genome.fa.s6.2.7.7.80.10.50.1000.87.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  87  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)
25897144--25897171	12	2.3	12	100	0	56	71	7	7	14	1.29
25897163--25897225	26	2.6	23	78	14	72	77	1	17	3	0.97
25897164--25897232	13	5.2	13	77	16	63	76	1	17	4	1.02
25898268--25898314	15	3.1	15	84	9	60	70	0	17	12	1.17
25898344--25898424	12	6.8	12	69	17	53	62	1	23	12	1.36
25898354--25898409	18	3.0	20	75	24	68	64	0	25	10	1.26
25900296--25900342	20	2.3	20	85	7	60	27	29	17	25	1.97
25900286--25900345	10	5.9	10	75	9	50	26	28	15	30	1.96
25903318--25903398	12	6.8	12	69	17	53	12	24	1	61	1.38
25903333--25903388	18	3.0	20	68	26	59	10	26	0	62	1.28
25903427--25903473	15	3.1	15	84	9	60	12	17	0	70	1.17
25905054--25905100	23	2.1	23	84	7	62	51	12	4	31	1.59
25910530--25910572	16	2.7	16	100	0	86	20	11	4	62	1.46
25910611--25910653	13	3.6	12	84	12	61	13	4	6	74	1.19
25910626--25910656	10	3.0	10	90	9	53	19	3	9	67	1.33
25910612--25910653	11	3.6	11	87	9	57	14	4	7	73	1.21
25911645--25911691	23	2.1	23	84	7	62	51	12	4	31	1.59
25928417--25928449	17	1.9	17	100	0	66	15	6	0	78	0.93
25932725--25932776	15	3.5	15	76	5	61	1	17	1	78	0.93
25932729--25932779	14	3.6	14	81	5	66	1	19	1	76	0.98
25934847--25934877	12	2.6	12	94	0	53	16	6	3	74	1.16
25942951--25943029	24	3.4	24	78	3	90	25	3	32	37	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25942992--25943033	22	1.9	22	100	0	84	30	4	33	30	1.78
25944106--25944147	10	4.3	10	78	6	50	28	11	23	35	1.91
25944722--25944794	29	2.5	29	90	0	119	30	9	13	46	1.75
25949462--25949512	11	4.8	11	76	9	52	76	5	5	11	1.14
25949476--25949500	9	2.8	9	100	0	50	84	8	0	8	0.79
25949465--25949520	20	2.8	20	79	12	62	80	5	5	8	1.02
25952483--25952521	11	3.8	11	80	19	57	79	10	0	10	0.94
25952484--25952521	19	2.0	19	100	0	76	78	10	0	10	0.95
25953236--25953265	15	1.9	16	93	6	53	40	26	20	13	1.89
25954619--25954673	15	3.8	14	80	7	65	74	1	21	1	1.01
25956056--25956097	10	4.3	10	78	6	50	28	11	23	35	1.91
25976295--25976337	15	2.9	14	82	6	50	79	2	2	16	0.95
25977305--25977339	13	2.7	13	90	0	52	42	11	0	45	1.40
25977745--25977875	50	2.6	52	78	8	144	38	12	14	34	1.85
25979553--25979609	18	3.1	18	73	12	53	14	24	0	61	1.33
25981646--25981691	20	2.3	20	92	0	74	8	2	10	78	1.05
25983108--25983224	50	2.3	50	85	5	146	36	13	17	32	1.89
25983130--25983239	50	2.2	52	83	5	143	38	11	15	34	1.84
25985606--25985670	22	2.9	22	79	2	67	36	4	32	26	1.77
25988968--25989001	16	2.1	16	88	0	50	47	8	2	41	1.50
25989044--25989087	17	2.6	18	82	7	56	52	11	0	36	1.38
25989145--25989173	11	2.7	11	94	5	51	34	10	24	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25995654--25995722	21	3.3	21	74	11	70	27	30	24	17	1.97
25995904--25996109	84	2.4	84	80	5	229	32	24	16	26	1.96
25996068--25996149	42	2.0	42	87	4	121	35	25	13	25	1.93
25996309--25996356	21	2.3	21	85	7	62	31	31	20	16	1.95
25996324--25996524	84	2.4	84	84	1	269	29	29	15	24	1.96
25995681--25996419	105	7.0	105	74	10	553	31	27	16	24	1.97
25996223--25996770	189	2.9	189	79	11	589	30	28	17	24	1.97
25995745--25996527	420	1.9	420	86	2	1115	31	27	16	24	1.96
25996492--25996545	21	2.6	21	85	5	65	29	25	20	24	1.99
25996475--25996744	90	3.0	90	90	0	423	30	27	17	23	1.97
25996588--25996632	21	2.1	21	88	8	65	33	26	20	20	1.97
26001979--26002070	41	2.2	41	82	3	105	14	14	30	41	1.85
26002767--26002814	20	2.3	20	86	10	62	18	0	41	39	1.51
26002767--26002814	7	7.0	7	79	11	55	18	0	41	39	1.51
26003491--26004605	337	3.3	332	81	6	1178	31	16	17	33	1.93
26004549--26004678	63	2.1	62	98	1	251	27	14	17	40	1.89
