genome.fa.s9.2.7.7.80.10.50.1000.121.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_chr10
Parameters: 2 7 7 80 10 50 1000
Length:  95480121

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   280   281   282   283   284   

This is table  121  of  284  ( 34012 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)
40092044--40092265	116	1.9	117	91	0	365	22	26	10	40	1.87
40104443--40104505	15	4.2	15	75	0	63	50	15	17	15	1.78
40115466--40115535	27	2.6	27	95	2	113	31	28	12	27	1.93
40115466--40115563	28	3.5	28	90	2	135	31	28	13	26	1.94
40121457--40121493	19	1.9	19	88	0	56	16	37	18	27	1.92
40122434--40122487	20	2.7	20	85	0	72	12	31	31	24	1.93
40124997--40125160	42	3.9	42	78	7	170	29	24	16	29	1.96
40133365--40133400	18	2.1	17	94	5	63	5	5	2	86	0.79
40133494--40133564	23	3.0	23	76	17	74	42	0	4	53	1.20
40133504--40133564	23	2.5	25	81	10	81	40	0	3	55	1.16
40133557--40133625	22	3.1	21	85	8	84	44	0	0	55	0.99
40133557--40133625	21	3.1	22	83	12	88	44	0	0	55	0.99
40133664--40133723	28	2.1	29	84	6	77	38	0	1	60	1.07
40133546--40133817	123	2.2	122	83	10	331	40	2	3	52	1.33
40133664--40133760	24	4.3	22	76	21	87	40	0	2	57	1.10
40133890--40133929	20	2.0	20	85	0	53	47	2	0	50	1.14
40133995--40134134	20	7.7	20	68	30	100	57	0	0	41	1.03
40133997--40134137	21	6.6	21	68	18	67	58	0	0	41	1.03
40134006--40134091	7	13.0	7	72	9	65	56	1	0	41	1.06
40134097--40134144	22	2.1	23	92	3	80	58	0	0	41	0.98
40134066--40134146	35	2.3	35	89	8	121	58	0	0	41	0.98
40147699--40147736	18	2.1	19	90	5	60	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40147822--40147905	39	2.2	39	80	4	89	46	11	2	39	1.54
40147819--40147893	14	5.7	13	81	7	62	46	14	1	37	1.53
40147819--40147934	13	8.9	13	72	9	67	44	13	2	38	1.58
40147836--40147934	19	5.2	19	69	11	67	43	13	3	40	1.59
40147923--40147973	18	2.6	20	84	15	79	39	13	3	43	1.63
40148138--40148201	29	2.2	29	97	0	119	45	0	20	34	1.51
40150148--40150231	43	2.0	43	100	0	168	45	14	7	33	1.72
40157395--40157427	12	2.6	13	85	9	50	87	3	6	3	0.71
40157565--40157639	23	3.1	23	68	17	62	21	14	2	61	1.45
40157575--40157647	25	3.0	25	78	10	87	21	10	2	64	1.38
40157572--40157649	24	3.2	24	75	15	88	20	11	2	65	1.36
40157572--40157655	25	3.4	25	71	17	77	21	13	2	63	1.41
40157674--40157735	25	2.7	22	79	13	72	16	16	4	62	1.48
40157813--40157861	25	2.0	25	88	8	73	12	14	4	69	1.33
40160389--40160442	15	3.3	15	74	18	54	44	1	1	51	1.22
40160524--40160568	16	2.9	16	80	12	58	46	0	0	53	1.00
40161951--40162023	38	1.9	38	85	0	101	30	19	19	31	1.96
40164528--40164567	19	1.9	19	85	14	53	30	2	17	50	1.59
40167435--40167659	40	5.7	40	87	5	305	24	22	27	25	2.00
40167435--40167692	119	2.2	119	82	6	301	25	21	27	25	2.00
40170676--40170770	35	2.7	35	81	3	102	27	25	17	29	1.98
40172226--40172266	20	2.1	19	86	4	55	46	9	4	39	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40172595--40172627	9	3.8	9	88	4	50	54	0	0	45	0.99
40172618--40172651	17	2.0	18	88	11	54	41	11	0	47	1.40
40177247--40177456	40	5.3	39	89	4	242	25	21	27	25	1.99
40177194--40177456	120	2.2	120	82	4	309	25	21	27	25	1.99
40177195--40177491	80	3.7	80	81	6	230	26	21	27	24	1.99
40187062--40187325	40	6.7	40	89	5	360	25	27	21	25	1.99
40193725--40193792	29	2.3	29	82	5	84	27	29	13	29	1.94
40193614--40193941	174	1.9	174	95	1	595	31	24	14	30	1.94
40193894--40193972	29	2.7	30	82	13	110	30	30	13	25	1.94
40200947--40201112	42	3.9	42	76	4	127	31	25	16	26	1.96
40212454--40212490	15	2.3	16	86	13	58	62	16	10	10	1.55
40212460--40212490	15	2.1	15	100	0	62	61	12	12	12	1.58
40217857--40217901	22	2.0	23	82	4	56	44	11	2	42	1.52
40222906--40222990	41	2.1	41	100	0	170	29	20	11	38	1.88
40223646--40223678	16	2.0	17	88	5	50	9	6	9	75	1.18
