genome.fa.s7.2.7.7.80.10.50.1000.111.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  111  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)
33731414--33731485	22	3.3	21	74	3	54	47	18	18	16	1.83
33731477--33731583	32	3.4	32	77	1	99	36	23	20	19	1.95
33731627--33731686	27	2.2	27	88	5	86	35	21	21	21	1.96
33731758--33731831	24	3.1	24	82	0	85	44	21	8	25	1.79
33731877--33732162	27	10.6	27	76	3	245	22	18	20	38	1.94
33736814--33736998	51	3.6	51	81	5	196	31	27	15	25	1.96
33736915--33736947	14	2.5	13	90	9	50	39	27	9	24	1.85
33739857--33739948	47	2.0	47	86	4	132	36	27	14	21	1.92
33743171--33743220	10	4.8	10	78	9	55	62	0	2	36	1.07
33746594--33746760	50	3.3	50	89	0	181	29	17	25	27	1.97
33746480--33746760	100	2.8	100	81	4	313	28	16	26	28	1.97
33757335--33757412	35	2.2	35	86	0	102	29	15	19	35	1.92
33758947--33758978	14	2.3	14	100	0	64	21	28	28	21	1.99
33761667--33761725	21	2.8	20	80	7	73	35	25	20	18	1.95
33762349--33762374	13	2.0	13	100	0	52	61	0	0	38	0.96
33769110--33769163	26	2.1	26	92	0	90	14	18	9	57	1.64
33769110--33769170	26	2.4	25	84	7	72	14	16	8	60	1.57
33769330--33769430	51	2.0	50	84	7	134	29	3	3	62	1.31
33770573--33770620	21	2.3	20	78	3	60	25	0	22	52	1.48
33780465--33780504	2	20.5	2	94	5	73	47	0	0	52	1.00
33781894--33781999	41	2.6	41	89	0	167	22	20	25	31	1.98
33782296--33782334	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33783699--33783751	23	2.2	24	96	3	99	39	0	0	60	0.97
33785964--33786006	21	2.0	21	95	0	77	39	30	4	25	1.76
33790605--33790639	6	5.8	6	100	0	70	51	0	31	17	1.45
33794256--33794287	16	2.0	16	93	0	55	25	15	0	59	1.36
33794417--33794506	46	2.0	44	85	8	119	32	25	17	24	1.97
33794511--33794653	51	2.8	52	84	7	202	31	28	17	22	1.96
33800787--33800925	35	4.0	35	85	3	190	15	13	33	37	1.87
33815051--33815154	33	3.2	33	84	2	138	17	9	31	41	1.82
33820383--33820408	12	2.2	12	100	0	52	15	0	7	76	0.99
33820715--33820773	30	2.0	30	86	6	84	38	6	25	28	1.81
33821174--33821291	50	2.4	50	83	0	155	25	25	29	19	1.98
33821563--33821611	20	2.5	20	78	15	57	55	6	24	14	1.62
33822769--33822815	15	3.5	15	70	27	50	42	8	12	36	1.74
33822766--33822815	25	2.0	25	100	0	100	40	8	16	36	1.77
33826012--33826046	6	5.8	6	96	0	52	45	5	31	17	1.71
33826208--33826266	26	2.3	26	90	0	91	40	8	16	33	1.79
33847289--33847322	6	5.7	6	92	0	50	20	0	8	70	1.13
33847320--33847354	17	2.1	16	89	5	52	22	8	5	62	1.45
33847455--33847486	14	2.3	14	94	0	55	31	0	15	53	1.43
33861429--33861486	18	3.1	18	80	7	53	41	6	29	22	1.80
33871601--33871745	53	2.7	53	84	4	211	31	11	28	28	1.91
33874302--33874377	36	2.1	36	97	0	143	38	6	23	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33882085--33882193	50	2.2	51	78	8	125	24	20	33	22	1.97
33888057--33888256	27	7.4	27	75	8	165	45	17	13	23	1.84
33888076--33888254	54	3.3	54	85	0	268	45	18	13	22	1.84
33888076--33888256	81	2.2	81	79	7	215	44	18	13	23	1.85
33891083--33891132	25	2.0	25	92	0	82	22	14	46	18	1.84
33892766--33893000	27	8.8	26	82	6	247	42	18	16	22	1.89
33892766--33893000	54	4.4	53	86	3	294	42	18	16	22	1.89
33892766--33893000	81	2.9	81	86	5	289	42	18	16	22	1.89
33904766--33904832	26	2.5	26	81	11	75	22	14	5	56	1.60
33907020--33907358	88	4.0	85	77	11	315	28	26	23	22	1.99
33907204--33907351	78	1.9	78	88	5	228	27	29	22	20	1.99
33907348--33907674	88	3.7	88	73	4	302	26	23	27	22	2.00
33907350--33907717	175	2.1	175	85	3	499	27	22	26	23	1.99
33909342--33909441	30	3.3	30	77	14	98	35	3	5	57	1.36
33909559--33909596	8	5.0	8	84	9	53	39	0	0	60	0.97
33921471--33921656	49	3.8	49	83	4	214	24	22	21	31	1.98
