genome.fa.s20.2.7.7.80.10.50.1000.160.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  160  of  186  ( 22216 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)
53249822--53249939	39	3.0	41	83	9	140	27	22	27	23	1.99
53250672--53250750	40	2.0	40	97	0	149	30	17	26	25	1.97
53268112--53268289	27	6.6	27	80	7	166	29	28	15	26	1.96
53268133--53268288	82	1.9	81	88	3	233	29	28	15	26	1.96
53271774--53271953	94	1.9	94	97	0	342	19	10	36	33	1.86
53272276--53272395	61	2.0	61	93	3	206	40	18	22	18	1.91
53272785--53273007	40	5.6	40	85	5	186	24	20	27	26	1.99
53272785--53273007	80	2.8	79	83	4	252	24	20	27	26	1.99
53274315--53274495	2	90.5	2	95	0	317	0	2	46	50	1.15
53278677--53278857	6	29.3	6	72	17	122	49	15	16	18	1.80
53278677--53278857	19	9.8	18	70	17	122	49	15	16	18	1.80
53278688--53278857	25	6.8	25	76	9	122	50	15	16	18	1.79
53278688--53278857	37	4.2	37	69	20	126	50	15	16	18	1.79
53278691--53278853	62	2.6	62	94	0	272	49	15	16	17	1.80
53279361--53279419	27	2.2	28	78	9	68	28	18	23	28	1.98
53279370--53279621	27	9.3	27	85	3	269	25	20	17	36	1.94
53279374--53279612	81	3.0	80	86	3	318	24	21	17	36	1.94
53279603--53280058	27	16.9	27	78	8	173	31	9	20	37	1.85
53279603--53279864	81	3.2	80	81	4	213	30	9	22	37	1.86
53279658--53280133	27	17.6	27	86	0	583	30	9	20	38	1.85
53286449--53286474	13	2.0	13	100	0	52	23	7	30	38	1.83
53289927--53289953	12	2.2	12	100	0	54	29	22	0	48	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53301128--53301219	41	2.2	43	80	7	109	23	29	17	29	1.97
53301402--53301468	28	2.4	28	89	0	107	31	25	10	32	1.89
53308002--53308131	44	3.0	45	78	10	135	26	28	18	26	1.98
53308250--53308321	28	2.6	28	88	0	99	29	27	12	30	1.93
53309893--53309942	25	2.1	25	81	7	59	52	14	10	24	1.71
53313082--53313181	27	3.7	27	87	0	146	29	33	18	20	1.96
53315889--53316051	54	3.0	54	98	0	317	24	32	16	26	1.96
53319415--53319677	47	5.6	46	71	13	162	22	28	19	29	1.98
53321941--53322080	48	2.9	47	91	3	199	32	10	12	45	1.76
53322357--53322451	33	2.9	33	85	3	120	20	11	48	20	1.80
53323059--53323093	14	2.5	14	95	0	61	40	5	20	34	1.76
53324614--53324686	27	2.7	27	97	0	137	32	31	8	27	1.86
53324743--53324910	49	3.4	49	94	0	300	61	13	2	22	1.44
53325189--53325245	30	1.9	30	89	3	89	40	28	0	31	1.57
53326194--53326309	31	3.9	30	74	18	107	25	18	10	46	1.80
53328385--53328537	79	1.9	79	98	0	297	20	20	11	47	1.81
53330314--53330346	14	2.4	14	85	14	50	27	36	12	24	1.91
53333275--53333330	22	2.4	25	79	14	73	50	1	3	44	1.29
53337857--53338655	29	27.6	29	100	0	1598	34	7	20	37	1.80
53338717--53338904	26	7.3	26	86	3	258	28	21	24	26	1.99
53338717--53338904	52	3.7	52	92	3	312	28	21	24	26	1.99
53346529--53346568	21	2.0	20	90	5	62	20	20	40	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53346910--53346966	20	2.9	21	87	10	77	40	8	19	31	1.82
53347016--53347094	26	3.2	26	84	7	103	30	20	22	26	1.98
53347328--53347369	7	6.0	7	100	0	84	57	0	14	28	1.38
53352123--53352151	10	2.9	10	100	0	58	37	10	41	10	1.73
53365097--53365334	47	5.1	47	91	1	343	34	10	28	26	1.89
53365144--53365269	25	5.3	25	66	24	92	34	11	26	26	1.91
53365169--53365244	22	3.3	22	70	22	75	32	14	28	23	1.94
53365169--53365291	22	5.3	22	66	27	67	34	13	28	24	1.92
53365308--53365398	46	2.0	46	88	0	137	34	8	30	26	1.87
53370568--53370724	42	3.6	42	72	9	134	25	29	21	24	1.99
53370695--53370826	48	2.8	48	73	5	126	24	24	21	29	1.99
53372253--53372324	36	2.0	36	97	0	135	22	9	25	43	1.83
53390875--53390952	29	2.7	28	84	11	104	25	14	30	29	1.94
53390905--53392102	174	6.9	174	99	0	2342	29	14	25	30	1.95
53400430--53400487	25	2.3	25	79	5	64	18	17	22	41	1.90
