genome.fa.s2.2.7.7.80.10.50.1000.150.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  150  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)
45588357--45588390	11	3.1	11	91	0	59	29	5	0	64	1.17
45590723--45590762	21	1.9	21	85	10	55	67	0	30	2	1.04
45593405--45593435	11	2.8	11	95	0	53	12	6	3	77	1.08
45597777--45597841	2	32.5	2	100	0	130	50	0	0	49	1.00
45598061--45598092	16	2.1	15	94	5	55	65	0	3	31	1.08
45598290--45598327	12	3.2	12	82	10	51	55	0	10	34	1.34
45598281--45598327	24	2.0	24	87	8	69	57	0	10	31	1.33
45599810--45600299	44	11.1	44	87	4	630	28	24	14	32	1.94
45601578--45601626	13	3.6	14	81	13	57	14	20	2	63	1.40
45601588--45601630	7	6.1	7	84	10	52	13	18	2	65	1.38
45601588--45601629	15	2.9	15	82	13	52	14	19	2	64	1.39
45606476--45606507	16	2.1	15	94	5	55	65	0	3	31	1.08
45606696--45606760	27	2.4	28	85	7	82	58	0	10	30	1.32
45608587--45608630	11	4.2	11	82	11	56	20	6	25	47	1.74
45608600--45608683	9	9.2	9	84	7	89	23	10	25	40	1.87
45608600--45608683	27	3.1	27	84	5	107	23	10	25	40	1.87
45608839--45608863	12	2.1	12	100	0	50	16	24	36	24	1.94
45612528--45612560	14	2.2	16	89	10	52	66	3	0	30	1.06
45619406--45619458	28	1.9	28	84	3	72	45	7	0	47	1.31
45621515--45621554	18	2.3	18	86	4	55	2	25	2	70	1.13
45623363--45623454	22	4.2	22	85	0	103	29	27	0	43	1.55
45623363--45623454	44	2.1	44	83	4	114	29	27	0	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45623404--45623506	52	2.0	51	81	9	120	32	32	0	35	1.58
45623456--45623497	22	1.9	22	90	0	66	33	33	0	33	1.58
45623539--45623594	28	2.0	29	92	3	96	37	0	1	60	1.07
45623539--45623602	28	2.2	29	88	2	94	37	0	1	60	1.06
45668919--45668959	17	2.4	17	87	0	55	24	7	43	24	1.79
45676458--45676487	15	1.9	16	93	6	53	43	13	23	20	1.86
45676969--45677002	16	2.1	16	88	0	50	20	8	32	38	1.84
45680209--45680332	50	2.5	50	81	5	142	25	24	28	21	1.99
45685506--45685537	16	2.0	16	93	0	55	40	6	9	43	1.62
45685767--45685949	102	1.8	102	89	3	289	22	17	28	31	1.96
45685762--45685945	51	3.6	48	81	11	192	22	18	27	30	1.97
45685869--45685949	26	3.2	26	65	28	73	22	16	29	32	1.95
45690988--45691184	49	3.8	50	81	6	200	28	21	26	22	1.99
45690988--45691184	99	1.9	103	80	9	233	28	21	26	22	1.99
45697395--45697489	45	2.1	45	100	0	190	27	17	25	29	1.98
45700206--45700250	21	2.1	22	88	8	67	37	8	0	53	1.32
45700323--45700405	26	3.2	25	68	13	69	36	10	0	53	1.36
45700292--45700425	52	2.7	48	84	12	189	40	9	0	49	1.41
45700374--45700547	94	1.9	94	86	4	253	36	9	5	48	1.60
45708353--45708437	43	2.0	43	83	0	107	28	25	18	27	1.98
45712171--45712300	49	2.7	49	85	7	167	43	5	2	49	1.38
45712255--45712429	94	1.9	94	91	2	289	34	10	5	48	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45730146--45730189	22	2.0	23	90	4	72	54	4	0	40	1.21
45734333--45734361	11	2.5	12	88	11	51	17	6	24	51	1.69
45736532--45736586	29	1.9	29	88	3	85	30	16	16	36	1.91
45737520--45737577	28	2.1	27	84	6	73	41	18	15	24	1.89
45738010--45738101	10	9.4	10	66	21	52	59	0	1	39	1.04
45738040--45738099	30	1.9	32	83	12	81	56	0	0	43	0.99
45738033--45738125	40	2.4	37	79	12	100	56	0	1	41	1.06
45738082--45738158	29	2.7	29	76	8	75	58	1	2	37	1.20
45738351--45738407	28	2.1	28	87	6	82	36	3	1	57	1.26
45738388--45738428	19	2.2	20	91	8	68	24	4	0	70	1.06
45738388--45738428	18	2.2	18	91	4	64	24	4	0	70	1.06
45738532--45738699	87	1.9	87	85	4	232	34	8	17	39	1.80
45741605--45741790	43	4.3	43	83	0	210	27	27	22	22	1.99
45741603--45741790	86	2.2	86	85	0	241	27	28	22	21	1.99
45743898--45743950	27	2.0	25	82	13	63	16	3	1	77	1.01
45743983--45744026	2	22.0	2	100	0	88	50	0	0	50	1.00
