genome.fa.s5.2.7.7.80.10.50.1000.174.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  174  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)
53139709--53139835	49	2.6	49	83	4	170	27	14	25	32	1.95
53142385--53142569	101	1.8	102	88	3	284	24	16	26	31	1.96
53142383--53142567	51	3.7	49	80	5	192	24	16	27	31	1.97
53142575--53142706	43	3.1	43	79	10	180	24	19	23	32	1.98
53142579--53142705	42	3.0	42	80	11	168	25	18	23	32	1.97
53161287--53161393	15	7.5	15	68	21	59	30	0	0	68	0.96
53161264--53161393	44	3.0	44	85	8	171	32	0	0	66	0.97
53161298--53161380	9	9.4	9	67	17	50	28	1	0	69	0.96
53161241--53161316	36	2.1	36	83	7	93	32	1	0	65	1.01
53161263--53161342	19	3.7	23	69	22	66	36	0	0	63	0.94
53161241--53161394	44	3.5	42	78	15	136	32	1	0	66	1.00
53163157--53163220	27	2.3	27	86	2	83	26	14	28	31	1.95
53165790--53166249	234	2.0	234	97	0	875	28	17	20	33	1.95
53167794--53167823	16	1.9	16	93	6	53	46	20	10	23	1.80
53172130--53172229	28	3.6	28	84	8	114	34	12	26	28	1.92
53174843--53174925	38	2.2	38	100	0	166	39	13	8	38	1.75
53177407--53177434	12	2.3	12	100	0	56	21	39	0	39	1.54
53194748--53194784	16	2.2	17	95	4	67	48	27	0	24	1.51
53195905--53195962	23	2.5	24	80	8	66	31	5	6	56	1.47
53200686--53200731	6	7.7	6	100	0	92	69	15	0	15	1.19
53200669--53200794	58	2.2	56	81	8	146	70	11	6	11	1.32
53200669--53200794	30	4.4	28	77	15	114	70	11	6	11	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53201658--53201711	13	4.0	13	82	4	63	70	0	14	14	1.17
53201659--53201712	7	8.0	7	81	8	67	68	0	16	14	1.21
53203248--53203616	50	7.4	50	71	7	282	33	22	20	23	1.97
53203223--53203616	100	3.9	100	91	0	619	32	23	20	23	1.97
53204034--53204065	16	1.9	17	93	6	57	50	34	0	15	1.45
53205191--53205246	23	2.4	24	79	8	62	30	5	7	57	1.48
53205324--53205355	2	16.0	2	100	0	64	50	0	0	50	1.00
53206923--53206959	18	2.1	18	100	0	74	32	5	10	51	1.60
53211743--53212056	43	7.3	43	82	5	334	31	21	21	26	1.98
53211743--53212056	42	7.4	42	81	6	307	31	21	21	26	1.98
53211743--53212013	127	2.1	129	85	4	361	31	21	21	25	1.98
53211743--53212056	85	3.7	86	81	7	329	31	21	21	26	1.98
53212489--53212536	21	2.3	21	81	0	60	2	41	20	35	1.64
53214867--53214892	12	2.2	12	100	0	52	34	0	15	50	1.45
53214900--53215211	9	35.2	9	80	10	349	33	0	19	46	1.53
53215352--53215385	17	1.9	18	88	5	52	55	0	5	38	1.24
53215409--53215443	9	3.9	9	84	0	52	37	0	14	48	1.44
53215407--53215451	18	2.5	18	96	0	81	40	0	11	48	1.39
53216651--53216697	22	2.1	22	100	0	94	42	12	4	40	1.63
53218279--53218329	21	2.4	21	100	0	102	33	49	0	17	1.47
53222141--53222199	25	2.4	25	80	5	66	20	30	20	28	1.97
53222015--53222219	24	8.2	25	73	8	118	20	26	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53231292--53231354	30	2.1	30	90	0	99	55	14	3	26	1.54
53231882--53231918	18	2.1	18	100	0	74	40	10	10	37	1.75
53237619--53237737	63	1.9	63	85	0	166	28	8	34	28	1.86
53239964--53240710	371	2.0	371	89	1	1138	26	19	14	39	1.90
53247724--53247787	13	4.9	13	77	7	76	37	23	6	32	1.80
53255004--53255110	31	3.2	31	66	25	83	38	6	12	42	1.68
53254975--53255111	69	2.0	69	97	0	256	38	9	12	39	1.76
53259148--53259187	21	2.0	20	85	5	53	37	5	0	57	1.21
53259150--53259181	13	2.4	14	85	15	50	34	6	0	59	1.23
53261224--53261252	2	14.5	2	100	0	58	48	0	0	51	1.00
53263908--53263950	18	2.4	18	80	0	50	46	4	0	48	1.22
53269424--53269467	21	2.0	22	95	4	81	18	4	13	63	1.46
53271460--53271504	21	2.0	23	83	8	58	55	0	4	40	1.20
53290170--53290252	40	2.0	41	90	2	132	60	8	4	26	1.46
53297796--53297915	42	2.9	42	81	5	143	44	17	20	17	1.87
