genome.fa.s2.2.7.7.80.10.50.1000.129.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  129  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)
38970090--38970655	263	2.2	264	88	1	841	27	23	18	30	1.98
38971304--38972651	132	10.2	132	90	2	2076	25	25	19	29	1.99
38971503--38972614	44	25.2	44	60	11	146	25	24	19	29	1.99
38972760--38975037	132	17.2	132	90	1	3447	25	24	19	30	1.98
38974246--38974694	44	10.2	44	62	11	139	25	24	19	29	1.99
38975138--38977509	132	18.0	132	90	1	3567	25	24	19	29	1.98
38977082--38977401	44	7.2	44	62	10	121	26	24	20	28	1.99
38978463--38979467	132	7.6	132	88	1	1460	25	24	19	30	1.98
38979718--38981673	132	14.8	131	86	1	2653	25	24	19	30	1.98
38982238--38983259	132	7.7	132	88	2	1521	25	24	20	29	1.99
38987554--38987943	195	2.0	195	97	0	735	25	24	11	38	1.88
38995551--38995615	24	2.7	23	75	17	62	64	3	1	30	1.18
38997868--38997927	25	2.4	25	77	5	59	43	0	3	53	1.17
38998157--38998202	20	2.3	19	82	10	56	45	2	4	47	1.34
39000797--39000895	23	4.3	23	93	0	162	20	21	27	31	1.98
39021722--39021787	29	2.3	29	91	0	105	18	30	28	22	1.97
39021735--39021806	29	2.5	29	81	0	72	19	33	26	20	1.97
39022555--39022583	15	1.9	15	100	0	58	44	13	0	41	1.44
39025669--39025695	11	2.5	11	100	0	54	44	18	11	25	1.83
39026203--39026280	29	2.7	28	75	13	77	55	6	8	29	1.56
39027290--39028039	37	20.5	36	77	8	524	37	14	22	26	1.92
39027289--39028039	75	10.3	73	76	9	581	37	14	22	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39027333--39028039	108	6.5	107	76	8	470	37	14	21	26	1.92
39027870--39028028	71	2.3	70	81	6	178	40	16	20	23	1.91
39028221--39028372	74	2.0	75	89	1	234	42	19	11	26	1.85
39032523--39032585	8	7.4	8	73	19	56	61	6	1	30	1.30
39032623--39032668	20	2.3	19	82	10	56	54	0	4	41	1.20
39032626--39032669	21	2.0	21	86	4	61	52	0	4	43	1.22
39038211--39038593	43	8.9	43	76	9	336	32	23	16	27	1.96
39038211--39038596	129	3.0	128	92	0	637	32	23	16	27	1.96
39045056--39045438	43	9.0	42	78	8	355	33	24	15	26	1.95
39045051--39045424	86	4.4	86	79	6	409	33	24	15	26	1.95
39045054--39045440	129	3.0	129	94	0	659	33	24	14	26	1.95
39048847--39048871	13	1.9	13	100	0	50	20	40	8	32	1.81
39055148--39055181	17	2.0	17	100	0	68	41	0	0	58	0.98
39055148--39055195	15	3.0	15	81	9	51	41	2	0	56	1.11
39055328--39055433	44	2.5	41	79	18	135	35	31	3	29	1.75
39055345--39055436	46	2.0	46	93	4	161	39	30	4	26	1.75
39055328--39055447	46	2.8	43	84	12	149	37	31	5	25	1.78
39055872--39055912	22	1.9	21	85	5	55	56	7	2	34	1.40
39055949--39056028	39	2.1	39	97	0	151	36	7	6	50	1.56
39056683--39057611	141	6.9	126	78	10	569	33	22	18	26	1.97
39057057--39057638	141	4.2	140	87	2	819	32	23	17	25	1.97
39060331--39060427	49	2.0	49	91	0	158	24	24	6	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39061690--39061775	43	2.0	43	93	0	145	25	22	2	50	1.61
39072480--39072513	18	1.9	17	88	5	50	23	0	35	41	1.55
39075171--39075222	24	2.2	24	89	0	77	57	7	1	32	1.38
39077004--39077033	16	1.9	15	93	6	51	63	26	10	0	1.26
39089710--39089956	50	4.8	50	83	5	248	27	21	28	22	1.99
39104250--39104288	18	2.2	18	90	0	60	43	2	48	5	1.38
39115278--39115350	36	2.1	35	86	2	101	41	28	12	17	1.86
39115430--39115495	18	3.7	18	75	0	60	48	25	6	19	1.72
39117374--39117459	42	2.0	42	97	0	163	36	20	0	43	1.53
39117736--39117789	21	2.6	21	96	0	99	35	11	20	33	1.88
39117934--39117980	18	2.4	20	86	10	62	29	0	4	65	1.11
39118079--39118125	18	2.4	20	86	10	62	29	0	4	65	1.11
39117865--39118155	145	2.0	145	100	0	582	34	6	8	50	1.61
39119288--39119344	20	2.7	21	81	8	71	66	8	3	21	1.34
39136506--39136538	17	1.9	17	100	0	66	24	12	6	57	1.57
