genome.fa.s5.2.7.7.80.10.50.1000.165.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  165  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)
50342119--50342266	75	2.0	76	94	1	262	27	0	25	47	1.52
50342222--50342323	18	5.8	18	94	3	172	29	0	20	50	1.49
50342222--50342323	35	2.9	36	92	4	172	29	0	20	50	1.49
50342222--50342323	53	1.9	53	95	0	186	29	0	20	50	1.49
50342319--50342382	25	2.5	26	87	2	103	37	12	1	48	1.51
50342791--50342825	18	1.9	18	88	0	52	31	8	34	25	1.86
50344584--50344649	10	6.5	10	71	3	51	65	0	0	34	0.93
50344584--50344649	31	2.2	30	97	2	123	65	0	0	34	0.93
50344650--50344762	51	2.2	51	95	0	199	41	0	29	29	1.56
50344734--50344784	22	2.3	22	96	0	93	39	0	31	29	1.57
50347149--50347190	19	2.1	19	83	16	50	50	0	4	45	1.23
50347443--50347469	11	2.5	11	100	0	54	25	29	0	44	1.54
50347928--50347979	27	1.9	27	84	0	68	42	1	9	46	1.47
50350641--50350777	19	6.7	20	69	17	77	59	2	4	34	1.30
50350718--50350758	21	2.0	21	85	9	57	51	0	7	41	1.30
50355273--50355336	29	2.2	30	86	8	87	43	1	9	45	1.45
50356939--50356992	28	1.9	28	81	7	65	51	11	16	20	1.74
50358368--50358421	26	2.1	25	86	6	72	77	0	9	12	0.98
50363128--50363337	33	6.2	34	72	11	146	29	23	15	31	1.95
50363200--50363389	101	1.9	101	88	2	292	28	22	16	33	1.95
50365329--50365415	11	8.1	11	68	14	56	63	4	0	32	1.15
50365331--50365415	32	2.7	32	98	0	161	62	4	0	32	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50369651--50369708	16	3.6	16	77	9	55	77	5	13	3	1.07
50369667--50369708	7	6.5	6	91	5	57	78	4	14	2	1.01
50369663--50369713	27	1.9	27	88	11	79	78	5	11	3	1.06
50369646--50369716	27	2.6	27	80	10	74	76	4	12	7	1.14
50384463--50384598	67	2.0	67	100	0	272	28	24	13	33	1.93
50397697--50398210	138	3.8	136	80	4	529	30	23	17	27	1.97
50398345--50398453	17	6.4	17	78	0	119	35	12	14	36	1.85
50408269--50408313	20	2.3	19	85	7	63	75	4	0	20	0.97
50409895--50409988	43	2.2	43	96	0	170	47	17	6	28	1.71
50413098--50413238	24	5.7	26	69	9	98	15	26	22	35	1.94
50413108--50413229	49	2.5	50	81	2	131	16	26	22	35	1.95
50419966--50420015	21	2.5	20	83	3	64	24	20	12	44	1.85
50423125--50423967	70	12.2	70	75	7	243	26	18	23	30	1.98
50423215--50423661	202	2.2	208	86	4	602	29	20	22	28	1.98
50423144--50424044	140	6.5	140	74	6	557	27	18	22	30	1.98
50423229--50423911	210	3.3	205	81	8	674	27	18	22	30	1.98
50423229--50424039	210	3.9	209	78	8	647	27	19	22	30	1.98
50423411--50424030	70	8.9	70	76	6	387	27	18	21	32	1.97
50426853--50426890	20	1.9	20	84	10	51	73	2	7	15	1.17
50440417--50440487	33	2.2	33	92	0	115	33	12	12	40	1.81
50450128--50450214	45	1.9	45	88	0	129	48	10	17	24	1.78
50451372--50451424	23	2.3	23	80	3	61	28	3	30	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50452481--50452576	28	3.4	28	72	2	77	31	18	14	35	1.91
50454147--50454195	2	24.5	2	100	0	98	0	0	48	51	1.00
50454754--50454811	26	2.3	26	84	3	73	20	13	34	31	1.92
50460507--50460539	17	1.9	17	93	0	57	36	0	3	60	1.12
50462618--50462799	75	2.5	75	84	4	219	41	8	6	43	1.60
50464179--50464348	85	2.0	85	82	0	205	37	20	15	27	1.93
50468171--50468219	23	2.2	22	85	3	62	12	2	12	73	1.18
50468183--50468231	17	2.9	16	80	14	55	12	0	14	73	1.10
50468183--50468230	11	4.3	11	76	12	53	12	0	12	75	1.06
50473344--50473542	40	5.0	40	83	1	247	20	29	16	33	1.94
50473399--50473464	20	3.3	20	64	8	53	15	31	18	34	1.92
50473345--50473582	80	3.0	79	80	6	248	20	28	15	34	1.94
50479684--50479856	85	2.0	85	96	0	319	32	21	23	21	1.98
50481202--50481234	2	16.5	2	100	0	66	51	0	0	48	1.00
50495565--50495613	25	1.9	26	91	4	82	42	0	2	55	1.11
