genome.fa.s13.2.7.7.80.10.50.1000.109.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  109  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)
33180583--33180894	43	7.3	43	84	1	315	21	17	29	31	1.97
33180602--33180894	129	2.3	129	84	0	363	22	18	29	30	1.97
33180937--33180981	22	2.1	22	91	4	74	37	28	22	11	1.88
33185288--33185330	18	2.4	18	80	3	61	46	0	0	53	1.00
33185650--33185703	21	2.6	20	82	11	56	53	0	9	37	1.33
33189717--33189848	44	2.8	45	80	6	140	21	29	21	26	1.99
33189659--33189892	50	4.7	50	73	12	162	23	28	20	27	1.99
33192674--33192795	61	2.0	61	100	0	244	32	8	16	42	1.78
33197571--33197614	20	2.3	19	80	7	52	47	9	0	43	1.35
33201624--33201678	21	2.7	20	77	8	65	38	3	3	54	1.36
33205181--33205209	13	2.3	13	94	5	51	27	10	0	62	1.28
33208007--33208059	11	4.6	11	73	17	54	67	3	3	24	1.23
33212555--33212609	20	2.7	20	97	2	101	21	18	10	49	1.78
33212966--33213018	23	2.2	24	96	3	99	41	24	3	30	1.72
33213590--33213631	21	2.0	21	85	0	57	38	19	26	16	1.92
33222047--33222098	22	2.3	23	90	3	79	53	9	0	36	1.34
33223254--33223557	147	2.0	148	93	1	520	40	6	35	18	1.76
33223562--33223678	36	3.2	36	85	0	153	30	8	30	29	1.87
33226134--33226198	33	2.0	33	100	0	130	9	26	18	46	1.79
33226135--33226189	17	3.3	17	69	5	58	9	25	20	45	1.80
33231329--33231370	18	2.4	17	84	7	57	45	2	14	38	1.58
33233515--33233561	15	3.1	15	76	14	51	70	4	0	25	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33233612--33233654	17	2.5	18	81	7	54	65	0	4	30	1.13
33233611--33233649	18	2.2	18	86	9	53	69	0	5	25	1.09
33233652--33233702	22	2.3	22	82	3	66	43	3	0	52	1.19
33234042--33234080	7	5.4	7	84	3	51	28	0	0	71	0.86
33236063--33236119	29	2.0	29	89	0	87	33	17	8	40	1.81
33237100--33237140	20	2.0	20	86	9	57	39	2	4	53	1.35
33237663--33237792	49	2.6	50	84	3	183	31	13	23	31	1.93
33237850--33237896	23	2.0	23	95	0	85	21	14	25	38	1.92
33240192--33240250	29	2.0	29	86	0	82	33	28	10	27	1.89
33244166--33244190	6	4.2	6	100	0	50	84	0	16	0	0.63
33244735--33244763	14	2.1	14	100	0	58	58	6	6	27	1.50
33245156--33245216	32	1.9	32	86	0	86	45	13	11	29	1.78
33246742--33246971	4	57.5	4	99	0	451	24	0	25	50	1.50
33253797--33253822	5	5.2	5	100	0	52	42	19	19	19	1.90
33254270--33254316	17	2.8	17	79	20	62	55	6	2	36	1.37
33254930--33254960	9	3.4	9	90	0	53	38	22	12	25	1.90
33262344--33262500	42	3.7	42	74	5	129	17	23	15	43	1.86
33269912--33270068	42	3.7	42	77	5	147	14	22	17	45	1.85
33269913--33270069	21	7.5	21	69	4	84	14	22	17	44	1.86
33269912--33270066	84	1.8	84	84	2	213	14	22	17	45	1.84
33272386--33272632	50	4.8	50	78	11	182	24	25	20	28	1.99
33279455--33279651	56	3.8	50	82	8	209	22	28	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33279418--33279651	49	4.6	50	80	8	208	22	26	21	29	1.99
33288625--33288650	13	2.0	13	100	0	52	23	46	7	23	1.78
33292581--33292610	6	5.0	6	100	0	60	16	16	0	66	1.25
33297693--33297717	13	1.9	13	100	0	50	56	12	8	24	1.62
33302519--33302647	43	3.0	43	81	15	176	22	19	28	29	1.98
33303492--33303751	47	5.6	47	92	1	416	28	19	13	38	1.90
33303492--33303728	93	2.5	93	97	0	447	28	19	13	37	1.90
33304063--33304087	2	12.5	2	100	0	50	48	0	0	52	1.00
33310463--33310592	43	3.0	42	81	14	167	22	19	28	30	1.98
33311436--33311694	47	5.6	47	92	1	414	28	19	13	38	1.90
33311436--33311671	93	2.5	93	97	0	445	28	19	13	38	1.90
33312006--33312046	2	20.5	2	100	0	82	48	0	0	51	1.00
33312976--33313000	8	3.1	8	100	0	50	12	0	0	88	0.53
33316072--33316139	17	4.1	16	75	9	57	20	4	0	75	0.98
33316082--33316147	12	5.5	12	73	16	57	21	6	0	72	1.05
