genome.fa.s5.2.7.7.80.10.50.1000.118.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  118  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)
35854550--35854613	24	2.7	24	76	9	60	29	37	23	9	1.86
35856888--35856940	3	17.7	3	100	0	106	32	0	0	67	0.91
35857614--35857647	17	2.0	17	88	0	50	52	2	8	35	1.47
35860293--35860323	3	10.3	3	100	0	62	35	32	0	32	1.58
35862266--35862292	14	1.9	14	100	0	54	25	0	0	74	0.83
35862631--35862696	3	22.0	3	96	0	123	68	0	31	0	0.90
35863055--35863137	36	2.3	36	93	0	139	19	8	25	46	1.77
35864580--35864677	26	3.7	26	76	14	85	54	14	7	24	1.65
35864580--35864642	31	2.1	28	85	8	81	55	14	6	23	1.62
35864588--35864809	96	2.3	97	91	3	349	49	18	7	25	1.72
35864687--35864738	25	2.0	27	85	11	72	42	17	9	30	1.81
35866670--35866804	61	2.2	61	93	0	225	48	22	7	21	1.74
35867103--35867190	6	14.7	6	80	4	79	57	12	9	20	1.61
35867109--35867258	12	12.3	12	74	8	97	57	15	7	20	1.62
35867109--35867258	18	7.9	18	75	11	120	57	15	7	20	1.62
35867101--35867190	30	3.0	30	91	3	137	57	13	8	20	1.62
35867151--35867283	62	2.2	61	90	1	203	57	18	5	18	1.58
35867213--35867258	6	7.7	6	85	0	56	58	13	8	19	1.60
35867262--35867299	16	2.3	16	90	4	58	57	26	0	15	1.38
35867788--35867858	31	2.3	31	85	7	92	21	12	19	46	1.83
35867931--35867987	20	2.8	19	73	19	53	57	5	1	35	1.31
35867932--35868012	41	2.0	41	80	9	94	58	3	2	35	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35868273--35868388	10	12.1	9	70	16	65	32	1	2	62	1.19
35868282--35868365	19	4.4	19	69	16	57	35	1	2	60	1.17
35869348--35869381	12	2.8	12	95	0	59	8	14	14	61	1.55
35870991--35871015	13	1.9	13	100	0	50	68	0	8	24	1.16
35872399--35872442	21	2.2	20	84	12	54	43	0	0	56	0.99
35878149--35878185	18	2.0	19	89	5	58	29	21	8	40	1.82
35879175--35879207	4	8.2	4	93	0	57	54	0	0	45	0.99
35881737--35881850	57	2.0	57	89	3	176	44	6	21	28	1.75
35887857--35887960	54	1.9	54	86	0	145	16	26	29	26	1.97
35889536--35889681	48	3.0	48	97	0	283	36	20	6	35	1.80
35898221--35898260	2	20.0	2	100	0	80	50	50	0	0	1.00
35916451--35916484	16	2.2	15	89	5	50	55	0	0	44	0.99
35920303--35920448	42	3.4	43	75	13	140	28	25	18	27	1.98
35929508--35929537	12	2.5	12	94	0	51	23	40	30	6	1.80
35935842--35935904	27	2.4	27	94	2	110	42	11	0	46	1.39
35935935--35936011	27	2.9	27	84	3	102	31	23	28	16	1.96
35936584--35936644	19	3.3	18	66	8	50	42	8	3	45	1.50
35936614--35936742	40	3.0	44	84	11	194	40	16	0	43	1.48
35936652--35936717	19	3.2	22	66	24	61	39	16	0	43	1.48
35936576--35936726	40	3.7	40	82	13	184	41	13	1	43	1.53
35936576--35936742	85	2.0	83	88	6	248	41	14	1	42	1.54
35936749--35936797	15	3.1	15	85	8	62	42	0	14	42	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35936766--35936803	18	2.1	18	90	0	58	47	0	13	39	1.42
35937463--35937526	28	2.4	28	94	5	114	48	0	10	40	1.38
35942102--35942143	22	1.9	22	85	0	57	76	7	0	16	1.00
35942242--35942285	3	15.0	3	90	4	72	65	0	2	31	1.05
35946901--35946969	26	3.0	22	66	15	57	40	27	14	17	1.88
35947102--35947134	16	2.0	17	88	5	50	27	18	3	51	1.60
35950870--35950925	28	2.0	28	92	0	94	41	17	17	23	1.90
35962096--35962229	50	2.7	50	76	3	135	24	18	26	29	1.98
35976452--35976490	20	2.0	20	90	10	62	15	23	5	56	1.59
35976700--35976839	50	2.8	49	82	5	149	25	27	19	27	1.99
35980212--35980270	30	2.0	30	83	6	75	50	10	6	32	1.62
35990620--35990652	11	3.1	11	91	8	59	27	0	39	33	1.57
35990620--35990662	21	2.0	21	86	0	59	30	0	32	37	1.58
35991141--35991193	25	2.2	24	82	3	61	18	24	20	35	1.95
35996622--35996681	30	2.0	30	90	3	93	33	6	11	48	1.66
36004597--36004626	16	1.9	15	93	6	51	13	0	6	80	0.91
