genome.fa.s20.2.7.7.80.10.50.1000.117.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  117  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)
38858414--38858463	24	2.1	23	88	3	73	58	10	16	16	1.63
38860684--38860709	13	2.0	13	100	0	52	53	0	0	46	1.00
38865869--38865993	28	4.6	27	91	4	187	30	28	12	28	1.93
38865869--38865993	55	2.3	55	90	2	189	30	28	12	28	1.93
38865869--38866018	56	2.7	56	86	5	180	31	29	12	26	1.93
38878702--38878763	23	2.7	22	85	5	70	41	17	17	22	1.90
38879715--38879755	21	2.0	21	95	0	73	56	7	9	26	1.58
38887128--38887172	20	2.2	20	88	0	63	37	13	0	48	1.42
38890257--38890393	46	3.0	46	86	0	184	25	30	8	35	1.86
38890367--38890655	47	6.1	47	89	3	380	26	29	11	32	1.91
38890479--38890556	23	3.2	25	65	17	74	29	30	10	29	1.90
38892310--38892487	27	6.6	27	84	3	205	29	28	15	26	1.96
38892331--38892486	82	1.9	81	88	3	233	29	28	15	26	1.96
38894725--38895088	182	2.0	182	95	0	656	22	27	15	34	1.94
38905371--38905547	96	1.8	97	80	11	211	44	4	7	44	1.52
38923016--38923195	41	4.4	41	79	7	177	38	23	18	20	1.93
38923016--38923195	82	2.2	82	81	7	213	38	23	18	20	1.93
38923470--38923534	7	9.1	7	73	9	60	43	36	3	16	1.64
38923648--38923709	7	8.7	7	76	3	52	24	3	25	46	1.67
38923667--38923706	15	2.7	15	88	3	64	17	5	32	45	1.70
38923648--38923708	14	4.3	14	79	4	59	22	3	26	47	1.67
38924021--38924074	21	2.6	21	81	0	81	11	1	33	53	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38924699--38924782	40	2.1	40	90	0	132	32	15	21	30	1.94
38928821--38928858	18	2.2	17	90	4	58	42	15	2	39	1.61
38928842--38928940	43	2.3	43	91	0	153	47	17	0	35	1.48
38928928--38928961	9	3.8	9	84	0	50	47	20	0	32	1.51
38932422--38932625	40	5.1	40	78	8	211	25	26	22	25	2.00
38932443--38932623	79	2.3	80	80	7	199	25	27	22	25	2.00
38933762--38933881	56	2.1	56	98	0	231	22	23	9	45	1.81
38937093--38937121	14	2.1	14	93	6	51	34	0	10	55	1.34
38939492--38939640	41	3.7	40	82	3	201	20	24	27	27	1.99
38941299--38941359	31	2.0	31	86	0	86	14	9	21	54	1.69
38941440--38941576	44	3.2	43	83	6	170	26	33	16	23	1.96
38941505--38941764	122	2.1	122	88	0	385	23	25	24	25	2.00
38948471--38948802	50	6.6	50	77	6	321	27	16	25	30	1.96
38948428--38948702	151	1.8	151	95	0	496	27	17	25	30	1.97
38948419--38948744	151	2.2	151	86	5	487	27	16	25	30	1.97
38949013--38949044	16	2.0	16	93	0	55	46	0	18	34	1.49
38949148--38949190	21	2.0	21	100	0	86	39	9	9	41	1.69
38951079--38951122	15	2.9	16	83	6	56	15	20	13	50	1.78
38953616--38953662	19	2.3	20	82	10	60	36	0	14	48	1.44
38954012--38954404	101	3.9	98	78	6	387	27	18	25	29	1.98
38954217--38954300	26	3.3	26	61	15	66	27	17	23	30	1.97
38954010--38954402	151	2.6	151	93	0	651	27	18	25	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38954011--38954405	50	7.9	50	77	5	393	27	18	25	28	1.98
38954604--38954635	16	2.0	16	93	0	55	46	0	18	34	1.49
38959724--38959853	66	1.9	69	80	10	151	34	16	28	20	1.94
38964170--38964200	11	2.7	12	95	5	55	38	0	3	58	1.15
38965322--38965492	93	1.8	93	93	0	297	20	22	29	27	1.98
38965326--38965497	46	3.7	45	79	13	197	20	22	29	27	1.99
38970844--38970907	28	2.3	28	88	0	101	29	26	7	35	1.85
38975649--38975673	13	1.9	13	100	0	50	44	8	8	40	1.63
38976759--38976930	86	2.0	86	88	0	254	26	18	26	29	1.98
38976759--38976930	43	4.0	44	83	7	219	26	18	26	29	1.98
38983323--38983370	25	2.0	25	87	4	71	27	12	16	43	1.84
38986122--38986254	51	2.7	50	82	4	162	24	19	27	27	1.99
38986122--38986266	49	2.9	48	81	4	173	25	20	26	27	1.99
38990183--38990264	6	13.3	6	69	19	53	47	13	18	20	1.82
38990197--38990264	25	2.7	25	83	0	91	47	13	19	20	1.82
38990624--38990686	27	2.3	27	77	0	72	38	22	19	20	1.94
