genome.fa.s13.2.7.7.80.10.50.1000.194.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  194  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)
56328364--56328471	44	2.5	43	82	7	128	29	17	22	30	1.97
56329837--56329869	18	1.9	17	88	11	50	48	0	15	36	1.45
56331293--56331433	46	3.1	46	95	0	246	35	9	26	28	1.88
56332689--56332783	3	32.0	3	76	6	59	36	4	4	54	1.39
56332847--56332882	18	2.0	18	88	0	54	38	11	0	50	1.38
56333166--56333208	22	1.9	21	86	13	59	37	9	6	46	1.63
56340420--56340458	19	2.1	19	85	9	53	56	23	12	7	1.62
56341508--56341543	16	2.2	16	90	9	56	19	11	2	66	1.35
56353256--56353310	24	2.3	24	82	14	62	29	23	0	47	1.52
56375406--56375479	37	2.0	37	94	0	130	18	24	8	48	1.75
56379055--56379104	22	2.3	22	80	13	59	70	0	2	28	0.99
56380553--56380594	20	2.1	20	86	0	57	38	2	7	52	1.42
56384276--56384338	18	3.4	18	71	14	56	68	1	0	30	0.99
56386009--56386045	2	18.5	2	100	0	74	51	48	0	0	1.00
56401574--56401636	3	20.7	3	90	3	90	31	3	1	63	1.19
56419863--56419900	3	12.7	3	100	0	76	65	0	0	34	0.93
56424317--56424341	6	4.2	6	100	0	50	16	32	0	52	1.44
56427762--56427790	3	9.7	3	100	0	58	68	0	0	31	0.89
56435178--56435222	18	2.6	18	83	13	58	33	2	0	64	1.06
56436207--56436276	6	11.5	6	95	3	122	0	64	0	35	0.94
56436377--56436459	3	27.7	3	100	0	166	0	66	0	33	0.92
56436457--56436522	2	33.0	2	100	0	132	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56437681--56437737	2	28.5	2	100	0	114	49	0	0	50	1.00
56437798--56437858	31	1.9	33	83	12	83	50	4	1	42	1.33
56437870--56438069	50	4.0	50	80	1	213	27	23	29	19	1.98
56440049--56440894	283	3.0	280	93	2	1453	31	29	8	30	1.86
56447353--56447378	3	8.7	3	100	0	52	30	0	0	69	0.89
56452229--56452277	16	3.1	16	93	0	89	22	36	6	34	1.79
56465174--56465229	21	2.5	22	67	16	53	32	23	12	32	1.92
56470999--56471023	6	4.2	6	100	0	50	48	0	0	52	1.00
56474919--56474962	20	2.1	21	87	4	63	70	2	6	20	1.21
56479814--56479853	7	5.9	7	85	5	55	70	5	0	25	1.08
56484066--56484136	28	2.6	27	78	8	72	40	2	14	42	1.60
56484088--56484186	29	3.5	28	68	9	85	41	1	11	46	1.46
56484263--56484302	20	2.0	20	85	0	53	32	5	0	62	1.17
56486610--56486644	14	2.5	14	90	0	52	57	11	8	22	1.61
56488798--56488836	18	2.2	18	95	0	69	61	17	5	15	1.51
56488901--56488928	14	2.0	14	100	0	56	64	7	0	28	1.20
56489762--56489800	2	19.5	2	100	0	78	48	0	0	51	1.00
56492601--56492634	2	17.0	2	100	0	68	50	0	0	50	1.00
56497459--56497483	13	1.9	13	100	0	50	64	0	0	36	0.94
56518064--56518111	20	2.3	21	75	3	53	41	2	6	50	1.39
56534666--56534708	2	22.0	2	95	4	79	51	0	0	48	1.00
56535181--56535247	31	2.1	31	86	2	89	52	8	2	35	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56535436--56535468	3	11.0	3	100	0	66	33	0	0	66	0.92
56535741--56535788	2	24.0	2	100	0	96	50	0	0	50	1.00
56536360--56536388	13	2.1	14	93	6	51	24	0	6	68	1.13
56543711--56543755	20	2.2	20	92	0	72	40	6	2	51	1.41
56547482--56547507	13	2.0	13	100	0	52	38	15	23	23	1.92
56548039--56548184	60	2.4	61	80	4	161	21	17	17	44	1.87
56548803--56548874	29	2.4	29	77	6	83	26	11	9	52	1.67
56549753--56549792	18	2.2	18	90	0	62	77	2	0	20	0.88
56562924--56562954	4	7.8	4	92	0	53	51	25	0	22	1.48
56567769--56567793	13	1.9	13	100	0	50	20	40	8	32	1.81
56569763--56569796	12	2.8	12	90	0	59	0	23	17	58	1.38
56570780--56570883	49	2.1	49	87	0	145	30	8	9	50	1.65
56572358--56572409	13	4.0	13	79	16	54	40	0	1	57	1.10
56572242--56572393	25	5.7	27	66	20	95	42	0	3	53	1.22
56572449--56572482	17	2.0	17	100	0	68	41	0	0	58	0.98
56572449--56572496	15	3.0	15	81	9	51	41	2	0	56	1.11
