genome.fa.s2.2.7.7.80.10.50.1000.53.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  53  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)
14935816--14936094	84	3.5	82	79	9	295	36	16	25	22	1.94
14935902--14936045	75	1.9	75	89	0	225	36	15	22	25	1.94
14941924--14942084	78	2.1	78	97	0	304	41	13	16	28	1.86
14942364--14942522	84	1.9	84	89	0	246	22	28	18	31	1.97
14946217--14946271	3	18.3	3	100	0	110	67	0	0	32	0.91
14946637--14946691	26	2.1	26	100	0	110	7	16	25	50	1.70
14955375--14955463	44	2.0	44	100	0	178	28	33	20	17	1.95
14958192--14958352	23	7.0	22	74	10	144	43	36	4	15	1.67
14958230--14958348	48	2.6	47	84	9	147	42	36	4	16	1.68
14962445--14962482	18	2.1	18	85	9	51	34	15	5	44	1.69
14966370--14966446	25	3.2	22	80	12	66	38	20	24	15	1.92
14966581--14966621	2	21.0	2	85	14	59	48	2	0	48	1.14
14969189--14969261	21	3.5	21	81	7	87	26	28	31	13	1.94
14969939--14969973	17	2.0	17	88	5	52	48	5	37	8	1.58
14970998--14971136	46	3.0	45	91	2	206	29	24	10	35	1.88
14972609--14972663	22	2.5	22	85	11	69	27	23	18	30	1.97
14981971--14982367	43	9.3	43	81	5	403	26	31	20	22	1.98
14982000--14982091	41	2.2	41	80	7	105	30	27	21	20	1.98
14982479--14982521	22	1.9	23	85	4	61	72	2	0	25	0.97
14982686--14982777	21	4.4	20	75	5	76	8	41	16	33	1.79
14982748--14982918	66	2.6	65	87	4	236	13	27	18	40	1.88
14984986--14985033	2	25.0	2	79	8	55	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14984986--14985033	15	3.3	15	88	5	71	56	0	0	43	0.99
14985425--14985505	21	3.7	20	78	18	81	34	39	1	24	1.64
14986456--14986650	42	4.7	41	75	10	146	36	26	18	18	1.94
14986456--14986690	41	5.7	41	72	11	149	37	25	18	17	1.93
14986456--14986608	83	1.9	82	83	6	193	37	25	18	18	1.94
14996422--14996481	19	3.2	19	77	15	63	25	16	10	48	1.77
14999514--14999558	22	2.0	22	100	0	90	46	8	4	40	1.55
15012751--15012787	2	18.5	2	100	0	74	0	51	0	48	1.00
15015970--15016161	94	2.0	94	100	0	384	51	6	9	32	1.59
15023169--15023234	29	2.3	29	81	0	78	40	19	16	22	1.91
15029542--15029571	15	2.1	15	93	6	53	6	30	0	63	1.20
15044918--15045074	82	1.9	81	89	1	242	41	3	3	50	1.38
15045044--15045095	20	2.7	20	85	8	72	44	0	1	53	1.11
15045051--15045095	18	2.3	20	85	11	67	44	0	2	53	1.13
15045694--15045737	19	2.3	19	92	0	70	11	22	18	47	1.80
15048165--15048215	18	3.0	18	78	18	56	47	0	0	52	1.00
15048150--15048242	26	3.4	25	68	20	62	45	0	3	51	1.17
15048356--15048452	45	2.2	45	88	5	144	35	28	5	30	1.79
15048432--15048464	16	2.1	16	100	0	66	21	36	6	36	1.78
15048634--15048765	66	2.0	66	93	0	228	20	17	17	44	1.87
15053485--15053517	2	16.5	2	100	0	66	51	0	0	48	1.00
15053863--15053891	15	1.9	15	100	0	58	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15062505--15062548	9	4.9	9	82	0	61	40	22	9	27	1.84
15062505--15062548	18	2.4	18	88	0	70	40	22	9	27	1.84
15065116--15065153	20	1.9	20	100	0	76	28	10	0	60	1.30
15066645--15066679	15	2.2	16	95	5	63	42	0	0	57	0.99
15066641--15066683	16	2.6	16	88	3	68	39	0	0	60	0.97
15069767--15069804	18	2.1	19	95	5	69	18	0	26	55	1.43
15069767--15069804	9	4.1	9	89	3	58	18	0	26	55	1.43
15069920--15070488	126	4.5	125	86	2	782	30	16	23	29	1.96
15073622--15074782	22	53.6	22	73	11	796	26	0	26	47	1.58
15073622--15074782	43	26.8	43	74	11	806	26	0	26	47	1.58
15073800--15073839	16	2.6	15	84	7	53	22	2	30	45	1.66
15073894--15073977	37	2.3	36	78	10	89	27	1	29	41	1.63
15073975--15074214	60	4.2	59	70	15	189	25	0	25	49	1.53
15074026--15074140	52	2.2	52	83	7	137	25	0	24	50	1.50
15074026--15074207	52	3.4	51	72	18	136	24	0	24	50	1.49
15074121--15074175	15	3.7	15	80	7	58	23	0	23	52	1.47