53307592--53307656	6	10.3	6	77	9	58	47	6	44	1	1.37
53309195--53309233	16	2.4	16	82	4	51	41	0	5	53	1.23
53309595--53309634	16	2.3	17	87	12	55	67	2	0	30	1.04
53309589--53309636	18	2.6	19	83	3	71	66	2	0	31	1.03
53310065--53310132	18	3.8	18	72	14	61	38	2	1	57	1.23
53310536--53310576	18	2.3	19	80	12	52	29	0	2	68	1.03
53310709--53310777	29	2.4	29	83	9	95	23	11	31	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53317751--53317798	24	2.0	24	100	0	96	29	12	20	37	1.90
53338023--53338052	2	14.5	2	93	6	51	46	3	0	50	1.18
53339854--53339890	16	2.3	16	86	13	58	40	0	0	59	0.97
53341419--53341458	6	6.7	6	100	0	80	47	35	0	17	1.48
53344217--53344551	114	3.0	114	90	1	505	41	12	16	30	1.84
53345626--53345673	25	1.9	25	87	8	71	39	4	0	56	1.19
53346911--53346967	21	2.8	20	76	7	53	49	1	1	47	1.22
53347572--53347605	6	5.7	6	100	0	68	47	35	0	17	1.48
53351638--53351869	46	5.0	46	93	0	374	28	25	9	36	1.86
53353957--53353998	21	2.0	21	85	0	57	45	14	4	35	1.66
53363774--53363821	19	2.5	20	82	3	62	47	0	0	52	1.00
53363861--53363919	30	2.0	28	84	12	75	45	0	0	54	0.99
53364452--53364481	11	2.7	11	89	0	51	46	3	0	50	1.18
53370824--53370863	20	2.0	20	100	0	80	50	0	10	40	1.36
53370828--53370875	20	2.5	19	86	6	62	54	2	8	35	1.42
53372819--53372865	21	2.2	22	81	11	53	53	10	4	31	1.55
53375254--53375293	21	1.9	21	84	0	53	50	0	27	22	1.50
53382094--53382204	42	2.6	42	81	0	132	30	12	28	27	1.93
53383343--53383886	43	12.3	43	69	7	293	30	23	22	22	1.99
53383290--53383583	89	3.3	89	93	0	482	28	21	24	24	1.99
53383606--53383763	47	3.4	47	72	6	162	33	19	24	22	1.97
53383563--53383890	90	3.7	90	89	2	509	31	24	21	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53383432--53383716	133	2.2	131	92	1	471	28	24	25	21	1.99
53383563--53383890	178	1.8	178	89	2	514	31	24	21	21	1.98
53383912--53383989	41	1.9	41	81	0	93	28	19	21	30	1.97
53384272--53384327	15	3.6	16	79	18	64	76	7	0	16	0.99
53384294--53384347	23	2.3	23	81	9	56	66	7	3	22	1.33
53387984--53388012	2	14.5	2	100	0	58	48	0	0	51	1.00
53388068--53388249	66	2.8	64	76	8	172	39	4	13	42	1.65
53397664--53397695	2	16.0	2	100	0	64	50	0	0	50	1.00
53398809--53398852	23	1.9	23	86	9	63	0	25	0	75	0.81
53409599--53409645	25	1.9	24	91	4	76	38	4	0	57	1.18
53417207--53417259	19	2.9	18	80	5	70	43	15	15	26	1.85
53419289--53419327	20	2.0	20	84	0	51	46	2	2	48	1.29
53419908--53419946	15	2.6	14	80	11	51	25	7	7	58	1.52
53420291--53420335	2	22.5	2	100	0	90	48	0	0	51	1.00
53443631--53444307	338	2.0	338	94	1	1189	35	16	16	30	1.92
53444753--53444824	37	1.9	37	94	0	126	20	11	18	50	1.77
53455065--53455103	19	2.1	19	90	9	62	51	0	0	48	1.00
53455133--53455169	18	2.1	18	90	5	58	56	0	0	43	0.99
53458911--53458937	6	4.5	6	100	0	54	14	14	0	70	1.17
53466240--53466315	21	3.7	21	76	15	79	61	5	0	32	1.18
53466240--53466315	19	3.7	21	79	10	77	61	5	0	32	1.18
53466256--53466315	20	3.0	20	80	4	68	61	5	0	33	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53466260--53466348	39	2.3	39	86	3	117	62	4	1	31	1.22
53466281--53466346	9	7.0	9	70	10	51	63	4	1	30	1.23
53471859--53471928	21	3.3	21	71	0	59	17	24	14	44	1.85
53471774--53471930	42	3.7	42	77	5	147	17	22	14	44	1.86
53474061--53474102	21	2.0	21	86	13	59	0	28	0	71	0.86
53477058--53477134	18	4.4	17	79	14	84	67	5	0	27	1.12
53477063--53477135	28	2.7	28	87	8	98	64	5	0	30	1.16
53477057--53477133	10	8.6	9	68	21	54	68	5	0	25	1.10
53477191--53477399	89	2.4	85	82	7	255	32	8	19	40	1.81
53479851--53479893	18	2.4	18	88	7	61	53	0	0	46	1.00

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