36010238--36010295	20	2.8	21	71	10	57	10	24	29	36	1.88
36012229--36012280	27	1.9	27	84	7	70	32	30	3	32	1.76
36012259--36012453	27	7.3	27	75	6	130	18	24	17	38	1.93
36012285--36012439	53	2.9	54	85	1	204	19	23	18	38	1.93
36026805--36026841	9	4.1	9	92	0	65	29	10	13	45	1.77
36026894--36026924	9	3.4	9	90	0	53	38	22	12	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36027854--36028030	31	5.7	31	85	0	230	28	10	16	44	1.80
36033986--36034309	41	7.9	41	87	2	418	17	24	29	28	1.97
36034927--36034959	14	2.3	15	94	5	59	30	0	33	36	1.58
36035125--36035203	33	2.4	33	82	0	86	20	3	40	35	1.70
36038375--36038420	20	2.2	20	92	3	74	30	23	17	28	1.97
36040791--36040881	3	31.3	3	71	18	68	61	5	2	30	1.31
36042532--36042912	44	8.5	43	72	13	207	29	21	16	32	1.95
36042556--36042907	88	3.9	88	76	8	312	29	21	15	32	1.95
36042558--36042907	183	1.9	183	83	1	459	29	22	15	32	1.95
36042610--36042860	139	1.8	139	91	1	414	29	21	15	33	1.94
36056778--36056865	3	30.3	3	69	19	53	62	4	3	29	1.31
36056829--36056871	20	2.2	20	83	8	52	62	4	4	27	1.35
36056925--36056958	4	8.0	4	87	12	50	70	0	5	23	1.09
36056925--36056958	9	4.0	8	88	11	50	70	0	5	23	1.09
36056926--36056958	13	2.5	13	100	0	66	69	0	6	24	1.10
36067129--36067183	20	2.8	20	71	15	51	56	0	7	36	1.27
36067232--36067265	10	3.3	10	91	4	50	41	0	5	52	1.25
36072619--36072793	60	2.9	59	79	4	188	52	12	11	23	1.71
36080489--36080534	22	2.1	22	87	0	65	52	8	0	39	1.33
36082701--36082754	4	13.0	4	81	14	65	24	3	1	70	1.13
36083029--36083206	89	2.0	89	96	2	331	25	14	28	30	1.95
36083593--36083643	23	2.1	23	82	7	57	29	5	5	58	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36095946--36096114	87	1.9	88	90	1	268	24	21	27	26	1.99
36095946--36096134	87	2.2	88	86	0	263	24	21	26	27	1.99
36096119--36096227	50	2.2	50	79	0	119	26	22	25	25	2.00
36096327--36096579	94	2.7	95	81	3	285	28	22	25	24	1.99
36097656--36097686	4	7.8	4	92	0	53	25	3	0	70	1.02
36100221--36100270	22	2.2	24	82	7	59	60	4	10	26	1.47
36100959--36101019	18	3.4	18	72	19	56	75	0	3	21	0.94
36100972--36101019	17	2.9	16	79	11	53	77	0	4	18	0.93
36101006--36101103	29	3.5	29	79	15	93	57	3	1	38	1.21
36101017--36101122	37	2.8	36	81	16	101	55	3	0	39	1.24
36102253--36102302	18	2.8	18	81	0	73	42	40	6	12	1.67
36102294--36102328	17	2.1	17	89	5	54	45	40	14	0	1.45
36115420--36115687	138	1.9	138	87	1	394	31	21	20	27	1.98
36116155--36116190	17	2.2	17	90	5	56	44	41	13	0	1.44
36118473--36118530	3	19.3	3	100	0	116	67	0	0	32	0.91
36122594--36122646	13	3.9	13	75	18	54	18	13	0	67	1.22
36130387--36130417	16	1.9	16	100	0	62	12	9	6	70	1.31
36130404--36130489	19	4.6	19	74	14	63	19	3	4	72	1.18
36130437--36130492	21	2.8	20	83	5	69	19	5	3	71	1.21
36133198--36133280	26	3.2	25	86	6	112	16	22	21	38	1.93
36133357--36133418	24	2.6	23	80	7	61	22	25	16	35	1.94
36134031--36134056	13	2.0	13	100	0	52	23	23	30	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36146677--36146721	23	1.9	23	82	13	56	15	8	40	35	1.79
36161993--36162057	29	2.2	30	83	10	80	46	0	3	50	1.17
36168465--36168536	37	2.0	36	84	13	94	40	4	2	52	1.35
36168610--36168647	14	2.9	14	92	7	62	47	5	0	47	1.24
36190556--36190684	40	3.3	40	70	10	133	39	21	18	20	1.92
36190413--36190719	75	4.1	75	85	0	362	38	19	19	22	1.93
36194877--36194936	25	2.4	25	82	0	75	28	21	20	30	1.98
36200117--36200172	25	2.2	26	76	17	64	62	1	3	32	1.23
36200979--36201031	27	2.0	27	96	0	97	50	3	1	43	1.30
36210417--36210480	28	2.3	28	82	15	71	59	7	14	18	1.58

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