genome.fa.s2.2.7.7.80.10.50.1000.178.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  178  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)
54241935--54241959	12	2.1	12	100	0	50	32	8	16	44	1.76
54242956--54243017	27	2.2	28	80	8	65	67	1	1	29	1.09
54245392--54245459	33	2.1	33	91	0	109	13	29	33	23	1.93
54248388--54248527	57	2.4	56	80	4	145	36	11	15	36	1.84
54248569--54249291	69	10.4	69	79	2	624	21	18	23	35	1.95
54248574--54249291	277	2.6	277	81	2	778	21	18	23	36	1.95
54256945--54257057	38	3.0	38	85	2	158	28	14	3	53	1.57
54261707--54261746	11	3.6	12	87	9	50	50	2	0	47	1.14
54261707--54261746	2	21.5	2	80	14	50	50	2	0	47	1.14
54261691--54261734	19	2.2	19	84	12	52	54	0	2	43	1.12
54264971--54265102	25	5.3	25	79	10	128	34	18	27	19	1.95
54264971--54265086	50	2.3	50	87	0	160	34	18	26	19	1.96
54264971--54265102	50	2.6	49	83	4	147	34	18	27	19	1.95
54265822--54265956	69	2.0	69	83	5	175	17	24	16	42	1.88
54265823--54265971	34	4.4	34	72	8	140	18	24	14	42	1.87
54268905--54268947	21	2.0	23	81	9	54	32	11	11	44	1.77
54273681--54273720	22	1.9	20	90	10	62	42	0	12	45	1.42
54274060--54274114	12	4.5	12	82	10	67	21	20	9	49	1.76
54274060--54274114	26	2.2	25	84	9	69	21	20	9	49	1.76
54280301--54280333	12	2.8	12	95	4	59	21	18	9	51	1.73
54281586--54281635	3	17.0	3	76	19	52	64	4	2	30	1.23
54281586--54281635	16	3.4	14	82	15	57	64	4	2	30	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54282403--54282433	16	2.0	16	93	6	55	6	9	6	77	1.12
54282410--54282456	19	2.5	19	85	0	67	4	4	6	85	0.84
54295757--54295791	18	2.0	17	88	5	52	54	0	0	45	0.99
54295875--54295911	16	2.2	17	86	13	51	54	0	2	43	1.14
54295785--54295972	61	3.1	61	70	14	199	47	7	2	42	1.45
54295995--54296031	16	2.2	17	86	13	51	54	0	2	43	1.14
54295737--54296032	120	2.5	120	97	1	558	48	5	2	44	1.37
54300299--54300370	23	3.2	23	78	13	78	56	22	4	16	1.57
54300324--54300368	11	4.0	11	78	16	56	60	20	2	17	1.47
54300268--54300728	107	4.3	107	96	0	832	45	24	5	24	1.75
54300401--54300465	23	2.9	22	75	22	71	50	23	6	20	1.70
54300432--54300477	22	2.1	22	84	8	58	58	19	2	19	1.49
54300510--54300572	23	2.7	24	76	16	78	52	22	9	15	1.72
54300539--54300584	22	2.1	22	84	8	58	58	21	6	13	1.57
54300617--54300679	23	2.7	24	79	16	87	52	22	7	17	1.70
54300646--54300691	22	2.1	22	84	8	58	58	19	4	17	1.55
54300790--54300834	18	2.5	18	92	0	72	55	22	8	13	1.65
54313473--54313648	93	1.9	93	93	0	307	32	19	15	31	1.94
54320619--54320660	22	1.9	22	90	0	66	38	7	9	45	1.64
54322984--54323017	17	1.9	18	88	5	52	35	23	0	41	1.55
54326755--54326834	37	2.1	38	84	6	101	30	23	5	41	1.76
54326887--54326917	16	1.9	16	93	0	53	38	25	0	35	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54327621--54327673	3	17.7	3	82	7	63	64	3	0	32	1.12
54327806--54327838	15	2.2	15	89	10	50	57	6	6	30	1.47
54330718--54330913	51	3.8	51	84	3	234	32	26	14	26	1.95
54330718--54330911	102	1.9	102	87	4	284	32	26	14	25	1.94
54349862--54349900	18	2.2	18	86	9	53	33	0	10	56	1.33
54350761--54350798	18	2.3	16	86	13	51	23	0	0	76	0.79
54352758--54352789	16	1.9	17	93	6	57	43	3	15	37	1.63
54357678--54358432	375	2.0	375	98	0	1474	37	17	11	33	1.86
54359013--54359089	25	3.1	25	82	0	91	35	25	19	19	1.95
54359723--54360015	152	1.9	152	95	0	532	30	23	9	35	1.88
54364415--54364482	24	2.9	23	80	4	73	16	41	5	36	1.72
54365950--54365980	15	2.0	16	93	6	55	80	0	0	19	0.71
54371681--54371717	18	2.1	18	90	10	58	40	10	45	2	1.53
54376492--54376519	2	14.0	2	100	0	56	50	0	0	50	1.00
54381471--54381516	16	3.1	15	76	11	51	67	2	0	30	1.03