33927909--33927939	15	2.1	15	93	0	53	12	3	6	77	1.08
33928807--33928832	8	3.2	8	100	0	52	76	0	0	23	0.78
33931882--33931912	15	2.1	15	93	0	53	35	32	6	25	1.82
33932868--33932908	21	2.0	21	85	0	55	46	7	14	31	1.72
33933231--33933285	22	2.4	21	80	14	56	49	18	1	30	1.58
33937808--33937843	18	2.0	18	88	0	54	36	0	19	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33937995--33938067	22	3.3	22	90	0	101	34	15	17	32	1.91
33943177--33943268	41	2.3	42	86	5	136	19	23	19	36	1.95
33961621--33961734	51	2.2	51	84	0	147	37	11	33	17	1.86
33969745--33969783	20	2.0	20	89	0	60	53	0	25	20	1.45
33975142--33975268	50	2.6	50	82	7	161	29	22	25	22	1.99
33975142--33975278	49	2.8	50	82	6	163	29	21	25	23	1.99
33975491--33975529	20	2.0	20	89	0	60	53	2	25	17	1.56
33989782--33989822	19	2.0	20	86	9	57	24	14	14	46	1.82
33992128--33992171	22	2.0	22	95	0	79	25	36	4	34	1.76
33992475--33992526	21	2.4	22	81	12	72	76	0	5	17	0.97
33994748--33994792	19	2.3	20	84	7	65	77	2	13	6	1.05
33994811--33994840	15	2.1	15	93	6	53	73	0	20	6	1.05
33998143--33998209	31	2.1	32	81	13	77	26	11	29	31	1.92
33999001--33999044	22	2.0	22	95	0	79	25	36	4	34	1.76
34004724--34004752	14	2.1	14	100	0	58	44	0	6	48	1.29
34006536--34006584	16	3.1	17	80	14	59	55	4	2	38	1.31
34006580--34006659	27	3.2	26	73	23	73	45	7	5	42	1.54
34008749--34008797	18	2.7	18	75	15	55	42	14	0	42	1.45
34009598--34009640	14	2.8	15	82	10	52	67	2	2	27	1.15
34009585--34009654	30	2.3	30	80	9	79	67	2	1	28	1.14
34014413--34014460	22	2.1	23	88	3	71	47	12	20	18	1.81
34031982--34032015	17	2.1	17	88	5	52	29	20	2	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34036348--34036381	17	2.0	17	88	0	50	29	14	14	41	1.86
34036593--34036630	19	2.0	20	85	10	53	21	2	18	57	1.52
34052951--34052988	20	1.9	20	94	0	67	26	44	21	7	1.79
34054153--34054187	18	2.0	17	88	5	52	60	17	5	17	1.55
34054896--34054933	14	2.7	14	95	0	67	60	0	2	36	1.11
34054893--34054933	17	2.4	17	88	8	57	60	0	2	36	1.10
34057705--34057841	50	2.7	50	89	0	202	24	18	24	32	1.97
34061872--34062135	137	1.9	137	89	0	411	33	20	8	36	1.84
34063460--34063510	20	2.6	19	87	9	75	43	15	11	29	1.82
34065745--34065783	20	2.0	20	89	0	60	28	15	12	43	1.83
34069087--34069206	50	2.4	50	83	2	134	21	29	21	27	1.99
34069023--34069206	100	1.8	99	82	3	235	22	27	20	29	1.99
34091551--34091575	12	2.1	12	100	0	50	16	24	12	48	1.79
34113016--34113042	13	2.1	13	100	0	54	29	0	22	48	1.51
34114131--34114289	43	3.7	42	81	2	156	23	17	27	32	1.97
34121361--34121387	12	2.2	12	100	0	54	22	11	11	55	1.66
34122167--34122205	20	2.0	20	90	10	62	15	23	5	56	1.59
34132033--34132145	29	3.9	29	87	6	167	26	15	21	37	1.92
34132037--34132151	58	2.0	58	91	3	187	26	13	21	38	1.91
34133769--34133832	32	2.0	32	84	0	83	28	12	23	35	1.91
34149901--34149976	40	1.9	40	83	5	100	28	23	30	17	1.97
34150056--34150375	41	7.8	41	79	3	277	16	24	24	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34150056--34150335	123	2.3	123	81	4	316	16	24	24	34	1.95
34150856--34150893	15	2.5	15	86	0	58	21	0	42	36	1.53
34152217--34152288	37	1.9	38	88	8	112	19	1	43	36	1.60
34152241--34152309	14	4.7	15	72	13	54	17	1	43	37	1.58
34155321--34155984	31	22.3	31	77	13	666	47	10	2	39	1.51
34155386--34155439	22	2.3	22	87	9	72	46	11	1	40	1.50
34155401--34155446	22	2.1	22	95	0	83	47	10	0	41	1.38
34155321--34155984	118	5.6	118	81	12	655	47	10	2	39	1.51
34155520--34155564	22	2.0	22	95	0	81	46	11	0	42	1.39
34155575--34155682	22	5.1	22	70	22	88	49	11	0	38	1.45

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