genome.fa.s6.2.7.7.80.10.50.1000.130.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  130  of  168  ( 20060 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)
37900710--37901246	181	3.0	181	95	0	966	32	22	9	35	1.87
37902421--37902450	15	2.0	15	100	0	60	40	6	13	40	1.71
37905703--37905901	46	4.6	46	80	13	251	28	21	15	35	1.93
37905793--37905865	36	2.0	36	91	0	119	26	17	16	39	1.91
37905747--37905897	82	1.8	82	97	0	284	27	20	13	37	1.91
37911657--37911696	19	2.1	19	100	0	80	25	17	25	32	1.97
37917968--37918046	32	2.5	31	79	4	86	37	3	8	49	1.52
37918131--37918161	16	1.9	16	93	0	53	12	3	9	74	1.19
37918343--37918389	23	2.0	25	87	8	71	59	6	4	29	1.41
37918977--37919042	27	2.4	27	94	2	114	43	4	18	33	1.70
37920143--37920217	20	3.7	20	66	18	55	38	2	0	58	1.12
37920192--37920256	29	2.2	29	86	8	87	38	3	0	58	1.14
37920150--37920281	41	3.1	41	84	9	169	40	2	0	56	1.17
37921585--37921635	25	2.2	24	86	10	70	29	9	5	54	1.56
37928462--37928553	48	1.9	48	97	0	175	34	14	4	46	1.64
37928687--37928876	50	3.7	50	82	4	200	26	18	28	26	1.98
37928689--37928876	100	1.8	104	80	6	231	26	18	28	26	1.98
37940143--37940183	22	1.9	22	85	5	57	34	4	2	58	1.32
37960608--37960763	69	2.3	69	87	2	215	39	14	17	27	1.89
37960659--37960759	23	4.4	23	63	18	66	37	15	17	28	1.91
37960774--37960877	38	2.9	33	76	13	91	45	19	11	24	1.83
37961625--37961749	43	3.0	41	81	4	124	27	27	14	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37965440--37965466	13	2.1	13	100	0	54	70	0	7	22	1.12
37968762--37968802	20	2.0	20	100	0	82	43	9	29	17	1.80
37972806--37972863	9	6.4	9	77	0	62	29	8	20	41	1.82
37976384--37976711	163	2.0	163	98	0	629	30	15	18	34	1.93
37982506--37982538	6	5.5	6	100	0	66	15	0	51	33	1.43
37982573--37982644	36	2.0	37	88	2	110	29	8	22	40	1.83
37997562--37997693	25	5.5	24	85	6	171	37	22	22	16	1.93
37997566--37997693	49	2.7	50	86	6	167	36	23	23	16	1.94
37998722--37998816	40	2.3	40	90	3	145	0	28	8	63	1.24
37998832--37998913	8	10.5	8	69	23	59	58	4	0	36	1.20
37998826--37998909	5	16.6	5	70	23	52	58	4	0	36	1.19
37998828--37998910	24	3.4	24	77	11	71	59	4	0	36	1.19
38000412--38000471	2	29.0	2	80	6	66	45	6	1	46	1.39
38002113--38002181	23	3.1	23	77	8	79	62	8	13	15	1.54
38002087--38002245	44	3.7	42	77	9	153	59	9	13	16	1.59
38002118--38002188	21	3.3	21	75	7	70	66	5	12	15	1.42
38002977--38003025	20	2.5	20	86	3	64	57	14	12	16	1.66
38003064--38003268	20	10.3	20	68	12	91	54	8	17	20	1.69
38003189--38003234	19	2.3	21	85	14	62	63	2	15	19	1.41
38003162--38003272	41	2.7	42	72	5	111	57	6	14	21	1.59
38004639--38004677	14	2.8	14	84	0	51	33	5	0	61	1.18
38027544--38027586	21	2.0	23	81	9	54	32	16	20	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38028989--38029030	22	2.0	22	86	9	61	45	35	4	14	1.66
38029209--38029274	6	10.5	6	82	8	60	77	13	6	3	1.08
38037193--38037271	24	3.3	24	79	10	81	16	40	3	39	1.67
38037220--38037282	24	2.6	25	80	5	67	15	36	3	44	1.63
38039314--38039352	9	4.1	9	81	12	51	43	0	33	23	1.54
38039318--38039355	20	1.9	20	100	0	76	39	0	36	23	1.55
38041299--38041594	108	2.8	108	85	2	364	26	10	8	54	1.63
38042570--38042620	25	2.0	25	85	11	68	43	1	1	52	1.23
38045199--38045234	18	1.9	19	94	5	65	47	11	5	36	1.63
38045389--38045438	25	2.0	25	92	0	82	48	2	0	50	1.12
38047004--38047037	8	4.0	8	85	14	50	2	14	0	82	0.79
38063339--38063395	26	2.2	26	84	6	71	21	10	31	36	1.87
38063729--38063801	36	2.0	36	97	0	137	24	23	36	15	1.93
38071055--38071102	2	24.0	2	100	0	96	50	0	0	50	1.00
38071797--38071841	2	22.5	2	100	0	90	0	0	51	48	1.00
38072553--38072699	57	2.5	57	80	8	161	33	21	22	22	1.97
