genome.fa.s2.2.7.7.80.10.50.1000.113.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   200   201   202   203   204   205   206   

This is table  113  of  206  ( 24623 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)
33771865--33771905	21	2.0	21	90	0	64	39	0	12	48	1.41
33777255--33777426	92	1.9	92	81	4	213	24	17	23	34	1.96
33780840--33781100	33	7.7	33	68	25	152	34	25	19	19	1.96
33780871--33780923	27	2.0	27	100	0	106	26	30	24	18	1.98
33780795--33781101	103	3.0	102	91	1	472	34	25	19	20	1.96
33787797--33787872	27	2.8	27	95	0	134	30	31	21	17	1.96
33787753--33787950	97	2.0	100	85	7	269	32	26	19	21	1.97
33801961--33802014	5	10.8	5	95	0	81	40	5	18	35	1.74
33802046--33802077	5	6.4	5	92	0	55	40	3	21	34	1.69
33802596--33802728	66	2.0	66	86	4	189	48	18	23	9	1.76
33807731--33807841	51	2.2	51	85	8	154	27	18	8	45	1.78
33809535--33809640	41	2.6	41	92	0	167	29	24	21	24	1.99
33817103--33817139	2	18.5	2	100	0	74	48	0	0	51	1.00
33817432--33817537	41	2.6	41	90	0	167	31	25	20	22	1.98
33822875--33822904	13	2.2	14	94	5	53	6	6	16	70	1.31
33825090--33825120	11	2.7	11	95	5	53	80	6	0	12	0.89
33833540--33833581	21	2.0	21	100	0	84	42	9	4	42	1.58
33835805--33835876	26	3.0	23	77	18	69	37	18	22	22	1.94
33837491--33837565	19	3.8	19	91	6	123	37	9	16	37	1.80
33837492--33837554	21	3.1	21	95	4	112	38	9	14	38	1.78
33843759--33844174	44	9.4	45	77	6	388	27	16	26	29	1.97
33843759--33844161	132	3.1	132	94	0	700	28	15	26	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33843759--33844260	264	1.9	262	81	6	602	27	18	26	27	1.98
33844155--33844373	88	2.5	88	93	0	375	26	29	24	18	1.98
33844384--33844589	44	4.7	44	85	5	283	24	18	28	28	1.98
33844328--33844650	132	2.4	132	71	14	338	26	21	26	25	2.00
33844935--33844959	11	2.3	11	100	0	50	8	16	32	44	1.76
33844948--33845100	40	3.8	40	80	6	150	35	22	21	20	1.96
33845135--33845255	41	3.0	41	92	0	197	19	23	27	29	1.98
33845623--33845657	14	2.5	14	85	0	52	22	0	28	48	1.51
33845706--33845738	14	2.3	15	94	5	59	30	0	33	36	1.58
33845956--33846014	7	8.4	7	82	0	55	25	0	42	32	1.55
33850438--33850528	43	2.1	43	87	2	130	35	10	9	43	1.73
33850803--33851028	42	5.3	43	88	3	280	18	18	33	29	1.95
33850803--33851028	43	5.3	42	88	3	301	18	18	33	29	1.95
33851120--33851164	22	2.1	21	91	4	72	42	28	17	11	1.84
33851179--33851276	44	2.2	44	80	5	110	31	18	23	26	1.97
33851696--33851770	19	3.8	19	87	6	114	37	8	16	38	1.78
33851697--33851759	21	3.1	21	90	4	103	38	7	14	39	1.75
33852215--33852267	27	2.0	27	100	0	106	24	37	11	26	1.89
33855507--33855535	14	2.0	15	93	6	51	27	6	20	44	1.77
33856681--33856804	43	2.9	43	79	11	128	20	20	27	31	1.98
33865107--33865193	45	1.9	45	88	0	129	22	16	27	33	1.95
33867826--33867881	29	1.9	29	85	0	76	39	17	16	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33868562--33868587	3	8.7	3	100	0	52	30	0	0	69	0.89
33868405--33868785	113	3.5	110	85	8	484	26	0	13	59	1.38
33869024--33869076	21	2.5	22	78	3	54	32	5	7	54	1.52
33871325--33871433	48	2.3	48	84	6	132	46	6	10	36	1.63
33878310--33878377	32	2.1	33	83	8	86	14	14	22	48	1.80
33879985--33880047	29	2.2	28	82	2	72	30	12	14	42	1.82
33880320--33880389	22	3.2	22	93	0	122	31	30	0	38	1.58
33880361--33880419	30	2.0	30	93	0	100	30	35	0	33	1.58
33880339--33880441	52	2.0	51	86	5	145	33	33	0	33	1.58
33880391--33880432	22	1.9	22	90	0	66	33	33	0	33	1.58
33880477--33880538	29	2.1	29	82	5	72	40	0	1	58	1.08
33880629--33880662	15	2.3	15	90	5	52	26	0	5	67	1.13
33883004--33883069	23	2.9	23	88	0	87	43	24	0	31	1.54
33882959--33883085	29	4.6	28	80	15	142	44	24	0	30	1.60
33883004--33883092	23	3.7	23	74	14	79	44	21	0	33	1.52
