genome.fa.s5.2.7.7.80.10.50.1000.186.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  186  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)
56880844--56881573	247	2.9	249	83	10	949	44	7	9	38	1.65
56881042--56881541	244	2.1	233	87	5	696	44	6	9	39	1.64
56882937--56882991	23	2.3	24	81	9	69	50	5	1	41	1.36
56884152--56884218	34	1.9	35	87	3	100	32	5	11	49	1.64
56884186--56884238	13	3.8	13	79	18	54	39	7	9	43	1.65
56885148--56885192	17	2.4	19	82	13	58	20	2	11	66	1.33
56885535--56885685	41	4.1	39	70	20	135	35	3	0	60	1.15
56885603--56885641	15	2.6	15	100	0	78	30	5	0	64	1.15
56885554--56885681	67	1.9	68	95	3	231	35	3	0	60	1.12
56885544--56885568	11	2.3	11	100	0	50	40	8	0	52	1.31
56885584--56885621	11	3.4	11	88	3	58	36	2	0	60	1.11
56889777--56889818	2	21.0	2	85	0	57	47	4	2	45	1.36
56890274--56890323	15	3.3	15	83	8	57	38	44	10	8	1.68
56894898--56894922	11	2.3	11	100	0	50	36	24	8	32	1.84
56898161--56898196	17	2.1	17	89	5	54	19	2	11	66	1.35
56898705--56898737	12	2.5	14	90	9	52	0	15	0	84	0.61
56900709--56900751	11	4.0	11	80	14	54	58	0	2	39	1.11
56900734--56900790	28	2.0	27	93	6	96	71	0	0	28	0.86
56902523--56902642	58	2.1	58	84	3	152	42	0	2	54	1.19
56902609--56902638	14	2.2	13	94	5	51	26	0	0	73	0.84
56902523--56902657	58	2.3	57	82	5	146	42	2	2	52	1.26
56902660--56902688	6	4.8	6	100	0	58	68	13	0	17	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56902852--56902890	16	2.4	16	82	0	51	35	25	2	35	1.70
56902907--56902950	16	3.1	16	72	27	53	29	18	6	45	1.75
56907942--56907980	14	2.8	14	88	7	53	56	2	0	41	1.13
56926724--56926759	15	2.4	15	90	0	54	25	8	5	61	1.46
56926818--56926864	18	2.6	18	80	16	53	23	0	10	65	1.23
56935111--56935159	24	2.0	24	100	0	98	30	36	0	32	1.58
56935918--56935970	22	2.4	21	78	9	61	45	11	26	16	1.82
56936388--56936427	18	2.2	19	86	4	55	30	15	0	55	1.41
56945403--56945428	2	13.0	2	100	0	52	50	0	0	50	1.00
56945553--56945595	18	2.5	17	82	17	54	72	2	2	23	1.08
56946664--56946699	18	2.0	18	94	0	63	16	19	33	30	1.94
56947173--56947649	44	10.6	43	71	12	302	31	22	16	29	1.96
56947256--56947649	89	4.3	93	77	10	352	30	22	16	29	1.96
56947151--56947606	181	2.5	181	91	1	718	30	21	17	30	1.96
56947581--56948147	274	2.1	274	92	0	956	30	20	17	31	1.96
56948983--56949039	11	4.9	11	76	19	53	5	14	0	80	0.87
56948982--56949040	18	3.3	18	77	17	77	5	13	0	81	0.85
56948983--56949042	16	3.6	16	80	14	68	5	13	0	81	0.84
56948982--56949044	20	3.3	20	72	14	71	6	12	0	80	0.88
56954172--56954214	18	2.5	17	82	17	54	72	2	2	23	1.08
56954243--56954392	71	2.2	65	76	18	144	62	1	8	28	1.31
56954467--56954491	13	1.9	13	100	0	50	32	4	24	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56955221--56955246	2	13.0	2	100	0	52	50	0	0	50	1.00
56956096--56956238	57	2.4	59	87	9	202	23	25	20	30	1.99
56961953--56961977	13	1.9	13	100	0	50	32	4	24	40	1.73
56963351--56963457	41	2.6	41	89	2	162	22	18	23	35	1.96
56964922--56964985	32	2.0	32	96	0	119	64	3	3	29	1.24
56970300--56970341	21	2.0	22	85	4	59	47	14	2	35	1.57
56976303--56976332	2	15.0	2	100	0	60	50	0	0	50	1.00
56988615--56988863	105	2.4	101	78	12	258	34	16	23	26	1.95
57001803--57001836	9	3.8	9	100	0	68	58	0	32	8	1.29
57009620--57009651	14	2.3	14	94	0	55	28	25	0	46	1.53
57015912--57015936	2	12.5	2	100	0	50	0	48	0	52	1.00
57016561--57016616	9	6.2	9	75	20	55	64	0	3	32	1.11
57016568--57016686	20	6.2	19	72	15	86	57	1	5	35	1.33
57016653--57016691	20	1.9	20	84	5	51	58	0	2	38	1.12
57016698--57016727	3	10.0	3	92	0	51	0	36	0	63	0.95
57016875--57017063	21	9.6	20	73	15	94	37	7	2	52	1.43