45744226--45744394	71	2.3	72	82	2	187	27	24	21	26	2.00
45744295--45744622	114	2.9	114	87	0	485	26	25	20	27	1.99
45744408--45744813	187	2.2	187	89	0	607	27	24	20	28	1.99
45744535--45744699	73	2.3	73	94	0	285	28	24	20	26	1.99
45744595--45744904	114	2.7	114	89	0	451	26	23	21	28	1.99
45744225--45744904	301	2.3	300	86	2	952	26	23	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45753093--45753134	20	2.1	20	86	0	57	47	0	7	45	1.30
45754073--45754144	32	2.2	32	90	4	110	26	34	16	22	1.95
45754164--45754188	13	1.9	13	100	0	50	40	24	16	20	1.91
45761145--45761186	5	8.6	5	86	5	59	2	21	0	76	0.90
45761145--45761183	19	2.1	19	90	0	60	2	20	0	76	0.90
45761145--45761193	24	2.0	24	88	0	71	2	20	2	75	1.00
45767765--45767795	9	3.3	9	91	8	53	0	19	0	80	0.71
45767748--45767794	23	2.0	23	87	0	67	2	25	0	72	0.96
45768423--45768480	29	2.0	29	100	0	116	20	17	37	24	1.93
45770510--45770600	3	30.7	3	80	6	96	31	4	2	61	1.28
45770578--45770609	15	2.2	14	94	5	55	37	6	0	56	1.25
45771539--45771847	110	2.8	110	89	2	446	31	15	17	35	1.92
45773188--45773231	19	2.3	20	84	7	56	29	20	9	40	1.83
45775337--45775374	6	6.0	6	88	11	58	81	0	18	0	0.69
45777501--45777670	88	1.9	88	82	5	211	25	22	25	25	2.00
45777728--45778100	87	4.3	86	73	12	296	31	19	21	27	1.98
45777669--45778170	175	2.9	175	90	0	781	31	18	20	29	1.97
45777680--45778150	44	10.8	42	69	12	227	31	18	21	28	1.97
45779866--45779936	3	24.0	3	97	2	135	32	0	0	67	0.91
45780460--45780586	67	2.0	64	87	9	188	12	10	14	62	1.53
45780933--45781240	110	2.8	109	89	1	449	31	15	17	34	1.92
45787042--45787106	27	2.4	27	78	14	80	32	18	24	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45789690--45789731	2	21.5	2	95	4	77	50	0	0	50	1.00
45797504--45797863	175	2.1	173	87	1	513	29	19	18	31	1.96
45797507--45797906	173	2.3	172	83	5	441	29	20	18	32	1.96
45797680--45798129	219	2.1	219	92	0	749	27	21	19	31	1.97
45810370--45810436	20	3.0	22	77	18	68	58	4	0	37	1.19
45811925--45811961	15	2.5	15	87	12	51	29	0	0	70	0.88
45812417--45812448	14	2.3	15	89	10	50	15	37	3	43	1.63
45814637--45814708	30	2.5	30	84	4	85	44	8	9	37	1.68
45814869--45814942	10	7.4	10	71	17	55	62	1	2	33	1.18
45814869--45814973	19	5.3	19	75	10	93	60	1	2	34	1.22
45816296--45816329	17	1.9	18	88	5	52	32	0	0	67	0.91
45819495--45819535	17	2.3	18	83	12	57	29	14	19	36	1.92
45821972--45822102	58	2.2	60	86	9	180	45	0	3	51	1.16
45821972--45822113	61	2.4	57	86	8	178	45	1	2	50	1.25
45826394--45826628	117	2.0	114	91	4	382	20	20	18	40	1.92
45828445--45828470	12	2.2	12	100	0	52	7	38	23	30	1.83
45831320--45831452	18	8.0	17	69	17	91	39	0	3	56	1.20
45831428--45831517	47	1.9	49	82	13	118	45	0	2	52	1.13
45831611--45831703	44	2.1	46	89	4	145	35	30	5	29	1.80
45831685--45831721	16	2.3	16	95	0	65	24	32	5	37	1.78
45832450--45832729	115	2.4	113	82	5	314	22	2	15	59	1.49
45832827--45832881	22	2.5	22	79	8	58	30	0	5	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45837682--45837716	17	2.1	17	89	5	54	42	0	0	57	0.99
45842107--45842207	17	5.8	17	82	10	123	43	10	10	34	1.75
45842103--45842217	52	2.2	52	92	3	185	44	9	11	34	1.73
45842103--45842217	17	6.5	17	79	12	99	44	9	11	34	1.73
45842107--45842218	18	6.2	19	76	21	116	41	9	11	36	1.75
45842107--45842236	18	7.2	17	74	15	84	41	9	10	38	1.72
45842988--45843050	11	5.5	11	72	7	54	0	25	0	74	0.82
45843016--45843066	24	2.1	24	88	0	75	0	31	0	68	0.90
45842988--45843053	12	5.8	12	75	8	57	0	25	0	74	0.82
45843167--45843211	18	2.5	18	82	10	56	0	17	6	75	1.01

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