genome.fa.s4.2.7.7.80.10.50.1000.58.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: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

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   

This is table  58  of  198  ( 23681 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)
17753681--17753740	17	3.4	17	69	13	57	36	30	13	20	1.90
17756223--17756261	19	2.1	19	95	0	69	28	10	10	51	1.68
17760980--17761107	37	3.5	35	77	16	125	36	28	15	19	1.92
17762401--17762435	16	2.2	16	89	0	52	51	5	8	34	1.56
17763009--17763124	39	2.9	39	79	3	126	41	18	5	34	1.73
17768208--17768239	16	2.0	16	93	0	55	25	15	0	59	1.36
17768457--17768657	51	4.0	51	78	8	239	29	27	17	24	1.98
17768465--17768649	101	1.8	102	90	3	302	30	26	18	24	1.98
17768460--17768683	101	2.2	102	81	5	267	29	27	16	25	1.97
17768875--17768906	16	2.0	16	93	0	55	43	9	6	40	1.62
17771328--17771455	67	1.9	67	85	3	177	37	13	14	34	1.86
17773472--17773510	21	1.9	20	94	5	69	25	12	5	56	1.57
17776442--17776480	2	20.0	2	89	5	62	51	46	0	2	1.14
17776441--17776480	21	1.9	21	94	0	71	52	45	0	2	1.14
17776444--17776480	19	1.9	19	94	0	65	51	45	0	2	1.15
17779666--17779728	31	2.0	31	100	0	126	52	22	0	25	1.47
17797848--17797881	14	2.5	13	90	4	50	79	0	0	20	0.73
17802620--17802677	18	3.2	17	73	17	55	58	3	0	37	1.15
17810942--17811747	267	3.0	267	87	3	1180	27	20	26	26	1.99
17810947--17811733	260	3.0	260	89	1	1144	26	20	26	26	1.99
17811754--17812080	44	7.5	44	70	11	190	29	20	21	27	1.98
17811756--17812171	44	9.6	44	69	13	152	29	20	22	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17813547--17813579	10	3.5	10	92	8	52	27	0	0	72	0.85
17813590--17813623	16	2.1	16	94	0	59	32	0	8	58	1.29
17818445--17818501	25	2.2	26	90	3	89	29	17	10	42	1.83
17822326--17822388	21	3.2	21	62	25	55	41	6	9	42	1.63
17822321--17822397	38	2.0	38	100	0	154	37	7	10	44	1.68
17832705--17832734	15	1.9	16	93	6	53	53	0	16	30	1.44
17834020--17834195	95	1.9	94	89	5	277	55	6	6	32	1.50
17834256--17834288	2	16.5	2	100	0	66	48	0	0	51	1.00
17836051--17836168	44	2.7	44	84	5	150	31	21	19	27	1.97
17835984--17836233	88	2.8	89	76	8	274	26	24	20	29	1.99
17836616--17836662	18	2.6	18	82	0	58	59	4	4	31	1.36
17838344--17838461	44	2.7	44	82	5	141	32	21	18	27	1.97
17838277--17838526	88	2.8	89	76	8	265	26	24	19	29	1.98
17838910--17838956	18	2.6	18	82	0	58	59	4	4	31	1.36
17840640--17840757	44	2.7	44	84	5	150	31	21	19	27	1.97
17840573--17840822	88	2.8	89	76	8	274	26	24	20	29	1.99
17841206--17841252	18	2.6	18	82	0	58	59	4	4	31	1.36
17842869--17843258	89	4.5	88	76	7	348	26	24	19	29	1.99
17842889--17843314	44	9.7	44	73	8	237	26	23	20	28	1.99
17843301--17843398	44	2.2	44	85	3	135	28	25	20	25	1.99
17843521--17843664	44	3.3	44	68	3	137	22	26	28	22	1.99
17843400--17843981	176	3.3	176	83	0	680	21	22	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17843565--17843796	44	5.3	43	69	12	148	21	23	29	25	1.99
17843469--17843986	264	2.0	264	84	0	685	21	23	27	27	1.99
17843698--17843841	44	3.3	44	74	11	141	23	22	26	27	2.00
17843469--17843987	88	5.9	88	86	1	603	21	23	27	27	1.99
17845328--17845360	14	2.3	15	89	5	50	27	33	12	27	1.92
17846179--17846234	27	2.1	27	83	3	69	60	5	12	21	1.51
17850272--17850447	95	1.9	94	89	5	277	55	6	6	32	1.50
17852744--17852797	24	2.2	24	86	0	72	7	14	35	42	1.74
17853204--17853249	13	3.7	13	85	11	69	32	0	0	67	0.91
17853198--17853263	24	2.6	25	90	7	107	27	0	4	68	1.09
17853202--17853264	13	5.2	11	77	19	63	28	0	3	68	1.05
17862659--17862804	48	3.1	48	83	1	177	23	23	30	22	1.99
17871962--17872004	22	2.0	22	95	4	79	41	18	11	27	1.85
17897327--17897362	17	2.1	17	89	5	54	83	2	0	13	0.76