38072818--38072952	67	2.0	67	91	0	216	23	19	29	27	1.98
38080774--38080893	2	61.0	2	91	3	181	45	1	0	52	1.16
38083271--38083299	3	9.7	3	100	0	58	34	0	31	34	1.58
38084493--38084546	28	1.9	28	82	14	67	64	20	9	5	1.42
38091864--38092219	121	2.9	121	86	3	493	38	16	10	34	1.83
38092624--38092705	40	2.0	42	86	9	116	26	21	29	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38093513--38093758	96	2.8	83	78	16	278	39	17	1	42	1.57
38093558--38093715	48	3.3	47	66	20	123	37	17	1	43	1.58
38093570--38093817	96	2.6	93	86	5	352	39	18	2	39	1.63
38098273--38098592	107	3.0	108	92	2	504	31	16	17	34	1.92
38103711--38103748	20	1.9	20	88	0	58	2	23	0	73	0.95
38107279--38107382	46	2.3	43	87	9	163	27	11	29	30	1.92
38107287--38107378	46	2.0	46	97	0	175	28	9	28	33	1.89
38107368--38107500	41	3.3	41	91	1	205	39	12	22	26	1.89
38107939--38108020	8	10.5	8	69	23	59	36	0	4	58	1.20
38107943--38108026	5	16.6	5	70	23	52	36	0	4	58	1.19
38107961--38108015	13	4.4	13	79	9	60	34	0	3	61	1.13
38108035--38108130	40	2.3	40	89	3	147	63	8	28	0	1.23
38109151--38109282	25	5.5	24	82	6	153	16	21	21	39	1.92
38118417--38118446	15	2.0	15	100	0	60	33	6	6	53	1.53
38121446--38121594	73	2.0	73	81	2	174	25	12	34	26	1.92
38123857--38123933	24	3.1	25	68	7	59	20	23	22	33	1.97
38123846--38123949	49	2.1	49	82	10	124	23	22	21	33	1.97
38124681--38124778	22	4.5	22	88	0	124	32	14	26	26	1.94
38125680--38125861	76	2.3	78	86	7	262	32	25	19	22	1.98
38126343--38126386	21	2.1	21	100	0	88	59	13	0	27	1.35
38129663--38129689	14	1.9	14	100	0	54	22	37	18	22	1.95
38140843--38140916	2	39.5	2	79	12	86	52	4	0	43	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38140845--38140918	30	2.4	31	93	6	123	52	5	0	41	1.24
38142863--38143121	89	2.9	89	94	1	446	47	13	6	32	1.69
38144617--38144688	21	3.4	21	74	0	72	41	19	23	15	1.89
38145241--38145422	42	4.3	42	76	9	165	30	28	18	23	1.98
38145240--38145399	85	1.9	85	85	3	223	31	26	19	22	1.98
38150640--38150682	21	2.0	21	86	8	61	32	41	0	25	1.56
38150645--38150687	14	3.1	14	82	0	59	27	46	0	25	1.53
38150645--38150687	7	6.1	7	80	0	50	27	46	0	25	1.53
38151481--38151672	41	4.7	41	80	5	192	28	25	20	25	1.99
38151521--38151672	82	1.9	82	85	2	216	28	26	21	24	1.99
38151652--38151685	17	1.9	18	94	5	61	29	26	14	29	1.95
38152665--38153019	184	1.9	184	98	0	692	34	22	9	33	1.87
38159005--38159058	27	2.0	27	85	3	74	29	18	9	42	1.81
38159194--38159233	20	2.0	20	90	0	62	27	10	12	50	1.72
38159179--38159245	34	1.9	35	90	3	109	31	8	13	46	1.74
38159173--38159249	14	5.0	15	71	20	52	33	9	14	42	1.77
38160426--38160487	10	6.0	11	72	14	51	30	1	1	66	1.11
38160623--38160662	18	2.2	18	90	0	62	30	7	10	52	1.62
38167013--38167040	3	9.3	3	100	0	56	64	0	0	35	0.94
38167355--38167402	21	2.3	21	85	7	62	62	8	2	27	1.35
38168461--38168490	13	2.4	12	94	5	51	6	0	16	76	0.99
38175354--38175389	16	2.2	16	90	0	54	44	0	25	30	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38175568--38175726	56	2.8	56	79	9	160	54	4	0	41	1.20
38175651--38175734	39	2.2	38	80	10	98	55	3	0	40	1.17
38176812--38177001	94	2.0	94	97	0	362	27	11	25	34	1.91
38180982--38181163	93	2.0	93	98	0	355	38	10	7	42	1.69
38197432--38197482	19	2.6	19	81	6	66	52	5	1	39	1.37
38199847--38199903	22	2.6	22	80	0	69	43	17	24	14	1.86
38201343--38201401	29	2.0	29	96	0	109	27	23	5	44	1.74
38204464--38205121	328	2.0	328	95	0	1181	31	14	17	36	1.90
38216861--38216885	5	5.0	5	100	0	50	80	20	0	0	0.72
38217892--38217932	19	2.2	19	86	4	57	58	2	0	39	1.11

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