genome.fa.s13.2.7.7.80.10.50.1000.189.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  189  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)
55200540--55200600	27	2.3	27	82	5	70	22	19	19	37	1.94
55200553--55200773	27	8.2	27	75	9	166	16	18	21	43	1.87
55200553--55200773	54	4.1	54	79	5	198	16	18	21	43	1.87
55200553--55200773	81	2.7	80	79	6	223	16	18	21	43	1.87
55213578--55213602	10	2.5	10	100	0	50	40	12	8	40	1.72
55214430--55214515	42	2.0	42	93	0	145	27	2	17	52	1.57
55216631--55216670	18	2.2	19	86	8	57	30	0	5	65	1.14
55218132--55218156	5	5.0	5	100	0	50	80	0	0	20	0.72
55219257--55219331	28	2.6	28	87	6	98	62	1	1	34	1.12
55226563--55226588	3	8.7	3	100	0	52	0	30	0	69	0.89
55231017--55231055	20	2.0	20	84	0	51	41	5	5	48	1.47
55234946--55235604	154	4.3	152	87	6	949	50	7	11	30	1.66
55234945--55235610	307	2.2	304	87	7	988	50	7	11	30	1.66
55235837--55235928	47	2.0	47	82	4	114	50	15	5	29	1.66
55246875--55246961	41	2.2	38	82	13	97	44	1	4	49	1.30
55251589--55251628	15	2.4	18	73	26	52	42	0	2	55	1.13
55251614--55251649	19	1.9	19	94	5	65	61	0	0	38	0.96
55253006--55253422	126	3.3	126	89	2	615	27	20	19	32	1.97
55261875--55261900	7	3.7	7	100	0	52	73	0	0	26	0.84
55262020--55262062	21	2.1	21	86	4	61	13	9	2	74	1.16
55264034--55264088	26	2.2	25	83	3	65	29	1	5	63	1.27
55266125--55267697	454	3.5	454	89	2	2214	24	22	22	31	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55269294--55269357	20	3.2	20	93	2	85	71	0	3	25	1.00
55269303--55269357	20	2.8	20	100	0	110	67	0	3	29	1.08
55271780--55271821	18	2.4	17	81	18	50	40	0	0	59	0.97
55273280--55273465	39	4.9	37	86	3	194	16	45	19	18	1.86
55273280--55273440	39	4.2	39	90	2	229	16	45	19	18	1.86
55273431--55273480	24	2.1	24	85	7	66	16	40	28	16	1.89
55275436--55275480	22	2.0	23	82	4	56	57	0	2	40	1.11
55278473--55278525	21	2.5	21	90	0	79	30	37	9	22	1.86
55280498--55280539	2	21.0	2	100	0	84	50	0	0	50	1.00
55282311--55282367	26	2.2	25	81	9	62	54	7	0	38	1.28
55282810--55282866	29	2.0	29	89	0	87	40	14	14	31	1.85
55284838--55284899	22	2.9	21	74	11	54	48	1	1	48	1.21
55285616--55285641	5	5.2	5	100	0	52	76	0	0	23	0.78
55288459--55288500	17	2.6	16	82	17	52	28	0	2	69	1.01
55289943--55290024	42	2.0	42	87	0	119	37	26	7	28	1.83
55290973--55291011	3	13.0	3	83	0	51	66	5	0	28	1.12
55292596--55292622	10	2.7	10	100	0	54	51	7	0	40	1.30
55293243--55293369	40	3.2	40	94	2	213	37	13	9	39	1.77
55293243--55293375	59	2.2	60	90	5	209	37	13	9	39	1.78
55293243--55293376	19	6.8	19	86	6	187	37	14	9	38	1.79
55298772--55298828	25	2.3	25	77	14	64	50	5	1	42	1.35
55299042--55299066	11	2.3	11	100	0	50	76	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55306285--55306325	2	20.5	2	100	0	82	48	0	0	51	1.00
55307692--55307725	2	17.0	2	100	0	68	50	0	0	50	1.00
55310693--55310742	15	3.1	16	72	18	50	64	0	0	36	0.94
55316607--55316638	6	5.3	6	100	0	64	34	34	15	15	1.90
55330478--55330533	19	2.9	18	80	17	60	48	0	0	51	1.00
55330488--55330533	21	2.3	19	85	14	58	52	0	0	47	1.00
55330488--55330533	19	2.3	21	85	14	62	52	0	0	47	1.00
55347790--55347822	12	2.5	14	90	9	52	78	3	3	15	0.99
55352345--55352528	91	2.0	91	100	0	368	11	17	29	40	1.85
55358425--55358452	9	3.1	9	100	0	56	57	10	0	32	1.33
55358395--55358595	59	3.1	68	84	13	307	45	8	4	40	1.57
55358584--55358625	16	2.6	16	88	0	57	40	7	2	50	1.43
55358584--55358651	22	3.4	21	69	23	56	42	4	1	51	1.31
55358426--55358617	59	3.1	63	77	15	204	46	8	3	40	1.52
55359083--55359141	30	2.0	30	100	0	118	10	13	33	42	1.78
