genome.fa.s2.2.7.7.80.10.50.1000.185.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  185  of  206  ( 24623 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)
56365748--56365832	41	2.1	41	100	0	170	44	4	0	50	1.22
56365765--56365803	17	2.4	17	86	4	53	46	0	0	53	1.00
56369847--56370028	91	2.0	91	82	2	222	28	12	24	34	1.92
56371268--56371337	30	2.3	30	90	0	104	34	4	12	48	1.61
56375349--56375433	13	6.5	13	81	0	107	32	5	28	32	1.81
56375342--56375421	26	3.1	26	96	0	142	30	7	31	31	1.85
56375627--56375672	24	1.9	24	86	0	65	52	2	0	45	1.13
56378878--56378967	30	2.9	30	90	6	126	33	6	10	50	1.62
56378878--56378981	30	3.3	30	85	5	118	31	5	12	50	1.64
56379106--56379223	41	2.8	42	80	6	132	31	17	24	26	1.97
56382835--56382972	42	3.3	42	87	3	172	31	20	20	28	1.97
56391332--56391371	20	2.0	20	90	0	62	27	10	12	50	1.72
56391317--56391383	34	1.9	35	90	3	109	31	8	13	46	1.74
56392244--56392287	22	2.0	22	81	4	52	54	0	13	31	1.39
56399220--56399354	43	3.1	43	89	2	191	33	25	16	24	1.96
56399472--56399556	31	2.8	31	89	1	127	44	18	8	28	1.78
56399478--56399575	31	3.2	31	86	2	108	45	16	7	30	1.74
56401841--56401944	6	17.3	6	94	0	172	32	2	0	63	1.16
56401818--56401944	9	14.1	9	85	3	175	30	5	0	62	1.23
56401818--56401944	12	10.6	12	88	3	175	30	5	0	62	1.23
56405321--56405359	2	20.0	2	94	5	71	51	0	0	48	1.00
56408396--56408424	8	3.6	8	100	0	58	24	13	27	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56408512--56408631	23	5.3	23	96	2	215	19	21	26	32	1.97
56408511--56408631	45	2.6	45	94	2	215	19	21	26	32	1.97
56422529--56422586	21	2.8	21	91	0	89	31	37	10	20	1.86
56424386--56424433	20	2.4	19	80	10	51	20	6	6	66	1.36
56437591--56437626	18	2.0	18	89	10	56	61	2	2	33	1.25
56438548--56438665	10	12.7	10	69	17	51	30	3	1	64	1.20
56447676--56447729	27	2.0	27	96	0	99	38	3	3	53	1.36
56448987--56449040	5	10.8	5	97	0	99	40	16	0	42	1.48
56451683--56451747	34	1.9	34	84	6	87	32	16	18	32	1.94
56451994--56452043	22	2.2	22	85	3	64	36	24	10	30	1.88
56454975--56455023	25	2.0	25	84	8	64	36	16	28	18	1.92
56458512--56458566	18	3.2	18	75	17	62	76	5	12	5	1.13
56473357--56473408	16	3.2	16	88	0	77	30	0	34	34	1.58
56473580--56473621	15	2.7	16	82	14	52	52	2	0	45	1.13
56473589--56473630	15	2.9	15	82	10	52	52	0	0	47	1.00
56473615--56473802	61	3.1	61	67	11	152	48	6	2	42	1.40
56473720--56473754	18	2.0	18	88	5	54	54	0	0	45	0.99
56473578--56473822	120	2.0	121	93	0	420	49	5	2	42	1.38
56473628--56473815	57	3.1	60	66	22	149	48	6	2	41	1.44
56475346--56475397	25	2.1	25	96	0	95	44	15	26	13	1.84
56475498--56475768	137	2.0	138	91	2	438	46	13	14	26	1.80
56480507--56480552	18	2.6	18	86	3	58	43	0	2	54	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56480700--56480810	45	2.5	45	88	5	156	35	29	4	30	1.77
56480790--56480858	16	4.3	16	96	0	129	20	34	5	39	1.76
56484756--56484809	19	2.9	17	79	15	54	42	0	3	53	1.18
56487158--56487438	107	2.6	107	90	3	431	38	17	7	37	1.78
56487601--56487759	42	3.7	43	87	2	223	25	28	18	27	1.98
56487597--56487773	42	4.2	43	84	5	200	27	29	17	24	1.97
56491671--56491721	18	2.7	18	84	6	57	41	17	17	23	1.90
56492562--56492767	109	1.9	110	88	1	315	36	15	8	39	1.77
56492752--56492903	60	2.5	60	78	4	146	21	12	11	54	1.69
56493377--56493427	3	16.7	3	95	4	93	66	0	1	31	1.03
56493918--56493977	26	2.3	26	82	8	77	51	0	8	40	1.32
56493933--56493989	26	2.2	26	81	6	71	56	0	7	36	1.27
56494250--56494284	16	2.2	16	89	0	52	57	0	0	42	0.99
56494277--56494304	6	4.7	6	100	0	56	82	0	0	17	0.68
56496071--56496107	16	2.3	16	100	0	74	21	21	13	43	1.87
