genome.fa.s6.2.7.7.80.10.50.1000.97.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  97  of  168  ( 20060 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)
28688539--28688564	6	4.3	6	100	0	52	80	0	19	0	0.71
28688886--28688928	7	6.4	7	86	7	63	25	0	11	62	1.29
28689650--28689681	10	3.2	10	90	0	55	40	6	0	53	1.26
28689619--28689674	29	1.9	29	88	0	85	32	19	3	44	1.68
28691130--28691225	45	2.1	45	92	3	158	37	13	12	36	1.83
28691958--28691983	9	2.9	9	100	0	52	34	19	34	11	1.88
28692177--28692210	16	2.1	16	100	0	68	44	0	11	44	1.40
28692662--28692702	16	2.6	16	88	0	64	43	4	4	46	1.46
28692676--28692729	23	2.4	23	84	9	67	38	3	3	53	1.36
28696304--28696418	19	5.8	19	87	8	167	37	17	9	35	1.82
28696304--28696417	40	2.8	40	93	0	192	37	16	9	35	1.82
28698599--28698657	7	8.4	7	78	14	50	33	44	0	22	1.53
28698599--28698644	14	3.3	14	81	0	56	32	45	0	21	1.52
28698600--28698661	28	2.2	30	82	11	85	33	45	0	20	1.52
28698607--28698803	88	2.2	88	87	3	277	42	30	0	26	1.60
28698971--28699007	14	2.6	14	86	0	56	51	29	0	18	1.47
28699338--28699573	41	5.8	40	85	4	296	27	28	23	19	1.98
28699338--28699574	82	2.9	82	89	1	341	27	29	23	19	1.98
28699350--28699574	123	1.8	123	88	5	348	28	28	23	19	1.98
28699813--28700027	107	2.0	104	83	6	261	34	20	15	29	1.93
28701777--28701806	2	15.5	2	93	6	53	50	0	0	50	1.00
28701940--28702015	36	2.1	36	80	11	84	51	1	9	38	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28702583--28702622	21	1.9	21	100	0	80	37	15	10	37	1.80
28703118--28703452	132	2.5	132	87	1	458	25	25	19	29	1.98
28703425--28703579	45	3.4	45	90	0	229	32	23	14	29	1.94
28703684--28703713	10	3.0	10	100	0	60	20	30	30	20	1.97
28704311--28704482	54	3.2	54	91	3	276	23	22	0	54	1.49
28705775--28705947	54	3.2	54	93	2	285	23	21	1	54	1.52
28705966--28706179	107	2.0	106	87	3	304	34	18	16	31	1.93
28707274--28707446	54	3.2	53	86	5	231	24	19	1	54	1.53
28707465--28707679	111	2.0	104	83	6	268	38	18	16	26	1.92
28708807--28708894	41	2.1	41	89	0	131	22	18	0	59	1.38
28708807--28708868	20	3.0	20	71	13	63	22	14	0	62	1.31
28708741--28708948	97	2.2	94	87	6	301	22	19	0	58	1.40
28708848--28708995	55	2.7	56	93	2	262	22	20	0	55	1.48
28709060--28709095	13	2.8	13	86	0	54	33	0	0	66	0.92
28709051--28709107	21	2.6	21	72	5	51	28	1	0	70	0.98
28714724--28714808	30	2.8	30	94	0	152	24	23	7	44	1.78
28715856--28715966	43	2.6	43	82	0	150	20	18	25	36	1.95
28717051--28717082	11	2.9	11	90	0	55	40	0	31	28	1.57
28718631--28718673	5	8.8	5	97	2	79	41	0	0	58	0.98
28719961--28720011	3	17.0	3	91	0	84	29	0	0	70	0.87
28722153--28722178	13	2.0	13	100	0	52	30	7	15	46	1.74
28730368--28730854	44	11.0	44	72	5	334	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28730368--28730771	89	4.6	89	76	3	375	31	19	23	25	1.98
28730393--28730773	133	2.9	133	94	0	672	31	19	23	25	1.98
28730393--28730903	266	1.9	265	82	3	641	30	19	23	26	1.98
28732596--28732651	21	2.7	20	78	10	58	28	5	5	60	1.41
28732682--28732766	25	3.5	24	74	6	91	38	7	3	50	1.47
28733105--28733129	11	2.3	11	100	0	50	32	0	0	68	0.90
28734898--28735260	149	2.6	134	76	12	343	41	7	5	45	1.55
28737805--28737835	7	4.4	7	95	0	53	16	16	9	58	1.63
28738658--28738712	13	4.2	13	76	23	62	58	1	0	40	1.09
28738671--28738728	25	2.3	25	96	0	107	56	1	0	41	1.09
28738660--28738718	13	4.6	13	71	26	54	59	1	0	38	1.08
28739296--28739549	42	6.0	42	82	0	283	34	20	20	24	1.97
28739979--28740050	21	3.4	21	86	0	90	5	40	15	38	1.70
28745563--28745857	9	33.4	9	81	5	343	33	0	17	48	1.51
28745838--28745877	20	2.1	19	85	4	53	30	0	12	57	1.36
