genome.fa.s5.2.7.7.80.10.50.1000.151.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  151  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)
45925415--45925917	54	9.3	54	73	3	287	25	20	16	38	1.93
45925410--45925917	108	4.7	109	73	7	390	25	20	16	38	1.93
45928526--45928843	107	3.0	107	93	0	537	30	18	18	32	1.95
45932811--45932844	13	2.5	13	95	4	59	0	5	2	91	0.51
45948492--45948526	15	2.3	15	90	0	52	51	14	20	14	1.76
45950090--45950147	29	2.0	29	100	0	116	17	27	10	44	1.81
45950094--45950155	29	2.1	29	91	5	99	16	29	11	43	1.82
45955360--45955397	18	2.1	18	85	9	51	52	5	26	15	1.64
45963179--45963327	22	6.8	22	90	0	217	26	26	14	32	1.94
45966505--45966762	81	3.1	81	60	27	174	42	12	10	34	1.78
45966423--45966771	172	2.0	172	98	0	680	41	12	12	34	1.80
45966736--45967576	418	2.0	418	86	2	1163	38	19	12	29	1.89
45970480--45970532	25	2.1	25	83	13	65	54	3	1	39	1.29
45970905--45970943	14	2.6	15	84	12	53	10	0	33	56	1.33
45970938--45971004	21	3.2	21	60	0	53	29	0	22	47	1.51
45971056--45971165	34	3.3	34	87	5	118	44	0	11	43	1.41
45971056--45971187	68	1.9	68	80	6	151	39	0	15	45	1.46
45971222--45971549	125	2.6	126	90	1	498	39	16	16	28	1.90
45972735--45972778	21	2.1	21	91	0	70	2	15	52	29	1.55
45973030--45973065	18	2.0	18	88	0	54	41	8	25	25	1.83
45975480--45975508	6	4.8	6	100	0	58	82	0	0	17	0.66
45996032--45996074	22	1.9	23	90	4	70	60	0	4	34	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45997813--45997895	41	2.0	41	100	0	166	43	9	4	42	1.58
46000809--46001086	143	1.9	144	84	2	371	33	17	24	25	1.96
46006539--46006589	27	1.9	26	88	4	75	74	7	0	17	1.05
46020398--46020477	29	2.8	29	78	14	101	50	8	21	20	1.75
46027364--46027540	88	2.0	88	100	0	354	25	18	13	42	1.87
46029644--46029691	24	2.1	22	84	7	60	31	10	25	33	1.89
46030407--46030474	31	2.2	31	100	0	136	41	11	0	47	1.40
46030841--46030879	20	1.9	21	84	5	53	35	7	2	53	1.43
46045748--46045806	3	20.3	3	76	13	61	33	1	1	62	1.15
46045748--46045806	17	3.6	17	82	8	70	33	1	1	62	1.15
46045876--46045960	36	2.4	35	75	16	86	34	2	2	61	1.22
46055988--46056039	25	2.1	25	85	7	70	76	0	21	1	0.87
46055998--46056042	18	2.5	19	82	7	58	73	0	26	0	0.84
46057200--46057385	88	2.1	88	86	0	264	24	24	25	25	2.00
46057566--46057831	50	5.3	50	70	0	201	28	19	25	26	1.98
46057656--46057805	49	3.0	49	69	4	140	30	20	22	26	1.98
46057574--46057870	99	3.0	99	88	2	425	28	20	24	26	1.99
46059338--46059381	3	14.7	3	81	9	54	36	4	0	59	1.18
46059338--46059382	15	3.1	14	87	6	63	37	4	0	57	1.19
46065348--46065496	37	3.8	38	84	10	167	28	21	12	36	1.90
46065349--46065460	37	3.0	37	93	0	188	26	20	14	38	1.91
46067106--46067156	25	2.0	25	96	0	93	25	21	21	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46070094--46070130	18	2.1	18	90	10	58	62	5	0	32	1.18
46071615--46072109	44	11.4	44	70	10	212	28	24	18	27	1.98
46071589--46072131	218	2.5	217	89	1	802	28	25	18	28	1.98
46072100--46072747	128	5.0	128	90	2	996	25	24	19	30	1.98
46072118--46072747	257	2.5	256	90	2	987	25	24	18	30	1.98
46074126--46074190	7	8.7	7	88	11	94	13	12	0	73	1.09
46074125--46074191	16	4.4	15	87	12	93	13	11	0	74	1.07
46074124--46074190	22	2.9	23	93	6	118	13	11	0	74	1.07
46078126--46078249	46	2.8	45	90	3	189	28	21	16	33	1.95
46078213--46078291	37	2.1	37	81	4	88	26	24	12	36	1.91
46078857--46078894	2	19.0	2	100	0	76	50	0	0	50	1.00
46079658--46079694	15	2.5	14	84	16	56	56	10	0	32	1.34
46081459--46081495	18	2.1	18	90	10	58	62	5	0	32	1.18
46090516--46090552	16	2.3	16	95	0	65	37	13	29	18	1.90
46095190--46095378	91	2.1	90	86	3	254	49	12	17	21	1.79
