genome.fa.s11.2.7.7.80.10.50.1000.125.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   207   208   
          209   210   

This is table  125  of  210  ( 25152 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)
38096108--38096543	70	6.2	69	86	2	505	28	13	16	40	1.87
38100135--38100159	12	2.1	12	100	0	50	76	0	0	24	0.80
38100379--38100432	3	18.3	3	77	11	58	72	0	1	25	0.95
38100379--38100432	16	3.5	15	87	12	74	72	0	1	25	0.95
38100425--38100468	19	2.3	19	88	7	63	77	6	0	15	0.97
38101684--38101870	27	7.0	26	85	7	216	41	20	17	20	1.91
38101684--38101859	54	3.3	53	86	5	246	42	19	17	19	1.89
38101689--38101883	80	2.4	81	87	2	268	42	20	16	20	1.89
38110315--38110353	20	2.0	20	94	0	69	25	48	12	12	1.77
38111725--38111773	15	3.2	15	77	11	55	28	6	0	65	1.16
38113065--38113342	50	5.6	50	86	0	358	20	31	22	25	1.98
38113360--38113455	44	2.2	44	94	1	165	25	20	12	41	1.87
38114959--38115054	48	2.0	48	97	0	183	30	21	14	33	1.93
38117539--38117565	12	2.2	12	100	0	54	44	22	0	33	1.53
38119642--38119931	50	5.8	50	90	2	458	20	33	20	25	1.97
38119949--38120044	44	2.2	44	90	5	149	25	19	11	43	1.84
38130571--38130612	18	2.3	18	91	0	66	28	21	11	38	1.89
38133054--38133166	27	4.3	26	70	18	74	25	26	12	35	1.92
38135066--38135159	32	2.9	32	82	0	116	39	17	20	23	1.92
38135162--38135215	26	2.1	26	82	0	63	40	20	18	20	1.91
38135341--38135419	24	3.3	24	85	0	104	48	24	7	20	1.75
38135353--38135438	24	3.6	24	80	0	82	47	23	8	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38138223--38138576	131	2.7	130	85	3	467	32	14	14	38	1.86
38138222--38138701	263	1.8	262	82	2	613	33	14	13	38	1.85
38141654--38141773	60	2.0	60	85	3	161	34	24	15	25	1.95
38145026--38145145	22	5.5	22	88	0	168	33	14	25	26	1.94
38146996--38147045	19	2.4	22	83	12	70	20	6	8	66	1.40
38149370--38149408	19	2.1	19	85	9	53	51	5	5	38	1.46
38149615--38149643	8	3.6	8	100	0	58	24	0	0	75	0.80
38150032--38150104	28	2.6	29	78	10	80	52	4	1	42	1.29
38150235--38150287	17	3.1	17	72	8	54	50	3	1	43	1.30
38150210--38150256	22	2.1	22	84	4	58	44	0	2	53	1.12
38153702--38153731	13	2.3	13	94	0	51	6	10	16	66	1.41
38155324--38155377	18	3.0	18	78	5	65	29	9	35	25	1.87
38156440--38156474	17	2.1	17	100	0	70	34	0	0	65	0.93
38156462--38156602	26	5.5	25	68	23	80	43	0	4	51	1.28
38156262--38156702	102	3.9	116	85	11	642	41	1	5	50	1.36
38156841--38156945	44	2.5	40	77	18	115	34	30	3	31	1.76
38156851--38156947	45	2.2	45	90	5	153	35	29	4	30	1.76
38156921--38156963	16	2.6	16	85	3	59	25	27	4	41	1.75
38164198--38164266	32	2.2	32	86	0	93	39	4	8	47	1.54
38166579--38166694	33	3.6	32	77	12	121	55	5	4	35	1.42
38168989--38169029	5	8.2	5	94	0	73	21	19	36	21	1.95
38169126--38169256	70	1.9	70	83	7	171	33	13	11	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38170382--38170420	19	2.1	18	90	4	60	66	0	28	5	1.12
38173001--38173067	27	2.6	26	83	4	82	29	25	23	20	1.99
38174162--38174194	17	1.9	17	100	0	66	30	18	15	36	1.91
38183858--38183896	21	1.9	20	84	5	51	48	25	0	25	1.51
38184191--38184241	24	2.1	24	85	3	66	17	23	7	50	1.72
38191030--38191068	19	2.1	19	95	0	69	15	35	5	43	1.69
38200277--38200334	30	1.9	30	86	6	82	36	6	25	31	1.83
38200677--38200867	50	3.7	52	79	6	192	27	21	27	23	1.99
38204822--38204871	19	2.7	20	82	14	63	60	4	16	20	1.52
38213177--38213246	20	3.5	20	73	11	63	10	22	20	47	1.79
38218169--38218198	14	2.1	14	93	0	51	50	20	10	20	1.76
38221007--38221069	32	2.0	32	96	3	119	42	15	9	31	1.79
38221917--38221946	16	1.9	16	93	6	53	66	0	3	30	1.07
38222952--38222992	19	2.2	19	86	4	57	7	24	51	17	1.70
38226448--38226492	23	2.0	23	82	8	56	40	11	0	48	1.39
