genome.fa.s2.2.7.7.80.10.50.1000.183.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  183  of  206  ( 24623 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)
55829279--55829388	26	4.2	26	80	10	127	57	1	24	16	1.49
55829492--55829547	23	2.3	24	85	11	71	78	0	16	5	0.92
55829510--55829554	20	2.2	20	88	4	63	77	0	13	8	0.98
55829567--55829628	28	2.2	28	88	2	88	70	1	19	8	1.20
55830580--55830663	31	2.6	31	81	12	91	55	3	5	34	1.41
55831520--55831586	34	2.0	34	96	0	125	28	16	17	37	1.92
55837875--55837930	27	2.1	27	93	0	94	21	3	14	60	1.49
55839655--55839682	2	14.0	2	100	0	56	50	0	0	50	1.00
55841806--55841849	21	2.1	21	87	8	63	34	0	6	59	1.24
55842043--55842150	44	2.6	39	77	17	110	34	29	4	31	1.78
55842056--55842152	45	2.2	45	88	5	144	34	29	5	30	1.79
55842132--55842184	16	3.3	16	91	0	88	22	32	5	39	1.78
55843883--55843973	45	2.0	45	100	0	182	40	17	15	26	1.89
55847796--55847824	12	2.4	12	100	0	58	31	34	0	34	1.58
55849890--55849927	18	2.1	18	95	0	67	18	0	23	57	1.40
55849890--55849927	9	4.2	9	83	12	51	18	0	23	57	1.40
55850085--55850489	126	3.2	126	89	4	629	29	16	23	29	1.96
55850731--55850815	18	4.7	18	91	0	125	24	9	23	42	1.84
55850731--55850815	9	9.4	9	90	0	107	24	9	23	42	1.84
55851557--55851623	27	2.5	27	97	0	125	23	5	25	44	1.76
55851557--55851623	9	7.4	9	86	0	80	23	5	25	44	1.76
55851785--55851809	12	2.1	12	100	0	50	16	24	36	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55852542--55852567	7	3.7	7	100	0	52	57	15	0	26	1.38
55852736--55852773	20	1.9	20	89	10	60	57	5	2	34	1.35
55853770--55853846	11	6.9	11	80	14	79	44	0	29	25	1.55
55853770--55853846	22	3.5	22	84	13	104	44	0	29	25	1.55
55853770--55853846	33	2.3	33	82	10	102	44	0	29	25	1.55
55857424--55857451	12	2.3	12	100	0	56	21	0	0	78	0.75
55859255--55859288	17	1.9	18	94	5	61	38	11	17	32	1.86
55862340--55862373	17	1.9	17	88	5	50	52	8	11	26	1.67
55862778--55862810	17	1.9	18	88	11	52	75	0	6	18	1.00
55864432--55864491	30	2.0	30	96	0	111	36	18	13	31	1.89
55876905--55876955	19	2.7	19	78	0	57	15	23	29	31	1.95
55876928--55876970	19	2.3	19	79	0	50	20	27	25	25	1.99
55879514--55879669	43	3.6	43	71	14	126	25	17	27	30	1.97
55881772--55881808	14	2.7	14	80	19	51	45	0	54	0	1.00
55883250--55883285	16	2.2	16	95	0	63	25	0	33	41	1.55
55883501--55883555	15	3.4	16	80	16	53	54	1	0	43	1.10
55883507--55883555	16	2.9	18	80	20	61	55	0	0	44	0.99
55883408--55883735	156	2.1	156	97	0	611	42	3	6	46	1.47
55883677--55883711	18	2.0	17	88	5	52	54	0	0	45	0.99
55883413--55883853	156	3.1	137	67	19	297	43	3	5	46	1.44
55883615--55883893	137	2.0	135	81	6	321	45	5	3	45	1.44
55890687--55890835	54	2.8	54	86	7	214	50	10	25	13	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55891443--55891470	4	7.0	4	100	0	56	0	25	0	75	0.81
55897689--55897713	13	1.9	13	100	0	50	64	16	8	12	1.49
55904549--55904737	51	3.8	49	77	6	191	26	17	26	28	1.98
55904555--55904739	102	1.8	101	87	5	275	25	18	26	29	1.98
55909106--55909173	27	2.5	28	88	4	104	39	8	1	50	1.43
55909174--55909217	9	5.0	9	83	5	54	86	9	2	2	0.75
55909176--55909215	8	4.9	8	87	9	55	87	7	2	2	0.71
55909174--55909218	17	2.7	16	86	6	63	86	8	2	2	0.73
55909259--55909325	27	2.5	27	90	0	98	19	28	35	16	1.93
55909374--55909507	10	13.1	10	72	13	58	67	0	32	0	0.91
55909377--55909450	14	5.1	13	71	25	51	68	0	31	0	0.89
55909408--55909480	20	3.8	20	80	14	98	63	0	36	0	0.95
55909389--55909470	34	2.4	33	86	9	112	65	0	34	0	0.93
55909386--55909488	38	2.7	38	80	14	106	65	0	34	0	0.93
55909394--55909528	20	6.9	20	71	18	97	65	0	34	0	0.93
