genome.fa.s2.2.7.7.80.10.50.1000.131.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  131  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)
39638940--39639029	26	3.4	26	90	4	128	31	26	20	22	1.98
39638927--39639038	26	4.2	27	80	10	97	28	26	21	23	1.99
39653051--39653237	51	3.7	50	82	4	207	29	28	16	25	1.97
39653151--39653183	14	2.5	13	90	9	50	39	27	9	24	1.85
39653051--39653237	102	1.9	100	82	4	241	29	28	16	25	1.97
39658945--39658991	17	2.8	17	77	3	51	55	12	10	21	1.67
39659346--39659371	8	3.2	8	100	0	52	88	0	0	11	0.52
39659362--39659404	16	2.7	16	82	7	52	65	6	0	27	1.18
39664342--39664377	13	2.8	13	95	0	63	2	33	47	16	1.61
39665846--39665919	25	3.0	25	91	0	121	33	12	27	27	1.92
39670663--39670800	44	3.1	44	82	12	199	31	20	20	27	1.97
39670645--39670785	46	3.1	46	82	11	209	32	17	21	27	1.96
39673979--39674008	13	2.2	14	94	5	53	43	13	13	30	1.82
39674110--39674140	8	3.8	8	95	4	53	64	0	0	35	0.94
39674203--39674237	17	2.1	17	88	0	52	22	37	2	37	1.69
39675722--39675804	31	2.7	31	94	0	139	34	14	27	22	1.93
39677108--39677137	6	4.8	6	95	4	51	16	30	0	53	1.44
39677347--39677392	23	1.9	24	82	8	58	26	15	2	56	1.50
39681659--39681760	40	2.5	40	83	0	123	40	19	25	14	1.90
39681659--39681716	20	2.9	20	72	10	55	39	17	25	17	1.91
39682708--39682740	16	2.0	17	88	5	50	30	0	6	63	1.18
39692249--39692301	26	2.0	26	100	0	106	22	11	28	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39693917--39694008	26	3.5	26	83	1	103	30	26	10	32	1.90
39696959--39697022	29	2.2	29	91	0	101	23	15	20	40	1.90
39696998--39697111	57	2.0	58	81	5	133	25	19	15	39	1.91
39697683--39697712	15	1.9	16	93	6	53	43	3	0	53	1.17
39697899--39697938	20	2.0	21	85	5	55	57	5	2	35	1.34
39700484--39700542	29	2.0	30	83	3	75	50	13	3	32	1.58
39702428--39702778	142	2.5	142	86	1	501	52	11	13	22	1.73
39704554--39704593	17	2.2	17	86	8	53	55	15	0	30	1.41
39704605--39704640	3	12.3	3	94	5	65	66	0	0	33	0.92
39706396--39706475	20	3.9	21	73	21	71	52	2	3	41	1.33
39712873--39712918	19	2.5	19	89	3	67	17	19	43	19	1.88
39723913--39724224	89	3.5	88	80	7	335	23	23	14	39	1.91
39723913--39724192	119	2.4	119	86	0	380	22	23	13	40	1.90
39723913--39724224	30	10.5	30	78	6	242	23	23	14	39	1.91
39723953--39724247	149	2.0	147	84	7	382	23	24	13	38	1.91
39724000--39724255	60	4.3	60	71	6	151	23	24	14	37	1.92
39726000--39726217	109	2.0	109	99	0	427	40	21	13	24	1.90
39728511--39728591	23	3.4	23	74	6	74	38	18	11	32	1.86
39728540--39728760	69	3.2	69	90	1	327	43	19	11	25	1.84
39729573--39729729	41	3.8	41	86	3	217	33	28	19	18	1.96
39732169--39732193	13	1.9	13	100	0	50	32	0	0	68	0.90
39737431--39737462	15	2.1	15	94	0	55	68	9	6	15	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39744793--39744930	71	1.9	71	82	8	174	26	30	0	42	1.61
39746584--39746674	37	2.4	38	80	8	116	14	8	39	37	1.77
39756027--39756556	266	2.0	265	98	0	1015	20	16	18	44	1.87
39763722--39763790	30	2.3	30	82	7	77	18	1	5	73	1.10
39765348--39765435	46	2.0	44	84	4	113	32	5	5	55	1.47
39766204--39766261	28	2.1	27	90	3	89	56	10	0	32	1.33
39769075--39769140	23	2.8	23	68	20	55	37	4	1	56	1.29
39776026--39776468	87	5.1	87	89	0	670	29	22	23	23	1.99
39776087--39776222	45	3.1	43	64	17	100	30	25	21	23	1.99
39776563--39776759	44	4.2	45	68	15	132	31	18	21	28	1.97
39776868--39777030	50	3.3	50	75	0	164	34	22	18	23	1.96
39777590--39777624	14	2.6	14	90	4	54	77	2	20	0	0.90
39778662--39778727	23	2.8	23	68	20	55	36	4	1	57	1.28
39785297--39785437	50	2.8	50	81	3	149	28	22	26	22	1.99
39787561--39787601	2	20.5	2	100	0	82	51	0	0	48	1.00
