genome.fa.s2.2.7.7.80.10.50.1000.191.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  191  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)
57926202--57926246	3	15.0	3	81	9	56	62	2	4	31	1.27
57926191--57926246	15	3.5	15	77	13	58	58	3	5	32	1.37
57929001--57929026	3	8.7	3	100	0	52	0	34	0	65	0.93
57931579--57931655	9	8.4	9	83	8	75	41	24	9	24	1.84
57937292--57937324	13	2.5	13	86	13	50	54	0	24	21	1.45
57938272--57938351	39	2.1	39	90	0	124	28	36	13	21	1.92
57938176--57938384	82	2.5	81	83	5	247	29	31	15	22	1.95
57938172--57938420	43	5.9	43	80	4	265	29	29	16	24	1.96
57938204--57938543	43	8.0	43	77	4	152	26	27	17	28	1.98
57942255--57942309	21	2.5	22	80	11	60	27	0	23	49	1.51
57942284--57942325	15	2.8	15	82	7	50	28	0	21	50	1.49
57946848--57946885	19	2.1	19	85	5	51	34	7	0	57	1.28
57951895--57951991	42	2.3	42	89	1	142	43	3	6	47	1.44
57951816--57952015	103	1.9	103	86	4	287	43	2	5	49	1.37
57960800--57960844	7	6.3	7	80	14	56	11	0	44	44	1.39
57961374--57961405	11	2.9	11	100	0	64	37	0	34	28	1.57
57963388--57963512	16	7.4	17	73	14	98	43	12	12	32	1.80
57963372--57963495	36	3.5	35	80	12	123	44	12	12	31	1.78
57963600--57963681	44	1.9	42	90	5	128	47	12	13	26	1.78
57963637--57963704	34	2.0	35	91	8	113	42	10	14	32	1.80
57963637--57963703	17	3.9	17	82	5	82	43	10	14	31	1.80
57963727--57963763	19	1.9	19	89	10	58	54	10	10	24	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57963774--57963815	16	2.5	17	80	3	59	54	14	11	19	1.70
57963554--57963848	147	2.1	144	83	6	368	45	10	10	32	1.73
57964669--57964728	11	5.2	12	79	20	58	0	25	0	75	0.81
57964670--57964731	24	2.6	22	82	10	70	0	25	0	74	0.82
57965292--57965417	30	4.2	29	77	4	126	38	5	20	34	1.76
57980200--57980233	11	3.0	11	95	4	59	52	2	17	26	1.58
57980904--57980988	42	2.0	42	100	0	170	37	29	11	21	1.89
57987810--57987852	22	2.0	22	90	0	68	83	0	9	6	0.80
57993345--57993380	18	2.1	17	89	5	54	55	0	5	38	1.23
57993774--57993803	2	15.0	2	100	0	60	50	0	0	50	1.00
57996877--57996935	31	1.9	31	82	6	75	37	13	11	37	1.82
57997585--57997798	93	2.4	91	83	8	260	39	21	7	31	1.82
57997812--57997848	7	5.6	7	81	12	51	64	0	10	24	1.25
57997809--57997856	14	3.6	13	81	13	62	64	0	8	27	1.22
57997868--57997950	25	3.3	24	75	14	69	63	2	1	32	1.15
57997868--57997936	25	2.8	25	78	10	70	62	1	0	36	1.04
57998151--57998410	9	28.2	9	63	22	69	30	4	3	61	1.30
57998158--57998284	57	2.2	55	79	10	123	30	4	3	61	1.32
57998177--57998294	57	2.0	59	82	6	143	28	6	3	61	1.38
57998290--57998327	17	2.2	17	90	9	60	18	5	0	76	0.97
57998324--57998394	29	2.6	29	82	10	78	35	1	2	60	1.20
58004657--58004854	107	1.9	107	93	0	342	31	20	18	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58007592--58007644	18	2.9	18	77	8	54	60	1	1	35	1.19
58007723--58007789	34	1.9	35	84	3	91	46	13	8	31	1.74
58011268--58011322	3	18.3	3	76	0	56	32	1	5	60	1.30
58017711--58017749	13	3.1	13	85	3	53	17	0	0	82	0.68
58018142--58018186	21	2.1	21	84	12	56	37	0	2	60	1.09
58020633--58020717	9	9.4	9	88	0	107	27	9	21	42	1.83
58021963--58021992	7	4.3	7	100	0	60	0	73	0	26	0.84
58026139--58026185	19	2.5	19	86	6	60	25	19	10	44	1.82
58028846--58028911	11	5.9	10	75	18	51	78	0	21	0	0.75
58028858--58028914	8	7.6	7	75	21	53	80	0	19	0	0.71
58029977--58031108	45	26.2	45	73	10	585	31	19	22	26	1.98
58030156--58030463	166	1.9	166	89	1	483	32	15	22	29	1.95
58030111--58030582	211	2.2	211	89	0	710	32	17	22	27	1.96
58030368--58030676	165	1.9	166	81	3	381	32	21	21	24	1.98
58030527--58030760	89	2.6	89	86	0	306	29	24	23	22	1.99
58030760--58031063	166	1.8	166	84	1	421	31	15	22	30	1.95