53401423--53401540	59	2.0	59	94	0	209	22	5	22	50	1.70
53403419--53403603	27	6.9	27	93	0	244	41	21	7	30	1.80
53403425--53403676	54	4.7	54	83	4	294	40	20	7	30	1.81
53403420--53403676	81	3.2	80	82	2	273	40	20	7	31	1.81
53403425--53403676	27	9.3	27	83	6	235	40	20	7	30	1.81
53403704--53403823	27	4.4	27	84	8	154	35	20	20	24	1.96
53403704--53403823	54	2.2	54	85	5	170	35	20	20	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53404084--53404135	27	2.0	26	84	3	68	17	26	21	34	1.95
53404151--53404214	33	2.0	32	84	3	83	20	23	20	35	1.96
53404176--53404235	27	2.3	26	85	2	75	21	23	20	35	1.96
53407464--53407545	40	2.0	42	95	4	150	47	19	7	25	1.75
53413096--53413200	52	2.0	52	94	3	185	31	14	16	38	1.88
53420684--53420915	40	5.8	40	90	2	315	24	19	27	28	1.99
53429137--53429388	40	6.3	40	87	3	312	23	19	27	29	1.98
53435168--53435343	46	3.8	46	79	7	203	21	21	28	29	1.98
53435164--53435335	93	1.8	93	92	0	290	20	21	29	28	1.98
53439614--53439644	4	7.8	4	100	0	62	25	48	0	25	1.52
53443751--53443820	21	3.5	20	81	7	81	58	2	1	37	1.22
53444131--53444168	20	2.0	21	85	15	55	28	7	2	60	1.38
53449021--53449082	31	1.9	33	84	12	85	35	0	16	48	1.46
53452194--53452255	24	2.7	24	76	14	67	12	8	4	74	1.21
53457756--53457937	46	4.0	46	88	0	220	41	13	22	22	1.89
53461879--53461970	46	2.0	46	85	8	125	28	20	15	35	1.93
53466695--53466776	40	2.0	40	100	0	164	21	25	20	31	1.98
53471719--53471767	24	2.0	24	100	0	98	55	24	0	20	1.44
53474597--53474633	12	3.1	12	100	0	74	24	24	43	8	1.81
53474649--53474673	13	1.9	13	100	0	50	24	28	48	0	1.52
53476619--53476841	40	5.6	39	85	3	241	26	27	20	24	1.99
53476619--53476841	120	1.9	119	81	6	272	26	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53478075--53478172	48	2.0	48	90	3	153	22	25	25	26	2.00
53484580--53484842	40	6.6	40	87	3	309	26	28	20	23	1.99
53495630--53495749	48	2.6	46	80	5	125	27	20	14	37	1.91
53502124--53502168	20	2.2	20	88	0	63	37	11	2	48	1.51
53502749--53502775	12	2.2	12	100	0	54	33	33	0	33	1.58
53505791--53505816	13	2.0	13	100	0	52	61	30	0	7	1.24
53506850--53506977	44	3.0	43	77	11	143	32	30	15	21	1.95
53510502--53510740	118	2.0	118	97	0	451	28	13	25	33	1.93
53510704--53510805	40	2.6	40	87	4	154	22	22	29	25	1.99
53511031--53511074	22	2.0	22	82	8	54	36	6	13	43	1.71
53521376--53521463	37	2.4	37	96	0	167	29	13	22	34	1.93
53522062--53522246	40	4.7	40	80	7	191	24	21	28	25	1.99
53522116--53522279	79	2.1	79	82	6	199	26	20	27	25	1.99
53532132--53532352	47	4.6	47	75	9	182	25	29	17	27	1.98
53534833--53534877	18	2.5	18	85	7	65	26	17	8	46	1.78
53535832--53536135	33	9.6	32	68	22	171	53	1	1	43	1.20
53535865--53535920	25	2.2	24	90	6	85	55	0	1	42	1.10
53535818--53536155	67	5.3	66	70	16	291	53	1	1	43	1.18
53535823--53536156	125	2.7	125	93	0	560	53	1	1	43	1.19
53535989--53536045	25	2.3	26	81	9	73	57	3	0	38	1.16
53536125--53536157	15	2.2	15	89	10	50	48	0	3	48	1.17
53537626--53537666	18	2.2	19	86	4	57	39	2	17	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53540351--53540410	30	2.0	30	100	0	120	33	16	13	36	1.88
53540722--53540778	30	1.9	30	96	0	105	40	3	10	45	1.56
53541473--53541559	38	2.3	38	80	7	99	45	0	5	48	1.26
53541748--53541818	16	4.4	16	90	0	106	29	28	7	35	1.83
53544604--53544819	101	2.1	101	85	0	288	28	25	14	30	1.95
53553150--53553216	32	2.1	32	83	10	84	29	0	2	67	1.06
53553146--53553210	10	6.2	10	74	13	51	30	0	3	66	1.07
53553150--53553208	25	2.3	24	83	13	66	28	0	3	67	1.06
53553163--53553214	7	6.5	8	81	18	56	26	0	1	71	0.97
53553630--53553655	13	2.0	13	100	0	52	30	23	7	38	1.83

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