56499981--56500026	23	2.0	23	91	8	76	30	8	21	39	1.84
56500917--56500964	21	2.3	21	74	0	51	39	6	10	43	1.64
56503004--56503251	46	5.5	46	95	1	430	33	15	22	29	1.94
56506182--56506268	41	2.1	41	82	0	102	19	18	28	33	1.95
56510643--56510678	11	3.3	11	100	0	72	58	8	16	16	1.61
56520085--56520128	21	2.0	20	83	12	52	52	2	6	38	1.41
56521119--56521156	19	2.0	19	89	0	58	21	5	28	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56521722--56522286	281	2.0	281	87	2	803	37	17	23	21	1.94
56534476--56534524	25	2.0	25	84	15	66	40	6	6	46	1.53
56534758--56534788	10	3.1	10	100	0	62	32	9	0	58	1.31
56542607--56542669	30	2.1	30	93	0	108	22	3	17	57	1.54
56552060--56552090	11	2.7	12	95	5	55	45	6	0	48	1.28
56552060--56552154	10	9.7	10	71	23	53	40	3	0	56	1.15
56552051--56552171	38	3.2	38	76	14	131	37	3	0	59	1.14
56552107--56552170	31	2.1	30	88	5	94	35	3	0	60	1.12
56552044--56552178	38	3.6	38	68	21	104	35	2	0	61	1.11
56556454--56556485	6	5.3	6	96	0	55	31	50	3	15	1.60
56577064--56577104	21	2.0	21	85	0	55	46	0	4	48	1.23
56577112--56577219	57	1.9	56	94	1	189	52	3	8	35	1.49
56577300--56577371	20	3.6	20	81	7	92	20	15	5	58	1.57
56577522--56577566	20	2.2	20	88	7	65	20	11	4	64	1.42
56577918--56577969	24	2.2	24	85	0	68	53	9	3	32	1.51
56578127--56578213	41	2.2	40	82	2	102	19	14	11	54	1.71
56578142--56578211	19	3.5	19	70	16	61	15	14	12	57	1.66
56578510--56578570	19	3.2	19	76	15	72	21	13	1	63	1.37
56578510--56578577	18	3.6	18	75	9	64	20	13	4	61	1.48
56596294--56596328	5	6.8	5	96	3	61	42	0	0	57	0.99
56596347--56596415	4	17.0	4	75	19	63	72	2	23	1	1.06
56596345--56596414	33	2.1	34	89	2	106	74	2	21	1	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56596347--56596426	20	4.0	20	79	12	74	70	2	26	1	1.08
56600639--56600780	41	3.4	42	77	8	139	21	19	28	30	1.97
56600942--56600973	16	1.9	17	93	6	57	40	0	21	37	1.54
56614983--56615228	121	2.0	121	87	0	350	28	26	9	35	1.87
56616761--56616800	21	2.0	20	85	5	53	22	2	32	42	1.67
56619486--56619516	15	2.1	15	100	0	62	25	19	12	41	1.87
56632834--56633307	236	2.0	236	99	0	939	40	11	18	29	1.86
56634874--56634944	15	4.6	15	72	17	56	47	1	2	47	1.25
56635133--56635197	21	3.1	21	100	0	130	38	9	13	38	1.77
56635132--56635208	21	3.8	19	91	6	109	37	9	15	37	1.79
56635145--56635231	21	4.0	23	88	8	80	37	6	16	39	1.75
56635187--56635231	23	2.0	22	91	4	72	37	4	17	40	1.70
56635197--56635241	23	2.0	23	86	4	65	33	4	15	46	1.66
56635405--56635443	19	1.9	19	85	10	51	15	12	5	66	1.41
56635480--56635521	18	2.3	19	76	12	52	59	30	4	4	1.39
56636605--56636686	3	27.7	3	82	7	105	31	3	1	63	1.19
56636696--56636736	21	2.0	21	90	0	64	36	2	2	58	1.24
56637149--56637182	2	17.0	2	100	0	68	50	0	0	50	1.00
56637046--56637167	51	2.4	50	78	8	124	31	6	5	55	1.49
56645886--56646029	44	3.3	44	63	14	107	27	31	23	18	1.97
56646106--56646249	44	3.3	44	61	7	103	25	24	26	24	2.00
56645789--56646282	88	5.6	88	87	1	668	28	27	24	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56646282--56646657	44	8.7	44	83	6	446	27	18	25	28	1.98
56646321--56646657	126	2.6	129	89	4	502	27	18	26	27	1.98
56646301--56646611	170	1.8	170	89	2	491	28	16	26	28	1.97
56646959--56647070	44	2.6	43	81	4	134	32	18	16	32	1.94
56647500--56647543	21	2.1	21	100	0	88	38	9	13	38	1.77
56647499--56647554	21	2.8	19	87	10	85	37	8	16	37	1.80
56647512--56647577	23	3.0	23	82	12	77	37	6	16	39	1.74
56647543--56647587	23	2.0	23	86	4	65	33	4	15	46	1.66
56647748--56647786	19	2.0	21	85	10	55	15	10	5	69	1.34
56647991--56648045	15	3.7	15	79	9	60	32	0	1	65	1.03

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