genome.fa.s5.2.7.7.80.10.50.1000.101.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  101  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)
30527475--30527572	43	2.3	42	96	3	180	36	16	16	30	1.91
30529519--30529578	18	3.2	18	76	9	66	6	18	3	71	1.22
30530452--30530476	11	2.3	11	100	0	50	16	8	0	76	1.02
30530457--30530497	17	2.4	17	79	0	55	21	14	0	63	1.30
30530422--30530492	29	2.5	29	82	13	85	14	12	2	70	1.28
30531400--30531469	31	2.3	31	82	9	81	32	12	28	25	1.93
30531905--30531999	41	2.3	41	100	0	190	36	16	15	30	1.91
30539831--30539942	23	4.9	23	80	0	134	36	27	6	29	1.81
30539831--30539942	46	2.4	46	90	0	179	36	27	6	29	1.81
30544680--30544746	33	2.0	33	94	0	116	25	17	23	32	1.97
30546998--30547185	41	4.6	41	75	12	163	34	16	27	22	1.95
30546998--30547185	81	2.3	81	79	8	218	34	16	27	22	1.95
30547031--30547182	41	3.7	41	83	3	164	34	15	27	21	1.94
30547123--30547188	21	3.2	21	66	12	55	28	15	33	22	1.94
30547102--30547168	20	3.3	19	68	12	53	32	13	34	19	1.91
30547158--30547387	114	2.0	114	100	0	460	42	14	16	26	1.87
30549083--30549146	22	2.9	22	83	0	83	25	32	6	35	1.81
30555721--30555910	39	4.7	39	77	9	170	30	21	22	25	1.99
30564140--30564193	25	2.2	25	93	0	90	18	48	9	24	1.77
30567914--30567971	10	5.7	10	76	11	64	29	27	13	29	1.94
30567914--30567974	20	3.0	20	83	9	79	27	26	13	32	1.93
30569427--30569456	14	2.1	14	100	0	60	30	0	6	63	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30572698--30572742	20	2.2	20	84	7	56	53	11	4	31	1.56
30574589--30574639	15	3.7	14	72	15	52	9	19	1	68	1.27
30581155--30581229	33	2.2	34	90	2	116	41	13	6	38	1.70
30582998--30583037	18	2.2	18	91	8	64	5	20	2	72	1.15
30587012--30587065	15	3.7	15	80	7	67	68	1	27	1	1.10
30587035--30587134	26	4.1	25	72	8	73	66	4	22	8	1.35
30587060--30587134	23	3.1	23	78	14	71	65	5	20	9	1.41
30588680--30588726	20	2.3	20	85	7	60	25	17	29	27	1.97
30588982--30589049	20	3.4	20	85	0	91	26	35	16	22	1.94
30588982--30589057	40	1.9	39	86	2	107	25	34	17	23	1.96
30590380--30590416	13	2.6	15	83	12	51	48	29	0	21	1.50
30601730--30601790	20	3.0	20	83	9	79	27	24	13	34	1.93
30601731--30601791	10	6.1	10	78	12	63	29	22	13	34	1.92
30607236--30607279	22	2.0	22	95	0	79	25	36	4	34	1.76
30608169--30608193	10	2.5	10	100	0	50	28	32	12	28	1.92
30615073--30615119	20	2.3	20	85	0	58	25	19	29	25	1.98
30619380--30619406	14	1.9	14	100	0	54	37	18	14	29	1.91
30629664--30629722	30	2.0	30	83	6	75	28	15	25	30	1.96
30630440--30630511	22	3.3	22	94	0	117	30	16	27	25	1.97
30635560--30635647	20	4.4	20	73	0	86	31	22	34	11	1.90
30635560--30635679	60	2.0	60	85	6	163	31	20	33	14	1.92
30639637--30639674	20	1.9	19	94	5	67	31	15	28	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30642976--30643053	36	2.2	37	79	11	90	12	26	1	58	1.42
30642983--30643053	30	2.4	29	81	11	74	11	28	1	59	1.40
30643934--30643973	13	2.8	15	85	14	66	22	7	0	70	1.12
30643940--30643973	13	2.6	13	100	0	68	17	5	0	76	0.98
30645566--30645673	41	2.6	41	95	0	189	34	17	18	29	1.94
30649471--30649515	19	2.5	17	82	10	54	37	11	13	37	1.80
30652908--30653042	70	1.9	70	96	0	252	27	26	11	34	1.91
30653535--30653572	9	4.0	9	87	12	58	31	13	31	23	1.93
30653535--30653572	20	1.9	19	94	5	67	31	13	31	23	1.93
30655157--30655202	21	2.2	21	88	0	65	6	15	0	78	0.95
30655172--30655211	21	1.9	21	85	10	55	7	22	0	70	1.12
30656178--30656209	13	2.5	13	95	5	57	12	3	6	78	1.06
30657456--30657592	70	2.0	70	97	0	256	27	26	12	34	1.92
30658136--30658173	20	1.9	19	94	5	67	31	15	28	23	1.96
30663245--30663327	42	2.0	42	100	0	166	32	19	9	38	1.84
