genome.fa.s5.2.7.7.80.10.50.1000.191.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  191  of  208  ( 24913 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)
58268278--58268307	2	15.0	2	100	0	60	50	0	0	50	1.00
58268491--58268616	62	2.0	62	100	0	252	28	4	11	55	1.55
58268586--58268622	15	2.6	14	91	4	56	18	0	16	64	1.29
58271469--58271507	18	2.1	18	85	9	51	10	2	10	76	1.10
58272885--58272918	16	2.1	16	88	0	50	20	14	20	44	1.87
58275056--58275095	19	2.1	19	86	9	55	22	2	15	60	1.47
58281484--58281519	13	2.8	12	91	8	54	11	33	19	36	1.87
58283423--58283455	17	1.9	17	88	11	50	57	12	6	24	1.57
58283578--58283840	132	2.0	132	87	0	382	30	20	24	25	1.99
58284605--58284642	8	4.5	8	90	9	58	10	2	0	86	0.66
58284597--58284644	9	5.4	9	92	5	62	14	4	0	81	0.84
58284605--58284644	9	4.6	9	93	6	64	12	2	0	85	0.71
58284605--58284642	17	2.2	17	95	0	67	10	2	0	86	0.66
58285107--58285154	3	16.0	3	86	0	60	39	2	0	58	1.10
58295444--58295541	41	2.4	41	88	5	137	23	26	13	36	1.92
58296816--58296947	51	2.6	51	84	2	167	23	16	27	32	1.96
58296869--58296949	26	3.2	26	62	28	64	22	14	29	33	1.94
58296951--58297036	45	1.9	45	92	0	145	25	18	25	30	1.98
58297083--58297142	30	2.0	30	100	0	120	43	3	23	30	1.70
58297119--58297162	23	1.9	22	82	17	54	38	0	25	36	1.56
58297088--58297162	30	2.8	28	84	13	79	41	1	24	33	1.63
58298563--58298620	21	2.8	20	77	20	57	34	1	20	43	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58301143--58301220	31	2.5	31	81	6	88	51	7	5	35	1.53
58301562--58301686	59	2.1	59	86	0	169	37	23	12	26	1.91
58308597--58309045	106	4.3	104	83	8	533	29	0	15	54	1.45
58308633--58309044	211	2.0	203	85	7	560	29	0	15	54	1.45
58310098--58310199	50	2.0	50	98	0	195	25	21	22	30	1.99
58311076--58311151	33	2.3	33	86	0	89	18	44	13	23	1.85
58311088--58311160	33	2.2	33	87	0	101	15	46	13	24	1.82
58317699--58317904	106	1.9	106	92	0	340	28	17	15	37	1.91
58321923--58321974	26	2.1	24	82	13	61	28	0	9	61	1.27
58324819--58324921	31	3.4	31	76	8	111	52	4	1	40	1.34
58324812--58324937	61	2.1	61	93	0	216	49	6	1	42	1.37
58326355--58326384	12	2.5	12	94	0	51	60	0	3	36	1.14
58327272--58327541	136	2.0	135	97	0	513	23	20	13	43	1.86
58328648--58328725	25	3.1	25	74	7	77	28	11	20	39	1.87
58328656--58328736	25	3.2	25	77	6	92	27	14	19	38	1.91
58332914--58332971	3	19.3	3	100	0	116	32	0	0	67	0.91
58336619--58336648	5	6.0	5	100	0	60	0	60	20	20	1.37
58341662--58341749	3	29.7	3	71	11	56	34	3	2	60	1.26
58342143--58342439	98	3.0	98	89	6	465	36	23	11	28	1.89
58342145--58342445	100	3.0	98	90	5	464	36	22	11	29	1.89
58344549--58344766	44	5.0	44	67	15	137	28	21	19	30	1.97
58344580--58344844	132	2.0	132	93	0	458	29	23	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58344613--58344806	44	4.4	44	68	10	119	27	23	18	30	1.98
58348317--58348356	21	2.0	21	85	5	55	85	5	7	2	0.83
58350252--58350982	250	2.8	254	82	6	809	27	21	26	24	2.00
58350912--58351423	100	5.1	100	89	1	679	32	22	21	24	1.98
58350901--58351409	50	10.2	50	72	1	365	32	22	21	23	1.98
58352491--58352521	16	1.9	16	93	0	53	3	16	3	77	1.03
58353096--58353188	3	31.3	3	70	10	57	33	3	2	61	1.24
58353240--58353293	22	2.4	23	72	9	58	42	7	0	50	1.30
58353385--58353438	27	1.9	27	85	7	72	40	5	1	51	1.36
58354379--58354417	12	3.3	12	78	7	53	64	0	0	35	0.94
58354366--58354417	11	4.6	11	76	9	52	67	0	0	32	0.91
58354418--58354473	12	4.5	13	75	18	57	53	0	0	46	1.00
58354411--58354459	17	2.9	17	75	0	53	55	0	0	44	0.99
58354433--58354480	25	2.0	24	95	4	87	62	0	0	37	0.95
58354439--58354478	19	2.0	20	86	13	57	62	0	0	37	0.95
