genome.fa.s13.2.7.7.80.10.50.1000.32.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  32  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)
9106687--9106726	7	5.7	7	81	0	53	27	15	0	57	1.38
9106680--9106733	21	2.6	21	75	0	63	27	22	0	50	1.50
9108469--9108698	54	4.1	54	75	9	208	30	32	7	29	1.85
9108532--9108735	63	3.4	61	75	13	226	31	32	7	27	1.85
9108461--9108739	117	2.4	117	93	0	468	31	32	7	27	1.85
9110759--9110827	30	2.3	30	92	0	120	33	11	11	43	1.77
9112823--9112926	37	2.7	37	74	5	91	34	19	17	28	1.94
9113795--9113829	13	2.6	14	91	8	56	0	22	0	77	0.78
9115230--9115329	50	2.0	50	100	0	200	42	16	12	30	1.84
9117562--9117629	25	2.6	25	79	11	75	35	19	22	23	1.96
9117562--9117652	25	3.6	25	75	13	69	34	19	24	21	1.97
9117714--9117773	25	2.4	25	83	8	77	23	20	30	26	1.98
9117852--9117921	25	2.9	24	72	16	63	35	21	27	15	1.94
9123255--9123389	37	3.4	40	74	9	134	31	25	17	25	1.97
9124265--9124322	14	3.9	14	73	20	55	5	17	1	75	1.06
9129501--9129595	50	2.0	48	85	8	131	44	10	7	37	1.67
9130275--9130360	9	9.6	9	73	16	63	67	1	2	29	1.10
9130347--9130371	12	2.1	12	100	0	50	76	0	8	16	1.02
9130628--9130662	11	3.2	11	87	0	52	22	5	2	68	1.24
9130591--9130650	19	3.2	19	66	17	52	30	6	1	61	1.31
9130619--9130662	22	2.0	22	82	4	54	29	4	2	63	1.26
9130705--9130750	19	2.3	20	85	3	58	32	4	4	58	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9133613--9133661	19	2.7	18	81	12	55	55	2	0	42	1.11
9136165--9136208	3	14.7	3	100	0	88	34	65	0	0	0.93
9138419--9138484	23	2.9	23	78	10	64	39	22	9	28	1.85
9138484--9138527	23	1.9	23	90	0	70	40	11	15	31	1.83
9138484--9138535	23	2.3	23	86	0	68	38	11	17	32	1.85
9138558--9138699	23	6.1	23	79	7	162	42	13	18	26	1.87
9138516--9138637	47	2.6	48	81	3	131	41	17	16	24	1.89
9138558--9138699	70	2.0	69	91	1	230	42	13	18	26	1.87
9139546--9139670	43	2.9	42	76	15	121	28	26	20	24	1.99
9140815--9140843	14	2.0	15	93	6	51	51	20	0	27	1.47
9160672--9160722	24	2.2	23	92	3	84	43	7	17	31	1.78
9170305--9170351	3	15.7	3	100	0	94	31	0	0	68	0.90
9170860--9170885	12	2.2	12	100	0	52	15	7	19	57	1.62
9172700--9172732	14	2.4	14	90	5	50	27	3	0	69	1.03
9175618--9175701	30	3.0	28	80	11	82	58	4	3	33	1.36
9175679--9175732	16	3.4	16	78	17	51	59	5	0	35	1.21
9175855--9175898	17	2.6	17	85	3	63	47	0	11	40	1.39
9176023--9176116	3	31.0	3	75	14	77	63	4	2	29	1.25
9176091--9176120	7	4.4	7	95	4	53	70	0	0	30	0.88
9176410--9176458	21	2.5	20	93	6	82	38	14	10	36	1.80
9176445--9176470	12	2.2	12	100	0	52	42	15	7	34	1.75
9176584--9176613	14	2.1	14	93	0	51	13	0	16	70	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9188522--9188546	6	4.2	6	100	0	50	16	0	0	84	0.63
9193298--9193539	50	4.7	50	82	4	245	23	27	21	27	1.99
9200606--9200791	50	3.7	50	81	2	196	22	25	25	26	2.00
9204788--9204812	6	4.2	6	100	0	50	16	0	0	84	0.63
9205744--9205778	18	2.0	18	94	5	63	11	45	31	11	1.76
9211295--9211345	22	2.3	22	100	0	102	27	33	0	39	1.57
9211317--9211429	51	2.2	51	96	0	208	28	30	0	41	1.56
9212328--9212366	20	1.9	19	85	10	51	28	2	15	53	1.55
9212537--9212561	7	3.6	7	100	0	50	28	0	12	60	1.32
9213256--9213290	18	1.9	18	88	0	52	25	34	8	31	1.86
9213732--9213908	18	10.7	18	67	19	109	46	25	0	27	1.57
9213739--9214252	47	10.5	47	72	23	349	44	28	0	27	1.59
9213772--9214205	35	12.1	35	72	22	248	44	28	0	26	1.60
9213757--9213827	29	2.4	29	88	2	106	42	29	0	28	1.56
9213836--9214188	29	12.5	29	73	19	268	43	29	0	26	1.59
9213739--9213890	81	1.9	82	93	4	263	44	26	0	28	1.59