28745866--28745919	27	2.1	26	82	6	65	37	3	11	48	1.57
28745978--28746011	17	1.9	18	88	5	52	55	0	5	38	1.24
28746205--28746235	2	15.5	2	100	0	62	48	0	0	51	1.00
28746531--28746580	20	2.5	20	80	0	55	38	34	10	18	1.84
28746599--28746655	20	2.9	20	76	10	64	15	8	36	38	1.79
28747340--28747373	12	2.9	12	86	4	52	41	11	17	29	1.85
28748221--28749152	336	2.8	332	79	3	945	32	17	18	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28750685--28750999	114	2.8	114	87	4	431	30	24	20	23	1.98
28750790--28751147	188	1.9	186	82	4	452	29	24	20	25	1.99
28751495--28751529	15	2.2	16	90	5	54	34	5	34	25	1.80
28752454--28752492	14	2.7	14	88	4	51	30	48	2	17	1.61
28752484--28752543	14	4.1	14	78	6	57	46	31	0	21	1.52
28752490--28752543	22	2.5	21	81	3	63	48	29	0	22	1.51
28752955--28753003	14	3.5	14	82	0	62	46	34	0	18	1.49
28753186--28753430	41	6.0	41	84	1	312	28	29	21	20	1.98
28754618--28754663	19	2.5	19	75	10	51	52	0	2	45	1.13
28757191--28757231	20	2.1	20	86	4	57	14	12	7	65	1.45
28765992--28766023	14	2.1	16	88	11	50	21	3	28	46	1.66
28800652--28800905	27	9.4	27	85	0	312	18	15	20	44	1.86
28802458--28802506	23	2.1	23	84	3	62	18	12	18	51	1.76
28808860--28808914	19	3.0	19	76	10	69	21	21	3	52	1.62
28808863--28808914	17	2.9	17	80	5	59	23	23	3	50	1.66
28830960--28831007	23	2.1	23	84	7	62	47	2	4	45	1.33
28841791--28841821	13	2.4	13	94	0	53	54	12	0	32	1.38
28842034--28842091	30	1.9	30	89	0	89	31	24	3	41	1.71
28847897--28848027	62	2.1	62	80	7	149	25	22	27	24	2.00
28849204--28849270	22	3.0	22	93	0	107	25	28	16	29	1.97
28849484--28849519	18	1.9	19	94	5	65	52	2	0	44	1.15
28855984--28856037	25	2.2	24	84	12	67	66	1	0	31	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28859671--28859787	60	2.0	59	79	5	128	27	14	12	45	1.81
28864557--28864795	37	6.5	37	96	0	433	50	3	7	38	1.46
28864794--28865162	29	12.7	29	87	6	505	23	0	31	45	1.55
28864791--28865258	58	7.8	58	84	8	582	23	0	31	44	1.57
28864791--28865258	149	3.1	149	88	4	678	23	0	31	44	1.57
28865085--28865232	69	2.1	69	86	6	201	20	0	35	43	1.57
28865116--28865200	40	2.1	40	97	0	161	20	0	37	42	1.52
28865058--28865251	98	2.0	98	91	0	316	21	0	33	44	1.57
28864791--28865258	120	3.9	115	86	7	573	23	0	31	44	1.57
28865159--28865258	29	3.5	28	85	0	128	22	1	36	41	1.61
28865458--28865507	21	2.4	21	86	6	66	2	22	36	40	1.65
28865761--28865801	18	2.3	18	86	0	64	41	4	31	21	1.74
28866446--28866470	7	3.6	7	100	0	50	60	12	0	28	1.32
28867609--28867724	51	2.3	51	96	0	214	43	1	27	26	1.64
28867635--28867718	29	3.1	29	62	22	74	42	1	26	29	1.63
28867645--28867751	22	4.5	22	70	20	81	42	0	28	28	1.62
28867736--28867768	10	3.0	11	86	13	50	45	0	36	18	1.49
28873174--28873223	24	2.1	24	92	0	82	32	24	26	18	1.97
28877942--28877974	17	2.0	17	88	5	50	63	0	9	27	1.24
28878245--28878283	2	19.5	2	100	0	78	48	0	0	51	1.00
28878846--28878884	20	2.0	20	94	0	69	12	23	30	33	1.92
28883138--28883198	31	2.0	31	96	0	113	40	26	11	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28888136--28888168	3	11.0	3	93	0	57	36	0	0	63	0.95
28890026--28890105	3	26.7	3	97	0	151	31	0	1	67	0.99
28890639--28890677	19	2.1	19	85	0	51	30	15	7	46	1.74
28890714--28890746	3	11.0	3	93	0	57	36	0	0	63	0.95
28890918--28890974	22	2.6	21	68	15	53	31	8	5	54	1.53
28894095--28894178	42	2.0	42	92	0	141	27	17	19	35	1.94
28896013--28896191	55	3.3	55	92	2	292	24	19	0	55	1.47
28897388--28897550	55	3.0	55	87	4	215	22	20	0	56	1.46
28898759--28898852	30	3.1	30	95	1	161	25	26	6	41	1.79
28898769--28898845	15	5.1	15	69	12	68	25	23	7	42	1.81

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