genome.fa.s20.2.7.7.80.10.50.1000.33.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  33  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)
10305874--10305910	9	4.1	9	92	0	65	29	10	13	45	1.77
10306487--10306513	13	2.1	13	100	0	54	40	22	7	29	1.81
10309008--10309816	19	39.3	19	67	24	229	29	0	14	55	1.42
10309051--10309563	61	8.4	60	72	16	342	30	0	12	57	1.38
10309033--10309240	80	2.6	80	93	2	346	29	0	12	56	1.40
10309113--10309316	101	2.0	101	96	0	372	28	0	13	57	1.40
10309253--10309369	30	4.0	27	64	25	69	30	0	10	58	1.31
10309011--10309503	189	2.7	186	94	3	861	30	0	12	56	1.40
10309318--10309508	101	1.9	102	95	1	348	29	0	12	57	1.36
10309455--10309551	27	3.3	27	68	18	86	26	0	12	60	1.32
10309315--10309662	80	4.3	80	79	15	437	30	0	12	56	1.39
10309625--10309815	23	8.8	23	85	11	253	28	0	18	52	1.45
10309625--10309816	42	4.5	42	90	5	303	28	0	18	53	1.45
10309623--10309816	65	3.0	61	85	11	280	28	0	18	53	1.45
10309625--10309821	88	2.3	87	92	4	346	28	0	17	53	1.44
10309809--10309930	60	2.0	60	90	3	192	31	0	13	54	1.39
10310048--10310084	16	2.4	16	90	4	58	32	2	5	59	1.34
10318871--10318918	20	2.3	20	82	17	62	66	8	12	12	1.44
10319796--10319822	14	1.9	14	100	0	54	14	7	7	70	1.32
10319871--10319900	3	10.0	3	92	0	51	33	3	0	63	1.11
10319888--10319936	26	1.9	25	83	4	62	22	2	2	73	1.04
10324310--10324342	17	1.9	17	93	0	57	12	27	21	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10331803--10331932	59	2.2	59	83	2	154	25	14	11	48	1.77
10334918--10334957	20	2.0	20	90	0	62	32	10	7	50	1.64
10334903--10334969	34	1.9	35	90	3	109	34	8	10	46	1.70
10335934--10335996	31	2.0	31	84	6	83	44	7	9	38	1.66
10339237--10339268	9	3.6	9	91	0	55	0	59	40	0	0.97
10343129--10343191	33	2.0	31	81	6	72	28	14	15	41	1.87
10345374--10345406	13	2.6	13	90	4	50	84	0	15	0	0.61
10356239--10356265	11	2.5	11	100	0	54	66	0	7	25	1.17
10356468--10356512	24	1.9	24	90	4	74	57	4	6	31	1.44
10359855--10359880	7	3.7	7	100	0	52	57	0	0	42	0.98
10362506--10362706	106	1.9	106	96	0	375	31	18	19	30	1.96
10363167--10363272	37	2.8	38	77	16	105	50	0	13	35	1.41
10363559--10363615	22	2.6	23	78	18	75	64	3	7	24	1.34
10364327--10364351	13	1.9	13	100	0	50	68	0	8	24	1.16
10367283--10367312	15	1.9	16	93	6	53	73	13	0	13	1.10
10368206--10368240	14	2.4	14	95	4	61	42	11	17	28	1.83
10382371--10382418	19	2.7	17	75	9	51	22	8	0	68	1.16
10382494--10382558	3	21.7	3	77	12	62	29	4	3	63	1.30
10383040--10383387	123	2.8	123	94	0	608	30	16	21	32	1.95
10386512--10386639	55	2.3	55	93	4	213	43	5	10	39	1.63
10386633--10386785	29	5.3	29	95	0	261	31	0	24	44	1.54
10386862--10386972	25	4.6	25	68	20	83	45	14	2	37	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10386791--10386974	71	2.6	71	93	1	316	44	14	3	36	1.64
10389163--10389227	30	2.2	30	91	5	105	66	0	0	33	0.92
10389251--10389334	29	3.1	29	62	22	74	41	0	28	29	1.56
10389228--10389342	51	2.3	51	96	0	212	41	0	30	27	1.56
10389713--10389746	17	2.0	17	88	0	50	38	0	8	52	1.33
10389887--10389919	3	11.0	3	100	0	66	33	0	0	66	0.92
10394526--10394651	44	2.9	44	82	4	130	34	19	18	28	1.95
10396242--10396286	21	2.1	22	84	12	58	13	2	6	77	1.05
10398852--10398900	22	2.3	21	76	10	55	48	4	14	32	1.62
10403549--10403584	13	2.6	14	86	8	56	69	25	0	5	1.10
10408071--10408099	12	2.4	12	100	0	58	48	10	0	41	1.37
10415579--10415621	20	2.2	19	87	8	59	30	0	2	67	1.03
10417174--10417211	20	1.9	20	84	10	51	42	7	5	44	1.56
10425528--10425568	17	2.4	18	84	11	52	24	2	4	68	1.22
10432384--10432435	24	2.2	24	85	0	68	38	3	7	50	1.50
10434967--10435000	17	1.9	18	88	5	52	58	20	2	17	1.51
