genome.fa.s11.2.7.7.80.10.50.1000.103.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   
          209   210   

This is table  103  of  210  ( 25152 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)
30063058--30063106	15	3.3	15	72	11	55	36	14	12	36	1.83
30066845--30066882	11	3.5	11	88	0	58	36	10	10	42	1.74
30069158--30069216	25	2.4	25	97	0	109	37	8	16	37	1.80
30070991--30071113	35	3.5	36	80	11	164	34	11	21	31	1.89
30070972--30071113	71	2.0	71	100	0	284	36	9	22	30	1.87
30071458--30071503	10	4.5	10	86	2	65	28	2	21	47	1.62
30078694--30078780	39	2.2	38	75	15	88	32	8	3	56	1.45
30078962--30079188	89	2.6	88	70	14	189	31	8	19	40	1.82
30079529--30079681	59	2.6	59	81	3	182	53	3	1	41	1.28
30080226--30080319	42	2.2	43	92	1	154	18	37	25	19	1.94
30081310--30081481	24	7.0	24	71	13	75	36	21	24	17	1.94
30081383--30081484	26	4.2	23	70	15	62	35	21	24	18	1.96
30081423--30081482	26	2.3	26	88	0	93	36	23	23	16	1.94
30081544--30081625	24	3.4	24	72	14	69	32	21	30	14	1.94
30081775--30081814	22	2.0	20	85	14	55	50	12	0	37	1.41
30081945--30081983	5	7.6	5	82	5	51	41	17	0	41	1.50
30088720--30088751	15	2.1	15	94	0	55	21	3	6	68	1.26
30092436--30092494	26	2.3	26	87	0	82	42	15	11	30	1.83
30099036--30099104	26	2.7	26	86	0	93	24	20	26	28	1.99
30104914--30105012	45	2.2	46	83	1	119	32	21	6	40	1.77
30107247--30107287	20	2.2	18	86	8	55	48	0	2	48	1.14
30108222--30108260	14	2.9	13	77	7	51	43	2	0	53	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30108384--30108416	13	2.4	14	85	5	50	69	0	0	30	0.88
30110959--30111016	26	2.2	26	81	9	64	67	1	3	27	1.17
30114194--30114222	8	3.6	8	100	0	58	10	0	0	89	0.48
30114290--30114347	24	2.4	24	86	11	75	32	6	5	55	1.49
30114570--30114617	15	3.1	15	77	19	53	33	6	0	60	1.22
30120438--30120514	25	3.1	25	81	3	93	24	31	31	12	1.93
30124462--30124541	37	2.2	36	81	2	88	22	25	25	27	2.00
30143943--30144000	4	14.5	4	73	20	50	72	1	25	0	0.94
30143926--30143981	21	2.7	21	76	13	62	71	0	28	0	0.86
30143946--30144000	17	3.1	18	82	10	69	72	1	25	0	0.94
30143940--30143999	26	2.2	29	85	8	81	70	1	28	0	0.97
30143946--30143986	18	2.3	19	87	8	59	75	0	24	0	0.80
30151082--30151121	21	2.0	20	90	5	62	50	2	5	42	1.37
30152831--30152899	10	6.8	11	79	14	62	59	0	1	39	1.06
30152815--30152899	29	2.9	28	81	16	93	58	1	1	38	1.13
30152850--30152929	30	2.6	30	81	16	85	56	1	1	41	1.15
30152934--30153001	9	7.7	9	72	9	50	66	5	2	25	1.28
30153865--30153889	11	2.3	11	100	0	50	32	8	0	60	1.26
30153936--30154041	8	12.5	8	75	17	65	34	0	0	63	1.08
30153952--30154016	21	3.1	20	77	12	60	32	1	1	64	1.12
30153817--30154064	9	26.0	9	69	20	107	36	2	2	58	1.24
30154003--30154059	17	3.2	17	83	14	71	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30154293--30154350	5	11.6	5	88	0	80	44	1	13	39	1.54
30158283--30158323	21	2.0	21	85	9	57	68	19	4	7	1.32
30162975--30163009	6	5.8	6	86	0	52	17	0	45	37	1.48
30163136--30163289	46	3.3	46	65	17	109	42	3	17	36	1.68
30163133--30163356	96	2.3	96	86	3	308	39	3	18	38	1.68
30163396--30163935	126	4.3	125	89	1	794	32	18	21	27	1.97
30167222--30167261	21	1.9	21	89	0	62	2	20	47	30	1.63
30169366--30169418	11	4.8	11	82	15	65	43	0	30	26	1.55
30170632--30170688	23	2.5	23	82	5	71	33	7	17	42	1.76
30171648--30171687	15	2.7	15	84	0	53	17	62	7	12	1.52
30205714--30205740	5	5.4	5	100	0	54	81	0	0	18	0.69
30206788--30206819	5	6.4	5	100	0	64	81	0	0	18	0.70
30212195--30212241	22	2.1	22	100	0	94	59	23	0	17	1.37
30216322--30216478	44	3.6	44	82	5	149	29	15	22	32	1.94
30216373--30216482	43	2.5	45	88	4	154	28	16	23	31	1.96
