genome.fa.s13.2.7.7.80.10.50.1000.183.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  183  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)
53273457--53273511	19	3.1	17	84	10	74	36	14	7	41	1.74
53277028--53277104	38	2.0	38	97	0	145	25	31	20	22	1.98
53279933--53280146	109	2.0	109	99	0	419	45	22	11	19	1.83
53282641--53282742	42	2.5	41	85	4	134	25	26	31	16	1.97
53284241--53284281	20	1.9	21	85	14	57	46	2	0	51	1.14
53284612--53284652	21	2.0	21	85	0	55	31	2	14	51	1.56
53285973--53286021	22	2.2	22	82	7	64	61	12	12	14	1.58
53288734--53288784	26	2.0	26	92	0	84	43	23	5	27	1.77
53289434--53289472	20	1.9	21	89	5	62	51	0	5	43	1.24
53307189--53307257	26	2.7	26	88	0	102	21	24	24	28	1.99
53308606--53308641	18	2.0	18	100	0	72	16	16	11	55	1.68
53312374--53312399	13	2.0	13	100	0	52	84	0	0	15	0.62
53314994--53315126	50	2.7	50	79	0	140	28	24	27	19	1.98
53317622--53317652	15	2.0	16	93	6	55	51	9	6	32	1.60
53320887--53320911	13	1.9	13	100	0	50	40	0	12	48	1.40
53322896--53322945	16	3.1	16	100	0	100	18	12	18	52	1.75
53323500--53323605	43	2.5	43	87	0	149	34	21	13	30	1.92
53323656--53323773	43	2.7	43	81	0	128	30	17	21	30	1.96
53323997--53324032	18	2.1	18	89	5	56	58	0	2	38	1.13
53331766--53331956	51	3.8	51	75	6	185	23	16	29	30	1.96
53331774--53331958	101	1.8	101	87	3	273	23	16	29	30	1.96
53331962--53332060	46	2.2	43	82	12	119	23	19	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53332184--53332215	16	2.0	16	93	0	55	59	0	15	25	1.36
53344020--53344053	14	2.5	13	86	13	50	70	0	29	0	0.87
53345732--53345826	33	2.8	33	77	4	93	18	22	26	32	1.97
53351729--53351767	15	2.7	14	88	7	60	15	2	2	79	0.95
53357964--53358017	27	1.9	29	81	7	67	29	5	22	42	1.76
53365151--53365181	7	4.4	7	100	0	62	25	29	29	16	1.96
53367211--53367247	13	2.7	14	88	12	51	72	0	0	27	0.84
53368497--53368729	85	2.8	85	88	2	335	35	24	17	23	1.95
53368503--53368729	43	5.4	42	78	9	239	35	24	16	23	1.95
53368706--53368758	26	2.0	26	85	0	70	24	32	22	20	1.98
53370206--53370307	50	2.0	50	100	0	204	37	17	11	33	1.86
53372043--53372123	41	2.0	42	85	7	112	30	23	14	30	1.95
53372534--53372588	26	2.1	26	96	0	101	18	12	3	65	1.40
53374667--53374900	43	5.5	43	76	8	214	36	24	16	22	1.94
53374667--53374865	85	2.4	85	93	0	328	35	25	16	23	1.94
53374667--53374903	85	2.8	84	85	5	318	35	25	16	22	1.94
53374877--53374929	26	2.0	26	88	0	79	24	33	22	18	1.97
53375266--53375323	30	1.9	30	85	0	80	29	20	8	41	1.82
53380611--53380666	28	2.0	28	85	0	76	30	25	23	21	1.99
53381059--53381109	27	1.9	27	92	4	86	19	19	25	35	1.95
53381062--53381262	26	7.7	26	82	5	237	24	17	19	37	1.93
53388391--53388455	27	2.4	26	80	7	69	33	24	23	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53388625--53388708	26	3.2	27	83	8	75	22	16	21	39	1.92
53388662--53388838	26	6.8	26	92	0	255	25	15	19	38	1.91
53390942--53390984	22	2.0	22	100	0	86	37	13	25	23	1.92
53393405--53393503	30	3.4	30	72	20	84	38	1	19	41	1.58
53396545--53396574	15	2.0	15	100	0	60	66	20	6	6	1.38
53403547--53403602	28	2.0	28	96	0	103	26	17	7	48	1.73
53411956--53412384	23	18.5	23	73	14	255	40	18	13	27	1.88
53411959--53412364	138	2.9	138	89	2	566	40	18	13	27	1.88
53411956--53412388	93	4.7	94	89	2	504	39	18	13	28	1.88
53413133--53413286	28	5.5	28	91	0	227	32	24	12	30	1.92
53418908--53418937	15	1.9	16	93	6	53	36	13	0	50	1.42
53420594--53420747	33	4.6	33	69	23	115	14	21	29	33	1.94
53420590--53420854	101	2.6	103	92	1	435	17	20	29	32	1.95
53445775--53445825	3	17.0	3	95	0	93	64	0	1	33	1.05
53454064--53454114	22	2.3	22	86	3	66	58	1	3	35	1.28