55911720--55911756	17	2.2	17	100	0	74	29	16	8	45	1.76
55912722--55912750	14	2.1	14	100	0	58	37	6	0	55	1.27
55915128--55915165	18	2.1	18	95	0	67	18	42	5	34	1.73
55915131--55915172	18	2.3	18	87	0	66	23	45	2	28	1.66
55915901--55915959	3	19.7	3	100	0	118	66	0	0	33	0.92
55927695--55927742	20	2.4	21	75	10	55	64	0	25	10	1.25
55930975--55931122	57	2.5	61	81	11	182	30	18	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55936506--55936542	19	2.0	19	89	5	58	43	24	5	27	1.76
55940477--55940540	33	1.9	33	87	0	92	31	14	0	54	1.40
55940525--55940577	21	2.5	21	73	8	54	26	15	0	58	1.37
55940605--55940644	17	2.3	18	91	8	66	25	10	0	65	1.24
55940643--55940825	28	6.6	28	74	13	130	26	15	1	55	1.50
55940675--55940829	23	6.9	23	73	13	110	28	14	1	56	1.46
55940747--55940818	18	4.1	18	72	16	53	29	13	0	56	1.38
55940772--55940825	11	4.8	11	90	4	90	29	18	0	51	1.46
55940858--55940897	17	2.4	17	87	8	55	30	12	0	57	1.36
55940876--55940924	25	2.0	25	83	0	62	40	10	2	46	1.49
55941053--55941104	17	2.9	17	85	5	59	23	19	1	55	1.53
55941097--55941145	17	2.8	18	84	6	64	36	8	0	55	1.30
55941180--55941232	24	2.2	24	93	0	88	35	9	0	54	1.33
55941195--55941254	24	2.5	24	83	5	68	33	10	0	56	1.32
55942322--55942350	5	6.0	5	92	8	51	62	37	0	0	0.96
55943807--55943837	13	2.4	13	94	0	53	22	3	0	74	0.96
55950847--55951248	44	9.0	44	74	9	298	33	16	19	30	1.94
55950847--55951551	132	5.4	133	74	13	320	33	16	20	30	1.94
55951247--55951542	44	6.5	45	76	8	249	32	14	21	31	1.93
55951134--55951369	113	2.0	115	87	4	341	35	14	20	29	1.92
55951365--55951591	44	5.2	44	82	3	244	31	14	22	31	1.94
55951365--55951575	88	2.4	88	84	1	271	30	15	22	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55951883--55951941	22	2.7	22	84	5	75	10	47	18	23	1.79
55953090--55953136	3	15.7	3	100	0	94	31	0	0	68	0.90
55955714--55955786	37	2.0	37	97	0	137	13	20	28	36	1.91
55956285--55956310	12	2.2	12	100	0	52	76	15	7	0	0.99
55956411--55956542	53	2.5	54	79	9	137	46	21	17	14	1.84
55968285--55968316	12	2.6	13	85	14	50	56	6	0	37	1.25
55977694--55977767	6	12.3	6	100	0	148	50	16	0	33	1.45
55983274--55983298	12	2.1	12	100	0	50	24	36	24	16	1.94
55983459--55983544	9	9.4	9	83	7	102	40	27	10	20	1.85
55983459--55983519	27	2.3	27	97	0	113	39	27	9	22	1.86
55984422--55984478	26	2.2	26	93	0	96	22	29	7	40	1.80
55998979--55999082	39	2.6	41	92	6	153	31	15	16	36	1.90
55998993--55999082	39	2.3	39	100	0	180	30	17	15	36	1.91
55999092--55999166	32	2.3	32	88	0	114	24	28	4	44	1.72
56003497--56003592	38	2.6	38	72	24	87	29	22	4	43	1.72
56008332--56008362	2	15.5	2	100	0	62	0	48	0	51	1.00
56008362--56008392	2	15.5	2	93	0	53	51	0	0	48	1.00
56012314--56012398	3	28.3	3	100	0	170	67	0	0	32	0.91
56013904--56014063	47	3.4	47	82	3	196	42	20	15	21	1.89
56014642--56014767	43	3.0	42	82	4	137	30	26	14	29	1.95
56017994--56018043	9	5.6	9	87	0	55	46	24	6	24	1.75
56017995--56018043	18	2.7	18	90	0	80	44	24	6	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56018153--56018192	18	2.2	18	86	0	53	12	2	45	40	1.56
56028802--56028854	3	17.7	3	92	0	88	67	0	30	1	1.01
56029226--56029296	25	2.8	25	79	14	83	30	4	2	61	1.29
56031596--56031664	33	2.1	33	83	5	86	27	14	23	34	1.94
56033393--56033438	25	1.9	23	82	8	56	36	10	6	45	1.65
56039169--56039202	17	1.9	18	88	5	52	52	8	5	32	1.56
56039668--56039699	11	2.8	11	95	4	55	87	12	0	0	0.54
56041498--56041935	221	2.0	219	91	1	716	34	18	13	33	1.90
56042190--56042252	18	3.5	17	75	14	56	73	1	4	20	1.11
56043911--56044430	44	11.5	44	74	9	348	29	20	19	30	1.97

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