30664276--30664371	27	3.4	26	75	21	88	65	1	20	12	1.31
30664278--30664379	45	2.3	45	83	8	136	65	0	20	12	1.31
30666854--30666959	52	2.0	52	98	0	203	22	18	14	44	1.86
30674589--30674631	17	2.5	17	79	20	54	4	18	4	72	1.20
30679434--30679487	24	2.2	24	90	0	81	25	11	3	59	1.48
30679439--30679482	11	3.8	11	80	11	52	22	6	4	65	1.35
30679648--30679694	24	1.9	25	82	4	60	42	4	25	27	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30696203--30696247	20	2.3	19	84	7	54	24	33	11	31	1.90
30697860--30697986	67	1.9	66	90	1	200	26	33	18	21	1.96
30698108--30698220	57	2.0	56	87	5	165	24	26	18	30	1.98
30701438--30701513	23	3.3	23	86	0	107	42	23	9	25	1.83
30702520--30702558	16	2.4	16	91	0	60	30	43	2	23	1.67
30706321--30706418	51	1.9	51	87	0	142	35	25	11	27	1.90
30708344--30708369	13	2.0	13	100	0	52	76	7	0	15	0.99
30709440--30709498	18	3.3	18	85	0	82	72	6	15	5	1.23
30709436--30709528	6	15.3	6	70	5	62	72	4	18	5	1.21
30709528--30709562	18	1.9	18	88	0	52	57	0	20	22	1.41
30709549--30709588	18	2.2	18	86	0	53	70	0	17	12	1.18
30709462--30709584	30	4.2	30	73	8	83	65	1	20	13	1.35
30711495--30711541	20	2.3	20	85	0	58	25	29	19	25	1.98
30713583--30713843	41	6.4	41	81	3	249	21	26	17	34	1.95
30713566--30713843	81	3.4	81	83	2	344	21	26	16	34	1.95
30713566--30713843	122	2.3	122	83	0	349	21	26	16	34	1.95
30722319--30722387	22	3.1	22	91	0	102	46	14	18	20	1.84
30722393--30722645	32	7.9	32	77	5	215	36	22	20	20	1.95
30722405--30722645	96	2.5	96	78	6	238	37	23	19	19	1.94
30722648--30722701	26	2.1	26	85	0	72	37	27	18	16	1.93
30722935--30723200	27	9.9	27	87	1	336	24	23	19	33	1.97
30724606--30724662	25	2.3	25	82	11	73	38	14	24	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30731113--30731168	18	2.9	18	73	21	51	32	21	19	26	1.97
30736703--30736767	10	6.2	11	72	16	66	69	3	7	20	1.27
30736705--30736763	20	2.9	20	83	11	84	74	3	5	16	1.13
30736703--30736763	32	1.9	32	86	6	88	72	3	6	18	1.21
30736706--30736765	22	3.0	20	88	11	95	73	3	5	18	1.16
30737556--30737590	15	2.3	15	100	0	70	42	11	34	11	1.77
30742792--30742847	26	2.2	26	100	0	112	35	14	28	21	1.92
30746604--30746664	25	2.4	24	82	17	63	77	3	14	4	1.07
30746602--30746664	18	3.3	18	79	18	58	76	3	15	4	1.09
30746604--30746672	25	2.8	23	77	14	59	78	2	13	5	1.05
30746625--30746666	18	2.2	20	91	8	70	80	0	14	4	0.86
30746625--30746683	15	3.6	15	82	13	64	79	0	13	6	0.92
30746625--30746712	34	2.6	35	77	13	87	77	1	15	5	1.02
30750952--30751189	41	5.8	41	82	2	219	23	27	14	35	1.93
30750952--30751178	82	2.8	82	82	0	276	22	28	14	33	1.94
30750952--30751189	123	1.9	122	84	0	314	23	27	14	35	1.93
30750955--30751204	82	3.1	82	79	1	261	24	26	14	35	1.93
30751117--30751204	41	2.1	41	82	0	113	27	25	12	35	1.92
30753380--30753440	16	3.8	16	82	10	70	26	3	29	40	1.72
30753464--30753522	16	3.6	16	77	8	57	25	5	33	35	1.78
30753464--30753506	17	2.6	17	88	3	61	23	6	37	32	1.82
30753982--30754016	17	2.1	17	100	0	70	17	20	22	40	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30758146--30758179	15	2.3	15	94	0	59	8	23	0	67	1.18
30760349--30760392	18	2.4	18	92	0	70	11	4	9	75	1.19
30777410--30777454	3	15.0	3	100	0	90	33	0	0	66	0.92
30778326--30778376	18	2.8	18	76	11	50	78	1	9	9	1.04
30779092--30779199	41	2.6	41	95	0	189	29	18	17	34	1.94
30782000--30782051	24	2.2	24	92	0	86	11	26	19	42	1.85
30788856--30788907	22	2.4	22	90	3	79	51	15	19	13	1.75
30791121--30791153	11	3.0	11	86	13	50	69	9	12	9	1.36
30792041--30792169	6	21.0	6	67	4	51	66	3	22	7	1.32
30792084--30792201	30	4.0	31	69	22	85	66	1	19	11	1.31

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