26004793--26004844	15	3.8	13	76	16	52	67	5	25	1	1.23
26005257--26005300	22	2.0	22	95	0	79	34	4	36	25	1.76
26006092--26006158	31	2.1	32	81	13	77	31	29	11	26	1.92
26006433--26006491	30	2.0	30	83	6	75	28	15	25	30	1.96
26007648--26007711	13	4.8	13	76	17	60	45	14	1	39	1.54
26007654--26007846	39	5.0	37	77	13	167	42	11	2	43	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26007654--26007795	40	3.7	39	77	11	150	43	12	2	41	1.54
26007743--26007833	18	4.9	18	75	15	87	42	12	1	43	1.49
26007679--26007783	31	3.6	31	68	18	89	41	12	2	42	1.57
26007738--26007826	22	4.2	22	70	21	57	40	14	1	43	1.53
26007743--26007803	17	3.5	17	86	4	86	44	13	0	42	1.43
26008011--26008199	16	12.6	16	64	21	72	49	17	2	30	1.61
26008011--26008697	44	16.5	44	72	18	293	48	18	2	31	1.60
26008012--26008146	25	5.9	25	68	19	87	51	17	2	29	1.57
26008100--26008234	25	5.4	25	73	15	79	48	20	2	28	1.64
26008099--26008253	9	18.6	9	64	18	59	46	20	2	30	1.64
26008140--26008310	25	7.1	25	68	16	69	46	19	2	30	1.63
26008276--26008344	16	4.6	16	68	23	51	50	17	2	28	1.60
26008139--26008487	147	2.4	147	95	2	614	46	18	2	32	1.62
26008317--26008627	41	7.5	41	73	15	139	47	18	1	32	1.59
26008538--26008599	16	3.9	15	77	10	61	45	20	1	32	1.61
26008520--26008589	32	2.2	32	82	10	90	50	20	1	28	1.57
26008606--26008692	21	4.0	21	74	11	77	50	14	2	32	1.56
26010871--26011033	82	2.0	82	86	2	229	26	25	14	33	1.95
26013539--26013583	21	2.3	18	85	11	54	17	26	0	55	1.42
26013691--26013741	21	2.4	21	87	9	68	7	27	0	64	1.21
26013691--26013736	20	2.2	22	88	7	69	6	28	0	65	1.17
26014351--26014394	24	1.9	23	81	9	54	50	27	4	18	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26014761--26014804	12	3.8	12	79	14	56	22	4	2	70	1.17
26014764--26014805	11	3.7	11	78	15	50	19	7	2	71	1.20
26014763--26014814	22	2.3	22	90	3	77	15	7	1	75	1.12
26015381--26015505	62	2.0	62	100	0	250	37	20	17	24	1.94
26020026--26020133	41	2.6	41	94	0	180	35	17	17	29	1.93
26021275--26021328	20	2.7	20	82	0	63	24	20	18	37	1.94
26030725--26030755	15	2.1	15	93	0	53	41	22	12	22	1.88
26032344--26032402	19	3.2	18	83	7	73	3	16	6	72	1.20
26032332--26032377	24	1.9	24	82	8	58	4	21	4	69	1.24
26032337--26032408	37	1.9	38	82	2	92	5	18	5	70	1.26
26032344--26032402	18	3.1	19	85	9	68	3	16	6	72	1.20
26032322--26032421	38	2.6	37	72	13	87	5	16	4	75	1.14
26034840--26034878	16	2.4	16	91	0	60	15	10	2	71	1.23
26038377--26038446	25	2.8	26	82	6	99	42	17	22	17	1.88
26040786--26040835	22	2.3	21	83	10	64	74	2	2	22	1.03
26040786--26040834	18	2.6	19	78	18	57	73	2	2	22	1.04
26041335--26041386	23	2.3	22	75	21	54	9	23	1	65	1.32
26043772--26043820	18	2.6	19	78	18	57	73	2	2	22	1.04
26045746--26046047	150	2.0	150	100	0	604	24	23	16	35	1.95
26047503--26047566	22	2.9	22	83	0	83	35	6	32	25	1.81
26048641--26048682	10	4.3	10	78	6	50	28	11	23	35	1.91
26057854--26057918	20	3.3	19	73	16	51	38	16	21	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26059737--26059771	18	1.9	18	88	11	54	22	20	0	57	1.41
26064395--26064442	15	3.3	14	80	8	60	4	18	0	77	0.93
26064395--26064453	21	2.8	21	87	5	75	6	22	0	71	1.09
26065345--26065383	18	2.2	18	95	0	69	20	7	5	66	1.36
26071712--26071760	20	2.5	20	93	3	82	32	10	34	22	1.88
26087833--26087884	27	1.9	27	88	0	77	67	1	25	5	1.23
26097881--26097981	52	1.9	52	95	0	184	32	21	18	26	1.97
26108459--26108497	15	2.4	15	87	12	51	66	2	20	10	1.33
26111850--26111888	20	2.0	19	85	5	51	46	23	15	15	1.83
26130334--26130375	16	2.6	16	96	3	75	38	16	11	33	1.86

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