genome.fa.s2.2.7.7.80.10.50.1000.184.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   

This is table  184  of  206  ( 24623 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)
56043943--56044203	139	1.9	138	90	0	414	29	21	19	29	1.98
56043844--56044439	183	3.3	183	84	3	797	29	20	18	31	1.97
56044465--56044564	51	2.0	51	85	0	137	25	28	20	27	1.99
56044542--56044585	21	2.1	21	86	0	61	20	34	6	38	1.79
56044495--56044636	72	2.0	72	84	0	185	24	26	16	33	1.96
56044563--56044781	51	4.3	51	82	0	240	26	23	17	31	1.97
56044451--56044684	123	1.9	123	87	0	342	25	26	17	31	1.97
56044563--56044781	102	2.1	102	84	1	278	26	23	17	31	1.97
56049184--56049411	103	2.2	103	92	0	375	32	27	20	20	1.97
56049363--56049473	27	3.9	27	84	13	159	30	28	24	16	1.96
56049332--56049471	60	2.3	60	95	0	244	33	27	22	16	1.95
56053498--56053939	220	2.0	219	92	2	744	33	18	13	34	1.90
56055504--56055533	13	2.2	14	94	5	53	13	0	13	73	1.10
56057875--56057965	45	2.0	45	97	0	173	35	10	18	35	1.86
56058403--56058447	23	1.9	24	86	4	65	33	4	2	60	1.29
56061541--56061572	2	16.5	2	93	6	57	53	0	0	46	1.00
56067393--56067433	20	2.0	21	86	13	59	58	0	7	34	1.26
56069154--56069274	45	2.7	45	82	5	147	23	25	20	30	1.98
56069299--56069541	44	5.6	43	73	8	204	29	22	19	28	1.98
56070455--56070503	25	1.9	26	91	4	82	59	10	16	14	1.61
56082723--56082763	20	2.0	21	86	13	59	58	0	7	34	1.26
56083927--56083977	21	2.4	21	100	0	102	7	19	25	47	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56086242--56086280	17	2.3	17	90	0	60	35	7	7	48	1.61
56087095--56087132	15	2.4	16	95	4	69	18	5	10	65	1.41
56090768--56091025	90	2.9	89	84	2	300	32	13	26	27	1.94
56094815--56094884	33	2.3	32	76	13	76	35	7	2	54	1.43
56094835--56095027	47	4.3	46	71	19	140	36	7	1	54	1.37
56094830--56095030	88	2.2	91	80	11	225	36	7	1	54	1.38
56105920--56106008	45	2.0	45	97	0	169	43	20	21	14	1.87
56105922--56106032	45	2.5	44	86	8	127	49	17	19	13	1.79
56107617--56107757	51	2.8	50	73	7	140	29	21	23	25	1.99
56107782--56107985	45	4.6	45	78	6	184	29	20	21	28	1.98
56107825--56107985	44	3.7	43	76	14	132	30	20	20	28	1.98
56108194--56108563	44	8.4	45	74	9	243	29	19	22	27	1.98
56108237--56108353	45	2.6	45	82	1	137	29	19	23	27	1.98
56108229--56108526	89	3.4	86	77	10	318	29	19	22	28	1.98
56113298--56113327	2	15.0	2	100	0	60	50	0	0	50	1.00
56115954--56116075	42	2.9	42	87	0	181	31	21	22	24	1.98
56116039--56116329	42	6.9	42	82	4	320	25	21	20	32	1.97
56116038--56116344	126	2.4	127	80	4	406	27	21	19	31	1.97
56116645--56116715	21	3.4	21	80	7	81	4	43	16	35	1.68
56118446--56118694	9	29.0	9	67	20	117	33	1	18	46	1.57
56118454--56118499	14	3.6	14	72	27	57	39	0	17	43	1.49
56118446--56118516	23	3.0	23	95	2	124	40	0	16	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56118512--56118572	16	3.7	16	76	8	68	29	0	19	50	1.48
56118508--56118575	34	2.0	34	94	0	118	30	0	19	50	1.48
56118513--56118585	34	2.1	34	85	5	94	30	2	20	46	1.65
56118581--56118694	34	3.2	37	79	10	98	32	0	18	48	1.54
56118776--56118829	28	1.9	28	88	7	83	33	0	16	50	1.46
56119621--56119679	13	4.5	13	86	0	73	45	3	10	40	1.54
56119726--56119762	13	2.8	13	91	4	56	56	2	2	37	1.28
56121448--56121478	7	4.3	7	92	8	53	45	38	0	16	1.47
56121448--56121478	15	2.1	14	94	5	53	45	38	0	16	1.47
56121453--56121519	15	4.4	15	70	10	55	43	29	4	22	1.73
56121917--56122001	7	12.0	7	77	7	64	45	37	0	16	1.47
56122299--56122627	115	2.9	116	82	6	377	27	22	19	30	1.98
56122422--56122831	205	2.0	207	85	5	564	26	22	19	31	1.98
56122640--56122944	114	2.7	115	86	4	420	27	22	18	31	1.97
56122782--56123134	190	1.9	190	86	3	512	28	22	19	30	1.98
