genome.fa.s13.2.7.7.80.10.50.1000.186.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  186  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)
54354833--54355138	30	10.0	30	83	4	263	27	22	22	27	1.99
54354856--54355138	63	4.6	60	84	1	269	27	21	22	28	1.99
54361014--54361044	16	1.9	16	93	0	53	64	6	0	29	1.18
54367412--54367451	20	2.0	20	90	0	62	50	12	10	27	1.72
54367400--54367466	34	1.9	35	87	3	100	46	11	8	32	1.72
54373491--54373570	20	3.9	20	71	21	67	26	11	28	33	1.91
54376017--54376069	26	2.0	26	89	7	81	24	0	3	71	1.02
54376612--54376667	27	2.1	27	100	0	112	14	26	17	41	1.88
54387713--54387763	19	2.9	17	78	16	59	76	5	1	15	1.07
54389330--54389995	44	14.9	44	67	15	233	28	20	20	30	1.98
54389235--54389949	227	3.1	225	84	3	864	28	20	19	30	1.97
54390026--54390248	123	1.8	123	86	0	320	29	26	14	30	1.95
54390411--54390598	88	2.1	88	87	1	261	29	22	19	29	1.98
54390911--54390969	24	2.4	24	88	2	91	27	23	13	35	1.92
54391441--54391663	108	2.1	109	87	0	322	49	8	17	25	1.74
54391929--54391968	15	2.9	14	92	7	64	0	17	0	82	0.67
54393781--54393839	9	6.4	9	81	11	75	22	10	27	40	1.85
54397852--54397902	19	2.9	17	78	16	59	76	5	1	15	1.07
54399572--54399613	20	2.2	20	86	4	59	61	2	2	33	1.21
54404262--54404326	34	2.0	31	88	8	94	40	15	7	36	1.76
54408710--54408766	28	2.0	28	100	0	114	31	24	7	36	1.82
54413602--54413654	4	13.2	4	91	0	79	49	45	0	5	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54413602--54413654	6	8.8	6	91	0	79	49	45	0	5	1.26
54413602--54413654	10	5.3	10	93	0	79	49	45	0	5	1.26
54415176--54415228	20	2.6	20	81	3	61	33	5	7	52	1.53
54415250--54415603	162	2.2	162	88	4	527	33	16	16	34	1.91
54419396--54419421	12	2.2	12	100	0	52	34	0	0	65	0.93
54419555--54419617	30	2.1	30	87	0	90	58	12	3	25	1.49
54423140--54423586	225	2.0	225	99	0	876	36	9	18	36	1.83
54424247--54426127	413	4.5	417	86	4	2448	40	12	14	33	1.83
54428097--54429038	414	2.3	409	82	6	1171	39	12	13	34	1.82
54429557--54429619	30	2.1	30	96	0	117	57	12	3	26	1.51
54430984--54432070	423	2.6	419	86	3	1553	39	11	13	34	1.81
54432058--54432096	2	20.0	2	94	5	71	48	0	0	51	1.00
54432462--54432508	20	2.3	20	81	0	58	40	0	0	59	0.97
54432505--54432544	11	4.1	10	81	18	57	47	0	0	52	1.00
54435276--54435361	22	4.0	22	85	5	124	52	0	3	44	1.18
54435276--54435361	11	8.1	11	81	8	99	52	0	3	44	1.18
54435695--54435766	29	2.5	28	82	8	81	50	6	11	31	1.65
54448031--54448384	46	7.6	46	76	19	324	28	23	13	33	1.93
54448164--54448201	18	2.1	18	100	0	76	23	39	0	36	1.55
54448118--54448247	64	2.0	64	100	0	260	26	28	10	33	1.90
54448072--54448293	110	2.0	110	96	0	408	28	25	13	33	1.93
54448276--54448348	36	2.0	36	94	0	128	28	20	13	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54448230--54448384	82	1.9	82	91	0	256	30	21	12	35	1.90
54456901--54456952	21	2.7	19	78	21	56	48	11	9	30	1.72
54456892--54457005	18	6.3	18	74	9	99	46	12	12	28	1.77
54456922--54457005	35	2.4	36	89	2	134	42	11	13	32	1.80
54457198--54457247	17	2.9	17	77	14	57	42	10	16	32	1.81
54457619--54457652	14	2.6	13	90	9	52	64	2	11	20	1.39
54457802--54457850	14	3.8	13	75	20	50	8	30	36	24	1.85
54457793--54457856	25	2.6	25	94	0	110	10	29	34	25	1.90
54457852--54457907	21	2.6	22	91	5	89	0	25	7	67	1.15
54457856--54457907	25	2.1	25	88	0	77	0	23	5	71	1.07
54458004--54458077	7	10.3	7	73	11	51	0	24	1	74	0.90
54458004--54458075	4	19.8	4	71	21	52	0	23	1	75	0.89
54458004--54458077	19	4.1	18	81	16	75	0	24	1	74	0.90
54457992--54458077	14	6.0	14	71	15	68	0	25	1	73	0.91
54458162--54458228	21	3.1	21	83	16	84	1	11	10	76	1.10
