genome.fa.s5.2.7.7.80.10.50.1000.38.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  38  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)
10576564--10576622	18	3.2	19	88	11	88	81	0	15	3	0.82
10576796--10576839	13	3.4	13	90	0	61	86	2	11	0	0.66
10576797--10576847	13	4.0	12	85	7	57	84	3	11	0	0.75
10576797--10576847	20	2.7	18	85	11	66	84	3	11	0	0.75
10577317--10577492	35	4.9	35	74	15	110	38	10	9	42	1.71
10577304--10577801	18	28.3	18	70	13	252	34	12	9	43	1.75
10577516--10577842	17	18.5	17	69	14	128	31	13	9	44	1.76
10577511--10577800	35	8.3	34	73	12	162	30	14	9	45	1.77
10577511--10577732	123	1.8	122	92	2	374	31	14	9	45	1.76
10577514--10577784	123	2.2	122	85	5	368	30	14	9	45	1.77
10586388--10586457	21	3.3	21	82	7	88	11	17	35	35	1.85
10588129--10588171	15	2.9	15	89	0	59	41	27	6	23	1.80
10588133--10588183	15	3.4	15	86	0	57	41	33	3	21	1.72
10589235--10589275	21	2.0	21	90	9	66	29	26	17	26	1.97
10593629--10593665	16	2.4	16	86	13	51	40	2	0	56	1.13
10593629--10593672	15	2.8	16	83	12	56	43	4	0	52	1.22
10594188--10594232	18	2.6	17	82	6	54	51	2	2	44	1.26
10599147--10599185	11	3.5	11	82	3	51	0	12	2	84	0.72
10599626--10599676	22	2.5	20	79	14	59	72	0	5	21	1.05
10610844--10610903	28	2.2	27	84	3	75	48	1	1	48	1.21
10619261--10619348	31	2.9	31	79	3	90	39	13	11	35	1.81
10621197--10621221	12	2.1	12	100	0	50	24	16	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10624463--10624735	151	1.8	151	88	0	411	27	27	18	26	1.98
10633882--10633914	17	1.9	17	93	0	57	3	9	3	84	0.82
10635121--10635389	41	6.6	41	88	1	378	23	27	20	28	1.99
10636345--10636390	2	23.0	2	95	0	56	50	8	0	41	1.33
10646599--10646751	22	7.0	22	90	0	225	32	14	26	26	1.94
10647301--10647327	11	2.5	11	100	0	54	40	0	0	59	0.98
10649328--10649370	22	2.0	22	100	0	86	37	13	25	23	1.92
10651422--10651858	96	4.6	96	96	0	811	21	21	24	31	1.98
10662695--10662746	18	3.1	17	77	20	56	59	15	7	17	1.58
10664658--10664717	3	19.7	3	89	3	84	61	0	5	33	1.17
10664684--10664729	18	2.4	20	89	7	69	63	4	0	32	1.14
10666161--10666327	49	3.4	49	68	5	131	22	19	23	33	1.97
10666241--10666390	49	3.0	49	66	12	126	23	21	23	32	1.98
10666097--10666863	96	8.0	96	89	4	998	22	21	24	32	1.98
10677605--10677637	16	2.0	17	94	5	59	78	3	0	18	0.87
10679091--10679257	49	3.4	49	68	5	131	22	19	23	33	1.97
10679171--10679320	49	3.0	49	66	12	126	23	21	23	32	1.98
10679027--10679889	96	9.0	96	90	4	1174	22	21	24	31	1.98
10679324--10679876	49	11.6	49	67	10	340	21	22	25	31	1.98
10679144--10679863	378	1.9	380	91	2	1189	21	22	24	31	1.98
10684662--10684701	21	1.9	21	85	10	55	67	5	0	27	1.11
10685456--10685495	19	2.1	19	86	9	55	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10686534--10686628	38	2.5	38	81	14	124	26	14	22	36	1.93
10688118--10688142	2	12.5	2	100	0	50	48	0	0	52	1.00
10691439--10691582	76	1.9	72	91	5	234	30	27	14	27	1.95
10691970--10692017	25	1.9	25	86	0	69	29	14	20	35	1.93
10692250--10692306	22	2.6	22	80	0	69	57	14	14	14	1.65
10693218--10693266	20	2.4	20	90	10	73	46	6	0	46	1.27
10693291--10693341	26	2.0	26	84	7	68	41	3	7	47	1.51
10696909--10696993	41	2.1	41	95	0	152	34	17	15	32	1.91
10697702--10697749	17	2.7	19	74	25	52	33	4	0	62	1.14
10702158--10702229	28	2.6	28	84	0	90	33	27	11	27	1.91
10707501--10707572	4	16.8	4	77	18	58	19	4	1	75	1.05
10707500--10707582	13	6.4	12	74	20	62	20	3	1	74	1.03
10707520--10707576	5	11.4	5	80	14	55	21	5	0	73	1.02
10707521--10707556	9	3.9	9	92	3	54	22	5	0	72	1.05
10707501--10707576	40	1.9	39	89	2	116	19	3	1	75	1.04
