genome.fa.s20.2.7.7.80.10.50.1000.57.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_D07
Parameters: 2 7 7 80 10 50 1000
Length:  56457815

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   

This is table  57  of  189  ( 22580 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)
16122515--16122582	35	2.0	34	82	8	84	41	8	2	47	1.50
16125693--16125736	23	1.9	24	86	9	65	54	6	13	25	1.63
16141506--16141675	43	4.0	43	86	4	191	25	18	18	37	1.93
16143203--16143245	9	4.3	9	78	21	50	30	2	2	65	1.18
16144470--16144522	18	2.9	18	80	2	61	41	45	1	11	1.51
16144626--16144701	9	8.4	9	79	5	82	28	11	19	39	1.87
16144626--16144701	18	4.2	18	81	0	98	28	11	19	39	1.87
16144621--16144701	27	3.0	27	81	1	99	28	12	19	39	1.88
16150641--16150670	7	4.3	7	100	0	60	60	0	0	40	0.97
16176520--16176584	17	4.1	14	76	20	58	0	23	4	72	1.03
16178522--16178550	9	3.2	9	100	0	58	68	0	0	31	0.89
16178805--16178864	30	2.0	31	83	9	79	41	0	38	20	1.52
16179076--16179103	9	3.1	9	100	0	56	32	10	10	46	1.73
16182987--16183045	30	1.9	31	86	3	84	45	8	16	28	1.77
16183353--16183395	19	2.3	19	80	8	52	48	0	13	37	1.43
16185004--16185045	3	14.0	3	100	0	84	0	33	0	66	0.92
16198153--16198220	34	2.0	35	85	2	93	33	8	14	42	1.77
16199773--16199800	2	14.0	2	100	0	56	50	0	0	50	1.00
16200240--16200292	22	2.3	24	83	6	65	50	0	1	47	1.12
16207383--16207435	24	2.3	23	81	9	63	26	7	16	49	1.73
16209248--16209309	28	2.2	28	82	0	70	45	3	19	32	1.66
16209372--16209575	59	3.4	59	91	0	327	52	7	4	34	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16211506--16211554	19	2.6	18	83	6	53	65	0	2	32	1.04
16213695--16213759	27	2.4	28	92	7	107	40	6	0	53	1.26
16214182--16214247	19	3.5	19	79	4	89	37	10	1	50	1.47
16214473--16214531	19	3.2	19	82	4	84	49	0	13	37	1.43
16242409--16242558	58	2.5	62	81	7	170	40	14	15	30	1.86
16252817--16253066	126	2.0	126	96	0	464	38	15	17	28	1.90
16253985--16254033	25	2.0	25	100	0	98	32	4	4	59	1.35
16253986--16254042	25	2.3	25	90	6	89	33	7	3	56	1.43
16259767--16259808	18	2.3	18	84	8	50	47	0	2	50	1.14
16260140--16260181	18	2.2	20	80	16	54	42	2	7	47	1.43
16260371--16260461	28	3.1	27	74	22	94	41	7	3	47	1.48
16260331--16260461	60	2.2	60	91	0	208	43	9	3	44	1.51
16260354--16260449	28	3.2	30	73	22	103	42	7	2	47	1.42
16264867--16264902	9	3.6	10	88	11	56	58	0	0	41	0.98
16265029--16265064	16	2.2	16	100	0	72	50	5	5	38	1.49
16265109--16265137	8	3.6	8	100	0	58	51	10	0	37	1.36
16265217--16265242	3	8.7	3	100	0	52	69	0	0	30	0.89
16266677--16268181	46	32.7	46	86	4	1829	30	26	16	25	1.97
16269584--16269648	20	3.3	18	79	16	67	1	15	1	81	0.84
16269596--16269667	14	5.1	14	80	9	76	0	15	2	81	0.79
16269584--16269667	24	3.4	24	80	19	86	1	14	2	82	0.84
16269584--16269667	19	4.4	19	77	5	80	1	14	2	82	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16274222--16274259	11	3.6	10	89	10	58	57	0	0	42	0.98
16274388--16274423	16	2.2	16	100	0	72	50	5	5	38	1.49
16274469--16274497	8	3.6	8	100	0	58	51	10	0	37	1.36
16274577--16274602	3	8.7	3	100	0	52	69	0	0	30	0.89
16280429--16280537	52	2.1	52	98	0	209	53	10	13	22	1.70
16280922--16280971	24	2.1	24	81	7	57	64	8	0	28	1.22
16285380--16285433	17	3.0	18	84	10	58	37	0	1	61	1.07
16285398--16285441	24	1.9	22	81	9	52	38	0	0	61	0.96
16285524--16285555	5	6.4	5	92	0	55	56	0	3	40	1.15
16289017--16289070	24	2.2	25	78	15	60	46	0	1	51	1.11
16289140--16289191	22	2.3	21	78	15	52	36	3	3	55	1.36
16294428--16294467	21	1.9	21	85	10	55	42	2	0	55	1.13
16294725--16294775	13	3.9	13	89	0	84	41	27	7	23	1.82
16295437--16295496	6	10.0	6	76	7	50	45	1	33	20	1.61
16307113--16307170	30	1.9	30	89	0	89	41	3	24	31	1.71
