genome.fa.s2.2.7.7.80.10.50.1000.139.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  139  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)
42486665--42486711	16	2.7	18	81	12	55	51	0	0	48	1.00
42486647--42486700	19	2.9	18	81	8	56	53	0	1	44	1.11
42490458--42490665	103	2.0	103	99	0	407	42	7	18	31	1.79
42491996--42492032	17	2.1	18	90	5	58	54	10	10	24	1.67
42492512--42492598	23	3.8	23	81	0	84	21	18	14	44	1.86
42494172--42494349	55	3.2	55	88	4	268	33	24	14	28	1.94
42494222--42494310	27	3.3	27	70	14	83	34	26	13	24	1.93
42494205--42494338	28	4.9	28	65	13	98	32	26	11	28	1.92
42513599--42513851	39	6.5	39	89	1	364	45	20	3	30	1.69
42520967--42520993	2	13.5	2	100	0	54	51	0	0	48	1.00
42529225--42529258	17	1.9	17	88	5	50	17	0	14	67	1.23
42535752--42535794	22	2.0	22	86	9	61	51	16	2	30	1.57
42547519--42547552	13	2.5	14	85	4	52	38	5	20	35	1.77
42559761--42559800	19	2.1	19	85	0	53	27	7	2	62	1.35
42560674--42561443	390	2.0	391	86	2	1073	32	18	26	22	1.97
42563666--42563695	9	3.3	9	95	0	51	36	0	0	63	0.95
42563666--42563716	9	5.3	9	78	17	50	33	0	1	64	1.05
42563698--42563749	15	3.6	14	82	17	63	28	3	1	65	1.21
42576443--42576476	17	1.9	18	88	5	52	50	2	11	35	1.54
42596512--42596552	11	3.7	11	80	0	55	19	14	9	56	1.66
42596966--42597020	27	2.0	27	85	0	74	58	9	0	32	1.30
42597950--42597974	7	3.6	7	100	0	50	0	12	0	88	0.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42598440--42598772	126	2.6	126	93	0	567	31	18	22	27	1.97
42599372--42599803	22	19.0	22	76	11	333	22	0	33	42	1.60
42599372--42599655	43	6.5	43	84	6	311	24	1	31	42	1.62
42599530--42599634	49	2.1	50	92	1	176	20	0	39	40	1.53
42599509--42599802	71	4.1	71	81	11	332	21	0	37	41	1.58
42599602--42599802	49	4.1	49	94	0	339	19	0	37	41	1.56
42600340--42600382	18	2.4	18	84	0	59	46	9	27	16	1.77
42601039--42601695	328	2.0	328	99	0	1305	33	15	18	32	1.92
42602570--42602635	11	5.9	11	77	19	66	43	1	30	24	1.63
42602511--42602610	51	2.0	51	88	4	148	44	3	27	26	1.69
42602570--42602638	22	3.0	24	81	14	83	43	1	31	23	1.63
42604116--42604162	25	1.9	24	83	12	60	53	2	2	42	1.25
42606368--42606394	14	1.9	14	100	0	54	37	22	25	14	1.93
42617633--42617677	15	2.9	16	87	6	67	48	0	4	46	1.22
42617652--42617692	18	2.2	19	86	4	57	43	0	2	53	1.13
42621552--42621577	11	2.4	11	100	0	52	15	11	19	53	1.71
42621640--42621671	14	2.3	14	100	0	64	21	12	15	50	1.77
42629136--42629206	36	2.0	36	94	0	124	47	12	11	28	1.76
42633654--42633722	36	1.9	36	93	0	120	47	13	10	28	1.74
42638145--42638169	3	8.3	3	100	0	50	32	0	0	68	0.90
42639608--42639639	16	2.0	16	93	0	55	9	28	6	56	1.55
42646278--42646317	14	2.9	14	84	0	53	42	17	7	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42646243--42646309	34	1.9	35	87	3	100	44	13	10	31	1.77
42646635--42646693	27	2.1	29	90	6	95	10	0	38	50	1.36
42646751--42647023	94	2.9	95	84	4	363	38	2	17	42	1.63
42650212--42650245	13	2.6	13	86	13	52	67	0	0	32	0.91
42667117--42667367	69	3.6	68	77	4	243	38	25	19	16	1.92
42667404--42667583	57	3.1	57	82	7	202	35	13	11	39	1.81
42667537--42667622	39	2.2	39	91	0	136	33	15	6	44	1.73
42671964--42672131	80	2.1	82	85	4	225	36	4	8	50	1.53
42671973--42672097	40	3.1	38	71	20	94	35	4	8	52	1.49
42671999--42672134	41	3.4	39	70	17	109	37	4	9	48	1.56
42673184--42673223	21	1.9	21	84	0	53	62	0	0	37	0.95
42673233--42673272	21	1.9	21	89	0	62	47	0	2	50	1.14
42677830--42677918	39	2.2	40	82	9	103	38	3	4	53	1.38
42698355--42698409	25	2.2	25	81	12	60	49	5	1	43	1.36
42698313--42698457	68	2.1	71	80	7	163	51	3	4	41	1.38
