genome.fa.s13.2.7.7.80.10.50.1000.37.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  37  of  199  ( 23770 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)
10503156--10503303	46	3.2	46	80	8	133	54	2	6	35	1.41
10503169--10503301	45	2.9	45	82	7	162	54	2	6	36	1.40
10503156--10503304	23	6.7	21	73	15	97	54	2	7	35	1.43
10504630--10504660	8	3.8	8	91	8	53	80	9	0	9	0.90
10504629--10504667	9	4.4	9	90	6	62	79	7	2	10	1.02
10504687--10504733	5	8.8	5	88	9	58	80	0	17	2	0.80
10504685--10504735	23	2.3	21	90	6	75	78	0	19	1	0.85
10504692--10504735	6	7.8	6	89	5	58	79	0	20	0	0.73
10504685--10504735	11	4.6	11	83	9	68	78	0	19	1	0.85
10506967--10507843	44	20.1	43	71	8	187	30	20	21	26	1.98
10507062--10507257	45	4.4	45	83	2	191	29	19	21	29	1.98
10506975--10507828	88	9.8	87	74	7	502	30	20	21	27	1.98
10506975--10507829	262	3.3	260	82	4	988	30	20	21	27	1.98
10507149--10507871	44	16.5	44	71	8	291	30	20	22	27	1.98
10509330--10509380	24	2.2	24	86	10	70	31	3	7	56	1.46
10509435--10509566	45	2.9	45	81	9	160	36	6	2	54	1.40
10509464--10509530	13	5.7	12	73	21	61	37	8	1	52	1.42
10509461--10509634	70	2.5	69	81	6	194	37	6	2	53	1.40
10509408--10509656	24	10.7	24	74	15	173	35	6	4	53	1.45
10509746--10509770	2	12.5	2	100	0	50	48	0	0	52	1.00
10509916--10509948	12	2.5	14	80	19	52	33	0	6	60	1.21
10509916--10509949	13	2.6	13	86	13	52	32	0	5	61	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10509926--10509968	22	2.0	22	81	9	52	23	2	6	67	1.27
10512833--10512876	16	2.7	16	82	3	52	25	15	20	38	1.92
10512922--10512993	17	4.2	17	80	0	63	33	25	19	22	1.97
10512956--10513005	17	2.9	17	84	0	64	30	18	20	32	1.96
10513108--10513149	17	2.3	18	80	12	50	26	19	14	40	1.89
10513115--10513150	17	2.1	17	89	0	54	22	22	19	36	1.95
10514349--10514389	18	2.3	18	95	0	73	9	12	36	41	1.76
10518037--10518110	25	3.0	25	77	0	67	21	31	14	32	1.94
10521313--10521343	16	1.9	16	93	0	53	35	19	12	32	1.90
10524298--10524342	23	2.0	23	100	0	90	17	22	26	33	1.96
10525797--10525837	13	3.2	13	77	19	50	26	21	0	51	1.48
10525953--10526088	37	3.5	38	79	9	123	35	25	15	24	1.94
10525953--10526088	40	3.5	39	78	10	152	35	25	15	24	1.94
10526902--10526967	10	6.2	10	74	17	53	6	19	3	71	1.21
10526965--10527015	13	3.9	14	78	17	56	33	3	0	62	1.13
10526965--10527016	25	2.1	25	85	7	70	32	3	0	63	1.12
10532868--10532931	30	2.1	30	100	0	128	31	10	28	29	1.91
10535645--10535683	16	2.4	16	86	0	51	51	2	7	38	1.44
10535654--10535686	16	2.1	16	94	0	57	45	0	9	45	1.35
10535675--10535817	68	2.1	67	92	2	243	41	4	8	44	1.56
10535759--10535786	9	3.1	9	100	0	56	32	0	10	57	1.33
10535881--10535925	23	2.0	23	91	8	76	57	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10537050--10537087	19	2.1	19	85	5	51	71	0	0	28	0.87
10537255--10537284	2	15.0	2	100	0	60	50	0	0	50	1.00
10542065--10542129	29	2.2	29	83	5	78	56	7	1	33	1.37
10547730--10547909	77	2.3	78	95	1	319	31	26	18	23	1.98
10550746--10550783	19	2.0	20	84	5	51	44	13	5	36	1.66
10551893--10551925	3	11.0	3	100	0	66	66	0	33	0	0.92
10556047--10556088	18	2.3	18	88	8	59	23	52	4	19	1.65
10560096--10560152	22	2.6	22	88	5	80	52	26	0	21	1.47
10560661--10560707	18	2.6	18	86	6	60	31	0	4	63	1.13
10568097--10568152	3	18.7	3	84	0	58	57	1	7	33	1.37
10571942--10571979	6	6.5	6	90	3	60	18	18	18	44	1.87
10572454--10572521	30	2.3	29	82	10	75	48	2	1	47	1.26
10572684--10572722	13	3.0	13	88	0	60	35	23	5	35	1.77
10574260--10574284	13	1.9	13	100	0	50	60	0	16	24	1.36
10576997--10577033	9	4.1	9	92	0	65	29	10	13	45	1.77
10577088--10577118	9	3.4	9	90	0	53	38	22	12	25	1.90