54389666--54389705	20	2.0	21	85	14	57	65	5	2	27	1.27
54389689--54389727	12	3.2	12	89	7	53	69	2	2	25	1.14
54389665--54389713	21	2.3	21	80	13	57	63	4	2	30	1.24
54400093--54400125	15	2.2	15	89	10	50	45	0	6	48	1.27
54401872--54401919	22	2.3	20	78	7	51	50	18	0	31	1.48
54408344--54408452	25	4.4	25	69	17	75	28	17	27	26	1.98
54409650--54409681	15	2.1	15	94	0	55	68	9	6	15	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54413864--54413911	25	2.0	23	84	8	60	54	8	0	37	1.31
54423162--54423199	3	12.7	3	89	10	60	68	0	0	31	0.90
54423169--54423199	16	1.9	16	100	0	62	67	0	0	32	0.91
54423654--54423700	23	2.0	24	87	4	69	38	17	6	38	1.75
54423654--54423719	21	3.0	23	77	18	77	37	16	7	37	1.77
54423677--54423731	19	2.7	21	86	11	87	38	14	9	38	1.78
54424061--54424431	44	8.6	44	72	10	216	28	22	19	28	1.98
54424022--54424450	217	2.0	219	89	1	666	27	22	20	30	1.98
54424442--54424650	100	2.1	100	84	3	269	25	21	20	32	1.97
54424728--54424822	50	1.9	50	84	0	127	24	23	23	29	1.99
54431007--54431138	25	5.5	24	87	6	180	39	22	21	15	1.92
54431006--54431138	49	2.8	50	87	6	179	39	22	21	15	1.91
54432285--54432354	5	13.6	5	77	15	63	57	4	0	38	1.19
54432284--54432327	21	2.0	21	91	8	70	56	0	0	43	0.99
54432284--54432326	16	2.5	17	88	7	61	55	0	0	44	0.99
54432293--54432357	21	3.1	21	76	10	62	58	4	0	36	1.19
54436011--54436061	23	2.3	22	83	6	66	56	9	3	29	1.49
54436098--54436130	3	11.0	3	93	0	57	66	3	0	30	1.06
54436603--54436657	19	2.7	21	83	11	78	38	12	9	40	1.75
54446545--54446572	7	4.0	7	100	0	56	85	0	0	14	0.59
54446568--54446776	91	2.3	90	79	13	234	36	17	9	36	1.82
54446934--54447016	20	4.2	20	72	9	64	66	6	4	22	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54446932--54447016	29	2.9	28	70	5	71	65	5	4	23	1.34
54446932--54447018	19	4.5	19	76	8	70	64	5	4	25	1.35
54447524--54447731	93	2.3	92	82	4	249	40	11	18	29	1.85
54448164--54448243	25	3.1	25	77	13	90	50	1	0	48	1.08
54452761--54452785	6	4.2	6	100	0	50	48	0	0	52	1.00
54453842--54453880	17	2.4	17	84	16	55	53	0	12	33	1.39
54457666--54457709	23	1.9	22	82	17	54	36	25	0	38	1.56
54457754--54457847	45	2.1	45	91	0	152	29	24	20	25	1.99
54457849--54457989	51	2.8	51	83	4	185	33	29	15	21	1.95
54460986--54461073	25	3.6	25	76	4	81	31	18	28	21	1.97
54461034--54461094	24	2.6	23	87	7	86	36	21	26	16	1.94
54461040--54461240	73	2.7	71	71	12	163	34	20	26	18	1.96
54461313--54461376	25	2.6	25	92	0	110	42	18	25	14	1.88
54466049--54466170	23	5.3	23	89	0	190	31	26	21	21	1.98
54466049--54466168	46	2.6	46	95	0	213	30	26	21	20	1.98
54470550--54470574	2	12.5	2	100	0	50	52	0	0	48	1.00
54470708--54470909	75	2.6	75	77	12	182	46	16	4	32	1.68
54470789--54470983	75	2.6	75	82	0	219	46	17	3	31	1.66
54471401--54471435	2	17.5	2	100	0	70	48	0	0	51	1.00
54472376--54472400	13	1.9	13	100	0	50	40	24	4	32	1.73
54480657--54480733	13	5.9	13	87	0	118	36	29	10	23	1.88
54480657--54480733	26	3.0	26	96	0	136	36	29	10	23	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54485242--54485271	2	15.0	2	92	0	51	53	0	0	46	1.00
54485776--54485985	75	2.7	75	78	7	194	43	16	4	34	1.69
54485848--54486051	75	2.7	75	83	0	228	46	19	3	30	1.67
54487336--54487360	13	1.9	13	100	0	50	40	24	4	32	1.73
54489372--54489464	26	3.7	26	77	7	70	37	22	22	17	1.94
54489930--54489973	5	8.6	5	85	5	61	40	18	0	40	1.50
54491209--54491258	25	2.0	26	88	11	77	40	10	4	46	1.56
54491299--54491332	15	2.3	15	90	5	52	35	23	0	41	1.55
54497722--54497769	24	2.0	24	88	4	71	43	2	0	54	1.12
54497957--54498017	3	20.7	3	93	3	106	65	1	32	0	1.02

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