38990666--38990915	27	9.3	27	90	0	374	23	22	20	34	1.96
38990901--38991024	54	2.3	54	81	2	142	28	7	20	43	1.78
38990666--38990969	81	3.8	81	85	4	265	24	19	20	35	1.95
38990871--38991025	27	5.7	27	77	4	107	28	9	20	41	1.84
38990927--38991057	54	2.4	54	83	2	147	29	6	20	43	1.76
38991033--38991216	27	6.8	27	86	0	260	40	8	22	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38990990--38991214	81	2.8	81	85	2	256	38	8	21	32	1.83
38991033--38991216	54	3.4	54	92	0	296	40	8	22	28	1.83
38991226--38991375	27	5.6	27	81	6	169	29	8	20	42	1.81
38991222--38991375	81	1.9	82	82	4	195	29	7	21	40	1.81
38992985--38993169	79	2.3	81	84	7	236	25	22	27	24	2.00
38992986--38993169	40	4.6	39	81	9	212	25	22	27	23	2.00
38992986--38993202	79	2.7	79	81	7	201	26	22	27	23	2.00
38997901--38997978	23	3.3	23	70	10	77	17	11	21	48	1.79
38999681--38999709	9	3.0	10	90	10	51	58	0	20	20	1.39
39000711--39000856	50	2.9	50	84	3	197	26	17	27	29	1.97
39002761--39002802	21	2.0	21	86	9	59	50	23	0	26	1.50
39003479--39003558	28	2.8	29	71	1	81	36	22	21	20	1.95
39018557--39018686	47	2.8	46	82	2	152	25	17	26	30	1.97
39020054--39020157	51	2.0	51	96	0	190	39	6	25	27	1.81
39020745--39020920	46	3.8	46	79	10	205	19	22	30	27	1.98
39020741--39020913	93	1.9	93	93	0	301	19	22	31	26	1.98
39021520--39021772	127	2.0	127	97	0	479	45	10	18	25	1.81
39023986--39024054	15	4.6	15	83	0	84	11	17	13	57	1.64
39023977--39024064	30	3.0	30	80	11	92	11	17	14	56	1.66
39025864--39025978	58	2.0	58	98	0	221	38	9	25	26	1.87
39026511--39026879	46	8.0	46	91	5	584	20	22	29	26	1.99
39030418--39030543	40	3.2	39	88	5	173	26	28	20	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39034907--39035798	44	20.5	44	85	3	1144	29	16	31	22	1.96
39034907--39035798	216	4.1	217	87	3	1152	29	16	31	22	1.96
39034907--39035800	260	3.4	260	87	3	1240	29	16	31	22	1.96
39036912--39038131	44	28.4	44	84	4	1438	28	15	32	23	1.95
39036912--39038131	172	7.1	171	82	5	1390	28	15	32	23	1.95
39036912--39038097	428	2.8	428	93	1	1959	28	15	32	23	1.95
39039895--39040072	89	2.0	89	97	0	338	38	26	13	21	1.90
39040215--39040508	26	11.2	26	71	14	174	35	23	9	31	1.86
39040212--39040582	186	2.0	186	98	0	715	34	23	10	31	1.89
39057446--39057593	38	3.8	38	82	8	165	44	10	9	35	1.72
39061896--39062045	42	3.6	41	82	4	167	31	18	22	28	1.97
39064328--39064473	37	3.9	37	93	0	229	26	30	19	23	1.98
39064622--39064988	50	7.7	50	77	14	282	29	27	8	34	1.86
39064677--39065903	47	26.1	47	92	3	1938	26	28	11	33	1.91
39064821--39064988	48	3.4	47	86	7	228	30	27	6	35	1.82
39087470--39087579	40	2.8	40	94	2	186	26	27	21	24	1.99
39087556--39087603	24	2.0	24	95	0	87	20	27	20	31	1.98
39087516--39087643	64	2.0	64	96	0	238	24	27	20	28	1.99
39087580--39087666	40	2.2	40	95	0	156	22	27	21	27	1.99
39087476--39087666	104	1.8	104	90	2	312	24	27	21	26	1.99
39091637--39091732	46	2.0	49	86	8	135	30	5	5	59	1.41
39091723--39091826	43	2.4	43	88	0	163	21	22	29	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39095056--39095092	18	2.1	18	100	0	74	56	27	10	5	1.55
39097498--39097668	93	1.8	93	96	0	315	28	29	21	21	1.98
39097493--39097665	46	3.7	46	80	13	219	28	28	21	21	1.98
39098088--39098147	30	2.0	30	90	0	93	30	25	8	36	1.85
39103059--39103100	20	2.0	22	86	13	61	30	4	16	47	1.67
39105391--39105461	24	2.9	24	75	4	70	16	23	19	39	1.92
39105571--39105622	23	2.2	24	86	3	70	21	32	19	26	1.97
39107297--39108139	39	21.6	39	98	0	1616	45	20	2	30	1.66
39109337--39109383	24	2.0	24	91	0	76	36	2	38	23	1.67
39110802--39110913	54	2.1	54	86	3	154	16	23	22	37	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