33889944--33889975	16	1.9	17	93	6	57	87	3	9	0	0.64
33889926--33890001	35	2.1	36	85	2	100	80	6	7	5	1.03
33889956--33890022	30	2.3	28	87	10	91	74	5	8	10	1.21
33890882--33890912	7	4.3	7	95	4	53	74	0	12	12	1.08
33891648--33891679	14	2.3	14	94	0	55	37	18	15	28	1.92
33892174--33892446	128	2.1	128	85	4	354	31	19	23	26	1.98
33892394--33892597	44	4.6	44	78	9	218	29	18	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33892610--33893222	100	6.1	100	89	0	821	33	24	18	23	1.97
33892610--33893229	50	12.4	50	70	2	384	33	24	18	23	1.97
33893822--33893855	16	2.1	16	88	0	50	64	5	23	5	1.38
33894834--33894858	4	6.2	4	100	0	50	24	0	0	76	0.80
33899194--33899230	19	2.0	19	89	5	58	48	2	0	48	1.15
33903380--33903421	19	2.1	20	82	8	50	45	7	2	45	1.44
33906574--33906598	8	3.1	8	100	0	50	76	0	0	24	0.80
33910178--33910269	26	3.3	26	71	21	87	25	9	31	33	1.88
33910166--33910300	58	2.3	57	89	1	207	28	8	31	31	1.87
33910193--33910392	31	6.7	30	69	16	94	29	12	29	29	1.93
33914575--33914686	51	2.2	52	80	4	138	41	8	19	30	1.80
33915641--33915810	85	2.0	85	95	0	304	19	25	21	34	1.96
33919011--33919049	16	2.2	17	86	13	53	69	0	17	12	1.19
33922609--33922634	4	6.5	4	100	0	52	50	0	0	50	1.00
33922835--33922892	30	1.9	31	85	3	82	29	18	3	48	1.65
33923035--33923083	23	2.1	23	88	0	71	26	6	22	44	1.76
33942849--33943212	104	3.6	102	91	3	563	19	20	29	31	1.97
33961194--33961252	31	1.9	31	89	6	93	47	8	5	38	1.56
33965897--33966013	41	2.9	41	92	2	182	23	20	24	31	1.98
33976551--33976594	20	2.1	21	88	12	65	2	25	0	72	0.96
33976558--33976606	20	2.5	19	81	15	55	2	20	2	75	1.00
33977152--33977276	63	2.0	63	88	0	187	29	21	24	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33978944--33979026	43	1.9	43	92	4	141	33	7	16	42	1.76
33986221--33986335	54	2.1	54	82	3	142	24	26	25	23	2.00
33987252--33987334	37	2.2	37	86	0	121	40	30	10	18	1.84
33989934--33989972	6	6.2	6	82	11	51	51	15	17	15	1.77
33989933--33989973	13	3.2	13	92	0	73	53	14	17	14	1.73
33990268--33990297	12	2.5	12	94	0	51	33	46	20	0	1.51
33994160--33994203	23	1.9	22	82	17	54	36	25	0	38	1.56
33994248--33994336	45	2.0	45	93	0	151	33	24	16	24	1.96
33994347--33994533	51	3.7	50	82	4	232	29	29	17	22	1.97
33994343--33994529	101	1.8	101	89	3	295	30	29	17	22	1.97
33994336--33994563	101	2.3	101	79	7	266	29	29	15	25	1.96
34006216--34006246	15	2.0	16	93	6	55	25	3	0	70	1.02
34013784--34013813	13	2.3	13	100	0	60	40	43	0	16	1.48
34013948--34014015	9	7.4	9	83	9	93	22	10	27	39	1.86
34022748--34022882	27	5.1	27	76	14	97	34	3	8	53	1.48
34022760--34022901	13	10.8	13	82	3	160	33	4	8	53	1.51
34022760--34022899	40	3.5	40	91	0	219	34	3	8	53	1.49
34022765--34022892	53	2.4	52	85	2	148	32	3	9	53	1.51
34022918--34022987	35	2.0	35	91	0	113	38	7	8	45	1.62
34025594--34025880	142	2.0	142	97	0	538	46	5	17	31	1.71
34028361--34028392	9	3.4	9	91	8	55	65	0	0	34	0.93
34028363--34028391	10	3.0	10	95	5	51	62	0	0	37	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34029896--34030239	102	3.4	100	85	4	431	29	16	25	29	1.97
34029896--34030233	51	6.7	50	79	6	349	29	16	25	28	1.97
34035183--34035246	31	2.1	31	100	0	128	43	6	18	31	1.75
34036086--34036119	18	1.9	17	88	5	50	58	20	0	20	1.39
34036338--34036442	55	1.9	55	86	0	147	22	28	23	24	1.99
34036341--34036458	55	2.1	55	82	0	137	22	29	23	24	1.99
34038654--34038679	9	2.9	9	100	0	52	11	30	11	46	1.76
34043934--34043980	21	2.2	21	92	0	76	46	21	8	23	1.78
34043934--34043989	21	2.7	21	86	5	69	39	25	8	26	1.85
34045104--34045230	39	3.1	41	80	6	118	25	25	28	20	1.99

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   200   201   202   203   204   205   206