46100619--46100716	49	2.0	49	90	4	153	41	14	10	33	1.79
46103827--46104235	125	3.3	125	90	1	624	33	17	19	29	1.95
46106824--46106859	14	2.6	14	86	0	54	38	16	22	22	1.93
46107337--46107457	49	2.5	49	98	0	233	42	9	2	44	1.51
46107855--46107897	18	2.4	18	92	0	68	44	6	27	20	1.77
46109691--46109788	11	9.3	11	69	16	73	43	2	30	23	1.65
46109728--46109788	22	2.8	22	85	9	81	42	1	32	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46109726--46109788	33	1.9	33	87	12	94	42	1	31	23	1.64
46109747--46109800	22	2.4	22	84	3	63	48	1	27	22	1.61
46110470--46110546	30	2.6	29	78	10	75	49	3	1	45	1.28
46126324--46126353	13	2.3	13	94	0	51	43	3	0	53	1.17
46128544--46128596	23	2.2	24	86	3	72	35	3	7	52	1.48
46153033--46153072	21	1.9	21	84	0	53	35	5	20	40	1.74
46154203--46154273	24	3.0	24	89	0	106	38	18	5	38	1.74
46154420--46154483	30	2.1	30	85	5	83	37	20	26	15	1.92
46160040--46160176	17	7.5	17	65	13	76	33	3	13	49	1.59
46160059--46160122	20	3.3	20	68	12	62	34	6	14	45	1.70
46160036--46160185	37	4.1	37	92	0	246	34	4	14	47	1.62
46160184--46160223	9	4.4	9	90	0	62	25	7	27	40	1.82
46166564--46166763	10	20.4	9	66	19	66	34	4	2	59	1.29
46169435--46169490	16	3.6	16	76	16	64	46	1	0	51	1.11
46176547--46176585	14	2.8	14	88	0	60	41	30	2	25	1.69
46177543--46177588	20	2.3	20	85	3	58	13	13	0	73	1.09
46177652--46177714	30	2.1	30	85	5	83	20	7	4	66	1.36
46183283--46183363	20	4.1	20	69	22	53	18	24	18	38	1.93
46189018--46189055	8	4.8	8	84	9	51	34	2	0	63	1.09
46189027--46189056	9	3.4	9	95	4	53	30	0	0	70	0.88
46189113--46189166	19	2.8	19	76	15	58	40	5	0	53	1.24
46191565--46191598	16	2.2	15	89	5	50	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46192084--46192110	14	1.9	14	100	0	54	44	0	3	51	1.19
46192435--46192462	6	4.7	6	100	0	56	50	0	0	50	1.00
46193440--46193471	2	16.0	2	100	0	64	50	0	50	0	1.00
46195585--46195626	21	2.0	21	86	9	59	50	0	4	45	1.23
46195807--46195843	19	2.0	19	89	5	58	48	0	0	51	1.00
46204701--46204809	41	2.6	41	91	1	173	25	22	30	22	1.99
46206998--46207040	5	8.4	5	84	5	59	41	0	18	39	1.51
46206998--46207040	21	2.1	20	86	4	59	41	0	18	39	1.51
46207355--46207417	25	2.6	24	82	5	81	19	26	19	34	1.95
46207354--46207462	25	4.5	24	72	12	71	20	27	20	32	1.97
46207562--46207668	48	2.2	50	84	5	146	18	27	22	31	1.97
46213954--46214020	25	2.8	24	77	4	71	20	28	19	31	1.97
46214091--46214180	25	3.5	25	64	20	60	16	21	21	41	1.91
46218093--46218139	23	2.0	23	95	0	85	34	29	8	27	1.87
46218777--46218853	35	2.1	36	92	4	129	25	9	14	50	1.72
46223466--46223506	22	1.9	21	94	0	64	12	12	17	58	1.63
46226591--46226625	12	2.9	12	91	0	52	54	11	0	34	1.37
46227216--46227260	6	7.8	6	80	9	58	0	20	0	80	0.72
46227205--46227260	16	3.3	16	87	12	69	1	19	0	78	0.84
46227215--46227264	22	2.3	21	86	6	73	0	20	0	80	0.72
46233043--46233073	13	2.4	13	94	0	53	54	12	0	32	1.38
46233286--46233343	30	1.9	30	89	0	89	31	24	3	41	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46234889--46234915	14	1.9	14	100	0	54	81	0	11	7	0.87
46234877--46234915	14	2.7	15	84	8	53	79	2	10	7	1.02
46238245--46238319	7	10.6	7	97	2	141	45	40	0	14	1.45
46238659--46238943	84	3.4	85	78	4	263	33	14	19	32	1.92
46264529--46264615	29	3.0	30	71	17	92	35	4	0	59	1.18
46275016--46275061	23	2.0	23	95	0	83	30	19	30	19	1.97
46275534--46275563	16	1.9	15	93	6	51	23	0	10	66	1.21
46275694--46275918	112	2.0	114	91	2	364	36	11	13	38	1.81
46279728--46279894	57	2.9	57	83	7	185	43	1	3	51	1.29
46279753--46279894	57	2.5	57	82	4	189	45	1	3	50	1.27

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