17900844--17900880	16	2.3	16	90	0	56	27	8	2	62	1.37
17903505--17903542	19	2.1	19	90	5	60	42	0	0	57	0.98
17911038--17911102	32	2.0	32	96	0	121	38	21	12	27	1.89
17911464--17911562	49	2.0	49	98	0	189	52	22	4	21	1.63
17911483--17911560	24	3.2	24	64	10	68	47	25	5	21	1.71
17911464--17911577	49	2.3	49	92	3	176	53	20	4	21	1.63
17911784--17911841	22	2.6	22	91	0	89	34	15	25	24	1.95
17917939--17918053	54	2.1	54	88	0	176	32	18	13	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17917813--17918185	197	1.9	197	88	2	570	30	19	18	31	1.96
17917993--17918519	143	3.7	143	85	4	670	28	21	19	30	1.97
17917993--17918525	286	1.9	286	87	1	782	28	21	19	30	1.97
17926465--17926512	14	3.2	14	79	8	51	50	0	4	45	1.21
17930990--17931051	32	1.9	32	84	12	83	51	1	3	43	1.27
17935490--17935778	27	10.7	27	85	0	328	35	19	21	24	1.96
17935819--17935900	24	3.5	23	78	8	85	20	4	23	51	1.67
17935972--17936036	27	2.4	27	82	7	71	18	24	23	33	1.96
17936015--17936065	26	2.0	26	88	0	75	15	21	25	37	1.93
17936072--17936307	32	7.4	32	76	11	198	19	21	22	36	1.95
17936072--17936336	64	4.2	64	78	9	211	19	21	21	37	1.95
17936073--17936305	96	2.4	96	81	7	260	18	21	23	36	1.95
17936329--17936393	22	3.0	21	73	13	60	16	20	18	44	1.87
17936387--17936439	26	2.0	26	85	0	70	18	26	20	33	1.96
17939238--17939264	13	2.1	13	100	0	54	51	14	0	33	1.43
17941650--17941675	13	2.0	13	100	0	52	15	30	7	46	1.74
17945814--17945844	11	2.8	11	100	0	62	25	35	0	38	1.56
17949768--17949905	50	2.8	48	80	9	152	32	24	18	24	1.97
17950345--17950429	41	2.1	41	95	0	152	36	23	4	35	1.76
17965624--17965769	42	3.1	49	74	20	164	22	23	18	34	1.96
17975274--17975575	27	11.2	27	82	1	345	18	16	23	42	1.89
17975272--17975575	134	2.3	135	84	3	371	18	16	23	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17976150--17976252	22	4.7	22	87	0	134	32	14	26	27	1.95
17985756--17985803	24	2.0	25	83	4	62	56	2	33	8	1.41
17986218--17986256	19	2.1	19	100	0	78	38	10	15	35	1.81
17999163--17999201	17	2.5	15	84	15	60	15	33	25	25	1.95
17999167--17999203	17	2.2	17	100	0	74	18	37	21	21	1.94
18003121--18003235	48	2.4	48	89	0	167	36	27	19	16	1.93
18014714--18014746	17	1.9	17	93	0	57	33	3	9	54	1.47
18015368--18015403	18	2.0	18	88	0	54	25	25	8	41	1.83
18015398--18015449	17	3.0	17	80	2	59	34	19	11	34	1.88
18015906--18016005	23	4.4	22	76	7	101	41	23	17	19	1.90
18015906--18016013	46	2.3	46	80	3	128	41	22	16	19	1.90
18026385--18026505	50	2.4	50	83	0	152	20	28	23	27	1.99
18030891--18030933	18	2.3	18	88	4	59	58	0	0	41	0.98
18039754--18039976	94	2.4	94	81	4	261	30	20	18	29	1.97
18040415--18040441	14	1.9	14	100	0	54	37	22	25	14	1.93
18055166--18055208	17	2.4	18	84	3	61	79	0	0	20	0.74
18055166--18055222	21	2.7	21	81	13	71	78	0	1	19	0.83
18055166--18055207	10	4.1	10	88	11	59	78	0	0	21	0.75
18055176--18055205	14	2.1	15	93	6	53	76	0	0	23	0.78
18055831--18055877	10	4.9	10	76	7	53	23	6	2	68	1.24
18063233--18063497	144	1.8	143	81	8	333	29	16	20	33	1.95
18063369--18063760	94	4.2	93	82	5	434	29	21	19	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18063466--18063726	44	5.6	44	67	18	147	28	21	21	28	1.99
18063379--18063737	188	1.9	188	86	4	519	29	20	20	30	1.97
18073880--18073924	22	2.0	22	86	0	63	6	8	24	60	1.51
18089505--18089604	31	3.3	31	70	8	105	40	3	4	53	1.35
18093289--18093347	25	2.4	25	91	0	91	38	3	23	33	1.72
18094232--18094271	17	2.3	17	86	4	53	37	0	2	60	1.11
18094274--18094318	22	2.1	21	83	4	54	37	6	0	55	1.26
18099139--18099182	23	1.9	22	82	17	54	36	25	0	38	1.56
18099226--18099320	45	2.1	45	88	0	136	32	20	17	29	1.96
18099317--18099461	50	2.8	52	81	9	190	29	28	17	24	1.97

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