40229392--40229534	71	2.0	71	100	0	286	47	9	11	31	1.72
40237844--40238326	260	1.9	260	97	0	921	21	18	24	35	1.95
40239393--40239651	129	2.0	129	93	0	446	27	10	17	44	1.82
40255475--40255589	41	2.7	42	76	7	126	29	26	18	25	1.98
40260750--40260781	17	1.9	17	93	6	57	53	12	15	18	1.73
40267268--40267423	84	1.9	84	81	0	195	32	26	15	25	1.95
40267272--40267423	43	3.6	43	76	3	155	31	26	15	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40271877--40271954	21	3.8	21	75	8	61	23	17	16	42	1.89
40271882--40272017	42	3.3	42	79	7	127	19	16	16	46	1.84
40274242--40274352	29	3.8	29	89	0	168	22	22	14	40	1.90
40280344--40280543	107	1.9	107	83	4	260	27	17	17	38	1.91
40293101--40293157	4	14.2	4	100	0	114	50	24	0	24	1.49
40301809--40302129	46	6.8	47	77	9	253	23	31	18	26	1.97
40306716--40306762	23	2.0	23	88	8	69	48	2	0	48	1.13
40309979--40310012	17	2.0	17	94	0	59	55	5	8	29	1.54
40310673--40310706	6	5.7	6	100	0	68	17	14	0	67	1.23
40312147--40312260	56	2.0	56	94	0	201	41	7	25	25	1.82
40317203--40317280	40	2.0	40	100	0	156	33	14	14	38	1.86
40319727--40319812	24	3.8	24	77	14	69	46	0	1	52	1.08
40319899--40319992	44	2.1	46	86	4	129	34	27	6	31	1.82
40319974--40320044	16	4.4	16	87	0	106	29	29	7	33	1.84
40323271--40323553	85	3.3	84	90	1	422	23	25	21	29	1.99
40323556--40324931	133	10.3	133	90	1	1947	26	22	20	29	1.99
40323938--40324589	90	7.3	90	67	15	266	25	23	20	30	1.99
40324759--40325079	173	1.9	173	99	0	633	28	20	22	28	1.99
40341805--40341867	31	2.1	30	85	14	85	47	6	0	46	1.28
40354858--40354955	27	3.5	28	90	2	135	26	13	28	31	1.94
40354886--40354968	27	3.0	27	87	5	96	30	12	25	32	1.92
40354858--40354969	28	4.0	27	83	6	98	28	12	25	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40357971--40358094	6	20.3	6	75	3	104	75	4	4	15	1.15
40357973--40358043	24	3.0	24	93	0	115	73	7	2	16	1.18
40357971--40358070	36	2.8	36	82	0	119	75	5	5	15	1.15
40358030--40358088	20	3.0	20	87	4	77	77	3	5	13	1.05
40362476--40362632	40	3.8	41	77	4	129	23	29	20	26	1.99
40362795--40362901	28	3.8	28	84	0	124	29	24	11	34	1.90
40371558--40371595	19	2.0	20	85	15	53	36	0	23	39	1.55
40375428--40375611	50	3.7	49	79	4	208	26	15	26	31	1.96
40375424--40375611	100	1.9	100	88	1	288	26	15	26	30	1.96
40381578--40381737	72	2.2	72	90	3	250	26	16	25	31	1.97
40382795--40382828	17	2.0	17	100	0	68	17	11	5	64	1.45
40382794--40382834	17	2.3	18	87	12	66	24	12	4	58	1.53
40389531--40389663	46	2.9	46	89	1	203	20	21	26	31	1.98
40392156--40392197	20	2.1	20	86	0	57	40	7	0	52	1.29
40413147--40413281	72	1.9	72	87	0	198	35	22	17	24	1.95
40421976--40422451	238	2.0	238	97	0	889	31	19	9	38	1.84
40424791--40424946	43	3.6	44	78	5	149	26	15	26	31	1.96
40427042--40427154	42	2.7	42	88	2	165	19	27	32	20	1.97
40429167--40429204	19	2.0	20	85	15	53	39	23	0	36	1.55
40429433--40429554	46	2.7	46	90	0	190	30	27	20	21	1.98
40429431--40429573	46	3.1	45	82	6	128	30	27	20	21	1.98
40436686--40436723	19	2.0	20	85	15	53	39	23	0	36	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40436946--40437073	46	2.8	46	81	9	154	30	27	19	22	1.98
40436949--40437092	46	3.1	45	71	18	127	29	27	19	22	1.98
40437496--40437555	30	2.0	30	83	0	75	33	25	6	35	1.82
40440825--40440997	46	3.7	46	75	10	172	23	20	26	29	1.99
40440822--40440991	93	1.8	93	88	0	259	23	20	27	28	1.99
40448171--40448326	47	3.3	47	73	16	162	25	20	27	26	1.99
40453942--40454166	40	5.6	39	80	4	218	22	27	24	25	2.00
40453906--40454166	80	3.3	80	79	3	267	22	26	24	25	2.00
40455873--40455925	27	2.0	27	96	0	97	15	18	26	39	1.90
40462167--40462472	40	7.6	40	79	1	274	24	26	23	25	2.00

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   280   281   282   283   284