10435354--10435497	26	6.0	24	70	20	63	58	4	4	32	1.38
10435373--10435454	26	3.2	26	75	14	66	62	4	3	29	1.33
10438773--10438806	12	2.8	12	81	0	50	44	20	23	11	1.84
10441090--10441141	5	10.8	5	80	15	65	80	0	19	0	0.71
10441089--10441130	19	2.1	20	91	8	68	80	0	19	0	0.70
10441090--10441141	24	2.2	24	93	6	88	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10441405--10441726	105	3.0	106	84	5	411	26	16	8	48	1.75
10442194--10442251	24	2.4	24	91	0	89	31	12	24	32	1.91
10442604--10442862	89	2.9	89	81	2	243	32	22	21	23	1.98
10443068--10443207	44	3.2	44	69	2	129	25	22	25	26	2.00
10443050--10443239	87	2.2	86	89	3	290	29	22	24	23	1.99
10443097--10443232	44	3.1	44	67	2	121	28	20	25	25	1.99
10443078--10443301	87	2.6	87	84	3	227	28	21	26	24	1.99
10443530--10443642	45	2.5	45	81	1	129	26	17	27	28	1.98
10445881--10445943	30	2.1	30	82	5	74	39	9	6	44	1.62
10446420--10446445	5	5.2	5	100	0	52	19	0	0	80	0.71
10446907--10446980	29	2.5	31	88	4	107	21	13	16	48	1.80
10450188--10450253	26	2.5	26	72	13	64	33	9	21	36	1.85
10454029--10454063	16	2.2	16	94	0	61	54	5	2	37	1.39
10454928--10454998	21	3.4	21	88	0	106	4	47	15	32	1.65
10459220--10459260	22	1.9	21	90	5	64	21	2	0	75	0.92
10459317--10459610	105	2.8	106	88	5	438	26	13	12	47	1.78
10459566--10459605	21	1.9	21	90	10	64	27	0	0	72	0.85
10459993--10460027	14	2.5	14	90	9	54	28	45	2	22	1.67
10459968--10460091	50	2.5	50	80	9	119	34	39	2	23	1.68
10460345--10460371	14	1.9	14	100	0	54	37	37	0	25	1.57
10460460--10460950	115	4.3	114	83	2	610	27	25	21	25	2.00
10460460--10460950	229	2.1	227	86	3	664	27	25	21	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10460866--10461011	71	2.1	71	83	5	179	27	20	24	27	1.99
10460759--10461106	185	1.9	186	88	5	528	27	24	22	25	2.00
10462681--10462706	12	2.2	12	100	0	52	30	0	7	61	1.24
10464014--10464051	20	1.9	20	89	10	60	57	23	7	10	1.58
10465146--10465374	117	2.0	114	87	4	334	27	8	3	60	1.41
10465229--10465326	52	1.9	51	87	2	142	28	8	1	62	1.30
10465154--10465389	114	2.0	116	84	4	307	28	8	3	60	1.41
10469613--10469673	24	2.5	24	91	0	104	45	6	18	29	1.74
10475689--10475737	13	3.5	13	76	13	53	79	0	4	16	0.88
10476419--10476530	44	2.6	44	76	4	113	29	24	18	27	1.98
10476605--10476713	45	2.4	46	81	3	121	30	24	20	24	1.99
10476866--10477007	51	2.8	51	79	0	167	28	25	18	28	1.98
10477019--10477119	51	2.0	51	86	3	141	28	22	17	30	1.97
10476892--10477121	123	1.9	123	86	1	327	27	26	16	30	1.96
10478424--10478534	45	2.5	45	90	0	168	18	23	17	40	1.91
10490687--10490731	3	15.3	3	83	4	56	62	2	2	33	1.20
10491718--10491757	14	2.9	13	85	7	53	85	0	2	12	0.71
10492279--10492330	26	2.0	26	84	3	68	3	26	0	69	1.06
10492973--10493002	3	10.0	3	100	0	60	66	0	0	33	0.92
10495147--10495330	41	4.5	41	90	5	259	19	21	25	33	1.97
10495161--10495338	81	2.2	81	87	7	254	19	21	26	32	1.97
10495438--10495488	26	2.0	26	84	0	66	58	5	11	23	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10495903--10495941	21	1.9	21	89	5	62	20	0	41	38	1.53
10495902--10495935	14	2.4	14	90	9	52	17	0	44	38	1.49
10495923--10496164	89	2.7	89	96	1	434	28	1	23	47	1.59
10496156--10496199	7	6.3	7	83	0	52	11	0	47	40	1.39
10496478--10497213	9	84.8	9	68	21	262	45	15	1	38	1.53
10496478--10496944	34	13.3	34	67	23	181	45	14	0	38	1.51
10496513--10496545	16	2.1	16	100	0	66	45	24	0	30	1.53
10496533--10496630	22	4.6	22	68	16	64	48	13	1	36	1.49
10496656--10496687	16	2.0	16	100	0	64	43	25	0	31	1.55
10496625--10496722	50	2.0	50	83	4	126	41	15	0	42	1.46

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