39145915--39145944	10	3.1	10	95	4	53	70	10	10	10	1.36
39159341--39159367	2	13.5	2	100	0	54	51	0	0	48	1.00
39162491--39162635	50	2.9	50	84	0	182	24	23	31	20	1.98
39169910--39170041	50	2.6	50	86	0	174	28	23	29	18	1.98
39170305--39170343	20	2.0	20	90	10	62	56	5	23	15	1.59
39179543--39179596	25	2.2	25	86	0	72	25	12	44	16	1.84
39180230--39180572	27	12.7	27	84	2	406	39	19	17	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39182972--39183046	33	2.2	34	88	2	107	42	13	6	37	1.70
39184817--39184855	18	2.2	18	90	9	62	5	20	2	71	1.17
39187928--39187964	18	2.1	18	100	0	74	40	5	21	32	1.76
39189128--39190881	946	1.9	934	86	3	2536	26	16	24	33	1.95
39204844--39204868	11	2.3	11	100	0	50	32	8	16	44	1.76
39208763--39208869	45	2.4	45	93	4	182	35	15	8	40	1.78
39222254--39222543	41	7.0	41	84	6	305	34	14	26	23	1.94
39222382--39222486	21	5.1	21	63	9	72	31	12	30	25	1.92
39224611--39224658	6	7.8	6	92	2	78	18	29	0	52	1.46
39231480--39231504	9	2.8	9	100	0	50	24	12	0	64	1.27
39234165--39234234	35	2.0	35	91	0	113	17	7	14	61	1.54
39237684--39237755	27	2.6	27	85	8	92	30	13	26	29	1.94
39237684--39237772	27	3.2	27	79	9	81	32	13	25	28	1.94
39237907--39237992	27	3.2	27	77	9	77	41	10	19	27	1.84
39240568--39240616	21	2.2	23	85	7	66	32	12	22	32	1.91
39240671--39240883	37	5.8	37	74	6	146	28	25	25	20	1.99
39240697--39240947	111	2.3	110	83	3	299	27	23	25	22	2.00
39240821--39241017	74	2.7	74	79	3	234	28	23	24	23	2.00
39242985--39243056	26	2.8	26	83	6	85	15	27	23	33	1.95
39248862--39248898	17	2.2	17	100	0	74	21	5	35	37	1.77
39253042--39253584	275	1.9	280	81	7	649	46	5	5	42	1.52
39253548--39253607	19	3.1	20	81	11	63	58	1	3	36	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39259286--39259319	7	5.1	7	92	7	54	85	0	0	14	0.60
39259289--39259318	6	4.8	6	92	8	51	86	0	0	13	0.57
39259289--39259318	13	2.4	12	94	5	51	86	0	0	13	0.57
39262198--39262256	16	3.5	18	66	17	54	49	8	6	35	1.60
39262199--39262260	32	1.9	32	100	0	124	51	6	8	33	1.57
39267592--39267709	45	2.6	45	81	2	121	42	13	22	22	1.88
39267609--39267721	45	2.5	45	80	5	131	38	15	21	24	1.91
39269909--39270141	68	3.4	67	78	9	222	35	19	20	24	1.96
39274197--39274234	19	2.1	18	90	5	58	26	5	2	65	1.27
39274191--39274252	25	2.5	24	80	10	63	30	4	3	61	1.33
39274199--39274246	19	2.5	19	83	6	53	29	6	2	62	1.31
39279347--39279431	6	13.7	6	78	7	62	70	9	7	12	1.33
39280191--39280230	8	5.1	8	96	3	73	75	0	12	12	1.06
39280191--39280239	8	6.6	7	88	11	55	71	0	14	14	1.15
39280191--39280239	16	3.3	15	88	8	73	71	0	14	14	1.15
39281478--39281734	44	5.8	44	96	0	460	32	21	24	21	1.98
39281478--39281789	132	2.4	132	85	4	362	33	21	24	21	1.97
39281717--39282096	129	3.0	128	91	2	595	32	19	23	24	1.97
39282107--39282410	44	7.0	44	70	8	147	28	19	25	26	1.99
39282081--39282736	217	2.9	223	85	6	812	31	18	22	28	1.97
39282535--39282657	44	2.8	43	85	7	158	30	19	21	28	1.98
39282535--39282700	88	1.9	88	81	7	203	33	17	20	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39282345--39282825	233	2.1	233	90	0	766	32	17	20	29	1.96
39283342--39283375	13	2.6	13	100	0	68	29	55	0	14	1.40
39284337--39284374	19	2.1	19	85	5	51	23	5	5	65	1.34
39293571--39293665	35	2.7	35	91	0	154	16	9	31	42	1.81
39298777--39298806	11	2.8	11	95	5	53	66	0	16	16	1.25
39299798--39299870	27	2.8	25	82	8	92	16	26	23	34	1.95
39299906--39299999	25	3.8	25	79	6	102	21	25	20	32	1.97
39306760--39306784	6	4.2	6	100	0	50	84	0	0	16	0.63
39307969--39308005	17	2.1	18	90	5	58	29	32	10	27	1.90
39311971--39312009	14	2.8	14	80	0	51	30	41	15	12	1.85

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