16307382--16307413	13	2.5	13	94	0	55	31	0	12	56	1.37
16307507--16307748	50	4.7	50	86	4	297	26	24	29	19	1.99
16307507--16307756	100	2.4	103	88	6	364	26	24	29	20	1.99
16314705--16314762	30	1.9	30	89	0	89	41	3	24	31	1.71
16314974--16315007	14	2.5	13	90	9	50	32	0	11	55	1.36
16315104--16315345	50	4.7	50	86	4	297	26	24	29	19	1.99
16315104--16315353	100	2.4	103	88	6	364	26	24	29	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16316520--16316579	29	2.1	29	100	0	120	23	16	26	33	1.96
16316869--16316916	24	2.0	25	83	4	62	64	8	10	16	1.48
16317024--16317097	29	2.5	29	84	4	94	48	14	12	24	1.78
16318063--16318106	24	1.9	24	90	9	74	36	0	2	61	1.09
16318203--16318230	9	3.1	9	100	0	56	57	10	0	32	1.33
16318173--16318373	59	3.1	68	84	13	307	45	8	4	40	1.57
16318362--16318403	16	2.6	16	92	0	66	42	7	2	47	1.43
16318377--16318436	22	2.7	22	82	7	68	40	1	1	56	1.19
16319370--16319426	23	2.5	23	91	0	96	12	22	35	29	1.91
16320563--16320605	21	2.0	21	90	0	68	53	11	11	23	1.69
16321276--16321338	20	3.2	20	79	2	74	60	6	0	33	1.22
16321270--16321359	39	2.3	39	80	7	101	60	6	0	33	1.23
16324398--16324596	34	5.8	34	81	2	218	39	15	22	22	1.91
16324410--16324597	69	2.7	68	83	2	214	39	16	21	22	1.92
16324408--16324596	103	1.8	103	95	0	342	39	16	21	22	1.92
16324834--16324871	14	2.8	13	88	7	58	36	13	2	47	1.56
16327517--16327543	3	9.0	3	100	0	54	66	0	33	0	0.92
16330345--16330378	17	1.9	18	88	5	52	14	14	17	52	1.74
16337885--16337966	33	2.5	33	85	0	101	21	26	18	32	1.97
16343881--16343936	15	4.0	15	73	17	57	55	0	0	44	0.99
16343886--16344084	59	3.3	59	72	19	205	53	3	1	41	1.27
16343864--16344103	120	2.0	120	96	0	444	51	4	2	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16351007--16351034	13	2.2	13	100	0	56	28	7	7	57	1.52
16354907--16355021	37	3.1	37	71	12	117	52	0	6	40	1.32
16354900--16355059	75	2.1	75	77	2	178	51	1	6	40	1.35
16355559--16355602	21	2.1	21	83	8	54	61	2	0	36	1.09
16355553--16355603	20	2.5	21	72	15	52	58	3	0	37	1.16
16358898--16358939	22	1.9	22	85	9	59	71	4	4	19	1.22
16369178--16369204	6	4.5	6	100	0	54	0	70	0	29	0.88
16375089--16375648	280	2.0	281	91	1	917	38	11	13	36	1.81
16381389--16381419	13	2.5	13	94	5	55	16	9	0	74	1.07
16387637--16387713	23	3.3	23	79	0	100	31	16	20	31	1.95
16387850--16387906	30	2.0	29	86	6	80	21	17	29	31	1.96
16387991--16388093	30	3.4	30	86	2	118	25	18	28	28	1.98
16403278--16403310	4	8.2	4	100	0	66	75	0	24	0	0.80
16404309--16404335	3	9.0	3	100	0	54	66	0	0	33	0.92
16404514--16404557	23	2.0	22	95	4	79	54	2	6	36	1.40
16405306--16405382	21	3.8	20	94	3	122	35	15	10	38	1.82
16413052--16413202	43	3.5	43	78	8	137	27	17	24	29	1.98
16413602--16413652	23	2.2	23	89	0	75	41	19	9	29	1.84
16419347--16419473	23	5.4	23	70	14	73	34	24	16	24	1.95
16419374--16419497	24	5.3	23	69	14	74	37	24	14	23	1.92
16419320--16419544	94	2.4	94	89	0	333	36	24	15	23	1.93
16419327--16419534	47	4.4	47	84	4	269	37	24	15	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16420214--16420281	20	3.4	20	85	0	82	38	23	29	8	1.85
16420206--16420281	40	1.9	40	81	5	91	35	23	31	9	1.86
16425909--16425938	3	10.0	3	100	0	60	66	0	33	0	0.92
16438967--16439025	29	2.0	29	100	0	118	35	3	27	33	1.74
16439447--16439471	13	1.9	13	100	0	50	40	0	20	40	1.52
16448998--16449040	18	2.2	21	88	12	65	37	0	0	62	0.95
16449804--16449830	4	6.8	4	100	0	54	77	0	22	0	0.76
16455638--16455684	22	2.0	24	84	8	62	70	4	14	10	1.31
16456843--16456888	16	2.8	17	75	15	51	26	13	2	58	1.46
16456956--16457024	35	2.1	36	84	13	94	33	5	0	60	1.20

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