53460533--53460564	16	2.0	16	93	0	55	0	21	0	78	0.76
53461773--53461804	16	2.0	16	93	0	55	78	0	21	0	0.76
53461782--53462014	110	2.1	109	83	10	282	44	14	15	25	1.84
53461809--53462051	110	2.3	105	84	9	296	36	17	17	29	1.92
53465755--53465785	13	2.4	13	100	0	62	41	6	9	41	1.63
53475176--53475202	12	2.2	12	100	0	54	51	25	7	14	1.68
53476565--53476611	2	23.5	2	100	0	94	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53481217--53481280	26	2.4	27	87	5	87	32	21	26	18	1.97
53483824--53483878	18	2.9	19	75	20	53	45	0	30	23	1.53
53484460--53484504	23	2.0	23	95	0	81	2	28	6	62	1.33
53484446--53484608	66	2.6	61	84	9	236	4	26	8	60	1.45
53484521--53484578	28	2.1	28	96	0	107	3	29	6	60	1.39
53484467--53484613	66	2.2	66	92	0	240	4	25	6	63	1.37
53484467--53484631	66	2.5	66	85	3	154	6	25	6	61	1.46
53487680--53487731	15	3.6	15	80	12	56	44	0	1	53	1.11
53487555--53487966	120	3.4	120	94	1	711	42	1	5	50	1.36
53487752--53487942	60	3.1	66	63	27	171	42	1	6	49	1.39
53487799--53487850	15	3.6	15	80	12	56	44	0	1	53	1.11
53487928--53487969	15	2.7	16	82	14	52	45	0	2	52	1.13
53487919--53487960	15	2.9	15	82	10	52	47	0	0	52	1.00
53488097--53488201	44	2.5	40	76	18	115	32	29	3	34	1.76
53488095--53488203	45	2.6	44	81	11	131	32	29	4	33	1.78
53488183--53488231	16	3.1	16	93	0	80	24	34	4	36	1.75
53488834--53488906	35	2.0	37	89	5	114	63	0	1	35	1.04
53492515--53492553	20	1.9	21	85	15	55	76	0	10	12	1.01
53498913--53498950	9	4.2	9	93	0	58	34	15	36	13	1.87
53498958--53498999	15	2.8	15	85	0	57	52	0	45	2	1.13
53504264--53504329	29	2.2	28	81	7	69	36	1	0	62	1.05
53505746--53505770	9	2.8	9	100	0	50	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53522760--53522957	46	4.6	45	81	12	245	34	15	21	28	1.94
53522796--53522870	37	2.0	37	92	0	123	37	14	21	26	1.92
53522760--53522916	83	1.9	83	91	0	260	35	14	21	28	1.92
53529966--53529994	9	3.2	9	100	0	58	20	34	0	44	1.52
53531290--53531362	30	2.4	30	81	6	85	34	1	6	57	1.34
53535487--53535550	9	6.9	9	75	12	58	54	4	1	39	1.31
53544655--53544811	59	2.7	58	89	2	251	36	23	19	20	1.95
53547032--53547061	15	2.0	15	93	0	51	43	26	0	30	1.55
53547192--53547231	20	2.0	20	100	0	80	25	25	20	30	1.99
53549214--53549297	3	28.0	3	100	0	168	66	0	33	0	0.92
53558271--53558301	4	7.8	4	92	0	53	19	0	3	77	0.90
53558684--53558708	2	12.5	2	100	0	50	52	0	0	48	1.00
53565821--53565850	15	2.0	15	93	0	51	50	0	0	50	1.00
53567292--53567325	15	2.3	15	90	10	52	55	11	0	32	1.36
53567820--53567952	68	2.0	68	96	0	248	40	15	12	32	1.83
53569813--53569846	14	2.4	14	90	5	50	29	5	11	52	1.61
53574021--53574079	21	2.9	21	82	2	75	38	32	8	20	1.83
53589715--53589759	2	22.5	2	100	0	90	51	0	0	48	1.00
53591056--53591098	2	21.5	2	100	0	86	51	0	0	48	1.00
53595415--53595451	20	1.9	19	89	10	58	78	0	0	21	0.75
53600347--53600460	25	4.6	25	71	14	74	19	28	20	32	1.97
53600468--53600542	25	3.0	25	78	3	89	24	29	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53602126--53602233	25	4.4	24	70	9	74	36	20	25	18	1.95
53602354--53602412	24	2.4	24	80	2	64	27	22	30	20	1.98
53602537--53602562	13	2.0	13	100	0	52	46	7	7	38	1.61
53610438--53610469	16	2.0	16	100	0	64	50	12	6	31	1.65
53627159--53627329	43	4.0	42	76	15	172	21	18	27	32	1.96
53629641--53629752	25	4.5	25	76	9	88	30	25	21	23	1.99
53635676--53635704	6	4.8	6	100	0	58	17	0	0	82	0.66
53636455--53636485	2	15.5	2	93	0	53	48	0	3	48	1.17
53637246--53637276	4	7.8	4	100	0	62	48	0	0	51	1.00
53637591--53637632	2	21.0	2	90	0	66	50	4	0	45	1.23

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