genome.fa.s23.2.7.7.80.10.50.1000.113.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_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   

This is table  113  of  167  ( 19959 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)
37899689--37899722	18	1.9	18	88	5	52	38	2	2	55	1.30
37903979--37904052	19	3.7	19	71	13	51	59	4	4	32	1.35
37904129--37904189	17	3.8	17	76	20	60	54	3	6	36	1.43
37904947--37904988	15	2.6	17	88	7	61	14	7	14	64	1.48
37905197--37905265	28	2.4	28	83	9	77	40	2	21	34	1.68
37905492--37905760	77	3.5	75	79	9	258	34	19	14	31	1.92
37905832--37906093	76	3.5	74	86	6	357	29	21	16	31	1.96
37906034--37906159	61	2.1	61	92	3	209	27	21	14	36	1.92
37906096--37906234	75	1.9	75	93	3	244	31	21	15	30	1.95
37906226--37906263	14	2.8	13	92	7	67	47	7	13	31	1.71
37916609--37916694	43	2.0	43	88	0	127	20	24	18	36	1.95
37924240--37924294	19	2.9	19	80	0	65	74	1	9	14	1.14
37932466--37932503	12	2.9	13	80	11	51	73	0	7	18	1.06
37933378--37933435	28	2.1	28	96	0	107	43	3	20	32	1.69
37940489--37941959	431	3.4	430	84	4	1832	35	14	14	35	1.87
37942377--37942406	5	5.8	5	96	4	51	16	0	0	83	0.65
37946859--37948177	432	3.0	431	85	4	1735	34	15	14	35	1.88
37950788--37950941	27	5.9	27	70	18	112	35	20	24	20	1.96
37951331--37951360	8	3.8	8	90	0	51	3	26	26	43	1.70
37952540--37952647	26	4.2	26	92	0	171	36	23	7	33	1.83
37952540--37952647	52	2.1	52	94	3	191	36	23	7	33	1.83
37954783--37955035	94	2.7	94	75	3	240	28	20	15	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37956158--37956336	41	4.4	42	79	10	167	23	16	29	31	1.96
37956158--37956332	81	2.2	80	78	9	192	23	16	28	32	1.96
37959726--37959780	16	3.4	16	89	0	83	36	7	27	29	1.84
37959959--37960102	54	2.6	53	76	10	121	52	4	3	39	1.38
37964726--37964770	23	2.0	23	100	0	90	48	13	8	28	1.72
37965387--37965456	37	1.9	37	94	2	124	52	24	4	18	1.63
37966182--37966206	13	1.9	13	100	0	50	40	0	24	36	1.55
37967681--37967728	20	2.5	20	86	3	62	64	2	6	27	1.28
37967752--37967781	15	2.0	15	93	0	51	40	10	0	50	1.36
37973566--37973601	18	2.1	17	89	5	54	19	27	44	8	1.79
37974769--37975377	94	6.5	94	82	3	688	27	21	16	34	1.95
37974963--37975112	50	3.1	50	67	18	136	26	18	19	36	1.94
37974741--37975381	188	3.4	187	82	4	763	27	21	16	35	1.94
37974749--37975381	282	2.2	282	82	3	781	27	21	16	34	1.95
37978247--37978290	14	3.2	14	80	6	54	75	0	6	18	1.02
37978247--37978311	30	2.3	28	86	7	87	73	0	6	20	1.03
37978940--37978964	11	2.3	11	100	0	50	16	44	20	20	1.87
37979793--37980896	432	2.5	431	83	3	1385	34	16	12	36	1.87
37984390--37984419	16	1.9	16	93	6	53	0	26	3	70	1.03
37985030--37985068	21	1.9	21	84	5	53	23	35	25	15	1.94
37986534--37988228	434	3.9	423	79	7	1646	34	14	14	36	1.87
37990765--37990798	17	1.9	18	94	5	61	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37990761--37990811	17	3.1	16	74	20	52	49	0	0	50	1.00
37998521--37998644	3	41.3	3	100	0	248	66	0	0	33	0.92
37998644--37998687	5	8.8	5	92	0	52	29	11	0	59	1.32
38001168--38002501	667	2.0	667	100	0	2668	40	17	14	27	1.88
38003639--38003893	79	3.1	81	77	15	284	30	6	12	49	1.67
38003696--38003865	90	1.9	90	91	6	281	31	5	12	49	1.65
38007883--38007986	55	1.9	55	100	0	208	36	24	19	20	1.95
38011584--38011627	22	2.0	22	86	0	61	15	9	4	70	1.30
38014740--38014941	102	2.0	102	90	0	314	19	11	30	38	1.88
38015160--38015432	69	4.0	69	83	1	314	17	24	21	36	1.94
38015162--38015425	138	1.9	138	86	1	377	17	24	21	36	1.95
38017283--38017380	42	2.3	43	80	1	108	15	19	19	45	1.85
38017327--38017395	22	3.3	21	78	6	61	10	23	23	43	1.84
38017351--38017395	21	2.2	21	84	7	58	8	22	22	46	1.79
