39386539--39386565	14	1.9	14	100	0	54	74	11	0	14	1.08
39392188--39392246	31	1.9	31	89	0	91	30	10	11	47	1.73
39396046--39396081	16	2.2	16	100	0	72	25	33	0	41	1.55
39397249--39397743	125	4.0	125	80	5	554	29	16	22	31	1.96
39397265--39397749	249	1.9	251	89	2	753	29	16	22	31	1.96
39400953--39401859	22	42.0	22	79	5	895	25	0	30	43	1.59
39400952--39401862	43	21.1	43	81	4	872	25	0	30	43	1.59
39400961--39401859	65	13.9	65	85	2	979	25	0	30	43	1.59
39401273--39401306	15	2.3	15	94	0	59	14	0	38	47	1.45
39402133--39402172	21	1.9	21	85	10	55	12	20	37	30	1.89
39402436--39402474	18	2.2	18	90	0	60	41	7	30	20	1.80
39405952--39406015	4	16.0	4	100	0	128	50	25	0	25	1.50
39407172--39407207	18	2.0	19	89	10	58	30	0	0	69	0.89
39409488--39409760	131	2.1	131	93	0	465	34	13	13	38	1.84
39411428--39412141	44	15.9	44	70	13	400	27	20	19	31	1.97
39411559--39411963	137	3.0	136	86	2	530	27	19	19	32	1.97
39411900--39412079	89	2.0	87	86	4	245	27	22	17	32	1.96
39413015--39413048	9	4.0	8	85	14	50	11	5	0	82	0.83
39415725--39415768	5	8.8	5	85	9	63	75	2	0	22	0.92
39415727--39415775	24	2.0	24	88	7	73	73	4	2	20	1.10
39429335--39429376	15	2.6	17	88	7	61	64	7	0	28	1.20
39432743--39432793	21	2.4	21	96	0	93	17	1	49	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39433107--39433598	250	2.0	250	85	4	679	30	16	19	33	1.94
39434634--39434680	22	2.1	22	96	0	85	42	4	12	40	1.63
39435861--39435894	17	1.9	18	88	5	52	38	5	0	55	1.24
39435988--39436012	12	2.1	12	100	0	50	44	16	8	32	1.76
39436009--39436052	19	2.3	19	92	0	70	47	11	2	38	1.52
39436048--39436413	9	40.9	9	73	15	278	45	17	1	36	1.56
39436123--39436202	25	3.1	25	84	10	115	45	13	1	40	1.52
39436123--39436194	28	2.8	25	91	6	108	47	13	1	37	1.52
39437525--39437620	47	2.0	47	100	0	192	22	16	26	34	1.95
39439964--39440333	104	3.6	104	91	1	582	19	20	29	31	1.97

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