genome.fa.s8.2.7.7.80.10.50.1000.172.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  172  of  190  ( 22705 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)
50050635--50050818	82	2.3	79	88	7	268	23	26	20	29	1.98
50050679--50050818	41	3.4	41	95	0	253	24	25	20	30	1.99
50051039--50051083	2	22.5	2	100	0	90	48	0	0	51	1.00
50051435--50051468	2	17.0	2	90	0	50	44	2	0	52	1.16
50053652--50053710	3	19.7	3	100	0	118	32	0	0	67	0.91
50055366--50055401	18	2.0	18	94	0	63	16	25	11	47	1.79
50056986--50057148	43	3.8	43	81	1	211	21	15	31	31	1.95
50058661--50058706	20	2.3	20	92	0	74	28	4	15	52	1.61
50063226--50063277	20	2.6	20	81	0	59	30	3	13	51	1.58
50069201--50069254	6	9.0	6	87	0	54	29	33	24	12	1.92
50069201--50069254	18	3.0	18	86	0	72	29	33	24	12	1.92
50071493--50071530	14	2.8	13	84	7	58	7	26	15	50	1.72
50071503--50071552	22	2.3	22	89	0	73	8	24	14	54	1.66
50071536--50071627	36	2.4	36	84	12	114	23	14	19	42	1.88
50071543--50071627	39	2.3	36	89	6	125	25	14	20	40	1.90
50072839--50072960	60	2.0	60	98	0	235	28	20	13	36	1.91
50075819--50075963	45	3.2	45	71	13	145	28	24	27	20	1.99
50075927--50075996	31	2.3	31	97	0	131	28	25	21	24	1.99
50076015--50076130	44	2.6	44	90	0	187	29	20	25	25	1.99
50076015--50076165	44	3.4	44	84	1	160	29	19	23	26	1.98
50076207--50076397	88	2.2	88	92	1	312	26	20	26	25	1.99
50076233--50076367	44	3.1	44	66	4	128	25	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50076226--50076433	88	2.4	87	85	4	283	25	21	26	26	1.99
50078122--50078165	3	14.7	3	100	0	88	34	0	0	65	0.93
50078268--50078507	6	40.8	6	94	4	337	33	11	0	55	1.35
50078506--50078671	82	2.0	82	98	0	287	22	15	12	50	1.76
50080388--50080428	21	1.9	21	85	14	57	56	0	2	41	1.13
50080563--50080588	2	13.0	2	100	0	52	50	0	0	50	1.00
50084469--50084507	12	3.2	12	81	3	51	20	10	0	69	1.17
50084605--50084637	12	2.8	12	90	0	57	30	3	0	66	1.06
50090216--50090424	115	1.8	115	96	0	391	36	24	12	26	1.91
50094710--50094752	5	9.2	5	80	14	56	62	2	0	34	1.08
50094710--50094753	15	3.1	14	90	9	63	63	2	0	34	1.07
50097380--50097426	18	2.5	19	86	3	60	61	4	0	34	1.15
50097447--50098075	221	3.0	205	82	7	808	45	11	9	34	1.72
50097907--50097952	21	2.1	22	84	4	58	65	2	4	28	1.23
50098506--50098552	17	2.6	18	83	16	53	34	0	4	61	1.15
50098507--50098564	21	3.1	18	81	18	57	36	0	3	60	1.14
50099631--50099695	11	5.8	12	82	15	77	24	29	4	41	1.75
50101300--50101523	110	2.1	109	96	2	416	44	11	16	27	1.82
50102106--50102547	237	1.9	237	85	0	625	33	17	20	29	1.95
50103784--50103823	21	1.9	21	85	10	55	55	0	5	40	1.22
50107538--50107615	14	5.1	14	68	24	50	33	7	14	44	1.73
50107546--50107612	34	1.9	35	93	3	118	31	7	13	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50107561--50107600	20	2.0	20	90	0	62	27	10	12	50	1.72
50108221--50108297	29	2.6	29	83	4	91	46	14	14	24	1.81
50115895--50116163	43	6.4	42	84	7	325	30	20	23	26	1.98
50115914--50116163	126	2.0	126	87	6	364	30	19	23	26	1.98
50116611--50116679	21	3.3	21	95	0	120	1	43	18	36	1.60
50119359--50119410	27	1.9	27	84	0	68	48	9	0	42	1.36
50119810--50119853	18	2.5	18	85	3	54	36	38	0	25	1.56
50122144--50122383	41	5.9	40	79	3	255	33	23	25	17	1.96
50122183--50122382	82	2.4	82	95	0	364	34	23	25	17	1.96
50131036--50131101	33	2.0	33	100	0	132	21	24	15	39	1.91
50133318--50133535	119	1.8	119	90	0	355	21	25	11	41	1.87
50133320--50133519	30	6.7	30	75	5	138	22	24	12	42	1.87
50133379--50133535	30	5.3	29	74	11	104	23	24	10	41	1.86
50157977--50158031	3	18.3	3	100	0	110	67	0	0	32	0.91
50167384--50167417	3	11.3	3	100	0	68	67	0	0	32	0.91
