genome.fa.s8.2.7.7.80.10.50.1000.95.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  95  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)
30781546--30781571	13	2.0	13	100	0	52	30	0	0	69	0.89
30781593--30781623	3	10.0	3	93	6	53	35	0	0	64	0.94
30792982--30793219	59	4.0	59	98	0	449	28	18	15	36	1.92
30794205--30794239	6	5.8	6	86	0	52	51	22	25	0	1.48
30794205--30794239	18	1.9	18	100	0	70	51	22	25	0	1.48
30795927--30796054	64	2.0	64	90	0	202	32	17	14	36	1.89
30796079--30796554	45	10.8	45	65	10	183	27	21	25	26	1.99
30796081--30797705	133	12.2	133	93	1	2388	28	20	23	27	1.99
30805565--30805614	25	2.0	25	96	0	91	28	10	20	42	1.84
30814509--30814737	90	2.4	94	78	13	229	30	3	24	41	1.73
30814730--30815010	81	3.5	81	100	0	562	30	6	27	35	1.82
30819738--30819823	31	2.8	30	91	1	136	25	2	11	60	1.43
30819738--30819823	30	2.8	31	92	3	147	25	2	11	60	1.43
30824402--30824508	26	4.2	26	87	2	162	33	6	23	36	1.81
30824402--30824508	51	2.1	52	91	1	171	33	6	23	36	1.81
30825929--30825981	28	1.9	28	85	11	74	52	9	9	28	1.64
30825944--30826024	26	3.0	26	70	12	65	41	14	11	32	1.81
30838463--30838515	29	1.9	27	82	17	65	43	7	11	37	1.69
30838710--30838861	38	4.0	38	100	0	304	39	10	15	34	1.82
30838991--30839018	2	14.0	2	100	0	56	50	0	0	50	1.00
30841324--30841520	41	4.7	42	81	5	213	19	21	14	44	1.86
30841325--30841537	21	10.3	21	74	5	148	18	22	15	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30843053--30843101	19	2.7	18	84	9	55	53	4	14	28	1.59
30843306--30843392	3	28.3	3	73	9	50	64	1	6	27	1.26
30848615--30848659	19	2.2	21	88	11	67	28	8	24	37	1.86
30848615--30848653	19	2.1	19	100	0	78	28	10	25	35	1.89
30850270--30850434	90	1.8	90	81	5	208	34	3	18	43	1.68
30857212--30857243	3	10.7	3	100	0	64	34	0	0	65	0.93
30858309--30858404	34	2.8	34	80	0	102	44	16	8	30	1.77
30858833--30858883	18	2.9	17	82	8	50	35	27	7	29	1.85
30859050--30859090	18	2.3	19	83	12	59	21	36	19	21	1.95
30861694--30861904	94	2.2	93	82	5	246	31	19	18	29	1.96
30861747--30862194	44	10.0	44	71	11	255	32	17	20	29	1.96
30861839--30861965	41	3.0	41	82	7	130	34	19	18	26	1.95
30861747--30862138	179	2.2	180	80	5	416	32	17	19	29	1.95
30862687--30862711	12	2.1	12	100	0	50	52	16	24	8	1.70
30865999--30866046	14	3.5	14	75	16	55	35	0	0	64	0.94
30865727--30866246	26	20.3	26	70	10	259	29	6	5	58	1.46
30866146--30866247	54	1.9	53	81	2	123	27	5	5	60	1.43
30866119--30866262	79	1.9	75	81	11	175	26	5	5	62	1.39
30875126--30875198	36	2.0	36	97	0	137	39	13	15	31	1.86
30875419--30875477	5	11.0	5	89	7	73	18	0	1	79	0.81
30875417--30875474	23	2.5	24	86	13	79	18	0	1	79	0.82
30879928--30879954	4	6.8	4	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30880547--30880606	5	12.0	5	76	13	52	23	0	1	75	0.90
30880545--30880601	30	1.9	30	85	7	80	24	0	1	73	0.92
30894468--30894516	23	2.1	23	100	0	98	20	6	22	51	1.69
30894577--30894614	18	2.0	18	90	10	58	34	0	0	65	0.93
30897936--30897978	22	1.9	23	85	4	61	46	13	2	37	1.57
30897962--30898014	19	3.0	17	76	10	61	35	16	7	39	1.78
30903016--30903060	23	2.0	23	91	4	74	46	17	4	31	1.68
30903013--30903070	22	2.6	22	86	7	82	43	20	3	32	1.69
30903042--30903094	19	3.0	17	76	10	61	37	18	7	35	1.80
30906422--30906587	53	3.1	53	87	6	221	25	15	28	30	1.96
30910416--30910463	24	2.0	25	84	8	64	62	0	0	37	0.95
30915115--30915162	10	4.9	9	85	10	51	25	6	0	68	1.12
30916033--30916068	9	3.8	10	92	7	58	27	0	0	72	0.85
30918795--30918948	3	52.0	3	73	7	100	28	5	5	60	1.42
30918789--30918838	18	2.8	18	90	6	75	30	0	2	68	1.01
30919018--30919068	25	2.0	25	100	0	102	35	11	7	45	1.70
