genome.fa.s5.2.7.7.80.10.50.1000.153.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  153  of  208  ( 24913 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)
46613867--46614025	58	2.8	57	79	10	173	41	1	4	52	1.32
46615618--46615654	2	19.0	2	94	5	67	51	0	0	48	1.00
46617138--46617178	14	2.8	15	85	10	50	53	2	0	43	1.13
46620456--46620496	14	3.0	14	83	16	59	29	0	0	70	0.87
46625899--46625933	2	17.5	2	93	0	61	48	0	2	48	1.16
46647974--46648344	104	3.6	102	92	2	582	31	29	19	19	1.96
46653631--46653674	11	4.2	10	82	8	52	27	2	9	61	1.38
46659454--46659507	21	2.6	21	85	5	74	27	12	20	38	1.89
46692440--46692533	44	2.1	44	98	0	179	38	13	5	42	1.67
46692458--46692528	22	3.2	22	63	21	58	42	12	7	38	1.70
46693143--46693167	13	1.9	13	100	0	50	40	28	8	24	1.83
46701850--46701920	25	2.7	27	80	8	76	33	21	23	21	1.97
46701992--46702132	25	5.6	25	70	17	114	35	24	22	17	1.95
46702064--46702132	26	2.7	26	88	4	106	37	23	21	17	1.94
46701999--46702138	51	2.8	50	75	14	146	37	22	21	18	1.94
46704520--46704605	30	2.9	30	91	0	127	36	22	20	20	1.96
46704714--46704841	26	4.9	26	82	3	150	40	20	21	17	1.91
46704714--46704841	52	2.5	52	88	0	184	40	20	21	17	1.91
46705016--46705215	27	7.4	26	80	7	159	20	18	19	42	1.90
46705007--46705215	54	3.9	54	81	3	208	21	17	20	41	1.91
46705017--46705215	81	2.5	81	81	4	224	20	18	19	42	1.90
46707658--46707719	18	3.4	18	80	8	72	67	1	22	8	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46707712--46707784	12	5.9	12	78	3	65	63	1	24	10	1.35
46708966--46709002	14	2.6	14	86	0	56	37	0	45	16	1.47
46717989--46718062	31	2.4	31	90	2	112	41	13	21	22	1.88
46718711--46718753	22	2.0	21	86	4	59	4	41	2	51	1.35
46718711--46718762	21	2.4	22	83	3	61	5	38	1	53	1.36
46720045--46720069	12	2.1	12	100	0	50	32	8	0	60	1.26
46724380--46724433	27	2.0	27	85	0	72	31	22	5	40	1.77
46737256--46737298	21	2.0	23	90	9	72	32	0	0	67	0.91
46738188--46738249	9	6.8	9	83	10	81	40	29	9	20	1.84
46739505--46739556	21	2.4	22	83	3	61	53	1	38	5	1.36
46747429--46747528	44	2.3	44	80	3	103	26	22	19	33	1.97
46747555--46748350	51	15.9	51	80	6	829	28	24	17	29	1.98
46747607--46747739	44	3.0	44	76	4	133	25	26	21	27	1.99
46747465--46747818	194	1.8	194	90	2	568	26	23	19	29	1.98
46749477--46749732	43	6.0	43	81	7	260	25	21	19	33	1.97
46749476--46749729	85	3.0	85	84	8	270	26	20	20	32	1.97
46750219--46750281	30	2.1	30	93	0	108	23	4	15	55	1.59
46754686--46754715	14	2.1	14	93	0	51	13	20	10	56	1.65
46754625--46754768	75	1.9	75	97	0	270	25	17	12	45	1.83
46755694--46755740	23	2.0	23	95	0	85	38	0	14	46	1.45
46755774--46755817	22	2.0	22	91	4	72	40	13	4	40	1.65
46756121--46756167	20	2.5	19	75	6	51	40	2	2	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46756154--46756215	24	2.6	23	75	12	63	51	1	0	46	1.10
46756393--46756430	13	2.9	13	92	0	67	36	31	7	23	1.84
46756955--46757337	126	3.1	123	85	9	540	29	17	22	30	1.97
46760505--46761120	22	28.9	22	82	5	718	24	0	28	46	1.58
46760505--46761120	43	14.4	43	83	6	702	24	0	28	46	1.58
46760643--46760713	37	1.9	37	88	0	106	21	0	26	52	1.47
46761694--46761736	18	2.4	18	84	0	59	46	9	27	16	1.77
46762571--46762608	20	1.9	20	84	10	51	55	7	2	34	1.43
46763542--46763618	11	6.9	11	74	14	59	44	3	28	23	1.71
46763558--46763617	22	2.7	22	84	2	75	41	5	33	20	1.74
46763542--46763617	33	2.3	35	86	9	113	43	3	28	23	1.72
46763797--46763873	40	1.9	40	89	0	118	27	29	23	19	1.98
46764749--46765040	93	3.1	93	88	2	408	38	18	14	28	1.90
46764794--46765601	70	11.6	69	72	13	408	39	16	15	28	1.89
46764980--46765611	93	6.8	93	93	1	1022	39	15	15	28	1.89