54458321--54458346	11	2.4	11	100	0	52	7	7	15	69	1.35
54458660--54458760	30	3.4	30	79	5	116	43	7	19	28	1.79
54458909--54459612	152	4.6	150	89	3	984	39	18	14	27	1.90
54458909--54459612	77	9.2	77	89	4	1004	39	18	14	27	1.90
54458909--54459612	303	2.3	303	88	3	1022	39	18	14	27	1.90
54459922--54460277	79	4.6	78	87	6	505	39	19	14	27	1.90
54459922--54460273	151	2.3	152	88	6	525	38	19	14	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54461144--54461216	31	2.4	31	82	13	82	2	9	5	82	0.93
54461159--54461201	21	2.1	21	95	4	79	4	9	4	81	0.97
54466792--54466859	18	3.9	17	83	9	75	41	10	13	35	1.78
54466775--54466867	18	5.1	19	73	13	61	44	9	10	35	1.72
54466944--54466994	17	3.0	17	72	11	59	43	13	11	31	1.80
54466943--54467029	36	2.4	37	83	9	101	39	12	13	34	1.83
54467086--54467134	17	2.8	17	82	11	64	44	10	16	28	1.80
54467508--54467541	14	2.6	13	90	9	52	64	2	11	20	1.39
54467695--54467740	14	3.5	14	77	17	62	6	34	34	23	1.81
54467686--54467749	25	2.6	25	100	0	128	7	31	35	25	1.84
54467686--54467749	11	5.3	11	72	20	56	7	31	35	25	1.84
54467745--54467800	21	2.6	22	91	5	89	0	25	7	67	1.15
54467749--54467800	25	2.1	25	88	0	77	0	23	5	71	1.07
54467886--54467921	14	2.6	14	90	0	54	0	25	0	75	0.81
54467898--54467958	11	5.3	11	70	18	52	1	21	1	75	0.98
54467886--54467960	15	5.0	14	72	15	60	1	24	1	73	0.99
54468044--54468105	19	3.2	20	82	13	76	1	14	11	72	1.19
54468044--54468090	21	2.3	20	86	13	62	0	14	10	74	1.07
54468050--54468107	21	2.7	21	82	15	66	1	13	12	72	1.20
54468059--54468121	20	3.2	20	76	14	60	3	12	11	73	1.22
54468201--54468226	11	2.4	11	100	0	52	7	7	15	69	1.35
54468483--54468638	30	5.2	31	76	11	130	41	4	23	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54469639--54469666	14	2.0	14	100	0	56	35	7	14	42	1.73
54470781--54470849	23	3.0	23	82	4	77	37	20	10	31	1.86
54470809--54471142	23	14.5	23	69	14	161	44	19	8	26	1.80
54470810--54471166	69	5.2	68	89	4	477	44	19	9	26	1.81
54470810--54471166	137	2.6	138	87	3	497	44	19	9	26	1.81
54471975--54472130	41	3.8	41	77	5	118	33	25	18	23	1.97
54472719--54472755	16	2.3	16	100	0	74	48	24	8	18	1.75
54478034--54478076	19	2.3	19	83	0	50	69	9	2	18	1.26
54482362--54482444	31	2.7	30	80	7	96	49	12	12	26	1.75
54488445--54488474	15	2.0	15	93	0	51	36	0	0	63	0.95
54488530--54488566	16	2.2	18	85	9	51	45	0	2	51	1.15
54489753--54489780	7	4.0	7	100	0	56	57	14	14	14	1.66
54497992--54498026	16	2.2	16	100	0	70	37	8	31	22	1.85
54503475--54503526	24	2.2	24	89	0	77	55	9	1	32	1.43
54514987--54515011	10	2.5	10	100	0	50	28	0	8	64	1.22
54516350--54516413	24	2.6	24	82	5	65	14	9	3	73	1.20
54520543--54520578	18	1.9	19	88	5	56	55	5	0	38	1.23
54520543--54520586	20	2.2	20	84	11	56	56	6	0	36	1.26
54520600--54520633	11	3.1	11	91	0	50	67	2	0	29	1.05
54537898--54537925	13	2.2	13	100	0	56	28	7	7	57	1.52
54544614--54544668	22	2.5	23	79	5	69	60	3	5	30	1.37
54546864--54546924	9	6.4	9	75	17	52	68	0	1	29	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54546825--54546895	28	2.3	31	88	11	103	63	1	2	32	1.18
54546852--54546955	40	2.6	41	82	11	153	62	0	3	33	1.13
54549612--54549832	112	2.0	112	90	1	354	30	19	15	34	1.93
54550284--54550357	36	2.1	36	100	0	148	21	5	16	56	1.59
54557026--54557088	21	3.0	21	78	15	69	42	0	0	57	0.99
54557020--54557081	21	2.8	23	79	16	76	45	0	0	54	0.99
54560967--54561013	21	2.3	20	85	3	58	21	2	17	59	1.47
54565572--54565624	13	4.1	13	71	9	54	35	28	5	30	1.80
54565954--54566004	19	2.8	19	77	16	56	62	9	7	19	1.50
54569626--54569668	18	2.5	17	76	3	50	34	0	2	62	1.08

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