genome.fa.s8.2.7.7.80.10.50.1000.168.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: At_chr9
Parameters: 2 7 7 80 10 50 1000
Length:  91122320

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   

This is table  168  of  279  ( 33431 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)
55794586--55794752	46	3.6	46	81	0	208	38	13	27	20	1.89
55794736--55794768	16	2.1	16	94	0	57	42	9	30	18	1.81
55794690--55794814	62	2.0	62	85	0	169	41	12	25	20	1.87
55794752--55794859	46	2.4	45	85	1	135	46	12	22	18	1.83
55799489--55799528	18	2.2	18	86	8	55	22	2	2	72	1.09
55806248--55806277	14	2.1	14	93	0	51	46	36	0	16	1.47
55817713--55817743	12	2.6	12	94	0	53	0	25	0	74	0.82
55817823--55817853	16	1.9	16	93	0	53	54	3	0	41	1.16
55818978--55819062	41	2.1	41	84	2	109	18	3	10	67	1.35
55819558--55819638	29	2.6	31	68	18	78	35	9	3	50	1.53
55833918--55834224	47	6.5	47	94	1	492	27	14	25	31	1.95
55841067--55841183	61	1.9	62	85	1	164	39	17	11	31	1.86
55841643--55841793	76	2.0	78	85	2	207	41	5	3	50	1.41
55841946--55841993	21	2.3	21	86	10	64	50	0	0	50	1.00
55843214--55843306	48	1.9	48	84	0	123	26	12	19	40	1.88
55843466--55843505	21	1.9	21	89	0	62	55	0	2	42	1.13
55843683--55843714	12	2.7	12	95	0	55	71	6	9	12	1.29
55845868--55846089	87	2.6	87	86	4	297	25	27	15	31	1.96
55846017--55846158	75	1.9	75	80	0	167	27	23	14	33	1.94
55847023--55847107	39	2.2	39	89	4	136	12	21	21	44	1.85
55857528--55857574	18	2.6	18	82	0	58	27	34	10	27	1.90
55870176--55870241	31	2.1	31	83	5	80	39	15	9	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55870266--55870341	21	3.3	21	71	25	73	40	1	5	52	1.32
55870277--55870360	25	3.4	25	76	18	104	42	2	5	48	1.40
55870282--55870357	23	3.2	23	76	20	93	39	2	6	51	1.42
55870260--55870357	48	2.0	48	100	0	196	39	2	6	52	1.38
55870281--55870357	21	3.0	28	68	28	89	40	2	6	50	1.42
55870988--55871035	17	2.8	16	78	12	51	70	2	0	27	0.98
55883703--55883802	50	2.0	50	94	0	173	45	11	4	40	1.58
55884081--55884113	12	2.7	13	86	13	52	45	0	0	54	0.99
55886581--55886611	3	10.3	3	100	0	62	32	0	0	67	0.91
55892622--55892666	22	2.0	22	91	0	72	48	15	2	33	1.57
55894446--55894486	21	2.0	21	95	0	73	17	17	14	51	1.77
55895706--55895749	11	3.7	13	77	22	51	31	4	18	45	1.69
55895712--55895756	22	2.0	22	91	0	72	33	2	15	48	1.57
55897377--55897421	22	2.0	22	91	0	72	48	15	2	33	1.57
55904708--55904737	3	10.3	3	92	7	53	63	0	0	36	0.95
55908225--55908431	47	4.2	48	79	6	179	24	16	28	30	1.96
55914687--55914735	23	2.1	23	85	7	64	24	2	4	69	1.17
55926862--55926996	40	3.4	39	81	9	134	40	22	17	19	1.91
55927036--55927231	41	4.8	41	92	0	311	19	20	26	32	1.97
55927802--55927833	15	2.1	15	94	0	55	25	0	34	40	1.56
55928551--55928604	21	2.6	21	79	8	56	24	1	38	35	1.66
55932080--55932136	27	2.2	26	81	9	62	28	7	0	64	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55932383--55932526	43	3.4	43	91	3	220	27	18	31	21	1.97
55932587--55932630	22	2.0	22	95	0	79	43	27	20	9	1.82
55937556--55937588	2	16.5	2	93	0	57	45	0	51	3	1.16
55942560--55942604	21	2.1	21	91	0	72	40	28	17	13	1.88
55945378--55945405	14	2.0	14	100	0	56	35	7	7	50	1.57
55950190--55950257	21	3.3	21	76	8	68	75	2	8	13	1.16
55950209--55950238	11	2.7	11	100	0	60	76	0	6	16	0.99
55954806--55954831	13	2.0	13	100	0	52	46	15	15	23	1.83
55958597--55958715	21	6.0	20	68	20	63	59	4	0	36	1.17
55959236--55959363	3	42.7	3	100	0	256	67	0	0	32	0.91
55966848--55967024	29	6.1	29	83	11	229	49	0	11	38	1.39
55966901--55966951	24	2.2	23	93	6	93	43	0	11	45	1.40
55966842--55967010	84	2.0	84	95	4	306	47	0	11	40	1.40
55970540--55970592	21	2.5	21	90	0	79	32	39	7	20	1.81
55974460--55974521	32	2.0	32	81	12	76	33	6	4	54	1.47