10708951--10708992	19	2.2	18	80	19	50	78	2	0	19	0.86
10708964--10708997	16	2.1	16	88	0	50	79	2	2	14	0.97
10708958--10709004	23	2.0	23	83	0	58	78	2	4	14	0.99
10709569--10709603	15	2.4	15	90	4	54	48	0	8	42	1.33
10713325--10713380	21	2.7	20	72	10	58	75	7	10	7	1.20
10716205--10716271	33	2.0	33	94	0	116	44	7	7	40	1.61
10718734--10718822	25	3.1	30	82	15	125	25	25	6	41	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10718744--10718790	15	3.1	15	70	11	51	27	23	8	40	1.83
10719841--10719919	22	3.6	22	87	0	113	27	15	27	29	1.96
10723390--10723478	25	3.1	30	79	15	116	24	25	7	41	1.82
10724340--10724374	7	5.1	7	96	3	63	25	0	0	74	0.82
10731523--10731578	20	2.8	19	77	15	60	41	1	1	55	1.21
10742319--10742356	21	1.9	21	89	10	62	50	0	0	50	1.00
10742324--10742378	28	2.0	28	85	0	74	47	1	1	49	1.23
10743902--10743953	1	52.0	1	76	0	50	0	9	1	88	0.59
10743908--10743953	7	6.7	7	97	2	85	0	10	0	89	0.50
10743902--10743953	21	2.5	20	90	6	86	0	9	1	88	0.59
10744376--10744413	19	2.0	19	94	0	67	42	18	15	23	1.89
10746513--10746578	13	5.1	13	78	7	80	37	27	6	28	1.80
10746993--10747091	47	2.1	47	100	0	198	45	4	17	33	1.67
10747289--10747322	17	1.9	18	88	5	52	73	2	2	20	1.09
10747725--10747763	20	2.0	20	90	5	62	61	5	5	28	1.39
10749318--10749342	13	1.9	13	100	0	50	64	0	0	36	0.94
10752454--10752542	31	3.0	30	75	4	90	40	15	11	32	1.83
10755819--10755884	29	2.3	28	79	7	69	42	16	15	25	1.87
10756293--10756409	35	3.4	34	71	12	112	28	5	13	52	1.64
10766517--10766542	12	2.2	12	100	0	52	50	7	0	42	1.31
10766744--10766771	3	9.3	3	100	0	56	64	0	0	35	0.94
10774377--10774408	14	2.3	14	94	0	55	34	18	40	6	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10778867--10778895	15	1.9	15	100	0	58	27	0	20	51	1.47
10782410--10782455	24	2.0	23	83	12	58	63	10	21	4	1.44
10783516--10783554	19	2.1	19	85	0	51	28	12	0	58	1.34
10787521--10787552	15	2.1	15	94	0	55	28	0	0	71	0.86
10789333--10789374	10	3.8	11	84	15	52	66	4	0	28	1.12
10789332--10789379	21	2.2	22	85	10	64	66	4	0	29	1.10
10789332--10789379	10	4.5	10	82	10	51	66	4	0	29	1.10
10789383--10789422	10	3.9	10	90	6	62	50	0	5	45	1.23
10789379--10789428	21	2.4	20	78	18	57	52	0	4	44	1.20
10789376--10789430	20	2.8	19	75	20	51	52	0	3	43	1.18
10789682--10789818	69	2.0	69	92	0	229	40	13	16	29	1.87
10790578--10790617	19	2.1	19	86	9	55	50	0	2	47	1.14
10792005--10792100	31	3.1	31	95	3	174	45	13	9	31	1.75
10797286--10797318	16	2.0	17	94	5	59	78	3	0	18	0.87
10798581--10798934	45	8.0	45	74	6	303	33	14	19	32	1.92
10798581--10798934	90	4.0	90	83	3	375	33	14	19	32	1.92
10798588--10798870	135	2.1	135	83	1	343	31	15	19	33	1.93
10799039--10799136	44	2.2	44	85	0	124	32	23	19	24	1.97
10799686--10799741	21	2.8	19	89	10	94	37	10	16	35	1.83
10799686--10799764	19	3.7	22	80	14	78	36	8	16	37	1.80
10800484--10800527	23	2.0	22	90	4	70	34	6	2	56	1.38
10802583--10802726	76	1.9	72	91	5	234	30	27	14	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10803396--10803452	22	2.6	22	80	0	69	57	14	14	14	1.65
10804364--10804412	20	2.4	20	90	10	73	46	6	0	46	1.27
10804437--10804487	26	2.0	26	84	7	68	41	3	7	47	1.51
10807983--10808029	22	2.2	20	85	7	58	59	6	0	34	1.23
10814308--10814354	24	2.0	24	87	8	69	61	0	2	36	1.08
10814428--10814472	17	2.7	16	86	10	63	15	15	20	48	1.80
10818508--10818532	11	2.3	11	100	0	50	60	16	0	24	1.36
10819142--10819179	11	3.5	11	89	7	60	78	0	0	21	0.74
10819142--10819178	5	7.0	5	90	9	56	78	0	0	21	0.75
10820356--10820421	31	2.1	31	85	0	87	24	21	19	34	1.96

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