genome.fa.s7.2.7.7.80.10.50.1000.36.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  36  of  204  ( 24458 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)
12788363--12788416	24	2.2	24	93	0	90	3	22	29	44	1.70
12788672--12788717	18	2.6	18	82	0	56	39	8	30	21	1.84
12789362--12789386	7	3.6	7	100	0	50	60	12	0	28	1.32
12790468--12790531	30	2.1	31	94	2	112	64	0	0	35	0.94
12797643--12797700	28	2.1	28	96	0	107	18	13	32	34	1.91
12799220--12799465	125	2.0	125	88	1	368	29	13	22	34	1.92
12800350--12800380	9	3.4	9	90	0	53	25	12	22	38	1.90
12800434--12800470	9	4.1	9	92	0	65	45	13	10	29	1.77
12800506--12800548	21	2.0	21	82	8	52	20	37	0	41	1.53
12801617--12801669	24	2.2	25	96	3	99	47	16	18	16	1.83
12803754--12803971	115	1.9	115	93	4	359	42	7	10	40	1.66
12804008--12804502	23	22.2	23	81	10	496	27	0	24	47	1.54
12803970--12804504	44	12.2	43	81	9	454	27	0	25	46	1.55
12804562--12804679	25	4.9	25	74	14	122	43	13	0	42	1.50
12804556--12804689	70	1.9	70	96	0	250	46	12	0	40	1.47
12806930--12807006	27	3.1	27	67	21	85	50	0	23	25	1.49
12806930--12807028	48	2.0	49	94	1	173	50	1	23	25	1.56
12807061--12807100	11	3.6	11	86	6	55	45	0	32	22	1.53
12809447--12809471	8	3.1	8	100	0	50	40	24	24	12	1.88
12815179--12815212	10	3.4	10	95	0	59	14	23	44	17	1.86
12820222--12820405	25	7.3	26	70	12	80	38	21	19	21	1.94
12820350--12820398	25	1.9	26	91	4	82	32	20	24	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12820462--12820644	65	2.8	65	79	4	185	34	24	18	21	1.96
12826163--12826190	2	14.0	2	100	0	56	50	0	0	50	1.00
12826248--12826312	16	4.1	16	82	15	64	56	0	1	41	1.08
12826258--12826312	2	28.5	2	90	7	87	54	0	0	45	0.99
12826586--12826632	24	1.9	25	91	4	78	55	0	8	36	1.31
12831423--12831449	5	5.4	5	100	0	54	77	0	0	22	0.76
12841631--12841676	24	2.0	23	87	12	67	36	2	4	56	1.31
12847165--12847597	220	2.0	213	91	4	697	32	19	15	33	1.92
12850184--12850220	19	1.9	19	88	0	56	54	5	5	35	1.47
12854972--12855041	16	4.4	16	92	0	113	34	1	35	28	1.66
12855020--12855129	45	2.6	43	80	9	129	33	5	29	31	1.80
12860180--12860419	50	4.7	50	83	3	264	23	28	20	27	1.99
12860180--12860419	100	2.3	102	85	4	295	23	28	20	27	1.99
12870231--12870262	6	5.3	6	92	0	55	18	0	43	37	1.51
12871848--12872015	49	3.4	49	99	0	327	43	10	2	44	1.51
12872134--12872173	21	1.9	21	89	0	62	2	20	47	30	1.63
12872436--12872478	18	2.4	18	88	0	59	44	9	27	18	1.80
12874320--12874367	11	4.2	12	73	21	50	41	2	29	27	1.67
12874322--12874368	22	2.1	22	88	7	69	40	2	31	25	1.68
12874320--12874383	34	1.9	33	84	9	85	43	1	29	25	1.64
12878840--12878895	29	1.9	29	82	7	69	48	7	5	39	1.54
12880240--12880305	29	2.2	29	83	5	78	50	9	16	24	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12880430--12880458	3	9.7	3	100	0	58	65	0	0	34	0.93
12886194--12886261	35	2.0	35	94	5	122	19	11	5	63	1.48
12886443--12886508	15	4.4	15	81	11	73	27	6	4	62	1.39
12886443--12886484	3	14.0	3	84	0	57	28	2	4	64	1.26
12889742--12889872	45	2.9	43	83	7	163	19	23	15	41	1.90
12890472--12890512	20	2.0	21	85	4	57	39	12	4	43	1.63
12894181--12894222	3	14.0	3	100	0	84	66	0	33	0	0.92
12901543--12901575	6	5.5	6	96	0	57	18	21	0	60	1.36
12902470--12902499	15	2.0	15	100	0	60	53	13	0	33	1.40
12902843--12902899	30	1.9	30	92	0	96	33	14	7	45	1.71
12911016--12911094	22	3.6	22	87	0	113	29	27	15	27	1.96
12916276--12916432	41	3.8	41	81	0	161	33	26	21	18	1.96
12917292--12917345	28	1.9	28	85	7	74	46	5	0	48	1.25
12919024--12919083	3	20.3	3	83	10	70	60	0	3	36	1.14
12921537--12921636	42	2.4	42	87	0	137	36	12	28	24	1.91