56122940--56123243	112	2.7	112	83	4	353	27	22	18	31	1.97
56124803--56124850	18	2.8	17	84	9	53	12	10	2	75	1.14
56127393--56127425	17	1.9	17	100	0	66	39	12	12	36	1.80
56131890--56131938	23	2.1	24	92	3	82	32	22	4	40	1.73
56145573--56145626	6	9.7	6	88	11	64	18	0	0	81	0.69
56145575--56145651	5	15.4	5	81	11	79	19	2	0	77	0.88
56145576--56145658	12	6.5	13	83	15	77	20	2	0	77	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56145589--56145666	20	3.9	20	79	17	72	21	3	0	74	0.98
56147507--56147536	15	2.0	15	93	0	51	50	0	10	40	1.36
56150030--56150057	12	2.3	12	100	0	56	32	0	28	39	1.57
56151288--56151329	22	1.9	22	90	9	68	69	7	0	23	1.13
56151705--56151774	33	2.1	33	86	7	97	51	0	2	45	1.16
56162621--56162669	20	2.4	21	80	19	59	42	6	8	42	1.59
56167159--56167183	10	2.5	10	100	0	50	60	0	0	40	0.97
56178938--56178991	24	2.2	24	93	3	90	27	0	0	72	0.85
56178936--56179005	24	3.0	23	84	12	72	31	0	1	67	1.00
56183619--56184162	184	3.0	183	89	2	779	42	20	9	28	1.83
56183682--56184144	62	7.6	61	67	16	149	42	19	8	28	1.81
56186347--56186379	17	1.9	17	93	0	57	45	9	12	33	1.73
56189608--56189639	2	16.0	2	100	0	64	50	0	0	50	1.00
56191379--56191426	2	24.0	2	100	0	96	50	0	0	50	1.00
56191819--56191848	14	2.1	14	93	0	51	40	0	6	53	1.27
56195419--56195463	15	3.2	15	76	23	53	26	0	17	55	1.42
56201994--56202045	25	2.1	25	100	0	104	32	23	3	40	1.72
56206992--56207649	48	13.8	48	70	16	308	23	18	22	35	1.96
56206990--56207361	102	3.7	99	83	9	420	22	19	22	35	1.96
56207324--56207400	39	2.0	39	97	0	145	22	23	20	33	1.97
56207444--56207681	48	5.0	48	87	2	325	23	19	19	36	1.95
56210330--56210424	38	2.4	39	81	6	113	27	13	18	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56216081--56216164	38	2.2	38	86	2	123	39	19	14	27	1.90
56233499--56233541	2	21.5	2	100	0	86	51	0	48	0	1.00
56248377--56248682	162	1.9	162	100	0	612	29	20	22	27	1.99
56251087--56251231	68	2.1	70	84	5	199	27	20	15	36	1.93
56258157--56258187	14	2.2	14	94	0	53	38	3	19	38	1.68
56261888--56261928	20	2.0	20	100	0	82	36	4	19	39	1.73
56262009--56262078	34	2.1	34	100	0	140	28	0	31	40	1.57
56269992--56270092	32	3.2	32	62	25	79	27	19	8	43	1.81
56269961--56270093	62	2.1	62	100	0	266	30	19	7	42	1.79
56271721--56271763	22	1.9	23	85	4	61	18	18	9	53	1.70
56292187--56292250	27	2.4	27	100	0	128	46	0	12	40	1.42
56307931--56307970	21	2.0	21	90	5	64	12	17	22	47	1.81
56309902--56310088	51	3.7	50	80	4	232	31	27	17	23	1.97
56309900--56310084	101	1.8	101	91	3	309	31	27	17	23	1.97
56313263--56313293	9	3.4	9	90	0	53	25	12	22	38	1.90
56314400--56314425	5	5.2	5	100	0	52	19	19	19	42	1.90
56316504--56316585	28	2.9	29	79	12	82	62	1	0	36	1.03
56316529--56316589	20	3.2	19	81	9	70	62	1	0	36	1.05
56316514--56316589	19	4.0	18	81	10	71	60	1	0	38	1.05
56316525--56316644	10	12.3	10	68	18	56	62	0	4	32	1.20
56316853--56316890	19	2.0	19	89	0	58	28	2	7	60	1.38
56316942--56316997	19	2.8	20	78	8	60	30	1	1	66	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56317976--56318108	51	2.5	53	82	10	139	60	4	5	29	1.38
56340964--56341006	13	3.2	13	81	12	50	79	2	16	2	0.95
56340967--56341002	19	1.9	18	88	5	54	80	2	13	2	0.93
56341836--56341899	31	2.1	31	85	2	85	42	18	9	29	1.82
56345918--56345969	24	2.2	24	85	0	68	53	5	3	36	1.43
56354976--56355012	18	2.1	18	100	0	74	29	27	21	21	1.99
56355978--56356034	26	2.3	24	82	14	64	54	7	5	33	1.50
56356070--56356110	21	2.0	21	85	0	55	56	4	7	31	1.48
56356690--56356767	21	3.7	21	94	0	129	37	10	10	42	1.73
56365748--56365827	24	3.6	24	68	22	75	45	5	0	50	1.23

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206