genome.fa.s20.2.7.7.80.10.50.1000.135.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  135  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)
44434718--44434947	95	2.4	95	90	6	367	15	20	19	45	1.86
44446091--44446141	18	2.8	18	74	14	50	66	5	3	23	1.30
44448600--44448627	6	4.7	6	100	0	56	17	0	32	50	1.47
44449013--44449055	20	2.2	20	95	0	77	20	9	27	41	1.83
44450537--44450569	12	2.8	12	100	0	66	9	18	6	66	1.40
44450752--44450807	20	2.9	20	87	10	73	26	3	1	67	1.16
44451617--44451659	22	2.0	22	100	0	86	27	6	4	60	1.43
44452002--44452076	23	3.2	23	75	18	66	28	9	9	53	1.64
44453871--44454300	110	3.9	110	81	2	452	24	17	26	31	1.97
44454535--44454573	13	2.9	13	92	3	60	38	10	17	33	1.84
44455531--44455582	21	2.5	21	96	0	95	28	25	23	23	1.99
44457672--44457747	39	1.9	39	89	0	116	26	5	21	47	1.71
44459406--44459441	15	2.4	15	95	0	63	44	16	16	22	1.86
44459601--44459657	29	2.0	29	82	0	69	22	19	22	35	1.96
44463742--44463805	21	3.0	21	95	0	110	26	6	21	45	1.76
44465230--44465261	14	2.3	14	100	0	64	6	15	46	31	1.71
44469442--44469473	14	2.3	14	100	0	64	6	15	46	31	1.71
44469567--44469610	20	2.2	20	84	8	54	40	6	0	52	1.28
44476703--44476836	48	2.8	45	81	13	144	32	8	5	52	1.57
44477819--44477850	14	2.3	14	94	0	55	25	0	15	59	1.36
44481964--44482345	126	3.0	126	92	1	640	26	21	18	33	1.97
44489435--44489497	31	2.0	31	100	0	126	15	34	28	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44492100--44492464	48	7.6	48	74	4	297	25	26	18	29	1.98
44492100--44492477	96	3.9	96	82	2	436	25	26	18	28	1.98
44495400--44495577	27	6.6	27	84	3	205	29	28	15	26	1.96
44495421--44495576	82	1.9	81	88	3	233	29	28	15	26	1.96
44497471--44497509	21	1.9	20	85	15	53	41	10	17	30	1.83
44498254--44498292	16	2.4	16	95	0	69	25	10	30	33	1.89
44499233--44499355	50	2.5	50	85	2	169	31	23	17	27	1.97
44500918--44501134	94	2.3	94	80	3	240	26	22	17	33	1.96
44501056--44501109	27	2.0	27	85	0	72	22	25	18	33	1.97
44504674--44504774	49	2.1	49	90	0	157	31	8	12	46	1.73
44515281--44515311	16	1.9	16	93	0	53	41	0	22	35	1.54
44516994--44517049	28	2.0	28	100	0	112	67	3	0	28	1.07
44516998--44517043	14	3.3	14	72	22	51	69	4	0	26	1.07
44518742--44518831	42	2.2	42	87	2	128	26	12	18	42	1.86
44522554--44522633	37	2.2	37	84	2	99	26	27	17	28	1.98
44522574--44522672	37	2.7	37	87	3	137	27	23	17	32	1.96
44523702--44523740	20	2.0	20	94	0	69	10	28	38	23	1.87
44528035--44528186	42	3.6	42	85	3	198	28	26	16	27	1.97
44530140--44530191	24	2.2	24	93	6	88	46	1	3	48	1.31
44535818--44535874	30	1.9	29	92	3	96	56	15	15	12	1.68
44542808--44542847	5	7.8	5	83	5	53	5	17	0	77	0.94
44542810--44542851	10	4.2	10	88	8	59	7	16	0	76	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44542813--44542848	11	3.4	11	92	3	56	5	16	0	77	0.94
44543571--44543630	19	2.9	20	74	20	61	51	6	0	41	1.28
44550571--44550636	33	2.0	33	96	0	123	31	25	21	21	1.98
44556499--44556757	46	5.5	47	78	10	228	28	18	29	22	1.98
44556496--44556813	46	6.7	50	77	12	203	26	19	30	23	1.98
44560143--44560279	40	3.5	40	85	6	181	23	30	23	22	1.99
44561206--44561464	46	5.5	47	78	10	228	28	18	29	22	1.98
44561203--44561520	46	6.7	50	77	12	203	26	19	30	23	1.98
44580582--44580628	21	2.2	21	100	0	94	46	14	17	21	1.83
44583929--44584012	42	2.0	41	88	2	123	32	19	3	45	1.67
44583944--44584015	21	3.4	21	65	5	56	33	18	4	44	1.69
44593135--44593204	25	2.7	26	78	10	90	31	15	20	32	1.94
44593137--44593219	26	3.2	26	76	8	89	30	14	22	32	1.94
44611701--44611753	24	2.2	25	83	10	65	67	1	3	26	1.17
44615922--44615965	22	2.0	22	86	0	61	52	0	0	47	1.00
44615985--44616026	13	2.9	14	80	13	50	54	0	0	45	0.99