15074128--15074169	14	2.9	15	82	7	50	26	0	21	52	1.47
15074113--15074187	37	2.0	37	84	0	96	25	0	22	52	1.48
15074185--15074214	16	1.9	16	93	6	53	20	0	33	46	1.51
15074634--15074736	52	2.0	52	86	0	143	25	0	25	49	1.50
15074656--15074725	30	2.3	29	85	4	86	21	0	28	50	1.49
15076277--15076359	8	9.1	9	75	17	57	20	6	2	71	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15076306--15076401	4	23.8	4	74	14	81	20	4	4	70	1.21
15076306--15076391	32	2.8	32	84	8	99	20	4	4	69	1.25
15076548--15076934	109	3.5	109	84	3	495	32	14	18	34	1.91
15080393--15080430	17	2.2	17	90	0	58	84	5	2	7	0.86
15080364--15080459	24	4.0	24	71	6	63	73	7	9	9	1.24
15080358--15080498	75	1.9	72	82	10	176	72	4	12	9	1.26
15081402--15081445	7	6.7	7	85	15	67	75	0	13	11	1.06
15081403--15081444	6	6.7	6	89	5	57	73	0	14	11	1.09
15081402--15081451	26	1.9	27	92	8	86	74	0	14	12	1.09
15081409--15081453	14	3.4	14	82	17	60	73	0	13	13	1.10
15082679--15083544	86	10.0	86	87	3	1030	29	22	23	24	1.99
15082679--15083509	173	4.8	173	84	4	1077	29	22	23	23	1.99
15083117--15083329	43	4.9	44	63	14	109	30	22	23	23	1.99
15083549--15084282	87	8.4	86	70	11	442	30	18	22	28	1.97
15083550--15084364	44	18.7	44	70	14	238	30	18	22	28	1.97
15083525--15084111	218	2.7	218	90	1	908	31	17	22	28	1.97
15083898--15084195	88	3.4	88	77	7	345	32	16	21	30	1.95
15083897--15084288	175	2.2	175	96	0	712	30	16	22	29	1.96
15083769--15084326	131	4.3	131	73	9	447	30	17	22	29	1.97
15084338--15084514	98	1.8	98	88	2	275	33	17	19	29	1.95
15085998--15086029	12	2.7	12	100	0	64	34	6	0	59	1.23
15086151--15086206	2	28.5	2	92	3	96	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15086422--15086535	12	8.2	13	73	22	74	21	3	3	71	1.17
15086440--15086535	4	23.8	4	74	14	81	20	4	4	70	1.21
15086440--15086525	32	2.8	32	84	8	99	20	4	4	69	1.25
15086669--15087193	109	4.8	109	90	1	755	31	16	18	34	1.92
15086659--15087193	220	2.4	219	88	1	777	31	15	18	34	1.92
15089033--15089070	20	2.0	20	89	5	60	55	7	2	34	1.43
15090008--15090107	51	2.0	51	86	4	139	45	3	26	26	1.68
15095041--15095133	29	3.0	31	78	14	95	49	3	4	43	1.38
15095049--15095147	37	2.8	36	74	14	98	49	3	3	44	1.33
15107717--15107742	12	2.2	12	100	0	52	15	7	26	50	1.71
15115399--15115429	7	4.4	7	95	0	53	25	3	12	58	1.50
15118496--15118553	27	2.1	27	83	3	71	29	18	5	46	1.71
15118588--15118651	28	2.2	29	88	2	94	42	21	0	35	1.54
15118657--15118696	20	2.1	19	85	4	53	40	40	2	17	1.63
15118744--15118827	39	2.2	39	85	12	111	22	34	20	22	1.97
15119658--15119691	18	2.0	18	88	11	54	23	0	5	70	1.09
15120636--15120677	22	1.9	22	85	0	57	30	28	0	40	1.57
15125461--15125489	2	14.5	2	100	0	58	51	0	0	48	1.00
15126565--15126606	20	2.1	20	90	0	66	40	14	0	45	1.45
15126872--15127020	73	2.0	73	93	0	253	34	16	14	34	1.89
15127770--15127835	29	2.2	32	89	10	111	50	1	3	45	1.26
15133542--15133660	62	1.9	62	92	0	202	23	25	24	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15134835--15134888	3	18.3	3	96	3	101	31	0	0	68	0.90
15138011--15138063	16	3.3	16	94	0	97	39	5	33	20	1.76
15138262--15138359	37	2.6	37	82	7	110	48	4	1	45	1.28
15138605--15138766	77	2.1	77	97	0	306	41	10	6	40	1.66
15140635--15140696	31	2.0	31	100	0	124	48	22	6	22	1.73
15150210--15150338	34	3.6	36	86	7	165	56	0	3	39	1.20
15161570--15161635	33	2.0	33	100	0	132	51	6	27	15	1.66
15162607--15162729	42	3.0	41	84	4	140	15	21	18	43	1.87
15162655--15162723	21	3.3	21	77	0	66	15	21	20	42	1.89
15162697--15162737	21	2.0	21	85	0	55	14	17	21	46	1.84

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