genome.fa.s23.2.7.7.80.10.50.1000.133.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  133  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)
44572419--44572542	54	2.3	55	80	10	139	29	28	14	28	1.95
44582171--44582209	20	2.0	20	89	0	60	66	2	0	30	1.05
44582176--44582217	18	2.2	20	83	8	52	73	2	0	23	0.94
44582187--44582220	17	1.9	17	94	5	59	70	0	0	29	0.87
44582184--44582234	26	2.0	26	84	0	66	66	1	0	31	1.03
44583759--44583791	13	2.5	13	95	0	57	39	0	0	60	0.97
44584794--44585758	493	2.0	485	86	4	1341	35	15	15	32	1.90
44592023--44592086	28	2.3	28	83	0	83	21	23	18	35	1.95
44594142--44594267	61	2.1	61	86	3	173	39	2	13	44	1.57
44597083--44597121	9	4.2	9	80	6	51	53	10	0	35	1.35
44601574--44601683	37	3.0	37	78	5	123	30	16	19	33	1.94
44616814--44616872	22	2.8	21	85	10	59	49	1	1	47	1.21
44616862--44616927	21	3.2	20	77	12	62	43	3	0	53	1.16
44616868--44616930	23	2.9	22	81	13	85	41	3	0	55	1.16
44620778--44620810	7	4.9	7	85	7	50	27	0	0	72	0.85
44624201--44624240	20	2.0	20	85	9	55	35	17	12	35	1.88
44625620--44625654	9	3.8	9	88	3	52	57	22	8	11	1.61
44627697--44627763	22	3.0	22	76	10	73	38	0	5	55	1.25
44627749--44627807	20	2.8	21	82	14	77	37	0	1	61	1.07
44627749--44627809	21	3.0	21	83	11	81	39	0	1	59	1.08
44627761--44627824	21	3.2	19	80	14	67	40	0	0	59	0.97
44627916--44627942	14	1.9	14	100	0	54	37	0	3	59	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44628076--44628129	20	2.7	20	79	0	63	62	1	3	31	1.23
44630739--44630835	30	3.2	30	82	5	108	26	23	22	26	2.00
44632535--44632611	9	7.8	9	72	17	55	61	2	1	35	1.18
44632545--44632612	20	3.3	21	78	14	79	60	4	1	33	1.26
44632549--44632622	22	3.4	22	74	20	75	60	4	1	33	1.24
44632473--44632624	79	1.9	78	79	10	166	58	3	0	36	1.21
44632657--44632707	22	2.3	21	83	6	57	56	1	0	41	1.10
44632660--44632743	36	2.3	37	84	11	120	58	1	0	40	1.06
44648513--44648650	39	3.5	39	89	3	206	39	23	24	13	1.90
44652115--44652431	128	2.6	120	82	8	368	28	16	19	35	1.94
44653450--44653490	17	2.4	18	80	15	52	24	17	0	58	1.38
44653845--44653879	17	2.1	17	88	0	52	2	17	5	74	1.14
44653912--44653960	3	16.7	3	79	12	57	59	2	0	38	1.09
44653916--44653960	16	2.8	16	86	3	63	60	2	0	37	1.09
44653912--44653961	13	3.6	14	80	20	61	58	2	0	40	1.10
44654086--44654148	3	22.0	3	75	15	62	60	1	1	36	1.16
44654407--44654462	12	4.8	12	73	6	53	62	3	0	33	1.12
44655899--44655950	14	3.7	14	84	0	50	30	7	26	34	1.85
44660300--44660326	13	2.1	13	100	0	54	14	7	0	77	0.97
44661159--44661217	14	4.3	14	78	2	57	72	0	27	0	0.84
44661151--44661213	25	2.6	22	82	12	72	69	0	30	0	0.88
44661400--44661507	33	3.4	33	69	20	95	37	0	11	51	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44661384--44661517	60	2.2	61	86	4	191	32	0	11	55	1.36
44661561--44661613	14	3.8	14	77	5	54	69	0	28	0	0.88
44661561--44661622	28	2.3	27	83	8	72	72	0	25	0	0.84
44661159--44661972	405	2.0	404	99	0	1601	39	0	15	44	1.50
44661805--44661912	33	3.4	33	69	20	95	37	0	11	51	1.37
44661789--44661922	60	2.2	61	86	4	191	32	0	11	55	1.36
44665545--44665588	17	2.5	18	86	13	65	75	6	0	18	1.02
44672505--44672557	20	2.7	19	80	11	63	56	0	0	43	0.99
44672486--44672548	33	2.0	31	87	6	90	53	0	1	44	1.10
44683070--44683137	26	2.6	26	90	0	100	38	25	20	16	1.92
44686159--44686235	35	2.2	35	88	4	111	35	24	15	24	1.94
44696017--44696049	6	5.5	6	96	0	57	72	0	27	0	0.85
44697507--44697632	46	2.8	44	85	7	155	29	18	28	23	1.98
44697693--44697801	49	2.2	49	85	3	139	28	24	25	21	1.99
44701149--44701189	22	1.9	22	85	5	57	12	19	0	68	1.21
44705047--44705089	16	2.7	16	96	0	77	9	6	11	72	1.29