55360927--55360956	14	2.1	14	93	0	51	30	13	26	30	1.94
55364331--55364386	26	2.2	25	81	9	60	67	1	3	26	1.16
55365343--55365367	4	6.2	4	100	0	50	24	48	0	28	1.52
55371501--55371542	4	10.5	4	84	0	57	47	19	4	28	1.69
55371497--55371531	12	2.9	12	95	0	61	51	17	5	25	1.67
55371501--55371553	20	2.7	20	87	0	70	45	18	3	32	1.68
55372194--55372238	3	15.0	3	100	0	90	33	0	33	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55372506--55372545	21	2.0	21	90	5	64	45	10	0	45	1.37
55380166--55380206	18	2.4	18	84	11	52	51	0	2	46	1.14
55380178--55380234	18	3.1	18	76	14	53	54	1	3	40	1.28
55393068--55393226	42	3.8	42	93	0	273	27	12	15	44	1.83
55398372--55398401	2	15.0	2	100	0	60	50	0	0	50	1.00
55398446--55398471	2	13.0	2	100	0	52	50	0	0	50	1.00
55401790--55401834	22	2.0	22	86	0	63	28	15	15	40	1.88
55402286--55402349	26	2.5	26	75	10	76	42	4	14	39	1.66
55404130--55404160	15	2.1	15	100	0	62	19	6	25	48	1.72
55404297--55404361	19	3.4	19	78	4	85	32	4	3	60	1.33
55404296--55404372	39	2.0	39	84	5	102	32	5	5	57	1.43
55405478--55405536	26	2.3	24	78	13	73	55	8	6	28	1.55
55407096--55407630	44	12.1	44	80	3	574	28	25	14	30	1.95
55407101--55407625	89	5.9	88	76	8	449	29	25	15	30	1.95
55407123--55407623	133	3.8	133	95	0	851	29	25	15	30	1.96
55411514--55411554	20	2.0	20	85	0	55	46	17	4	31	1.69
55417457--55417499	21	2.2	19	83	8	50	27	16	6	48	1.71
55420740--55420810	28	2.5	28	88	4	99	40	11	1	46	1.48
55420872--55420977	27	3.9	27	93	0	158	25	28	31	15	1.95
55422609--55422642	17	2.0	17	88	11	52	5	5	5	82	0.95
55422646--55422711	28	2.4	28	87	7	100	45	1	10	42	1.48
55423511--55423557	23	2.0	23	87	0	67	0	31	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55423516--55423641	10	12.7	10	70	17	84	0	33	0	65	0.98
55423548--55423658	18	6.1	18	73	15	86	0	33	0	65	0.99
55423540--55423649	38	2.9	38	87	2	150	0	35	0	63	1.01
55423549--55423663	28	4.0	28	72	20	78	0	34	0	64	1.00
55423509--55423661	24	6.5	23	69	18	66	0	33	0	66	0.97
55423595--55423675	42	2.0	40	82	4	99	0	37	0	62	0.95
55423710--55423777	27	2.5	27	95	0	118	19	27	26	26	1.99
55423710--55423788	27	2.9	27	88	7	108	16	27	26	29	1.97
55423843--55423910	28	2.5	28	90	7	104	47	1	10	41	1.47
55424765--55424827	23	2.8	22	73	15	56	42	1	1	53	1.19
55424793--55424832	15	2.5	16	84	8	55	35	2	0	62	1.09
55425502--55425553	20	2.5	20	76	14	52	73	3	1	21	1.10
55427697--55427725	13	2.1	14	93	6	51	31	6	13	48	1.69
55432862--55432899	17	2.2	17	100	0	76	47	15	5	31	1.68
55433558--55433839	94	3.0	94	84	3	350	48	8	14	28	1.73
55437641--55437697	30	2.0	27	86	10	78	40	5	7	47	1.53
55437851--55437875	12	2.1	12	100	0	50	40	0	8	52	1.31
55437891--55437948	29	2.0	30	86	3	82	55	8	1	34	1.41
55439659--55439692	18	1.9	17	94	5	59	52	8	8	29	1.62
55443787--55443815	11	2.7	11	94	5	51	20	0	34	44	1.52
55443875--55443916	6	6.7	6	89	10	66	30	2	19	47	1.62
55443877--55443923	18	2.6	18	83	12	53	29	2	19	48	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55447289--55447349	20	3.0	21	74	13	63	60	0	3	36	1.13
55447597--55447669	19	3.6	21	74	10	62	38	8	0	53	1.31
55447628--55447671	10	4.7	9	81	18	54	43	4	0	52	1.22
55447628--55447671	19	2.3	19	92	0	70	43	4	0	52	1.22
55452267--55452302	14	2.6	14	86	0	54	5	11	50	33	1.61
55457778--55457839	18	3.3	20	76	13	60	62	1	3	32	1.20
55464881--55465072	69	2.8	68	81	6	217	40	12	16	30	1.85
55469350--55469378	12	2.5	12	94	5	51	68	0	0	31	0.89
55469402--55469444	22	2.0	22	90	0	68	53	6	13	25	1.65
55469409--55469457	22	2.2	22	82	7	55	57	6	18	18	1.61

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