genome.fa.s13.2.7.7.80.10.50.1000.152.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  152  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)
45507978--45508132	46	3.3	47	65	18	117	47	12	8	30	1.71
45507928--45508206	90	3.1	90	91	0	423	46	13	8	31	1.73
45515716--45515878	87	1.9	86	87	3	238	25	14	23	36	1.93
45517616--45517677	27	2.3	27	80	5	72	24	19	16	40	1.91
45518958--45518995	18	2.1	18	85	9	51	36	2	0	60	1.11
45526101--45526145	21	2.1	21	91	0	72	31	33	8	26	1.87
45539858--45539908	2	25.5	2	100	0	102	49	0	0	50	1.00
45540497--45540554	22	2.6	22	91	0	89	34	15	25	24	1.95
45541984--45542084	52	1.9	52	95	0	184	45	5	7	40	1.58
45544059--45544089	3	10.3	3	92	0	53	32	3	0	64	1.09
45544130--45544169	20	2.2	19	86	13	57	22	5	5	67	1.30
45544410--45544444	2	17.5	2	100	0	70	48	0	0	51	1.00
45553175--45553222	2	25.0	2	85	8	64	47	0	0	52	1.00
45556527--45556601	39	1.9	39	94	0	132	40	8	2	49	1.46
45562189--45562265	2	38.0	2	92	7	129	49	1	1	48	1.17
45563230--45563254	13	1.9	13	100	0	50	40	24	4	32	1.73
45565115--45565155	21	1.9	22	90	5	66	34	0	2	63	1.08
45565168--45565210	19	2.3	19	88	4	61	39	2	4	53	1.34
45572922--45572946	4	6.2	4	100	0	50	24	0	76	0	0.80
45574546--45574572	6	4.5	6	100	0	54	70	29	0	0	0.88
45585382--45585476	47	2.1	46	90	5	149	42	18	12	26	1.86
45589644--45589739	41	2.3	42	80	8	108	34	28	17	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45596750--45596792	18	2.4	18	92	0	68	32	18	13	34	1.90
45596759--45596798	18	2.3	18	95	4	73	20	17	15	47	1.83
45599153--45599206	28	1.9	28	100	0	108	42	11	11	35	1.76
45603857--45603907	5	10.0	5	75	12	50	35	0	1	62	1.06
45603857--45603907	16	3.3	16	76	15	54	35	0	1	62	1.06
45604116--45604151	12	3.0	12	87	0	54	30	16	13	38	1.88
45611482--45611546	10	6.8	10	71	16	57	61	3	3	32	1.27
45611441--45611558	29	4.1	28	77	15	100	60	1	4	33	1.26
45611890--45611965	3	25.3	3	76	10	75	60	5	3	30	1.37
45611890--45611994	30	3.7	29	75	9	83	59	4	3	32	1.36
45612671--45612718	3	16.0	3	100	0	96	66	0	0	33	0.92
45613205--45613243	15	2.5	17	80	20	57	20	0	10	69	1.17
45613210--45613238	15	1.9	15	100	0	58	24	0	13	62	1.32
45613768--45613797	7	4.4	7	91	8	53	70	0	30	0	0.88
45614877--45614918	11	3.8	11	80	0	57	69	19	9	2	1.28
45615228--45615252	2	12.5	2	100	0	50	48	0	0	52	1.00
45623615--45623707	44	2.1	44	88	9	136	36	25	4	33	1.76
45623689--45623744	16	3.5	16	92	0	94	26	30	5	37	1.79
45624099--45624142	22	2.0	23	82	13	56	70	0	2	27	0.99
45630241--45630294	23	2.3	23	81	6	65	31	11	20	37	1.88
45630426--45630498	19	3.8	20	77	18	75	54	4	2	38	1.34
45632111--45632162	14	3.5	15	82	10	63	75	7	3	13	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45632124--45632162	15	2.5	15	95	4	69	76	5	2	15	1.06
45632203--45632254	14	3.8	13	92	7	86	71	0	9	19	1.13
45633202--45633256	24	2.3	24	83	0	65	65	3	18	12	1.40
45638160--45638200	19	2.1	20	86	4	57	46	0	7	46	1.30
45644922--45645038	23	5.1	23	85	4	164	27	15	15	41	1.87
45645861--45645891	16	1.9	16	93	0	53	25	29	0	45	1.54
45646525--45646550	5	5.2	5	100	0	52	19	19	19	42	1.90
45647367--45647393	14	1.9	14	100	0	54	44	14	0	40	1.46
45650490--45650593	20	5.1	20	70	19	65	40	0	0	57	1.11
45650504--45650667	57	2.7	60	83	12	203	42	0	1	54	1.15
45650748--45650835	44	2.0	46	84	8	119	38	23	5	31	1.78
45652234--45652284	17	3.1	17	81	15	63	39	0	0	60	0.97
45652234--45652298	5	13.2	5	78	15	73	36	0	1	61	1.05
45652465--45652503	8	4.9	8	84	12	53	74	7	17	0	1.05
45653103--45653130	3	9.3	3	100	0	56	35	0	0	64	0.94
45658781--45658828	20	2.5	19	83	6	60	27	2	2	68	1.11