12926927--12926967	19	2.1	20	86	13	59	68	9	9	12	1.40
12928487--12928522	2	18.0	2	100	0	72	50	0	0	50	1.00
12939864--12940102	47	5.1	47	84	7	308	61	1	12	23	1.40
12939898--12940080	22	8.0	23	70	16	130	61	1	12	24	1.39
12939864--12940102	91	2.5	93	84	8	306	61	1	12	23	1.40
12940089--12940194	5	19.6	5	86	5	113	59	0	21	17	1.43
12940389--12940430	22	2.0	21	86	13	59	61	0	7	30	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12940553--12940602	16	3.1	16	72	16	50	64	0	10	26	1.25
12940550--12940591	21	2.0	21	86	4	59	71	0	7	21	1.09
12940581--12940667	23	3.6	23	82	14	120	50	0	18	31	1.47
12940580--12940668	28	3.4	28	73	20	109	51	0	17	30	1.46
12940598--12940687	17	5.1	19	73	17	77	48	0	20	31	1.49
12940580--12940701	5	22.4	5	73	21	86	50	0	19	29	1.48
12940792--12940822	8	3.8	8	91	8	53	87	3	0	9	0.66
12940820--12940934	30	3.9	29	75	4	115	30	22	6	40	1.78
12941471--12941543	10	7.3	10	75	15	62	79	0	19	1	0.81
12941471--12941539	22	3.1	22	80	13	70	79	0	18	1	0.80
12941502--12941541	15	2.8	15	88	7	57	85	0	15	0	0.61
12941480--12941543	25	2.6	23	85	12	74	79	0	18	1	0.81
12941762--12941856	33	2.8	33	91	3	145	22	46	29	2	1.63
12941781--12941843	20	3.5	19	68	28	57	22	46	30	1	1.61
12941886--12941941	18	3.1	18	87	5	78	82	0	17	0	0.68
12941871--12941930	18	3.2	19	80	7	68	78	0	20	1	0.84
12941888--12941946	31	1.9	30	86	13	84	79	0	20	0	0.73
12941888--12941948	24	2.5	24	89	5	95	80	0	19	0	0.72
12941876--12941941	13	5.2	12	77	12	60	80	0	18	1	0.79
12941871--12941950	42	1.9	41	85	10	108	78	0	20	1	0.81
12941875--12941941	18	3.7	17	79	15	64	79	0	19	1	0.82
12941887--12941950	19	3.4	19	82	8	78	81	0	18	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12942460--12942921	17	25.9	17	72	11	259	29	14	10	45	1.78
12942460--12942915	18	25.4	18	73	11	314	28	14	10	45	1.78
12942532--12942906	53	7.0	53	73	11	180	29	14	10	44	1.79
12942460--12942915	35	12.7	36	73	13	275	28	14	10	45	1.78
12944386--12944425	16	2.5	16	91	0	62	47	2	7	42	1.45
12945348--12945397	9	5.6	9	95	0	91	10	34	20	36	1.86
12947546--12948122	92	6.3	92	93	0	983	40	10	11	38	1.75
12948637--12948699	17	3.5	17	89	10	90	50	11	7	30	1.66
12950464--12950510	20	2.3	20	82	10	60	70	8	4	17	1.29
12950494--12950576	30	2.8	30	81	16	95	54	4	0	40	1.22
12950561--12950587	9	3.0	9	100	0	54	44	0	0	55	0.99
12955166--12955528	83	4.5	82	89	3	549	27	16	21	34	1.95
12955735--12955849	30	3.9	29	75	4	115	30	22	6	40	1.78
12956276--12956334	21	2.8	20	85	12	73	67	0	30	1	1.00
12956427--12956500	35	2.1	35	82	9	89	79	0	17	2	0.84
12956421--12956508	32	2.8	32	81	13	101	77	0	20	2	0.88
12956449--12956489	13	3.1	13	89	10	57	82	0	17	0	0.66
12956421--12956492	22	3.2	22	81	15	78	77	0	20	1	0.84
12956448--12956501	11	5.1	10	84	6	63	79	0	18	1	0.82
12956449--12956510	12	5.5	11	75	19	56	80	0	17	1	0.79
12956765--12956816	16	3.2	16	86	5	70	80	0	19	0	0.71
12956767--12956823	22	2.5	22	88	5	87	78	0	21	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12956755--12956826	16	4.4	17	84	5	69	77	0	20	1	0.84
12956750--12956829	38	2.1	39	86	9	110	76	0	22	1	0.86
12957327--12957368	17	2.4	18	76	4	50	47	9	9	33	1.68
12957335--12957664	18	18.2	18	73	12	221	29	14	9	46	1.76
12957415--12957675	17	14.5	17	74	14	125	31	15	8	44	1.77
12957412--12957664	35	7.0	36	76	12	216	30	14	9	45	1.76
12957799--12957871	17	4.3	16	78	13	83	30	9	12	47	1.73
12957798--12957871	34	2.2	35	83	11	100	31	9	12	47	1.73
12958287--12958338	22	2.5	20	78	9	61	65	0	9	25	1.23
12958341--12958381	10	3.8	11	84	12	50	58	0	21	19	1.39

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