46764831--46765202	163	2.3	163	94	1	640	38	17	15	27	1.90
46764749--46765281	256	2.1	258	92	1	883	38	17	15	28	1.90
46764980--46765611	278	2.3	279	93	1	1070	39	15	15	28	1.89
46766311--46766437	28	4.5	28	88	2	175	29	24	12	33	1.92
46772576--46772867	93	3.1	93	89	2	417	38	18	15	28	1.91
46772738--46772929	70	2.8	70	91	4	293	38	16	16	28	1.91
46772833--46772974	46	3.0	46	79	6	178	37	15	16	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46772645--46772974	163	2.0	162	92	0	552	38	16	14	29	1.89
46773697--46773794	28	3.5	28	95	0	169	28	25	13	32	1.93
46773669--46773795	56	2.3	55	84	4	164	30	23	13	32	1.93
46775275--46775484	43	4.9	43	84	6	234	65	0	33	0	1.00
46775271--46775500	81	2.8	81	78	13	233	65	0	33	0	1.00
46775272--46775496	10	22.0	10	69	17	79	66	0	32	0	0.99
46775818--46776550	159	4.7	157	76	13	651	51	7	10	30	1.65
46776318--46776347	16	1.9	15	93	6	51	70	3	0	26	1.03
46775818--46776584	319	2.4	309	91	3	1230	50	7	10	31	1.66
46778237--46778275	12	3.2	12	88	0	51	30	38	25	5	1.78
46782650--46782681	17	1.9	17	93	6	57	21	6	3	68	1.26
46783426--46783490	2	32.0	2	96	3	121	49	0	1	49	1.10
46791824--46791850	3	9.0	3	100	0	54	33	0	0	66	0.92
46796537--46796713	46	3.8	46	88	0	273	29	24	9	37	1.86
46804517--46804654	43	3.2	42	86	3	168	25	29	20	24	1.99
46814055--46814085	16	1.9	16	93	0	53	29	51	0	19	1.47
46814893--46815296	41	9.8	41	84	1	414	33	26	24	15	1.95
46815208--46815281	24	3.4	24	63	25	65	28	29	25	16	1.97
46815345--46815471	40	3.2	39	76	5	112	18	25	21	35	1.95
46816682--46816706	2	12.5	2	100	0	50	48	0	0	52	1.00
46821018--46821066	25	2.0	25	100	0	98	36	8	12	42	1.72
46821015--46821074	25	2.4	26	86	8	97	41	6	10	41	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46822094--46822142	25	2.0	25	83	0	62	38	0	16	44	1.48
46822538--46822623	43	2.0	43	90	0	136	52	1	23	23	1.54
46825690--46825735	18	2.5	18	85	3	56	34	15	15	34	1.89
46825776--46825812	9	4.1	9	92	0	65	45	13	10	29	1.77
46826841--46826866	5	5.2	5	100	0	52	19	19	19	42	1.90
46830956--46830981	13	2.0	13	100	0	52	30	7	23	38	1.83
46833803--46834214	95	4.3	95	81	3	407	37	15	18	28	1.92
46836039--46836066	14	2.0	14	100	0	56	35	7	0	57	1.26
46845741--46845778	19	2.0	19	85	10	51	21	42	0	36	1.53
46847225--46847259	18	1.9	18	100	0	70	17	17	17	48	1.81
46851634--46851674	17	2.5	17	88	7	59	73	4	4	17	1.19
46855643--46855697	20	2.8	20	81	15	62	65	1	5	27	1.25
46856434--46856484	15	3.4	15	75	24	54	43	0	9	47	1.36
46856425--46856500	30	2.3	33	84	15	104	39	0	13	47	1.42
46856446--46856497	9	5.6	9	76	14	52	38	0	13	48	1.43
46859209--46859261	5	10.8	5	97	2	99	41	0	0	58	0.98
46862154--46862214	12	4.9	12	76	9	52	32	1	3	62	1.21
46864934--46865086	43	3.5	43	78	9	159	30	12	23	33	1.92
46867569--46867616	3	16.0	3	100	0	96	33	0	0	66	0.92
46869178--46869259	41	2.0	41	95	0	146	19	14	14	51	1.77
46870897--46870942	23	2.0	23	100	0	92	34	17	8	39	1.80
46871846--46871904	28	2.1	28	100	0	118	28	20	20	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46873094--46873143	12	4.0	12	82	7	55	32	2	2	64	1.16
46873087--46873143	15	3.7	15	76	6	53	29	1	3	64	1.20
46874335--46874403	23	3.0	23	82	4	77	20	21	23	34	1.96
46874347--46874444	21	4.5	21	78	8	81	19	21	23	35	1.96
46879554--46879716	24	6.6	25	71	15	115	36	22	24	16	1.94
46882087--46882139	15	3.4	15	78	19	63	45	0	9	45	1.36
46882078--46882169	34	2.6	34	85	13	125	42	0	13	44	1.43
46884649--46884720	26	2.8	26	85	2	83	43	9	18	29	1.81
46891547--46891594	26	1.9	26	83	8	64	45	8	4	41	1.53
46893401--46893499	22	4.5	22	88	0	126	26	27	14	32	1.94

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   207   208