genome.fa.s13.2.7.7.80.10.50.1000.134.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  134  of  199  ( 23770 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)
40550087--40550130	18	2.5	16	77	22	52	47	0	6	45	1.29
40554075--40554109	17	2.1	17	89	10	54	31	5	0	62	1.18
40561287--40561312	2	13.0	2	100	0	52	50	0	0	50	1.00
40568933--40569077	41	3.5	41	92	1	229	28	18	29	23	1.98
40569088--40569125	18	2.1	18	100	0	76	31	5	15	47	1.68
40569127--40569159	2	16.5	2	100	0	66	51	0	0	48	1.00
40574763--40574797	18	2.0	18	94	5	63	11	25	45	17	1.81
40575731--40575775	18	2.5	18	82	7	56	37	4	17	40	1.70
40576845--40576885	3	13.7	3	100	0	82	34	0	0	65	0.93
40577503--40577563	20	3.1	19	72	9	68	32	16	37	13	1.87
40579637--40579684	25	2.0	24	83	4	60	41	12	8	37	1.73
40579895--40579943	20	2.7	18	77	22	57	51	4	2	42	1.32
40584351--40584389	20	2.0	20	84	0	51	10	15	12	61	1.56
40585229--40585267	20	2.0	20	95	5	71	51	2	5	41	1.38
40585290--40585326	3	12.7	3	88	5	58	37	0	0	62	0.96
40586299--40586438	40	3.5	40	74	8	126	30	18	22	29	1.97
40590670--40590811	27	5.3	27	80	1	151	44	20	16	18	1.87
40591202--40591268	28	2.4	28	94	0	116	23	26	22	26	2.00
40592031--40592069	18	2.2	18	86	9	53	46	10	25	17	1.80
40593663--40593817	41	3.8	41	92	0	238	31	31	20	16	1.95
40594370--40594468	47	2.1	47	80	0	108	40	14	6	39	1.70
40594521--40594636	47	2.4	47	78	7	135	37	17	7	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40598460--40598559	51	2.0	51	100	0	200	25	20	31	24	1.98
40599293--40599328	17	2.1	17	89	0	54	44	16	11	27	1.82
40601908--40602070	68	2.4	68	81	4	184	23	23	17	34	1.96
40610771--40610881	19	5.8	19	86	0	168	39	8	13	38	1.74
40610778--40610881	38	2.7	38	96	0	190	40	7	12	39	1.72
40610771--40610904	19	6.7	22	73	16	75	38	7	14	39	1.74
40630301--40630339	11	3.5	11	85	0	51	69	2	17	10	1.28
40630852--40630886	18	2.0	17	94	5	61	22	5	0	71	1.07
40637573--40637650	41	1.9	41	86	5	113	30	17	15	35	1.91
40637988--40638055	21	3.2	21	80	0	73	5	47	17	29	1.71
40639528--40639592	9	7.2	9	87	0	85	35	3	16	44	1.64
40639525--40639594	18	3.9	18	90	0	95	32	4	17	45	1.67
40639572--40639659	37	2.4	37	88	1	124	40	3	10	45	1.55
40639641--40639679	20	2.0	20	94	0	69	46	5	5	43	1.48
40639661--40639947	37	7.7	37	77	11	239	35	5	9	48	1.60
40639558--40640091	93	5.7	90	82	7	575	36	4	9	48	1.57
40639739--40639910	56	3.1	56	96	0	308	36	5	9	48	1.59
40639711--40640110	149	2.7	147	89	3	579	36	5	9	49	1.57
40639888--40640003	56	2.1	56	95	0	205	36	4	10	49	1.57
40639944--40640040	37	2.6	37	95	0	176	36	5	9	49	1.57
40639975--40640110	56	2.4	57	88	2	202	37	4	8	50	1.52
40641514--40641558	23	2.0	23	100	0	90	22	4	42	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40641763--40642029	147	1.8	147	81	1	338	37	20	13	27	1.91
40643419--40643799	114	3.4	111	79	6	399	27	28	22	22	1.99
40643701--40643777	41	1.9	40	84	7	102	28	29	18	23	1.97
40643839--40643925	40	2.2	40	95	0	156	20	25	21	32	1.98
40643839--40643941	40	2.6	40	89	3	127	21	24	23	31	1.99
40644635--40644672	2	19.0	2	100	0	76	50	0	0	50	1.00
40645829--40645863	18	2.0	17	88	5	52	42	2	48	5	1.41
40663167--40663199	16	1.9	18	88	11	52	51	15	0	33	1.43
40664375--40664416	21	1.9	21	85	9	57	26	2	7	64	1.32
40672674--40672865	95	2.0	95	98	0	375	32	15	20	31	1.94
40676862--40676890	15	1.9	15	100	0	58	37	13	6	41	1.72
40678827--40678867	19	2.3	19	83	8	50	17	17	7	58	1.60
40680216--40680245	14	2.1	14	100	0	60	40	0	20	40	1.52
40684741--40684807	21	3.2	21	93	2	109	20	14	31	32	1.93
40690808--40690865	30	1.9	30	85	0	80	50	36	8	5	1.56