45658842--45658884	18	2.4	18	84	7	61	51	2	0	46	1.13
45658853--45658892	18	2.2	18	91	8	64	55	0	0	45	0.99
45658853--45658911	22	3.0	20	76	13	59	57	0	0	42	0.98
45658872--45658915	22	2.0	22	86	0	61	56	0	0	43	0.99
45660165--45660304	9	15.4	9	68	21	62	67	2	3	27	1.19
45660250--45660373	9	14.0	8	69	20	52	58	2	7	31	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45660580--45660630	17	3.0	17	83	8	68	21	3	0	74	0.98
45660559--45660647	27	3.3	26	78	9	90	28	2	1	68	1.08
45660588--45660678	10	9.8	9	71	21	55	24	2	2	71	1.08
45660586--45660628	8	5.1	8	78	10	50	23	2	0	74	0.93
45660569--45660647	18	4.4	18	73	15	56	29	2	0	68	1.03
45661499--45661552	18	3.1	17	78	10	56	24	27	0	48	1.52
45662690--45662755	32	2.0	33	82	2	80	31	1	7	59	1.35
45662769--45662818	23	2.2	23	85	3	66	38	14	0	48	1.44
45667031--45667068	19	2.0	19	85	10	51	50	2	7	39	1.46
45668234--45668284	18	2.9	18	80	8	52	52	3	1	41	1.31
45668299--45668349	18	2.7	18	76	11	50	68	5	0	25	1.12
45668318--45668360	20	2.1	20	83	12	52	72	2	2	23	1.08
45669085--45669111	12	2.2	12	100	0	54	48	7	0	44	1.31
45672535--45672559	13	1.9	13	100	0	50	32	8	24	36	1.84
45673901--45673930	2	15.0	2	100	0	60	50	0	0	50	1.00
45674598--45674701	8	12.1	8	68	22	52	33	1	3	60	1.26
45674598--45674707	18	6.2	16	69	23	62	32	2	3	60	1.28
45674608--45674707	27	3.7	26	74	20	73	34	3	4	59	1.32
45675646--45675699	22	2.5	21	84	6	63	66	3	1	27	1.19
45678454--45678487	15	2.3	15	94	0	59	73	2	0	23	0.97
45692267--45692327	25	2.5	25	77	17	65	37	6	4	50	1.50
45695017--45695062	20	2.3	20	84	0	65	45	13	13	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45700493--45700535	19	2.4	18	85	11	54	18	11	2	67	1.32
45701883--45701928	20	2.3	20	84	0	65	45	13	13	28	1.80
45705853--45706081	43	5.3	43	88	0	314	30	31	16	21	1.95
45706373--45706403	15	2.1	15	93	0	53	19	32	0	48	1.49
45710532--45710585	21	2.5	21	77	14	65	37	44	0	18	1.50
45710574--45710613	21	1.9	21	89	0	62	42	42	0	15	1.46
45711573--45711780	41	5.1	41	83	1	238	33	29	18	18	1.95
45711825--45711948	40	3.1	39	78	10	126	20	24	20	33	1.97
45711843--45711952	40	2.8	40	82	12	129	20	24	19	36	1.95
45714012--45714056	22	2.0	22	83	8	56	42	2	4	51	1.34
45722348--45722380	6	5.5	6	89	10	50	42	0	0	57	0.98
45726585--45726718	54	2.5	54	92	2	216	16	35	21	26	1.95
45726585--45726747	54	3.0	54	86	3	150	17	35	20	26	1.95
45729893--45729954	30	2.1	29	84	3	79	45	1	19	33	1.60
45730261--45730286	13	2.0	13	100	0	52	53	0	0	46	1.00
45730265--45730301	15	2.6	14	87	8	56	59	0	0	40	0.97
45730290--45730331	11	4.1	11	79	14	54	59	0	0	40	0.97
45730294--45730331	20	1.9	19	94	5	67	60	0	0	39	0.97
45732462--45732494	14	2.4	14	90	10	50	9	15	6	69	1.34
45733243--45733485	44	5.5	43	75	6	191	29	19	17	33	1.95
45733715--45733837	51	2.4	51	80	0	138	27	26	20	26	1.99
45733859--45734109	89	2.8	88	79	7	256	25	22	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45734069--45734876	45	18.0	45	84	2	1000	29	23	16	30	1.96
45740010--45740065	21	2.7	21	80	0	67	25	1	35	37	1.66
45743168--45743211	22	2.0	22	82	8	54	43	4	2	50	1.35
45747425--45747458	2	17.0	2	93	0	59	50	2	0	47	1.16
45750142--45750192	24	2.0	26	85	14	72	31	13	1	52	1.51
45750243--45750331	44	2.0	46	86	8	130	31	5	24	38	1.79
45750470--45750584	26	4.3	26	67	8	77	53	5	0	40	1.29
45750506--45750748	120	2.0	120	97	0	459	50	5	2	41	1.38
45750528--45750726	59	3.3	60	71	16	198	53	4	1	40	1.29
45762382--45762406	12	2.1	12	100	0	50	8	44	0	48	1.32

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