genome.fa.s20.2.7.7.80.10.50.1000.55.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  55  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)
17004303--17004346	24	1.9	24	86	9	65	43	18	6	31	1.76
17011664--17011725	31	2.0	31	87	6	90	41	1	1	54	1.19
17012356--17012466	31	3.6	30	68	20	84	55	4	13	26	1.57
17012354--17012492	64	2.2	65	93	2	237	51	6	16	25	1.68
17022179--17022217	2	19.5	2	100	0	78	51	0	48	0	1.00
17023541--17023944	202	2.0	202	100	0	808	27	3	10	57	1.51
17025517--17025550	14	2.4	14	95	0	59	35	11	5	47	1.65
17026753--17026781	14	2.1	14	100	0	58	41	0	6	51	1.28
17026662--17026830	62	2.7	62	86	8	218	45	11	8	34	1.71
17031100--17031141	19	2.2	19	83	8	50	54	0	14	30	1.40
17031309--17031357	21	2.3	21	96	0	89	40	10	22	26	1.86
17036049--17036123	20	3.8	19	79	8	80	44	10	9	36	1.72
17036049--17036125	39	2.0	40	87	7	113	44	11	9	35	1.73
17036038--17036134	40	2.4	41	77	10	110	47	9	8	35	1.66
17036278--17036317	20	1.9	22	90	10	66	42	17	5	35	1.71
17039268--17039313	21	2.1	22	84	4	58	45	0	2	52	1.13
17039774--17039909	46	2.9	49	78	13	176	30	25	19	24	1.98
17039734--17039906	46	3.7	46	76	11	174	30	24	21	23	1.99
17039782--17039925	46	3.1	45	72	18	127	29	25	20	24	1.99
17040329--17040388	30	2.0	30	86	0	84	33	25	5	36	1.78
17047319--17047490	93	1.8	93	96	0	317	27	29	21	20	1.98
17047312--17047487	46	3.8	46	79	12	216	28	29	21	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17059849--17060178	162	2.0	162	99	0	651	34	23	14	26	1.94
17075978--17076013	18	1.9	19	88	5	56	44	0	5	50	1.25
17075978--17076013	19	1.9	18	88	5	54	44	0	5	50	1.25
17077010--17077082	22	3.3	22	94	0	119	38	16	26	19	1.92
17080537--17080606	20	3.5	19	76	5	68	44	17	8	30	1.78
17080542--17080597	20	2.8	20	81	2	69	42	14	8	33	1.77
17083961--17083996	16	2.2	16	90	9	56	50	8	2	38	1.47
17086984--17087103	57	2.1	57	86	7	163	25	20	6	46	1.75
17092870--17092967	29	3.4	29	82	1	117	28	29	15	26	1.96
17094292--17094341	16	3.1	16	82	0	64	14	4	32	50	1.61
17095679--17095735	30	1.9	30	85	7	80	21	36	31	10	1.87
17098027--17098360	166	2.0	167	86	1	474	32	13	14	39	1.85
17098280--17098609	162	2.0	163	97	0	617	36	10	16	36	1.83
17101099--17101150	15	3.5	15	80	15	63	46	0	5	48	1.26
17102215--17102251	19	1.9	19	100	0	74	21	16	29	32	1.95
17112668--17112694	12	2.2	12	100	0	54	22	44	18	14	1.86
17124411--17124451	20	2.0	20	85	0	55	34	19	12	34	1.89
17129288--17129369	29	2.8	29	89	9	114	19	20	41	18	1.91
17141037--17141737	44	15.6	44	68	10	303	27	21	19	30	1.98
17141038--17141602	226	2.5	225	88	2	826	27	20	20	31	1.98
17141493--17141739	45	5.6	43	75	8	196	28	25	19	27	1.98
17153230--17153286	25	2.2	26	87	3	80	5	1	29	63	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17154909--17154954	20	2.3	19	82	10	56	71	2	6	19	1.18
17154898--17154974	21	3.7	20	77	20	70	70	1	7	20	1.20
17154869--17154974	11	9.3	11	73	20	53	67	1	8	21	1.27
17154869--17154974	12	9.2	12	71	25	63	67	1	8	21	1.27
17155056--17155240	3	63.7	3	72	13	138	60	2	5	31	1.32
17156767--17156793	14	1.9	14	100	0	54	51	0	7	40	1.30
17158339--17158403	21	3.2	21	74	12	73	41	21	26	10	1.86
17158333--17158421	39	2.3	39	98	0	169	39	23	24	12	1.89
17161898--17161938	21	2.0	21	85	0	55	29	24	17	29	1.97
17162603--17162635	11	2.9	12	86	13	52	33	0	0	66	0.92
17162850--17162898	22	2.2	22	77	0	53	63	10	8	18	1.50
17169518--17169572	29	1.9	28	85	3	74	36	0	1	61	1.06
17180900--17180926	4	6.8	4	100	0	54	22	0	0	77	0.76
17181268--17181306	3	12.7	3	84	15	53	28	5	0	66	1.12
17181269--17181322	25	2.2	25	90	6	83	27	7	0	64	1.20