9213900--9214205	64	5.0	64	79	15	339	43	29	0	26	1.60
9213836--9214188	111	3.1	110	87	7	473	43	29	0	26	1.59
9214054--9214112	18	3.3	18	63	13	50	44	32	0	23	1.54
9213885--9214262	204	1.9	204	95	0	684	43	29	0	26	1.59
9214147--9214223	18	4.3	18	70	9	77	45	28	0	25	1.54
9213885--9214262	29	13.2	29	77	16	396	43	29	0	26	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9214260--9214560	55	5.3	54	85	10	377	39	10	5	43	1.63
9214424--9214458	18	1.9	18	94	0	61	37	8	2	51	1.47
9214480--9214506	10	2.7	10	100	0	54	40	7	0	51	1.30
9214424--9214570	66	2.2	65	89	7	217	42	9	4	44	1.56
9217679--9218028	124	2.8	124	93	1	587	31	22	16	30	1.96
9218258--9218323	28	2.3	29	82	5	73	45	19	13	21	1.85
9220550--9220583	17	2.1	16	88	5	50	14	2	5	76	1.09
9221748--9221813	31	2.2	30	84	13	82	43	0	1	54	1.09
9222730--9222804	22	3.4	21	75	13	71	73	1	1	24	0.99
9226491--9226666	51	3.5	50	80	6	192	32	25	12	29	1.92
9234096--9234316	51	4.4	50	78	8	200	30	26	13	28	1.94
9234133--9234323	51	3.8	49	82	5	231	31	26	14	27	1.95
9243445--9243479	13	2.7	13	90	0	52	42	8	2	45	1.49
9243735--9243930	51	3.9	50	75	4	196	31	28	15	23	1.96
9243741--9243922	101	1.8	99	86	5	249	32	28	14	23	1.94
9249345--9249422	27	2.9	27	74	11	79	52	26	2	17	1.58
9249430--9249459	14	2.1	14	93	0	51	16	6	30	46	1.73
9249459--9249524	32	2.1	32	85	0	87	16	6	33	43	1.73
9249490--9249544	26	2.1	26	83	6	67	21	12	27	38	1.90
9250012--9250065	19	2.8	19	94	0	99	37	9	16	37	1.81
9250001--9250072	38	2.0	36	84	10	94	37	9	16	36	1.82
9250012--9250088	38	1.9	40	87	10	113	36	7	16	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9250212--9250254	19	2.3	19	95	0	77	44	6	13	34	1.72
9250367--9250404	2	19.0	2	94	0	67	47	0	0	52	1.00
9255357--9255414	6	9.2	6	74	10	53	79	0	18	1	0.82
9255355--9255403	13	3.8	12	86	10	62	83	0	14	2	0.73
9256428--9256514	44	2.0	44	88	0	129	26	16	25	32	1.96
9256515--9256905	167	2.3	167	84	2	489	27	19	27	26	1.99
9256953--9257330	101	3.8	101	85	6	542	29	21	23	25	1.99
9256831--9257317	192	2.5	195	91	3	768	29	22	22	25	1.99
9257171--9257330	50	3.2	50	66	1	131	30	21	23	24	1.99
9257858--9257911	19	2.8	19	94	0	99	37	9	16	37	1.81
9267690--9267723	17	1.9	18	88	5	52	20	17	26	35	1.95
9269100--9269134	3	11.7	3	100	0	70	34	0	65	0	0.93
9278299--9278468	27	6.4	25	72	9	124	16	17	32	33	1.92
9278299--9278468	80	2.1	80	89	2	261	16	17	32	33	1.92
9293101--9293627	44	12.0	44	70	16	269	25	24	20	29	1.99
9293257--9293625	177	2.1	174	90	2	578	26	23	21	28	1.99
9310405--9310527	23	5.5	22	80	9	117	44	25	18	11	1.83
9310405--9310515	44	2.5	45	82	5	118	46	23	18	11	1.81
9310429--9310527	44	2.3	43	84	7	119	43	27	19	10	1.82
9311370--9311417	24	2.0	24	100	0	96	54	4	12	29	1.56
9323237--9323293	29	2.0	29	82	6	71	42	8	17	31	1.80
9324551--9324656	46	2.3	46	76	0	131	33	23	13	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9326732--9326801	3	23.3	3	100	0	140	34	0	0	65	0.93
9335448--9335517	30	2.3	31	80	9	81	41	17	14	27	1.87
9346316--9346636	176	1.8	177	80	6	391	29	22	22	25	1.99
9347117--9347164	23	2.1	23	88	0	69	20	4	22	52	1.64
9347242--9347273	7	4.6	7	92	0	55	15	0	53	31	1.43
9347234--9347273	21	1.9	21	94	0	71	20	0	50	30	1.49
9347459--9347524	7	9.3	7	88	3	69	27	0	34	37	1.57
9347462--9347524	21	2.9	22	84	13	78	26	0	33	39	1.57
9347871--9348380	251	2.0	251	87	3	740	29	16	20	33	1.95
9350336--9350380	18	2.5	18	96	0	81	48	11	0	40	1.39

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