50499118--50499157	18	2.2	18	86	0	53	20	27	25	27	1.99
50499148--50499244	50	1.9	50	93	0	167	23	27	21	26	1.99
50501844--50501882	17	2.2	17	86	9	51	43	2	0	53	1.14
50501766--50501939	93	1.9	93	85	4	244	48	2	4	44	1.34
50503196--50503245	22	2.2	22	85	7	73	48	0	2	50	1.12
50514177--50514226	21	2.3	23	93	6	86	22	8	8	62	1.49
50522811--50522869	30	2.0	31	86	6	86	44	0	35	20	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50531658--50531929	69	3.9	69	79	3	235	37	22	22	18	1.94
50541691--50541723	14	2.3	15	89	5	50	27	15	33	24	1.95
50541813--50541852	21	1.9	21	89	0	62	77	0	20	2	0.88
50541803--50541858	6	8.8	6	77	14	51	78	0	19	1	0.84
50543262--50544276	50	20.3	50	81	1	1104	31	21	20	26	1.98
50543263--50544240	100	9.8	100	92	0	1501	31	21	20	26	1.98
50546247--50546282	12	3.0	12	91	0	54	33	5	2	58	1.36
50547481--50547701	80	2.7	81	93	4	367	49	13	7	30	1.68
50547481--50547701	82	2.7	81	93	3	367	49	13	7	30	1.68
50548013--50548042	11	2.6	11	94	5	51	60	0	3	36	1.14
50554222--50554258	9	4.1	9	85	0	56	43	13	13	29	1.82
50556472--50556504	11	3.0	11	91	8	50	48	0	6	45	1.27
50558903--50558949	22	2.2	20	85	7	58	55	2	0	42	1.12
50559495--50559527	2	16.5	2	100	0	66	48	0	0	51	1.00
50560054--50560089	16	2.3	16	90	4	56	44	0	2	52	1.15
50561835--50565081	434	7.6	433	82	5	3754	35	13	15	35	1.87
50566567--50566613	22	2.0	23	88	8	69	21	6	0	72	1.07
50574392--50575434	94	11.3	94	82	4	1057	33	17	21	27	1.96
50574560--50574705	49	3.2	44	69	20	120	32	19	21	26	1.97
50574582--50574739	49	3.3	48	70	20	143	31	18	22	27	1.97
50574392--50575433	186	5.6	187	78	6	1059	33	17	21	27	1.96
50575238--50575488	94	2.7	94	83	1	252	34	16	21	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50575713--50575742	5	6.0	5	100	0	60	60	40	0	0	0.97
50577119--50577143	8	3.1	8	100	0	50	12	0	0	88	0.53
50580430--50580515	3	29.0	3	82	2	102	63	3	3	29	1.27
50581999--50582140	50	2.8	50	76	0	140	27	20	22	29	1.98
50582000--50582324	172	1.9	172	82	5	415	24	20	24	29	1.99
50582360--50582692	44	7.6	43	68	16	184	27	25	18	27	1.98
50582349--50582713	132	2.8	131	90	2	579	26	25	18	29	1.98
50584078--50584147	9	7.9	9	79	10	74	0	17	0	82	0.66
50584081--50584147	15	3.8	18	80	15	86	0	17	0	82	0.68
50584078--50584147	18	3.8	19	83	7	83	0	17	0	82	0.66
50584079--50584157	33	2.5	31	86	8	90	1	15	1	82	0.80
50586994--50587045	19	2.7	20	82	5	63	46	11	17	25	1.81
50589191--50589243	3	17.7	3	80	0	52	62	1	5	30	1.29
50591686--50593423	434	4.0	433	85	2	2157	35	14	15	35	1.88
50595608--50595689	37	2.3	35	79	10	92	30	4	3	60	1.34
50598778--50598839	31	2.0	31	83	3	79	53	3	8	35	1.47
50602846--50602902	23	2.5	24	75	16	66	45	0	10	43	1.38
50606170--50606214	21	2.2	21	84	7	58	68	4	4	22	1.25
50606191--50606243	27	2.0	27	82	14	65	66	3	1	28	1.20
50607634--50607696	26	2.5	26	82	12	78	61	4	4	28	1.36
50607711--50607735	13	1.9	13	100	0	50	56	4	0	40	1.18
50607829--50607888	3	20.3	3	77	16	63	63	1	1	33	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50609116--50609176	7	8.4	7	77	13	52	39	0	0	60	0.97
50609112--50609188	30	2.6	29	82	15	88	38	0	0	61	0.96
50609121--50609185	14	4.6	14	71	9	51	38	0	0	61	0.96
50609108--50609188	15	5.3	15	68	20	53	40	0	0	59	0.98
50609929--50609970	2	21.0	2	100	0	84	50	0	0	50	1.00
50610947--50611018	36	2.0	35	84	10	92	55	1	4	38	1.28
50610952--50611035	9	9.2	9	71	18	50	60	1	3	34	1.21
50610987--50611033	17	2.6	18	81	18	62	63	0	4	31	1.13
50616133--50616198	32	2.1	32	100	0	132	25	13	15	45	1.83
50619930--50619978	25	2.0	25	84	8	64	40	0	6	53	1.26

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