30216429--30216531	53	1.9	53	84	3	136	26	15	25	33	1.95
30227631--30227655	9	2.8	9	100	0	50	24	0	8	68	1.16
30227870--30227914	2	22.5	2	86	0	63	46	4	2	46	1.35
30230334--30230363	15	1.9	16	93	6	53	73	0	0	26	0.84
30230352--30230405	18	2.9	19	81	13	76	61	0	0	38	0.96
30230367--30230420	18	3.1	17	84	13	65	59	0	1	38	1.08
30230367--30230411	16	2.6	16	86	13	54	57	0	2	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30230606--30230662	20	2.9	20	74	12	55	28	8	5	57	1.50
30230600--30230692	39	2.4	38	78	15	102	32	7	3	56	1.43
30230675--30230727	8	6.2	8	87	8	70	32	1	0	66	1.03
30230675--30230791	8	14.1	8	71	16	69	29	2	0	66	1.11
30230697--30230758	30	2.1	29	81	3	70	24	4	1	69	1.17
30230754--30230811	17	3.1	18	83	14	57	36	0	0	63	0.94
30230675--30230848	9	19.3	9	69	17	78	31	2	1	64	1.15
30230857--30231074	92	2.4	92	85	7	284	33	11	21	34	1.88
30231177--30231208	12	2.6	12	95	5	55	34	15	0	50	1.45
30231764--30231995	112	2.1	113	80	4	263	32	21	21	25	1.98
30232116--30232652	229	2.4	228	78	5	591	32	18	23	25	1.97
30232118--30232657	115	4.7	115	75	6	481	31	19	22	26	1.98
30232717--30232755	21	1.9	20	89	5	60	20	0	35	43	1.52
30233650--30233684	14	2.4	15	90	4	54	20	0	37	42	1.52
30237121--30237189	21	3.3	21	79	0	75	34	15	43	5	1.71
30237174--30237212	12	3.2	12	85	0	51	41	12	38	7	1.72
30237647--30237894	42	5.9	41	81	10	256	24	22	20	31	1.98
30237646--30237895	85	3.0	84	87	5	348	24	22	20	32	1.98
30237647--30237895	127	2.0	126	85	7	346	24	22	20	32	1.98
30237987--30238030	22	2.0	22	81	0	52	47	25	15	11	1.79
30240686--30240771	10	9.0	10	67	23	60	53	1	0	45	1.07
30240665--30240773	34	3.3	32	78	10	121	55	0	1	42	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30240696--30240751	14	3.7	15	76	17	53	55	1	0	42	1.10
30241412--30241455	13	3.3	13	78	15	54	50	15	15	18	1.79
30242722--30242766	19	2.5	17	79	13	54	42	13	2	42	1.56
30243159--30243246	40	2.2	39	78	11	90	29	26	18	26	1.98
30255557--30255588	16	2.0	16	93	0	55	59	0	15	25	1.36
30265415--30265465	23	2.2	23	96	0	93	41	0	7	50	1.31
30266268--30266299	15	2.1	15	94	0	55	56	15	6	21	1.62
30266354--30266395	2	21.0	2	100	0	84	50	0	0	50	1.00
30267130--30267161	16	2.1	15	94	5	55	71	6	15	6	1.26
30267152--30267243	44	2.1	44	100	0	184	51	9	21	17	1.74
30267264--30267305	20	2.0	21	86	13	61	71	0	9	19	1.13
30267912--30267961	13	3.7	13	76	10	55	60	2	0	38	1.09
30269317--30269408	22	4.2	22	88	0	112	30	27	0	42	1.56
30269358--30269460	52	2.0	51	83	9	129	33	32	0	34	1.58
30269410--30269451	22	1.9	22	90	0	66	33	33	0	33	1.58
30269493--30269548	28	2.0	29	92	3	96	37	0	1	60	1.07
30269493--30269556	28	2.2	29	88	2	94	37	0	1	60	1.06
30269646--30269701	24	2.3	23	77	19	60	28	0	5	66	1.14
30271714--30271995	125	2.3	125	83	4	354	33	23	14	28	1.94
30272997--30273171	85	2.1	85	92	0	287	32	10	13	42	1.79
30275167--30275199	9	3.8	9	84	8	50	39	3	0	57	1.14
30277937--30277989	14	3.5	14	76	16	52	52	3	5	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30278480--30278521	21	2.0	22	85	4	59	40	16	19	23	1.91
30281681--30282001	163	2.0	163	93	0	552	28	11	23	36	1.90
30283972--30284015	21	2.1	21	91	8	72	34	20	9	36	1.84
30284581--30284671	38	2.4	38	96	0	164	32	16	16	34	1.91
30285042--30285081	18	2.2	18	90	0	62	27	7	10	55	1.60
30285580--30285622	21	2.0	21	90	0	68	51	13	13	20	1.76
30290338--30290371	12	2.8	12	95	0	59	5	0	41	52	1.25
30290342--30290371	4	7.5	4	92	0	51	3	0	43	53	1.17
30291030--30291060	15	2.1	15	93	0	53	16	0	19	64	1.29
30295741--30296034	46	6.5	46	94	1	486	34	13	22	29	1.93

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   
          209   210