17181626--17181650	11	2.3	11	100	0	50	48	8	8	36	1.62
17182108--17182133	12	2.2	12	100	0	52	15	0	0	84	0.62
17184347--17184399	26	2.0	26	85	7	72	45	3	1	49	1.31
17184872--17184937	14	4.3	15	73	19	55	45	0	1	53	1.09
17192775--17192826	20	2.8	18	73	21	54	51	3	5	38	1.44
17198438--17198502	25	2.6	25	90	0	103	18	32	16	32	1.94
17201961--17201997	15	2.5	14	87	12	56	70	2	21	5	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17201961--17202013	26	2.1	26	85	3	72	71	1	22	3	1.12
17203900--17204072	87	2.0	87	96	0	319	34	27	17	20	1.95
17204008--17204202	39	4.9	39	83	1	201	30	27	22	20	1.98
17204717--17205045	48	6.9	48	95	0	541	36	32	12	19	1.89
17204762--17205045	24	11.8	24	99	0	541	36	32	12	17	1.88
17204717--17205045	72	4.6	72	94	0	541	36	32	12	19	1.89
17205519--17205552	17	2.0	17	94	0	59	38	5	0	55	1.24
17210879--17210912	17	2.0	17	94	0	59	38	5	0	55	1.24
17217193--17217260	25	2.7	25	81	0	91	22	26	17	33	1.96
17221533--17221572	10	3.8	10	87	9	53	67	0	0	32	0.91
17222406--17222484	31	2.6	29	80	7	95	44	1	2	51	1.23
17226521--17226559	20	2.0	20	85	10	53	41	0	17	41	1.50
17229723--17229755	14	2.4	14	94	0	57	9	9	15	66	1.43
17234193--17234231	16	2.4	16	86	4	51	28	0	20	51	1.48
17235283--17235334	13	3.7	13	74	18	50	5	30	48	15	1.68
17237039--17237073	15	2.3	15	90	5	52	2	22	0	74	0.95
17237114--17237176	8	7.9	8	75	7	56	34	3	0	61	1.12
17243919--17243971	6	9.0	6	93	2	81	79	0	3	16	0.88
17245823--17245849	6	4.5	6	100	0	54	51	0	48	0	1.00
17286334--17286396	31	2.0	31	100	0	126	47	12	19	20	1.81
17286465--17286504	19	2.1	19	95	0	71	45	15	7	32	1.74
17288029--17288059	7	4.3	7	92	8	53	12	0	0	87	0.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17288029--17288059	15	2.1	15	100	0	62	12	0	0	87	0.55
17295880--17295912	16	2.1	16	88	5	50	3	21	0	75	0.93
17296875--17297027	55	2.8	56	89	3	229	30	13	24	32	1.93
17296876--17297028	28	5.5	28	78	8	150	30	13	24	32	1.93
17300573--17300619	4	11.2	4	86	8	67	76	0	0	23	0.78
17300574--17300615	22	1.9	22	95	0	75	76	0	0	23	0.79
17301157--17301183	6	4.5	6	100	0	54	14	0	0	85	0.61
17325705--17325740	19	1.9	19	88	5	56	55	25	2	16	1.55
17326535--17326561	14	1.9	14	100	0	54	29	7	0	62	1.22
17326619--17326876	3	85.3	3	66	17	92	28	7	1	61	1.34
17331127--17331155	2	15.0	2	92	7	51	48	0	0	51	1.00
17331410--17331436	5	5.4	5	100	0	54	0	18	0	81	0.69
17336029--17336069	18	2.3	18	87	4	57	14	12	19	53	1.72
17337847--17337909	25	2.5	26	80	15	69	38	0	0	61	0.96
17337856--17337909	24	2.1	24	83	10	63	37	0	0	62	0.95
17337934--17337990	11	5.4	11	74	19	50	29	3	1	64	1.20
17337937--17337974	15	2.5	15	87	12	51	28	2	0	68	1.03
17338178--17338285	3	36.0	3	100	0	216	33	0	0	66	0.92
17338355--17338396	18	2.4	17	81	14	50	33	4	7	54	1.49
17342402--17342445	22	2.0	23	90	4	72	25	2	0	72	0.96
17342403--17342461	17	3.6	17	80	13	61	27	1	0	71	0.96
17344841--17345002	71	2.3	71	89	0	234	27	14	27	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17344841--17345040	71	2.8	71	85	1	231	26	14	25	34	1.94
17346372--17346452	41	2.0	41	85	4	110	30	29	20	18	1.97
17353447--17353662	50	4.3	50	81	4	238	38	19	13	28	1.89
17353447--17353662	100	2.2	100	85	4	292	38	19	13	28	1.89
17364312--17364354	12	3.5	12	87	3	59	86	0	13	0	0.58
17364284--17364354	26	2.7	25	81	12	72	80	5	14	0	0.89
17364904--17364936	11	2.9	12	86	13	52	33	0	0	66	0.92
17365058--17365116	30	2.0	30	89	0	91	55	11	6	25	1.60
17365152--17365194	22	2.0	22	85	0	59	58	11	11	18	1.63
17365159--17365199	11	3.7	11	80	0	55	56	9	14	19	1.66

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