58376379--58376423	21	2.1	21	83	4	54	20	11	6	62	1.50
58378892--58379010	60	2.0	60	96	0	220	33	0	12	53	1.39
58386145--58386188	15	2.9	15	86	0	61	4	72	6	15	1.22
58397197--58397298	49	2.1	50	96	1	188	29	16	12	41	1.86
58402868--58402912	23	2.0	23	81	0	54	0	26	2	71	0.98
58424008--58424042	2	17.5	2	100	0	70	48	0	51	0	1.00
58428316--58428388	23	3.1	22	75	14	67	24	19	17	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58428323--58428389	24	2.9	23	76	12	66	25	19	17	37	1.94
58433727--58433776	26	1.9	26	91	0	82	58	26	0	16	1.38
58434403--58434433	15	2.0	16	93	6	55	9	58	32	0	1.31
58434473--58434541	11	6.4	11	75	14	72	56	0	4	39	1.19
58434458--58434530	31	2.3	31	95	2	128	56	0	4	39	1.19
58446698--58446808	57	1.9	57	96	3	206	36	16	12	34	1.86
58457271--58457344	22	3.4	22	92	0	112	27	27	12	33	1.92
58463549--58463624	24	3.1	24	77	7	73	21	25	19	34	1.96
58463661--58463716	25	2.2	25	96	0	103	25	32	17	25	1.97
58463708--58463755	25	1.9	25	86	0	69	25	22	14	37	1.92
58463749--58463773	12	2.1	12	100	0	50	28	16	40	16	1.89
58465947--58466025	33	2.3	35	80	8	83	39	22	8	29	1.84
58469377--58469446	28	2.4	29	80	2	79	20	35	21	22	1.96
58487444--58487533	21	4.4	20	80	12	103	31	1	12	55	1.44
58487444--58487577	19	6.3	19	72	21	106	32	0	11	54	1.42
58487500--58487663	27	6.2	27	68	16	101	32	0	11	55	1.36
58487444--58488215	88	8.5	87	69	21	305	31	0	12	56	1.38
58487676--58487772	27	3.3	27	68	18	77	26	0	10	62	1.27
58487642--58487785	61	2.4	61	96	0	270	29	0	10	59	1.30
58487764--58488324	27	21.0	27	78	12	583	31	0	13	55	1.40
58487852--58488380	19	28.2	19	69	21	261	31	0	13	55	1.39
58487852--58488366	77	6.6	77	82	11	628	31	0	13	55	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58487764--58488247	219	2.3	215	87	6	680	30	0	13	55	1.39
58488036--58488078	13	3.2	13	80	6	50	27	0	13	58	1.37
58487869--58488363	246	2.0	249	89	6	765	31	0	13	55	1.38
58488308--58488366	23	2.3	26	80	16	79	32	0	15	52	1.43
58488606--58488642	16	2.4	16	90	4	58	32	2	5	59	1.34
58488707--58488788	27	3.0	27	82	3	85	25	35	20	18	1.95
58488845--58488943	52	1.9	52	85	4	137	40	14	10	35	1.79
58492978--58493109	68	2.0	67	88	7	196	37	2	6	53	1.40
58493551--58493575	3	8.3	3	100	0	50	32	0	0	68	0.90
58498564--58498634	22	3.3	21	72	21	67	40	12	1	45	1.51
58498569--58498636	21	3.3	19	77	18	66	41	11	1	45	1.50
58499545--58499623	30	2.8	29	75	16	76	65	0	0	34	0.93
58506242--58506269	6	4.7	6	100	0	56	32	0	50	17	1.47
58509133--58509164	16	2.0	16	100	0	64	12	6	0	81	0.87
58514999--58515062	24	2.7	24	81	13	78	62	3	3	31	1.26
58520163--58520249	21	4.2	20	74	8	59	14	5	6	72	1.25
58531521--58531567	24	1.9	24	87	12	69	29	4	8	57	1.48
58532189--58532234	14	3.2	14	78	21	51	54	6	2	36	1.39
58534281--58534349	24	3.0	24	80	14	83	57	1	1	39	1.16
58534852--58534903	23	2.3	23	80	6	61	32	1	0	65	1.04
58537786--58537860	37	2.0	37	97	0	141	41	5	20	33	1.75
58546037--58546079	3	14.3	3	100	0	86	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58546697--58546740	22	2.0	22	82	8	54	4	18	9	68	1.34
58546908--58546972	5	13.2	5	81	15	82	60	1	0	38	1.07
58552032--58552075	18	2.4	18	92	0	70	11	2	45	40	1.53
58555334--58555396	26	2.4	26	89	5	92	36	14	6	42	1.71
58562775--58562802	2	14.0	2	100	0	56	50	0	0	50	1.00
58563009--58563043	18	1.9	18	88	11	54	34	17	5	42	1.73
58575207--58575291	25	3.4	25	96	3	161	34	10	20	35	1.87
58576355--58576414	30	2.0	31	83	9	79	43	0	36	20	1.52
58576810--58576835	10	2.6	10	100	0	52	42	0	57	0	0.98
58579731--58579764	18	1.9	17	94	5	59	26	0	5	67	1.13

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   207   208