10577996--10578243	50	4.9	50	82	5	232	29	21	26	22	1.99
10587593--10587619	11	2.5	11	100	0	54	85	7	0	7	0.75
10590210--10590242	17	1.9	17	93	0	57	30	24	12	33	1.91
10595151--10595276	66	1.9	65	85	4	173	26	26	20	26	1.99
10596876--10596985	27	4.1	26	77	4	103	27	22	14	35	1.93
10598139--10598196	29	2.0	29	100	0	116	27	31	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10604886--10604929	21	2.1	21	95	0	79	52	13	6	27	1.66
10607473--10607535	11	5.5	11	81	7	63	22	22	0	55	1.44
10607483--10607533	17	2.9	18	78	16	54	21	23	0	54	1.44
10607481--10607536	23	2.4	23	80	8	69	19	25	0	55	1.43
10610826--10610892	25	2.7	25	86	9	100	26	19	22	31	1.98
10613178--10613222	24	1.9	23	82	13	56	33	13	6	46	1.69
10626925--10626954	12	2.5	12	94	0	51	16	20	33	30	1.94
10629068--10629131	21	2.8	23	83	11	87	10	20	21	46	1.81
10634234--10634343	45	2.6	41	77	9	107	31	5	29	33	1.80
10634489--10634523	18	2.0	17	88	5	52	54	0	0	45	0.99
10634865--10634916	15	3.6	15	80	12	56	53	1	0	44	1.11
10638393--10638434	13	2.9	14	82	13	50	42	2	0	54	1.13
10638524--10638565	15	2.7	17	82	17	56	45	0	0	54	0.99
10644722--10644759	10	3.7	10	86	6	58	42	0	0	57	0.98
10645447--10645499	26	2.0	26	96	0	97	28	16	11	43	1.83
10649362--10649462	34	3.3	32	76	20	117	47	0	0	51	1.07
10649594--10649635	15	2.9	15	92	3	68	23	14	16	45	1.84
10651127--10651163	9	4.1	9	92	0	65	29	10	13	45	1.77
10651427--10651510	43	1.9	44	87	2	125	44	4	38	13	1.64
10662230--10662304	26	2.9	26	87	0	96	65	1	0	33	1.01
10680040--10680178	33	4.2	33	88	1	199	39	32	11	16	1.84
10680048--10680175	65	2.0	65	88	1	193	38	31	12	17	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10694212--10694401	49	3.7	50	82	5	202	27	20	27	23	1.99
10694265--10694439	49	3.5	50	82	3	176	28	22	26	22	1.99
10705885--10705928	19	2.2	20	84	12	63	18	36	38	6	1.77
10705890--10705929	19	2.1	19	95	0	71	17	37	40	5	1.72
10714268--10714461	50	3.9	49	81	2	210	28	21	28	21	1.99
10719039--10719139	45	2.2	45	85	0	139	14	4	23	56	1.58
10719054--10719152	45	2.2	45	85	0	126	19	4	18	58	1.54
10721133--10721277	50	2.8	52	86	5	215	24	17	28	29	1.97
10721191--10721272	26	3.2	26	63	27	66	24	14	28	32	1.94
10721274--10721368	45	2.1	45	88	3	138	30	16	18	33	1.94
10738610--10738646	17	2.1	18	90	5	58	45	5	5	43	1.49
10740279--10740627	132	2.6	132	87	3	488	27	23	16	32	1.96
10740654--10742321	88	19.0	88	91	0	2505	24	23	24	27	2.00
10751828--10751868	16	2.6	16	76	0	55	43	4	21	29	1.73
10751828--10751889	32	1.9	32	83	0	79	45	4	20	29	1.72
10752213--10752248	5	7.2	5	100	0	72	41	19	19	19	1.90
10753171--10753318	58	2.4	61	76	9	160	51	4	2	41	1.34
10757998--10758023	2	13.0	2	100	0	52	50	0	0	50	1.00
10771073--10771118	9	5.4	9	80	15	53	71	0	0	28	0.86
10771070--10771118	17	2.9	17	87	3	64	69	0	0	30	0.89
10771071--10771118	8	5.9	8	80	4	51	68	0	0	31	0.90
10787814--10787851	19	2.0	19	90	10	60	15	15	0	68	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10790263--10790316	27	2.0	27	100	0	108	22	18	7	51	1.70
10791729--10791775	21	2.2	21	82	10	60	53	6	10	29	1.60
10792397--10792447	6	8.5	6	95	0	93	15	50	1	31	1.55
10793697--10793721	7	3.6	7	100	0	50	52	0	0	48	1.00
10793945--10793994	17	3.0	17	77	11	59	54	4	2	40	1.31
10795306--10795358	12	4.4	12	80	0	61	30	26	3	39	1.74
10795306--10795358	18	2.9	18	82	0	70	30	26	3	39	1.74
10797152--10797178	6	4.5	6	100	0	54	14	14	33	37	1.88
10804045--10804096	22	2.4	22	90	0	86	42	13	23	21	1.88
10806172--10806218	25	2.0	25	83	8	62	61	4	2	31	1.27

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