58030703--58031182	211	2.3	211	88	0	710	32	17	21	28	1.96
58030036--58031276	600	2.1	601	90	0	1975	31	19	22	26	1.98
58031123--58031271	45	3.3	45	75	5	140	33	22	21	22	1.97
58031432--58031803	129	2.8	128	84	4	424	29	20	20	29	1.98
58031433--58031629	41	4.6	42	71	11	141	25	22	20	31	1.98
58031476--58031857	44	8.7	44	70	9	190	29	19	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58033634--58033742	45	2.2	48	80	13	109	33	7	5	53	1.52
58035573--58035618	19	2.4	19	85	7	58	45	15	4	34	1.66
58047881--58047906	4	6.5	4	100	0	52	76	0	23	0	0.78
58053773--58053991	89	2.5	90	85	7	304	39	22	8	29	1.83
58054018--58054067	19	2.9	17	75	19	50	60	0	0	40	0.97
58054061--58054095	18	1.9	18	88	0	52	71	0	0	28	0.86
58054040--58054096	8	6.0	10	72	25	52	64	0	0	35	0.93
58054303--58054402	29	3.5	28	76	14	105	32	5	2	61	1.29
58054361--58054402	19	2.2	19	86	0	57	30	4	2	61	1.29
58060153--58060214	26	2.4	26	86	0	79	38	12	12	35	1.82
58065651--58065718	34	2.0	34	85	5	93	29	23	26	20	1.99
58071444--58071529	38	2.2	39	79	2	93	23	22	26	27	1.99
58072583--58072646	31	2.1	31	100	0	128	28	31	6	34	1.82
58075499--58075571	26	2.8	26	83	4	85	32	19	6	41	1.78
58083800--58083846	25	1.9	25	86	4	69	14	23	21	40	1.90
58084331--58084472	73	1.9	73	89	0	221	35	18	19	27	1.95
58084845--58084902	29	2.0	29	83	6	73	50	1	10	37	1.47
58084927--58084967	22	1.9	21	85	5	55	60	2	4	31	1.30
58086427--58086570	44	3.3	44	90	0	207	24	23	21	30	1.99
58086448--58086790	44	7.6	43	81	6	310	26	22	21	29	1.99
58086492--58086746	140	1.8	139	86	2	368	27	21	21	29	1.99
58086830--58087212	50	7.7	50	74	1	327	25	21	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58086814--58087212	100	4.0	100	91	0	618	25	21	21	31	1.98
58087782--58087854	38	1.9	38	94	0	128	30	28	16	24	1.96
58087873--58087951	25	3.3	23	75	15	72	17	26	21	34	1.96
58087936--58087983	24	2.0	23	84	4	60	16	12	18	52	1.75
58087996--58088067	25	2.8	26	83	10	78	15	25	25	34	1.94
58088654--58088683	14	2.1	14	100	0	60	33	13	6	46	1.69
58090464--58090507	16	2.6	17	86	13	56	75	11	0	13	1.06
58090514--58090556	19	2.3	19	79	0	50	65	11	4	18	1.42
58094486--58094518	2	17.0	2	93	6	59	51	0	0	48	1.00
58098615--58098668	5	10.8	5	100	0	108	38	20	0	40	1.53
58100181--58100225	22	2.0	22	95	0	81	37	8	0	53	1.32
58100297--58100363	27	2.5	27	92	4	109	26	29	26	16	1.97
58100410--58100556	4	36.0	4	76	16	126	70	0	29	0	0.88
58100401--58100600	40	5.0	40	82	12	211	68	0	30	1	0.96
58100453--58100555	45	2.3	45	85	5	129	70	0	29	0	0.87
58100413--58100600	39	4.9	36	78	14	166	69	0	29	1	0.95
58101244--58101385	74	1.9	75	87	7	209	47	7	7	38	1.60
58101370--58101419	25	2.0	25	92	0	82	38	6	0	56	1.24
58106748--58106858	26	3.4	36	68	25	102	52	11	0	35	1.44
58106994--58107037	3	14.7	3	100	0	88	68	31	0	0	0.90
58107036--58107090	3	18.3	3	96	0	101	67	1	0	30	1.01
58107136--58107174	20	2.0	21	85	10	55	66	10	0	23	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58107200--58107238	21	1.9	20	89	5	60	0	28	0	71	0.86
58107198--58107237	11	3.7	11	83	16	57	0	27	0	72	0.85
58107338--58107392	27	2.0	27	92	0	92	18	34	25	21	1.96
58107442--58107480	19	2.1	19	100	0	78	53	0	10	35	1.35
58110741--58110765	11	2.3	11	100	0	50	0	0	8	92	0.40
58120356--58120393	19	2.0	19	100	0	76	47	15	10	26	1.78
58135533--58135774	121	2.0	121	90	0	385	26	21	21	30	1.98
58138301--58138361	30	2.0	31	87	3	88	19	40	0	39	1.52
58138829--58138909	17	4.6	17	72	20	69	38	3	2	55	1.31
58139246--58139271	5	5.2	5	100	0	52	23	19	19	38	1.93

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