55976173--55976272	42	2.4	42	91	3	157	38	11	29	22	1.88
55979473--55979543	31	2.4	30	76	4	81	45	11	7	36	1.67
55982727--55982754	3	9.3	3	100	0	56	0	35	0	64	0.94
55994999--55995065	17	3.8	17	72	16	57	38	7	14	38	1.75
55997224--55997248	13	1.9	13	100	0	50	44	8	0	48	1.32
56000127--56000218	48	1.9	48	84	0	121	21	21	3	53	1.60
56000390--56000450	28	2.1	31	85	14	85	27	14	6	50	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56009323--56009363	9	4.6	9	81	0	55	53	2	0	43	1.13
56021163--56021199	18	2.1	18	100	0	74	48	5	10	35	1.61
56021450--56021538	29	3.0	30	77	6	92	50	12	12	24	1.74
56021700--56021740	21	2.0	21	90	9	66	68	4	0	26	1.10
56022382--56022460	21	3.8	20	70	11	61	25	1	12	60	1.40
56026074--56026271	41	4.8	41	86	3	238	28	19	29	23	1.98
56032260--56032368	25	4.4	25	76	0	101	26	23	13	35	1.93
56032260--56032368	50	2.2	50	81	3	121	26	23	13	35	1.93
56035089--56035161	38	1.9	37	86	8	103	31	21	1	45	1.61
56035149--56035192	23	1.9	22	82	17	54	38	22	0	38	1.55
56042660--56042705	20	2.3	20	100	0	92	43	13	21	21	1.86
56044408--56044448	19	2.0	21	86	9	59	24	31	0	43	1.54
56044409--56044569	72	2.2	72	78	12	163	27	27	0	45	1.54
56047019--56047078	21	2.9	21	78	11	70	33	25	23	18	1.97
56048263--56048294	16	2.1	16	94	5	57	40	0	0	59	0.97
56048882--56048923	20	2.0	21	86	4	59	59	0	0	40	0.97
56052763--56052806	17	2.7	15	83	13	52	50	0	2	47	1.13
56067949--56067974	13	2.0	13	100	0	52	38	15	15	30	1.88
56080265--56080460	97	2.0	97	96	0	365	32	11	15	40	1.83
56080840--56080883	23	1.9	23	85	0	61	50	0	0	50	1.00
56083019--56083337	73	4.4	73	91	1	487	27	23	26	22	2.00
56083232--56083545	114	2.8	114	89	3	474	24	21	27	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56083865--56083896	14	2.3	14	100	0	64	28	0	34	37	1.57
56083914--56083962	7	6.4	7	78	17	53	18	2	46	32	1.60
56083914--56083962	15	3.2	15	85	8	55	18	2	46	32	1.60
56083911--56083961	23	2.2	24	92	3	86	15	1	49	33	1.56
56084189--56084229	21	1.9	22	85	5	57	21	0	36	41	1.54
56084212--56084260	14	3.5	13	86	13	62	22	0	44	32	1.53
56083761--56084374	303	2.0	299	90	4	959	28	2	27	41	1.67
56084387--56084585	106	1.9	106	90	1	317	51	11	9	28	1.68
56084638--56084847	103	2.0	104	87	5	305	48	12	12	27	1.76
56084387--56085044	241	2.6	245	87	7	927	48	12	12	27	1.76
56086259--56086323	30	2.1	31	83	8	80	32	4	12	50	1.60
56086460--56086520	31	2.0	31	83	6	79	42	6	9	40	1.64
56105346--56105389	20	2.2	21	84	12	65	61	4	0	34	1.16
56105347--56105417	19	3.7	19	83	9	83	57	4	1	36	1.27
56105468--56105497	9	3.4	9	90	9	53	53	0	10	36	1.35
56108913--56108980	20	3.5	19	82	8	75	54	4	2	38	1.36
56108913--56108990	19	4.1	19	79	9	79	55	5	2	37	1.36
56112384--56112461	40	2.0	40	87	5	113	38	6	25	29	1.81
56126102--56126212	6	19.0	6	87	5	156	30	0	0	69	0.89
56126114--56126202	46	2.0	46	95	2	162	31	0	0	68	0.90
56126108--56126208	51	2.0	52	94	2	177	30	0	0	69	0.89
56135557--56135863	47	6.6	47	92	1	483	38	13	19	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56135580--56135863	93	3.0	93	95	0	505	38	13	19	28	1.90
56135580--56135863	140	2.0	140	95	1	516	38	13	19	28	1.90
56136704--56136819	43	2.7	43	79	15	141	27	29	20	22	1.99
56141849--56141881	17	2.1	16	88	11	50	24	0	18	57	1.40
56142104--56142266	83	2.0	83	97	0	308	27	20	6	45	1.75
56162378--56162430	17	3.2	17	86	5	72	50	3	1	43	1.30
56162389--56162429	16	2.5	16	84	4	55	51	4	2	41	1.36
56162476--56162501	3	8.7	3	100	0	52	69	0	30	0	0.89
56164890--56164927	18	2.2	17	90	4	58	34	0	0	65	0.93
56165180--56165217	9	4.3	9	80	6	51	26	0	2	71	1.00

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   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279