50169559--50169594	15	2.5	14	86	8	54	44	0	8	47	1.33
50176834--50176864	2	15.5	2	100	0	62	48	0	0	51	1.00
50177890--50177924	14	2.6	14	90	4	54	65	0	2	31	1.07
50181340--50181406	26	2.6	26	88	4	100	43	8	1	46	1.44
50181396--50181433	18	2.1	19	85	5	51	76	15	2	5	1.08
50181465--50181571	27	4.0	27	96	0	169	26	28	29	14	1.95
50181857--50181894	3	12.7	3	100	0	76	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50181872--50182017	61	2.4	63	76	16	153	34	0	9	54	1.38
50182633--50182669	18	2.1	18	89	0	56	35	5	43	16	1.71
50185282--50185361	27	3.0	27	94	0	133	13	30	28	27	1.94
50185417--50185486	29	2.5	28	90	4	106	50	1	8	40	1.42
50185523--50186130	152	4.0	154	86	5	771	51	7	10	31	1.63
50194821--50194895	37	2.0	37	94	5	134	53	16	0	30	1.43
50195649--50195686	18	2.2	18	86	13	53	44	0	5	50	1.24
50196116--50196152	19	1.9	19	88	0	56	51	10	2	35	1.51
50197120--50197247	42	3.0	42	88	0	184	23	21	22	32	1.98
50197628--50197678	21	2.4	21	93	0	84	1	47	17	33	1.59
50202465--50202503	7	5.6	7	90	0	60	74	7	12	5	1.20
50202452--50202505	14	3.8	14	85	2	72	72	9	11	7	1.29
50203372--50203442	6	11.8	6	100	0	142	50	15	0	33	1.44
50204664--50204759	47	2.0	47	84	4	122	44	2	8	44	1.45
50204747--50204796	22	2.3	23	80	16	61	20	2	4	74	1.08
50204791--50204833	9	4.7	9	83	16	61	32	9	0	58	1.30
50204805--50204838	8	4.2	8	89	10	52	35	8	0	55	1.31
50204780--50204838	17	3.2	19	81	13	70	32	6	1	59	1.34
50204827--50204881	21	2.7	20	71	23	51	41	7	1	49	1.41
50204997--50205044	7	6.9	7	90	0	78	29	52	0	18	1.46
50204994--50205050	28	2.0	28	96	0	105	31	47	0	21	1.51
50205152--50205221	7	10.0	7	92	0	113	28	52	0	18	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50205255--50205288	15	2.3	15	90	5	52	35	29	0	35	1.58
50205335--50205376	19	2.2	20	82	4	50	45	21	0	33	1.52
50205531--50206203	114	5.9	114	90	2	1041	29	26	20	22	1.99
50206978--50207090	51	2.2	51	93	0	190	29	28	0	41	1.62
50207091--50207155	30	2.2	30	94	0	112	38	0	0	61	0.96
50208028--50208066	20	1.9	19	85	10	51	33	2	10	53	1.48
50208237--50208261	7	3.6	7	100	0	50	28	0	12	60	1.32
50208912--50208946	18	1.9	18	88	0	52	25	34	8	31	1.86
50209425--50209643	29	8.0	29	82	11	264	45	27	1	25	1.62
50209443--50209643	81	2.5	81	92	0	330	44	27	0	26	1.61
50209434--50209643	52	3.9	53	82	10	234	45	27	1	25	1.62
50209492--50209642	23	6.0	23	81	10	131	45	28	0	25	1.59
50210463--50210815	124	2.8	126	94	2	622	32	22	15	29	1.95
50211567--50211846	124	2.3	122	84	4	364	28	14	24	32	1.94
50213129--50213394	23	11.2	23	77	17	208	29	1	21	48	1.59
50213107--50213413	51	6.4	51	81	11	346	29	2	20	47	1.63
50213170--50213203	17	2.0	17	94	0	59	32	0	20	47	1.51
50213114--50213186	28	2.6	28	93	4	121	32	2	19	45	1.64
50213229--50213266	17	2.2	17	95	0	67	28	2	15	52	1.56
50213260--50213413	28	5.9	28	80	14	193	28	1	20	48	1.60
50215501--50215562	26	2.4	26	81	10	74	67	3	0	29	1.06
50215523--50215564	14	3.1	14	80	12	52	66	2	0	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50215744--50215785	22	1.9	22	90	0	66	33	0	33	33	1.58
50215757--50215815	30	2.0	30	93	0	100	33	0	35	30	1.58
50215735--50215837	52	2.0	51	86	5	145	33	0	33	33	1.58
50215787--50215864	22	3.5	22	94	0	138	38	0	29	32	1.58
50228305--50228383	10	8.4	10	69	18	53	67	5	0	27	1.12
50228277--50228326	18	2.6	20	78	6	59	62	4	0	34	1.14
50228263--50228335	19	3.8	19	73	8	58	58	4	1	35	1.25
50228284--50228382	9	10.7	9	72	14	67	62	5	0	32	1.17
50228919--50229146	9	24.8	9	67	20	100	31	1	3	64	1.19
50228930--50229068	34	3.7	40	80	14	129	33	2	2	62	1.19

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