40693611--40693647	16	2.2	17	95	4	67	0	13	0	86	0.57
40695028--40695061	9	3.6	9	92	8	50	52	0	0	47	1.00
40695638--40695696	21	2.8	21	77	10	66	30	10	1	57	1.42
40695609--40695677	28	2.5	28	74	9	68	28	15	1	53	1.51
40698156--40698193	18	2.1	18	90	0	58	55	7	7	28	1.57
40700296--40700341	23	2.0	24	82	4	58	58	4	2	34	1.30
40700386--40700437	26	2.0	26	82	17	65	53	3	0	42	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40700660--40700701	21	2.0	21	81	9	50	59	4	7	28	1.44
40701600--40701625	5	5.2	5	100	0	52	42	19	19	19	1.90
40702374--40702433	30	2.0	31	86	3	86	40	0	40	20	1.52
40702646--40702682	9	4.1	9	92	0	65	29	10	13	45	1.77
40707491--40707751	51	5.3	51	88	6	383	29	23	14	31	1.95
40707550--40707758	44	4.4	44	78	17	240	30	23	15	30	1.95
40707491--40707758	146	1.8	146	94	0	473	30	23	15	30	1.95
40707499--40707751	95	2.6	97	89	4	366	30	23	15	31	1.95
40710700--40710767	33	2.1	33	100	0	136	26	20	22	30	1.98
40713033--40713125	48	1.9	48	91	0	150	34	23	23	18	1.96
40713120--40713306	74	2.5	74	88	0	275	33	22	20	22	1.97
40713132--40713306	35	4.7	38	66	19	100	34	22	20	22	1.97
40731939--40731989	26	2.0	26	84	7	68	9	15	0	74	1.06
40740402--40740427	2	13.0	2	100	0	52	50	0	0	50	1.00
40740972--40741017	21	2.2	21	84	7	58	23	19	36	19	1.95
40743969--40743993	12	2.1	12	100	0	50	0	60	0	40	0.97
40746232--40746284	21	2.5	21	90	0	79	30	35	9	24	1.87
40765702--40765750	16	2.9	16	77	11	53	61	2	2	34	1.19
40765701--40765751	17	3.1	16	73	18	50	62	1	1	33	1.17
40772707--40772914	66	3.1	67	81	4	197	34	10	27	27	1.89
40774530--40774822	108	2.7	107	83	5	331	37	16	20	25	1.93
40774727--40775026	87	3.5	86	80	3	271	39	15	20	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40774868--40775069	87	2.3	87	86	1	262	39	13	21	25	1.91
40777426--40777538	59	2.0	55	89	6	172	35	18	25	20	1.95
40777477--40777784	108	2.8	107	80	11	329	33	15	17	34	1.91
40777548--40777784	115	2.1	111	86	8	325	31	15	15	37	1.88
40778027--40778069	17	2.4	18	80	11	52	74	0	4	20	1.00
40778093--40778117	13	1.9	13	100	0	50	76	0	0	24	0.80
40779211--40779243	14	2.3	15	85	15	52	72	0	18	9	1.10
40779260--40779296	16	2.4	16	90	4	58	16	2	8	72	1.19
40779921--40779975	3	19.0	3	79	7	51	36	1	1	60	1.18
40780055--40780123	2	34.5	2	79	0	57	43	7	0	49	1.30
40785321--40785358	13	2.8	13	96	4	67	71	0	15	13	1.16
40785321--40785367	13	3.4	14	85	11	62	68	0	17	14	1.22
40786901--40787291	50	7.8	50	72	1	262	29	21	23	25	1.99
40786910--40787307	100	4.0	100	85	0	519	28	22	23	25	1.99
40787329--40787430	42	2.5	42	80	4	118	23	20	25	30	1.99
40788861--40788912	3	18.0	3	82	7	54	36	0	1	61	1.07
40788853--40788895	22	2.0	22	90	0	68	30	4	2	62	1.28
40788942--40789007	29	2.2	29	83	8	78	34	7	4	53	1.50
40788992--40789027	12	3.0	12	91	0	54	44	2	0	52	1.15
40796269--40796662	217	1.8	217	92	1	664	29	19	23	27	1.98
40796286--40796791	44	11.6	44	71	10	265	29	20	22	26	1.99
40797304--40797376	19	3.8	19	96	0	137	36	9	16	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40797583--40797627	23	2.0	23	81	0	54	22	0	15	62	1.33
40797647--40797679	15	2.1	16	94	5	59	33	6	0	60	1.21
40797865--40797902	7	5.4	7	90	9	60	28	0	0	71	0.87
40797872--40797906	4	9.2	4	87	12	56	25	0	0	74	0.82
40801676--40801904	10	23.8	9	68	21	76	62	3	2	31	1.26
40801860--40801893	8	4.0	8	88	11	50	70	0	0	29	0.87
40802592--40802634	20	2.1	21	86	4	61	30	0	9	60	1.28
40804410--40804475	11	5.9	11	70	1	51	71	3	24	1	1.09
40806185--40806324	57	2.3	60	85	9	189	22	25	24	27	2.00
40810313--40810357	20	2.2	20	88	7	65	46	15	11	26	1.79

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