44615989--44616025	16	2.3	16	86	13	58	59	0	0	40	0.97
44616058--44616114	15	3.5	15	71	17	51	49	1	1	47	1.22
44619623--44619662	4	9.2	4	84	15	53	25	5	0	70	1.08
44620654--44620695	16	2.7	15	82	13	50	45	0	0	54	0.99
44620906--44620968	29	2.2	29	83	11	76	55	4	1	38	1.31
44621841--44621941	24	4.2	24	87	0	139	34	1	37	25	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44623355--44623466	27	4.2	26	83	7	134	16	24	22	36	1.94
44623355--44623466	54	2.1	54	88	3	163	16	24	22	36	1.94
44643461--44643491	8	3.9	8	91	0	53	48	25	22	3	1.66
44643910--44644021	27	4.2	26	83	7	134	16	24	22	36	1.94
44643910--44644021	54	2.1	54	88	3	163	16	24	22	36	1.94
44658263--44658377	29	4.0	29	85	6	146	28	29	14	26	1.95
44658587--44658638	16	3.2	16	83	0	59	17	25	11	46	1.81
44658601--44658646	24	1.9	24	90	0	74	19	23	10	45	1.82
44663869--44663954	42	2.0	42	100	0	172	46	6	18	27	1.75
44666617--44666698	40	2.0	40	92	0	137	20	17	12	50	1.78
44676844--44676897	27	2.0	27	85	0	72	38	7	14	38	1.75
44677151--44677375	49	4.5	50	79	8	262	26	17	26	29	1.97
44677146--44677375	100	2.3	98	84	6	277	26	17	26	29	1.98
44681030--44681066	19	1.9	19	94	0	65	32	13	37	16	1.87
44681021--44681066	9	4.9	9	84	7	56	34	13	36	15	1.86
44681158--44681240	29	2.9	29	78	5	89	30	12	30	27	1.92
44687608--44687672	30	2.2	29	91	2	103	38	21	15	24	1.92
44692642--44692769	51	2.5	51	97	0	238	27	17	25	28	1.98
44692642--44692857	51	4.3	49	85	5	193	25	16	27	30	1.96
44692799--44692912	59	1.9	59	89	3	176	24	14	27	33	1.95
44695957--44696044	46	1.9	46	88	0	122	27	30	22	19	1.98
44702563--44702616	9	5.5	10	75	16	51	37	9	18	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44702560--44702608	5	10.2	5	75	16	50	36	6	20	36	1.78
44702560--44702616	20	2.9	21	90	10	86	36	8	19	35	1.83
44702666--44702802	26	5.3	26	85	4	145	27	20	24	28	1.99
44703692--44704419	364	2.0	364	100	0	1456	31	12	22	34	1.91
44710919--44710966	25	1.9	25	86	0	69	35	22	14	27	1.93
44710995--44711051	9	5.8	10	76	15	57	36	8	19	35	1.83
44710994--44711068	20	3.8	20	91	6	111	37	9	18	34	1.83
44711013--44711068	11	5.5	11	71	16	57	37	10	19	32	1.86
44711118--44711358	26	9.3	26	87	3	319	27	20	22	28	1.99
44711118--44711358	78	3.1	78	89	2	353	27	20	22	28	1.99
44711927--44711961	18	1.9	18	88	0	52	34	25	8	31	1.86
44718783--44719630	425	2.0	425	97	0	1615	35	20	8	34	1.84
44723867--44723923	27	2.1	27	83	6	71	26	24	29	19	1.98
44724048--44724117	21	3.3	21	87	0	104	17	34	25	22	1.96
44730478--44730655	52	3.5	51	84	6	195	27	30	13	28	1.94
44761819--44762026	48	4.3	48	78	7	208	26	15	26	31	1.96
44764040--44764211	46	3.7	46	78	13	199	27	27	22	21	1.99
44764045--44764215	93	1.8	93	93	0	297	27	28	22	21	1.99
44764635--44764694	30	2.0	30	90	0	93	30	25	8	36	1.85
44780603--44780820	46	4.7	46	95	1	375	29	27	21	21	1.98
44785930--44785974	15	3.0	15	86	0	72	48	22	4	24	1.68
44792735--44792967	48	4.8	48	79	2	218	26	15	28	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44792735--44792967	96	2.4	95	76	7	247	26	15	28	29	1.96
44792805--44792998	48	4.0	48	81	4	137	25	15	27	30	1.96
44800902--44801078	27	6.5	27	79	3	158	26	16	29	27	1.97
44800902--44801057	82	1.9	81	84	3	206	26	16	29	26	1.97
44809803--44810009	27	7.6	27	92	3	333	27	13	28	30	1.94
44809803--44810009	55	3.8	55	97	0	378	27	13	28	30	1.94
44822316--44822445	47	2.8	47	86	0	161	26	16	25	32	1.96
44826473--44826656	40	4.6	40	90	3	266	26	26	22	23	2.00
44828202--44828269	29	2.3	29	82	5	84	27	29	13	29	1.94
44828376--44828443	29	2.3	29	82	5	84	27	29	13	29	1.94

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