38229043--38229139	41	2.4	41	84	5	117	37	12	24	25	1.91
38232674--38232734	31	1.9	33	86	6	90	40	0	3	55	1.16
38240561--38240619	26	2.3	26	84	0	73	42	11	13	32	1.81
38242360--38242495	73	1.9	73	89	1	211	30	22	25	21	1.99
38242411--38243059	113	5.8	113	88	3	852	24	21	27	26	1.99
38242411--38243059	227	2.9	225	86	4	877	24	21	27	26	1.99
38242945--38243005	32	1.9	32	89	0	95	19	19	32	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38243399--38243440	15	2.8	15	75	13	50	23	0	40	35	1.55
38243656--38243732	7	10.9	7	69	13	50	24	0	38	36	1.56
38243683--38243786	15	7.1	15	76	15	60	24	0	39	36	1.55
38243702--38243743	8	5.5	8	80	8	52	16	0	47	35	1.47
38243705--38243758	7	7.4	7	77	8	54	20	0	44	35	1.52
38248486--38248510	2	12.5	2	100	0	50	52	0	0	48	1.00
38248896--38249067	95	1.8	94	91	1	281	13	25	16	44	1.85
38250452--38250544	42	2.2	43	84	5	118	21	17	32	29	1.96
38250564--38250700	43	3.2	43	88	4	197	22	19	32	25	1.98
38252327--38252383	16	3.4	16	75	13	53	35	10	3	50	1.54
38252360--38252415	20	2.8	20	80	2	67	39	8	0	51	1.33
38252344--38252515	56	3.2	55	69	25	152	37	9	2	50	1.50
38252313--38252515	105	1.9	105	87	7	298	35	8	2	52	1.48
38256474--38256519	24	1.9	24	86	0	65	45	17	26	10	1.81
38260229--38260408	44	4.1	43	66	14	116	27	17	27	27	1.97
38260204--38260484	132	2.1	132	91	1	447	28	20	24	26	1.99
38260204--38260520	132	2.4	131	87	4	388	28	19	24	26	1.99
38260841--38261139	44	6.8	44	70	11	152	27	20	23	28	1.99
38260738--38261158	217	1.9	217	87	1	612	28	19	22	28	1.98
38261497--38261541	23	2.0	23	86	4	65	35	4	20	40	1.72
38261507--38261551	23	2.0	23	82	4	56	31	4	17	46	1.68
38268507--38268895	130	3.0	132	89	2	595	29	19	25	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38268683--38268865	44	4.2	44	66	8	129	30	19	24	26	1.98
38268507--38268895	132	3.0	132	88	2	577	29	19	25	26	1.98
38268906--38269016	43	2.7	40	81	5	123	27	23	21	27	1.99
38268507--38268978	262	1.8	262	82	5	623	29	20	23	25	1.99
38270561--38270608	20	2.4	20	78	0	51	37	10	2	50	1.49
38270547--38270713	54	3.2	53	70	19	159	35	10	4	49	1.58
38270514--38270713	104	1.9	106	88	2	305	34	9	4	51	1.55
38270665--38270713	20	2.5	20	76	6	55	32	10	2	55	1.45
38277431--38277552	46	2.7	46	91	2	194	40	11	3	45	1.57
38277684--38277745	24	2.7	23	82	5	79	27	12	19	40	1.88
38282243--38282274	16	2.0	16	93	0	55	25	15	0	59	1.36
38283713--38283765	23	2.3	23	90	0	88	20	18	26	33	1.96
38290106--38290186	26	3.2	26	62	22	62	24	14	27	33	1.95
38290193--38290278	45	1.9	45	90	0	136	27	16	22	33	1.95
38295040--38295183	49	2.9	50	74	2	146	31	16	25	26	1.96
38296926--38296989	28	2.3	28	84	7	78	17	1	18	62	1.41
38298865--38298909	23	1.9	24	86	13	67	26	11	11	51	1.71
38301355--38301413	31	1.9	31	85	0	82	59	5	6	28	1.45
38301367--38301409	23	1.9	23	90	4	70	58	4	6	30	1.45
38311798--38311840	20	2.2	20	87	8	61	25	6	4	62	1.40
38313543--38313588	19	2.4	19	92	7	76	47	2	0	50	1.13
38313995--38314063	22	3.3	21	80	12	79	26	2	26	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38313995--38314073	41	1.9	42	84	7	108	25	2	25	46	1.65
38313995--38314115	42	2.9	40	80	8	109	25	1	21	51	1.57
38314061--38314098	19	2.1	18	85	14	51	23	0	10	65	1.23
38314198--38314260	28	2.2	28	85	2	81	34	7	23	33	1.84
38314214--38314270	28	2.0	29	93	3	98	36	7	24	31	1.82
38325142--38325166	6	4.2	6	100	0	50	36	0	16	48	1.46
38326549--38326665	44	2.7	43	81	9	139	28	29	18	23	1.98
38336350--38336532	28	6.3	28	68	20	83	42	0	3	54	1.21
38336458--38336501	18	2.5	18	85	3	54	40	0	4	54	1.21
38336525--38336571	24	2.0	24	84	15	64	36	0	8	55	1.31

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   207   208   
          209   210