39789738--39789795	26	2.2	26	87	0	80	44	13	12	29	1.80
39793523--39793551	14	2.1	14	100	0	58	20	6	27	44	1.77
39795364--39795448	40	2.2	40	95	2	154	35	24	2	37	1.69
39798362--39798470	37	3.0	37	77	6	114	41	23	15	19	1.90
39807688--39807747	19	3.2	19	81	11	70	56	5	0	38	1.21
39807738--39807771	17	1.9	18	88	5	52	44	0	0	55	0.99
39809266--39809308	18	2.4	18	92	0	68	23	37	2	37	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39809266--39809308	9	4.8	9	88	0	59	23	37	2	37	1.68
39823761--39823792	6	5.2	6	92	7	55	15	15	0	68	1.21
39823764--39823792	13	2.2	13	100	0	58	13	13	0	72	1.13
39823777--39823894	57	2.1	57	85	1	155	28	16	4	50	1.64
39829909--39829955	23	2.0	23	88	8	69	40	25	27	6	1.80
39830141--39830200	30	2.0	30	87	6	86	21	35	31	11	1.90
39837031--39837065	17	2.2	16	90	10	54	54	8	14	22	1.67
39843135--39843200	13	5.1	13	79	0	78	36	24	6	33	1.80
39847647--39847677	6	5.2	6	100	0	62	19	0	0	80	0.71
39848606--39848635	14	2.1	14	93	0	51	16	13	0	70	1.18
39848799--39848829	6	5.2	6	100	0	62	16	0	0	83	0.64
39849013--39849084	34	2.1	34	82	10	85	29	1	2	66	1.14
39849044--39849130	25	3.4	26	78	10	99	36	0	1	62	1.03
39849494--39849534	21	2.0	21	85	9	57	56	2	2	39	1.26
39849517--39849799	70	4.0	70	98	1	530	53	1	4	40	1.29
39856179--39856253	31	2.4	31	75	0	78	38	12	9	40	1.75
39860583--39860882	156	1.9	156	93	2	516	33	6	10	49	1.63
39864735--39864764	15	2.0	15	100	0	60	26	13	13	46	1.80
39867804--39868001	42	4.7	42	85	6	240	31	26	15	26	1.95
39871401--39871516	46	2.6	45	89	4	173	25	24	16	33	1.96
39875558--39875676	64	1.9	63	82	8	152	56	0	1	41	1.15
39875558--39875688	63	2.0	65	81	8	153	56	1	1	40	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39882594--39882636	22	2.0	22	85	0	59	18	11	18	51	1.76
39884442--39884476	3	11.7	3	100	0	70	31	0	0	68	0.90
39887825--39887956	61	2.2	58	84	7	169	53	5	3	37	1.42
39899068--39899465	31	13.0	31	75	9	327	43	15	8	32	1.77
39899069--39899465	61	6.5	61	75	7	297	43	15	8	32	1.77
39899068--39899458	92	4.2	92	88	1	500	43	15	8	32	1.77
39913001--39913044	21	2.1	21	95	0	79	27	15	9	47	1.76
39930150--39930187	2	19.0	2	100	0	76	50	0	0	50	1.00
39932651--39932723	38	1.9	38	82	0	92	36	15	16	31	1.90
39932641--39932888	135	1.8	135	87	1	372	37	16	17	29	1.91
39932758--39933007	37	6.7	37	73	6	182	39	16	15	28	1.89
39937918--39937969	20	2.5	21	81	12	63	30	5	0	63	1.18
39938329--39938394	10	6.2	11	72	20	52	63	3	3	30	1.24
39938425--39938466	19	2.2	19	86	0	57	64	0	4	30	1.14
39946593--39946649	30	1.9	30	82	7	71	24	19	10	45	1.81
39953546--39953707	50	3.3	49	80	5	159	45	12	12	30	1.79
39962774--39962839	25	2.7	24	80	4	69	37	1	1	59	1.16
39966991--39967026	18	2.0	18	89	10	56	27	8	19	44	1.79
39967000--39967033	18	1.9	18	88	5	52	32	5	17	44	1.73
39967557--39967621	27	2.4	27	87	7	89	36	23	21	18	1.95
39981895--39981919	11	2.3	11	100	0	50	36	0	0	64	0.94
39990787--39990822	14	2.5	14	90	4	54	25	2	22	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39991450--39991475	12	2.2	12	100	0	52	23	38	30	7	1.83
40004854--40004910	28	2.0	28	100	0	114	29	24	17	28	1.97
40007881--40008113	39	6.0	39	87	1	333	15	33	18	32	1.92
40012368--40012571	70	2.9	70	78	4	223	31	23	19	25	1.98
40019825--40019916	42	2.2	43	88	4	141	35	4	7	52	1.50
40020786--40020828	19	2.3	19	84	8	52	53	0	13	32	1.41
40035870--40035908	19	2.1	19	100	0	78	28	20	10	41	1.85
40038807--40038854	22	2.2	22	88	0	69	33	39	4	22	1.74
40039176--40039211	18	1.9	19	88	5	56	38	19	8	33	1.82
40041393--40041582	29	6.5	29	75	3	139	23	27	13	35	1.92

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