42721309--42721346	5	7.4	5	96	3	67	21	0	0	78	0.74
42725164--42725218	20	2.8	20	94	2	94	18	36	29	16	1.92
42729170--42729207	10	4.1	9	83	16	51	42	5	0	52	1.24
42729173--42729202	14	2.1	15	93	6	53	40	6	0	53	1.27
42730026--42730072	22	2.1	22	96	0	85	59	10	2	27	1.42
42730615--42730653	5	7.8	5	100	0	78	58	0	0	41	0.98
42738016--42738901	72	12.3	72	77	2	688	34	23	16	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42739245--42739337	27	3.5	26	79	7	89	25	23	23	26	2.00
42741247--42741487	132	1.8	132	80	0	293	35	26	17	20	1.95
42742657--42742730	29	2.5	28	82	12	78	32	1	4	62	1.22
42744545--42744577	17	1.9	17	100	0	66	48	0	3	48	1.17
42744606--42744652	24	1.9	25	91	4	78	38	0	4	57	1.18
42744608--42744660	24	2.2	24	83	6	63	35	1	3	58	1.27
42745379--42745456	26	2.9	27	81	10	88	60	0	0	39	0.97
42748621--42748673	19	2.7	20	71	11	56	41	0	3	54	1.18
42748651--42748694	11	3.9	11	82	5	52	34	0	2	63	1.07
42754055--42754091	6	6.2	6	100	0	74	32	0	0	67	0.91
42754045--42754087	18	2.4	18	88	7	61	34	0	0	65	0.93
42755246--42755290	20	2.3	20	85	7	67	66	0	0	33	0.92
42755212--42755287	24	3.1	24	83	9	84	68	0	1	30	0.98
42755246--42755293	19	2.6	18	80	9	60	68	0	0	31	0.90
42755445--42755485	18	2.3	18	87	4	57	29	0	0	70	0.87
42755750--42755779	15	1.9	16	93	6	53	43	0	0	56	0.99
42756775--42756824	24	2.0	25	81	11	59	8	36	2	54	1.42
42764540--42764590	25	2.1	23	80	16	59	37	1	1	58	1.20
42772613--42772683	4	18.0	4	71	16	51	2	23	1	71	1.07
42772605--42772683	21	3.7	21	76	14	65	2	25	1	70	1.07
42772614--42772685	11	7.3	10	69	20	53	2	22	1	73	1.04
42772697--42772760	20	3.2	20	74	22	62	51	1	0	46	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42779295--42779430	37	3.5	39	78	9	134	33	25	16	24	1.95
42780282--42780350	22	3.1	22	79	10	70	2	24	1	71	1.09
42782843--42782916	29	2.6	29	85	8	105	29	20	6	43	1.77
42782987--42783094	41	2.6	41	81	8	114	50	18	1	29	1.58
42782996--42783062	19	3.4	19	73	16	55	49	22	1	26	1.59
42783163--42783256	40	2.4	38	82	3	125	26	19	30	23	1.98
42792144--42792181	3	12.7	3	100	0	76	31	0	0	68	0.90
42793212--42793245	16	2.1	16	88	0	50	55	5	0	38	1.24
42796932--42796957	12	2.2	12	100	0	52	38	26	0	34	1.57
42801620--42801646	11	2.5	11	100	0	54	14	0	14	70	1.17
42807131--42807408	41	6.7	40	74	11	170	32	24	15	27	1.95
42807213--42807401	82	2.3	82	84	2	245	30	24	15	29	1.96
42807449--42807486	19	2.0	20	84	5	51	34	23	0	42	1.55
42811680--42811712	16	2.0	17	88	5	50	36	33	6	24	1.80
42811981--42812292	117	2.7	117	90	2	502	22	8	24	43	1.81
42812810--42812886	32	2.4	33	83	12	90	29	0	41	28	1.56
42822836--42822921	24	3.6	23	79	3	82	17	12	32	37	1.88
42822821--42822916	48	2.0	48	82	8	115	16	16	31	35	1.92
42830050--42830184	69	2.0	69	95	0	243	33	16	17	32	1.93
42832885--42832909	13	1.9	13	100	0	50	32	16	24	28	1.96
42835779--42835826	24	2.0	25	83	4	62	35	0	6	58	1.23
42835762--42835824	31	2.0	33	84	6	85	36	1	4	57	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42838081--42838117	8	4.5	8	89	3	56	13	0	59	27	1.35
42843311--42843363	20	2.7	20	82	5	63	32	22	33	11	1.90
42843579--42843619	21	2.0	21	95	0	73	43	21	4	29	1.73
42845962--42845996	18	1.9	18	88	0	52	25	2	28	42	1.69
42848740--42848773	10	3.4	10	91	0	50	41	0	8	50	1.34
42848780--42848897	57	2.1	57	100	0	236	36	10	10	43	1.72
42848947--42848995	17	2.8	18	75	25	52	51	0	4	44	1.20
42849399--42849451	23	2.3	23	83	0	61	47	5	0	47	1.26
42849835--42849879	19	2.6	18	80	16	51	42	0	2	55	1.12
42849914--42849950	16	2.3	16	86	13	58	40	0	0	59	0.97

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