56572626--56572734	44	2.6	39	80	16	128	36	30	3	29	1.75
56572646--56572736	46	2.0	46	93	4	159	38	30	4	26	1.76
56572716--56572752	16	2.3	16	100	0	74	21	35	5	37	1.77
56572800--56572843	22	2.0	23	86	4	63	27	0	9	63	1.24
56576914--56576944	14	2.2	14	94	0	53	38	0	12	48	1.42
56578274--56578306	10	3.1	11	86	8	50	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56589245--56589287	22	1.9	23	86	13	63	65	11	6	16	1.46
56590535--56590571	19	1.9	19	94	0	65	56	8	32	2	1.43
56590556--56590631	38	2.0	38	94	0	134	56	5	28	9	1.52
56590919--56590991	38	1.9	38	91	0	119	54	5	30	9	1.55
56594353--56594379	2	13.5	2	100	0	54	48	0	0	51	1.00
56594890--56594921	16	2.0	16	93	0	55	68	3	0	28	1.04
56605082--56605137	25	2.2	25	93	0	94	46	1	12	39	1.52
56611671--56611722	27	1.9	27	88	7	79	44	5	25	25	1.76
56618551--56618575	2	12.5	2	100	0	50	48	0	0	52	1.00
56619768--56619965	96	2.1	96	97	0	369	38	15	15	30	1.88
56620323--56620374	24	2.2	24	85	0	68	73	5	9	11	1.25
56625754--56625778	5	5.0	5	100	0	50	20	20	20	40	1.92
56627806--56627856	18	3.1	16	75	20	52	52	5	1	39	1.37
56627810--56627852	19	2.3	18	84	8	50	55	4	2	37	1.33
56629004--56629066	29	2.2	29	82	0	81	47	14	12	25	1.79
56630755--56630784	11	2.6	11	94	5	51	36	3	0	60	1.14
56631064--56631090	6	4.5	6	100	0	54	62	0	0	37	0.95
56636335--56636365	16	1.9	16	93	0	53	70	6	0	22	1.09
56643128--56643172	22	2.0	22	83	8	56	44	22	6	26	1.77
56667663--56667713	21	2.5	20	84	9	59	70	13	0	15	1.17
56670971--56671026	4	14.0	4	100	0	112	25	0	25	50	1.50
56671405--56671601	98	2.0	98	92	0	331	43	10	17	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56671622--56671699	31	2.5	31	77	4	86	25	15	16	42	1.87
56672033--56672063	6	5.2	6	96	0	53	67	12	0	19	1.22
56677960--56677985	2	13.0	2	100	0	52	50	0	0	50	1.00
56680320--56680349	12	2.6	11	94	5	51	16	0	3	80	0.85
56681174--56681334	3	54.3	3	73	11	91	30	5	3	60	1.37
56684586--56684640	2	27.5	2	100	0	110	49	0	0	50	1.00
56685068--56685107	2	20.0	2	89	0	62	50	5	0	45	1.23
56688291--56688316	2	13.0	2	100	0	52	50	0	0	50	1.00
56690760--56690784	12	2.1	12	100	0	50	52	0	8	40	1.31
56696267--56696316	21	2.3	21	83	13	57	62	12	22	4	1.46
56698972--56699006	18	1.9	18	94	0	61	62	5	0	31	1.18
56702564--56702634	30	2.4	30	90	0	115	18	8	19	53	1.69
56709363--56709455	42	2.2	42	83	5	109	35	16	19	29	1.93
56713539--56713584	22	2.1	22	88	4	67	60	2	6	30	1.34
56718233--56718463	43	5.4	42	76	9	200	31	25	15	27	1.96
56718282--56718464	85	2.2	85	88	2	269	32	25	14	27	1.95
56718233--56718476	85	2.9	84	80	4	267	31	25	15	27	1.96
56718474--56718581	53	2.0	53	85	3	146	35	27	12	25	1.91
56721150--56721180	6	5.2	6	92	0	53	3	0	19	77	0.90
56721145--56721180	12	3.0	12	87	0	54	5	0	19	75	1.00
56722862--56722893	17	1.9	17	93	6	57	31	0	0	68	0.90
56723057--56723107	17	3.0	18	76	21	56	33	9	0	56	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56724851--56724917	31	2.2	31	84	12	86	25	8	13	52	1.69
56733052--56733092	9	4.6	9	93	0	73	31	7	0	60	1.24
56735595--56735634	4	10.0	4	94	0	53	42	25	7	25	1.80
56736080--56736161	41	2.0	41	95	0	146	56	2	21	19	1.54
56736840--56736882	22	2.0	22	86	9	61	37	0	0	62	0.95
56738847--56738942	9	11.4	8	72	19	63	60	2	6	31	1.33
56738869--56738981	3	36.7	3	76	15	106	63	1	5	29	1.26
56744742--56744794	2	26.5	2	100	0	106	49	0	0	50	1.00
56745741--56745780	21	2.0	20	85	5	53	32	2	2	62	1.22
56746061--56746106	17	2.6	19	74	19	55	54	2	0	43	1.12

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