30919075--30919116	20	2.0	20	90	4	66	23	4	0	71	1.05
30919121--30919159	15	2.6	14	84	8	51	28	15	0	56	1.40
30922196--30922278	41	2.0	41	100	0	166	33	19	28	18	1.95
30925924--30925973	25	2.0	26	92	7	86	68	0	0	32	0.90
30925939--30926003	21	3.1	21	77	2	69	69	1	0	29	0.98
30931320--30931354	18	1.9	18	94	0	61	31	34	5	28	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30941023--30941218	99	2.0	99	87	4	288	51	12	11	23	1.73
30948405--30948442	19	2.0	20	85	15	53	68	2	7	21	1.28
30948477--30948514	20	1.9	20	84	10	51	63	0	10	26	1.27
30948626--30948724	15	6.3	16	66	15	55	64	2	10	23	1.34
30949379--30949427	24	2.0	24	96	0	89	20	4	48	26	1.67
30949421--30949451	12	2.6	12	100	0	62	9	0	41	48	1.36
30949806--30950789	132	7.5	132	91	1	1321	25	23	20	30	1.99
30950093--30950561	44	10.7	44	70	14	281	22	22	23	31	1.98
30949889--30950561	88	7.7	89	67	13	302	23	22	23	31	1.99
30951359--30951418	25	2.4	25	88	5	86	30	18	11	40	1.86
30951882--30951925	20	2.3	19	84	4	52	0	11	4	84	0.77
30956370--30956545	50	3.7	50	79	11	188	34	15	21	28	1.94
30956368--30956545	93	1.9	94	84	3	243	34	16	21	28	1.95
30956517--30956601	31	2.7	31	90	0	134	24	20	27	28	1.99
30956627--30956742	47	2.5	47	84	4	146	27	16	25	30	1.97
30958403--30958440	12	3.2	12	78	14	51	5	18	18	57	1.58
30959315--30959544	65	3.5	65	99	0	451	32	23	28	16	1.96
30960987--30961283	3	99.7	3	65	21	83	62	2	8	26	1.37
30961032--30961130	30	3.2	29	74	16	92	62	2	12	23	1.39
30961214--30961279	23	2.9	23	74	12	66	63	0	7	28	1.21
30961215--30961286	20	3.5	20	74	12	65	66	0	6	26	1.16
30961319--30961371	18	2.7	21	83	11	60	60	0	11	28	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30961543--30961584	5	7.8	5	85	15	57	73	0	4	21	1.01
30965989--30966028	20	2.0	20	85	0	53	47	0	2	50	1.14
30967017--30967199	94	1.9	96	87	6	275	45	11	15	26	1.80
30969974--30970008	6	5.8	6	86	0	52	14	45	0	40	1.45
30969961--30970008	24	2.0	24	87	0	69	12	41	4	41	1.62
30972264--30972311	20	2.5	19	77	12	53	54	4	2	39	1.32
30972415--30972454	21	2.0	21	85	14	57	60	2	0	37	1.11
30975525--30975657	30	4.2	30	72	12	92	28	15	27	27	1.96
30975547--30975605	17	3.4	17	77	9	73	30	15	28	25	1.96
30975528--30975607	36	2.2	36	97	0	151	27	17	27	27	1.98
30975525--30975596	19	3.9	19	76	10	78	26	16	27	29	1.97
30976740--30976805	33	2.0	34	82	8	82	28	24	15	31	1.95
30976744--30976816	33	2.2	33	78	7	76	30	21	13	34	1.92
30979338--30979434	30	3.2	30	75	2	106	28	15	26	28	1.96
30981546--30981630	30	2.8	29	76	13	82	11	21	2	64	1.37
30981606--30981630	12	2.1	12	100	0	50	8	16	0	76	1.02
30981633--30981663	12	2.6	12	100	0	62	25	16	12	45	1.83
30981732--30981775	20	2.2	20	84	12	54	0	18	4	77	0.94
30982694--30982739	12	3.9	11	83	11	56	17	4	8	69	1.31
30984317--30984413	30	3.2	30	72	13	92	28	14	28	27	1.95
30989997--30990104	6	17.7	6	69	10	67	72	3	17	6	1.21
30990065--30990102	13	2.8	13	82	17	51	73	0	18	7	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30990108--30990139	12	2.7	12	95	0	55	59	0	21	18	1.38
30997028--30997067	19	2.1	19	85	0	53	27	32	17	22	1.96
30999556--30999617	6	10.3	6	76	0	61	72	1	20	4	1.12
30999532--30999602	20	3.8	19	75	17	60	73	1	21	4	1.08
30999540--30999617	12	6.9	11	75	13	61	73	1	21	3	1.07
30999744--30999782	14	2.8	14	88	0	51	46	7	33	12	1.71
31000068--31000169	48	2.1	48	92	1	170	40	18	14	26	1.89
31000956--31001069	58	2.0	58	98	1	221	44	8	13	33	1.74
31001307--31001455	75	2.0	75	95	0	271	25	22	20	30	1.98
31006106--31006253	72	2.0	73	84	3	192	29	29	16	25	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   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