44710676--44710986	49	6.5	49	75	8	223	27	19	28	24	1.99
44710666--44710842	94	1.9	95	84	1	239	30	18	26	24	1.98
44710623--44710986	48	7.7	47	74	10	183	28	19	27	24	1.99
44714652--44714765	12	9.5	13	66	16	59	46	1	1	50	1.22
44714647--44714766	60	2.0	60	98	0	231	46	2	2	48	1.29
44714712--44714781	34	2.1	34	89	5	106	45	0	2	51	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44714881--44714949	23	3.3	20	74	18	61	47	1	2	47	1.25
44718048--44718105	30	1.9	30	89	6	91	18	6	24	50	1.72
44718054--44718122	30	2.3	29	80	7	75	20	5	26	47	1.72
44721578--44721602	10	2.5	10	100	0	50	36	0	8	56	1.29
44722167--44722207	21	2.0	21	85	9	57	4	39	2	53	1.35
44744502--44744570	35	2.0	35	100	0	138	14	20	24	40	1.90
44744620--44744681	30	2.1	30	87	0	88	24	32	20	22	1.98
44749114--44749163	19	2.6	19	93	0	82	44	28	4	24	1.72
44749364--44749425	31	2.0	31	90	0	97	32	24	12	30	1.93
44751258--44751320	30	2.1	30	91	5	101	58	11	4	25	1.51
44756348--44756573	27	8.4	27	100	0	452	26	18	0	54	1.43
44768128--44768180	20	2.7	20	85	2	72	54	5	1	37	1.35
44768167--44768206	19	2.1	19	81	13	55	52	7	0	40	1.30
44768156--44768206	18	2.7	19	85	8	61	52	5	0	41	1.25
44768681--44768730	21	2.5	19	81	12	55	64	6	2	28	1.28
44772837--44772883	17	2.8	17	77	6	51	42	2	4	51	1.33
44779420--44779461	15	2.8	15	83	16	52	45	2	0	52	1.13
44783222--44783288	32	2.1	32	94	0	116	49	5	19	25	1.71
44785228--44785288	30	2.0	30	90	6	97	27	6	9	55	1.57
44785410--44785442	11	2.9	12	86	13	52	66	0	0	33	0.92
44785744--44785781	17	2.2	18	90	4	60	55	5	0	39	1.23
44794685--44794739	25	2.2	25	83	0	65	23	20	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44796564--44796624	30	2.0	30	100	0	122	36	9	9	44	1.71
44797099--44797129	16	1.9	16	93	0	53	45	3	9	41	1.53
44799495--44799680	26	7.2	25	90	0	237	31	6	24	37	1.81
44799495--44799680	52	3.6	52	91	0	300	31	6	24	37	1.81
44799495--44799680	78	2.4	78	100	0	372	31	6	24	37	1.81
44801525--44801589	32	2.0	34	84	6	89	26	16	24	32	1.96
44805691--44805761	17	4.0	17	81	7	79	33	11	15	39	1.83
44805693--44805761	35	1.9	36	91	2	113	33	10	15	40	1.81
44805683--44805773	19	4.9	19	84	8	125	34	9	16	39	1.82
44805734--44805796	23	3.0	22	80	11	62	36	6	17	39	1.75
44808465--44808504	20	2.0	20	95	0	71	37	5	7	50	1.53
44820067--44820141	26	2.8	27	82	9	100	36	16	28	20	1.93
44820066--44820157	27	3.4	27	77	5	98	38	16	28	17	1.91
44828156--44828199	18	2.5	18	88	3	72	13	25	45	15	1.83
44828661--44828720	24	2.5	24	91	2	95	23	3	48	25	1.66
44832984--44833028	18	2.6	18	82	3	56	15	35	28	20	1.93
44835263--44835400	27	5.2	26	74	17	106	44	1	15	37	1.56
44835306--44835416	40	2.8	40	80	13	122	46	2	15	35	1.60
44835249--44835449	13	14.8	13	68	13	93	47	2	15	34	1.59
44837314--44837422	44	2.6	41	80	9	128	23	19	22	33	1.97
44837314--44837477	42	3.9	43	77	12	142	23	17	25	33	1.96
44842432--44842482	18	2.9	17	80	16	59	41	1	3	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44842532--44842599	21	3.3	22	82	10	72	35	4	0	60	1.17
44842549--44842600	14	3.6	14	75	12	52	32	5	0	61	1.20
44844210--44844292	31	2.6	31	80	3	85	60	19	3	16	1.50
44850161--44850282	9	12.9	9	74	13	102	33	1	18	45	1.60
44850165--44850282	57	2.1	57	88	0	173	33	1	18	46	1.59
44850186--44850277	48	1.9	48	84	0	121	34	1	19	44	1.58
44850196--44850271	39	1.9	39	91	0	125	35	0	18	46	1.50
44853898--44853958	25	2.4	25	91	2	95	37	16	42	3	1.64
44854264--44854554	158	1.8	157	81	7	365	31	23	13	30	1.93
44854262--44854588	158	2.1	158	80	8	362	30	22	13	32	1.93

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