38019531--38019597	18	3.6	18	68	18	55	34	19	11	34	1.88
38019521--38019604	39	2.1	40	93	2	143	33	19	9	38	1.84
38019756--38019841	44	2.0	44	83	4	111	32	24	20	22	1.98
38024515--38024611	40	2.4	41	79	6	110	25	17	28	27	1.98
38026006--38026180	46	3.8	45	78	6	170	29	20	27	22	1.98
38026007--38026226	94	2.4	94	80	6	225	28	20	28	23	1.98
38031747--38031967	46	4.8	46	73	13	143	27	18	28	25	1.98
38032993--38033032	21	2.0	20	90	5	62	15	15	42	27	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38054219--38054266	21	2.2	21	85	10	62	64	6	8	20	1.43
38063225--38063394	46	3.7	45	73	14	134	25	27	18	28	1.98
38066702--38066766	26	2.5	26	85	5	69	35	23	24	16	1.95
38071702--38071737	17	2.1	17	89	0	54	61	5	0	33	1.19
38079245--38079289	19	2.4	18	89	7	72	73	2	0	24	0.95
38079245--38079291	6	7.7	6	80	4	58	74	2	0	23	0.93
38079246--38079298	12	4.3	12	78	4	52	71	3	1	22	1.12
38082384--38082418	17	2.0	17	88	5	52	25	17	0	57	1.40
38087862--38088886	70	14.7	69	74	6	547	26	18	22	32	1.97
38087925--38088850	140	6.6	139	76	6	658	26	18	22	31	1.97
38087932--38088886	210	4.6	210	78	4	777	26	18	22	31	1.97
38092629--38092749	63	1.9	65	81	5	147	27	12	4	55	1.57
38092760--38092810	12	4.2	13	80	12	54	25	1	1	70	1.08
38092882--38092918	3	12.3	3	88	0	56	29	5	0	64	1.15
38096374--38096568	97	2.0	97	97	0	372	33	23	16	26	1.95
38097405--38097580	46	3.8	46	78	12	198	22	19	28	29	1.98
38097401--38097572	93	1.8	93	92	0	290	22	20	29	28	1.98
38106571--38106737	79	2.1	79	94	1	289	25	28	13	32	1.94
38109636--38109679	9	4.8	9	77	5	52	22	40	2	34	1.67
38117668--38117698	15	2.1	15	100	0	62	45	6	12	35	1.68
38119487--38119591	41	2.6	40	87	3	156	46	6	21	24	1.75
38119556--38119603	24	2.0	24	87	0	69	52	8	20	18	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38121799--38121883	28	3.0	28	77	0	98	31	17	16	34	1.93
38127517--38127560	8	5.4	8	83	2	52	68	2	29	0	1.02
38127526--38127560	16	2.2	16	94	0	61	68	2	28	0	1.04
38134315--38134366	6	9.0	6	85	4	54	15	3	3	76	1.07
38134319--38134386	5	12.8	5	74	20	50	17	4	2	75	1.10
38134315--38134386	12	6.2	11	74	18	58	18	4	2	75	1.09
38136292--38136419	64	2.0	64	95	0	229	17	35	29	17	1.93
38138141--38138185	22	2.0	22	100	0	90	26	8	13	51	1.70
38138646--38138676	13	2.4	13	100	0	62	51	0	0	48	1.00
38140801--38140999	75	2.7	70	84	5	236	43	8	6	42	1.60
38145973--38146142	85	2.0	85	87	2	243	37	19	14	28	1.91
38146755--38146830	5	15.0	5	75	19	61	40	0	3	55	1.18
38146790--38146827	16	2.3	16	90	4	58	42	0	0	57	0.98
38146791--38146832	21	2.0	21	90	9	68	45	0	0	54	0.99
38146881--38146905	13	1.9	13	100	0	50	72	0	28	0	0.86
38147934--38148013	25	3.3	25	82	5	94	18	25	18	37	1.94
38147970--38148013	22	2.0	22	91	8	72	18	25	20	36	1.95
38150858--38150897	20	2.0	20	85	9	55	20	0	5	75	0.99
38154012--38154199	72	2.6	72	81	1	207	24	17	28	29	1.97
38160989--38161232	40	6.1	40	83	1	274	21	27	16	34	1.95
38161011--38161232	120	1.9	120	85	0	309	20	27	16	34	1.95
38161011--38161268	80	3.2	79	79	6	272	20	26	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38162176--38162214	19	2.0	21	90	10	64	35	5	7	51	1.53
38167860--38167902	13	3.1	14	84	12	54	60	0	0	39	0.97
38168879--38168943	30	2.2	30	97	0	121	26	3	12	58	1.49
38172399--38172440	22	1.9	23	85	9	61	4	0	28	66	1.12
38174222--38174256	18	2.0	17	88	5	52	54	0	0	45	0.99
38175094--38175125	16	2.0	16	100	0	64	18	37	18	25	1.94
38178694--38178726	16	2.0	17	94	5	59	18	18	30	33	1.94
38183863--38183977	45	2.5	45	83	5	133	21	32	23	22	1.98
38183889--38183974	45	1.9	45	92	4	147	20	34	25	18	1.96
38186877--38186975	17	5.8	17	78	4	101	39	13	11	36	1.80

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