33316415--33316466	25	2.1	25	82	7	61	9	5	28	55	1.55
33316994--33317182	101	1.8	100	84	7	254	27	16	25	30	1.97
33323341--33323376	15	2.5	14	86	8	54	44	0	11	44	1.39
33326848--33326934	13	6.5	14	70	17	51	40	3	21	34	1.71
33326848--33326936	40	2.2	40	93	0	160	40	3	22	33	1.71
33330597--33330652	28	2.0	28	96	0	103	28	19	7	44	1.77
33330618--33330771	75	2.1	75	98	0	299	35	22	5	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33333289--33333319	6	5.3	6	92	7	55	0	12	0	87	0.55
33333648--33333798	76	2.0	76	97	0	284	54	9	3	33	1.49
33335089--33335121	8	4.4	8	85	14	52	12	12	51	24	1.73
33342021--33342072	16	3.1	17	73	15	54	30	1	0	67	1.02
33342048--33342142	50	1.9	50	80	8	113	36	4	2	56	1.30
33343742--33343820	25	3.2	25	79	0	95	32	13	18	34	1.91
33344944--33345006	31	2.0	31	100	0	126	46	9	15	28	1.78
33349515--33349558	23	1.9	23	100	0	88	40	18	6	34	1.77
33360007--33360046	21	1.9	21	85	10	55	15	25	25	35	1.94
33364690--33364745	21	2.7	21	82	0	76	28	8	33	28	1.87
33364944--33364984	17	2.4	18	80	12	50	51	0	2	46	1.14
33368258--33368338	39	2.1	39	95	0	144	19	17	9	53	1.71
33368648--33369308	30	22.2	30	91	5	1071	37	9	0	52	1.38
33368648--33369308	58	11.1	58	92	5	1060	37	9	0	52	1.38
33369354--33369486	43	3.0	43	92	2	212	9	49	3	36	1.54
33370914--33370972	16	3.2	19	68	18	61	10	23	8	57	1.59
33370903--33370977	36	2.1	36	100	0	150	14	22	8	54	1.66
33371292--33371362	19	3.6	19	88	7	106	36	11	15	36	1.83
33371292--33371351	21	3.0	21	92	4	97	36	11	15	36	1.83
33371301--33371385	21	4.0	22	79	14	81	37	7	16	38	1.76
33371351--33371395	23	2.0	23	86	4	65	33	4	15	46	1.66
33371806--33371851	18	2.6	19	76	13	53	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33378250--33378282	6	5.5	6	100	0	66	84	0	0	15	0.61
33378479--33378705	44	5.2	44	64	6	136	24	28	25	21	1.99
33378523--33378930	44	9.3	44	60	9	141	25	29	24	19	1.98
33378421--33379007	88	6.7	88	89	0	886	27	28	24	19	1.99
33379007--33379344	44	7.7	44	86	2	455	27	17	26	28	1.97
33379651--33379758	44	2.5	44	80	3	119	31	21	17	29	1.96
33380189--33380240	20	2.6	21	85	11	74	40	9	15	34	1.80
33380219--33380263	23	2.0	23	91	4	74	37	4	17	40	1.70
33380229--33380273	23	2.0	23	86	4	65	33	4	15	46	1.66
33380441--33380479	19	1.9	19	85	10	51	15	12	5	66	1.41
33380683--33380738	15	3.8	15	79	9	62	26	0	3	69	1.04
33382641--33382725	21	4.0	21	84	3	89	52	16	28	2	1.56
33386949--33387001	26	2.0	26	96	0	97	33	16	15	33	1.90
33390471--33390530	19	3.1	19	83	13	70	25	13	3	58	1.50
33394079--33394108	2	15.0	2	100	0	60	50	0	0	50	1.00
33396298--33396327	13	2.3	13	94	0	51	50	23	16	10	1.75
33402607--33402760	23	6.8	23	87	5	172	18	21	22	37	1.95
33402610--33402760	46	3.3	46	84	6	193	18	21	23	37	1.94
33402607--33402760	69	2.3	67	85	5	195	18	21	22	37	1.95
33405423--33405477	28	2.0	27	82	10	67	54	12	7	25	1.63
33406746--33406786	19	2.3	17	87	8	55	17	7	0	75	1.02
33415791--33415844	28	2.0	27	85	10	74	37	1	1	59	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33418988--33419030	3	14.0	3	90	4	68	30	0	0	69	0.88
33419142--33419167	7	3.7	7	100	0	52	26	0	0	73	0.84
33419206--33419246	15	2.8	14	85	10	55	26	4	0	68	1.10
33419206--33419246	14	2.7	15	88	7	57	26	4	0	68	1.10
33419235--33419268	10	3.2	10	88	12	50	38	0	0	61	0.96
33427308--33427341	14	2.4	14	85	0	50	52	5	8	32	1.56
33427672--33427731	27	2.2	27	96	0	111	31	28	18	21	1.97
33428704--33428738	2	17.5	2	90	0	52	54	2	0	42	1.15
33429099--33429143	22	2.1	22	95	4	83	28	4	8	57	1.48
33429487--33430619	111	10.2	109	79	7	1115	29	16	19	35	1.93

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