57016937--57016994	10	5.7	10	75	20	50	36	3	5	55	1.39
57016991--57017159	19	8.9	18	70	14	65	37	5	1	55	1.30
57016991--57017149	18	8.4	19	68	14	78	37	5	1	55	1.32
57018620--57018654	17	2.1	17	88	0	52	68	2	0	28	1.04
57019507--57019532	5	5.2	5	100	0	52	23	0	57	19	1.40
57021379--57021431	26	2.0	26	81	0	61	54	13	15	16	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57023088--57023173	42	2.0	42	100	0	172	34	29	11	24	1.91
57033547--57033585	20	2.0	19	85	5	51	51	23	15	10	1.73
57041945--57041972	14	2.0	14	100	0	56	42	7	14	35	1.73
57045377--57045417	20	2.1	20	90	4	66	46	7	7	39	1.60
57045385--57045423	19	2.0	20	85	5	53	48	10	7	33	1.66
57045668--57045708	11	3.7	11	100	0	82	48	0	0	51	1.00
57046467--57046505	4	9.2	4	83	10	51	48	0	2	48	1.15
57046470--57046512	9	4.9	9	85	2	52	48	2	2	46	1.27
57046470--57046505	13	2.8	13	82	0	54	50	0	2	47	1.15
57046499--57046532	16	2.1	17	94	5	61	41	8	0	50	1.34
57049208--57049821	31	19.7	31	72	13	357	34	7	15	42	1.75
57049249--57049326	41	1.9	41	86	0	111	32	3	17	46	1.67
57049290--57049821	61	8.7	61	71	9	269	33	8	15	42	1.76
57049290--57049785	92	5.4	92	87	0	636	33	8	15	42	1.77
57052693--57052740	25	2.0	24	87	4	69	37	20	25	16	1.93
57052689--57052778	24	3.7	25	80	5	96	37	17	26	17	1.93
57052818--57052875	26	2.2	25	79	8	62	37	20	25	15	1.92
57059110--57059176	33	2.0	33	97	0	125	41	0	14	43	1.46
57060170--57060278	36	3.0	36	97	0	209	35	16	19	28	1.93
57062115--57062242	57	2.2	57	83	2	150	26	19	7	46	1.75
57070782--57070823	13	3.5	13	75	18	54	50	11	0	38	1.40
57070782--57070832	23	2.2	23	96	0	93	50	11	0	37	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57071019--57071085	35	1.9	35	96	0	125	47	8	5	37	1.59
57073958--57074090	50	2.6	51	81	2	160	35	10	28	25	1.89
57074499--57074535	17	2.2	17	90	0	56	81	0	16	2	0.81
57080466--57080509	23	1.9	23	81	9	54	59	15	18	6	1.58
57088181--57088526	96	3.6	96	84	1	451	21	17	20	40	1.92
57088451--57088606	81	1.9	80	90	5	251	17	17	22	41	1.90
57088352--57088931	177	3.3	177	92	2	950	20	17	21	41	1.91
57088628--57088783	81	1.9	81	85	5	217	19	17	21	41	1.91
57088805--57088966	81	2.0	82	85	3	220	22	19	17	40	1.92
57088904--57089040	69	2.0	69	85	2	186	20	19	18	41	1.90
57088973--57089175	96	2.1	96	84	1	255	21	19	16	42	1.89
57093543--57093667	56	2.2	56	90	2	189	41	8	13	36	1.74
57096400--57096449	11	4.6	11	77	5	57	70	0	0	30	0.88
57096408--57096449	21	2.0	21	85	0	57	69	0	0	30	0.89
57096400--57096467	32	2.2	32	94	2	120	67	0	1	30	0.99
57096501--57096551	22	2.3	21	87	9	75	35	0	33	31	1.58
57096504--57096602	52	1.9	52	95	0	180	38	0	32	29	1.58
57096556--57096602	22	2.1	22	96	0	85	40	0	34	25	1.56
57096734--57096828	42	2.3	40	80	10	104	16	32	29	21	1.95
57108890--57108990	41	2.5	41	77	1	105	30	19	20	28	1.97
57108797--57109089	156	1.9	156	89	0	460	30	20	20	29	1.97
57113091--57113249	26	6.5	25	65	23	72	42	0	3	52	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57113072--57113361	120	2.4	121	94	2	512	43	0	3	52	1.24
57113237--57113288	22	2.4	21	79	17	54	38	0	5	55	1.24
57117653--57117694	14	3.2	13	83	12	50	19	14	9	57	1.64
57117719--57117788	23	3.0	22	78	15	61	30	12	10	47	1.75
57117740--57117803	25	2.5	26	84	5	85	29	14	7	48	1.71
57117742--57117791	12	4.1	12	82	5	64	30	16	8	46	1.75
57119365--57119410	23	2.0	23	86	0	65	28	34	10	26	1.90
57121682--57121708	2	13.5	2	100	0	54	51	0	0	48	1.00
57122678--57123156	114	4.2	114	88	2	696	23	21	26	28	1.99
57122678--57123148	226	2.1	228	88	2	707	23	22	26	28	1.99

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