genome.fa.s3.2.7.7.80.10.50.1000.105.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  105  of  150  ( 17918 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)
32814024--32814060	9	4.1	9	89	0	56	48	13	8	29	1.71
32814550--32814609	9	6.6	9	75	17	52	36	3	0	60	1.14
32816102--32816151	17	2.7	19	82	14	61	36	12	0	52	1.39
32826479--32826599	25	4.8	26	76	16	130	29	14	20	35	1.92
32826453--32826649	50	3.9	50	86	0	250	29	13	20	36	1.91
32830648--32830693	23	2.0	23	100	0	92	13	4	17	65	1.42
32835834--32835954	57	2.1	55	80	13	138	48	10	15	24	1.77
32850952--32850999	19	2.6	19	78	18	57	60	0	2	37	1.09
32851483--32851513	9	3.4	9	90	0	53	38	22	12	25	1.90
32860368--32860492	6	21.7	6	71	12	59	24	6	1	68	1.22
32862065--32862094	15	1.9	16	93	6	53	16	23	26	33	1.96
32862210--32862267	6	9.7	6	85	7	82	13	3	1	81	0.91
32862203--32862267	12	5.5	11	83	8	76	15	3	3	78	1.00
32862204--32862269	18	3.7	17	84	9	78	13	3	3	80	0.95
32865412--32865581	27	6.3	27	81	8	204	42	18	17	21	1.89
32865412--32865581	80	2.1	79	84	5	216	42	18	17	21	1.89
32872997--32873033	18	2.1	18	89	0	56	29	29	21	18	1.97
32888459--32888510	26	1.9	28	84	7	72	55	9	11	23	1.64
32891378--32891402	11	2.3	11	100	0	50	52	0	24	24	1.48
32891503--32891537	11	3.0	12	91	8	63	57	0	0	42	0.99
32895950--32895999	24	2.2	22	82	13	57	36	22	4	38	1.73
32900650--32900699	14	3.1	16	75	24	52	58	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32902351--32902478	44	3.0	42	88	4	193	28	32	17	21	1.96
32902337--32902476	42	3.3	42	86	7	192	29	33	17	20	1.95
32902335--32902476	44	3.3	43	85	5	189	30	33	16	19	1.95
32902850--32902889	21	1.9	21	89	0	62	2	45	15	37	1.59
32905294--32905343	26	1.9	26	91	0	82	18	24	34	24	1.96
32905323--32905549	43	5.4	42	76	11	205	23	16	24	35	1.95
32905358--32905557	85	2.4	85	92	0	321	24	17	24	34	1.96
32911660--32911729	9	8.0	9	76	9	56	37	0	15	47	1.46
32914624--32914712	41	2.2	41	83	2	108	21	23	17	37	1.94
32914756--32914867	41	2.7	41	81	2	127	17	27	14	40	1.89
32916751--32916777	6	4.5	6	100	0	54	0	70	0	29	0.88
32921113--32921164	20	2.7	19	85	5	77	55	5	0	38	1.24
32921112--32921174	20	3.3	19	80	6	74	57	4	0	38	1.20
32921739--32921775	2	18.5	2	100	0	74	48	0	0	51	1.00
32926193--32926243	22	2.4	22	80	12	61	35	9	0	54	1.33
32930961--32931024	32	2.0	32	100	0	128	50	18	12	18	1.78
32932831--32932858	13	2.2	13	100	0	56	28	0	21	50	1.49
32934031--32934059	2	14.5	2	100	0	58	51	0	0	48	1.00
32934697--32934841	41	3.5	41	96	0	263	27	20	28	23	1.99
32940421--32940445	13	1.9	13	100	0	50	32	4	24	40	1.73
32942042--32942227	41	4.5	41	96	0	336	27	20	28	23	1.99
32944188--32944224	19	1.9	19	94	0	65	40	45	8	5	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32946937--32946974	19	2.0	19	85	10	51	42	0	15	42	1.47
32948449--32948577	21	6.0	22	87	4	122	15	22	25	36	1.93
32948462--32948576	42	2.7	43	83	6	135	13	22	26	36	1.92
32948823--32948860	19	2.0	19	85	10	51	47	5	10	36	1.61
32953875--32953915	20	2.1	21	86	13	61	2	2	26	68	1.15
32956065--32956091	12	2.2	12	100	0	54	92	7	0	0	0.38
32963999--32964093	44	2.1	45	84	5	122	32	4	28	34	1.77
32964488--32964524	16	2.2	17	86	13	51	54	0	2	43	1.14
32964591--32964631	15	2.7	16	82	17	52	46	0	4	48	1.23
32964566--32964648	28	2.8	29	70	12	71	50	1	4	43	1.31
32964236--32964645	120	3.4	120	96	1	759	48	4	3	43	1.40
32964686--32964828	44	3.2	43	68	23	114	47	2	3	46	1.34
32964693--32964835	47	3.1	45	67	22	109	48	3	3	44	1.36
32964652--32964867	91	2.4	92	90	0	344	45	4	3	46	1.40
32970408--32970443	18	2.0	18	100	0	72	61	27	5	5	1.41
32971322--32971397	20	3.9	20	75	16	79	57	0	2	39	1.12
32971648--32972087	238	1.8	238	97	0	837	46	9	10	33	1.71
32973719--32973777	29	2.0	29	96	0	109	54	0	8	37	1.31
32979101--32979433	42	7.9	42	89	2	488	35	21	20	23	1.96
32979101--32979433	85	3.9	84	88	2	488	35	21	20	23	1.96
32979754--32979803	21	2.4	21	75	0	55	2	44	18	36	1.61
32985852--32986073	9	25.4	9	67	16	119	30	3	20	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32985836--32985940	51	2.1	50	83	5	131	32	3	20	43	1.69
32986414--32986457	13	3.4	13	81	12	54	40	2	13	43	1.57
32986493--32986617	34	3.5	34	79	12	151	49	4	8	38	1.51
32986493--32986734	74	3.1	74	85	13	299	49	3	6	40	1.47
32986554--32986726	89	2.0	88	98	1	337	49	3	5	41	1.43
32986643--32986734	34	2.5	39	79	15	113	50	3	6	40	1.45
32986645--32986761	36	3.3	35	78	13	91	51	2	5	40	1.40
32986859--32986997	67	2.1	68	93	5	239	45	13	5	35	1.66
32987062--32987094	16	2.1	16	94	0	57	51	9	12	27	1.69
32988583--32988670	44	2.0	44	82	8	108	32	21	17	28	1.96
32988625--32988905	147	1.9	147	80	5	327	35	26	13	24	1.93
32989399--32989454	21	2.7	20	75	8	58	50	41	0	8	1.34
32989412--32989460	14	3.4	14	91	2	80	46	46	0	6	1.27
32989412--32989460	7	6.9	7	76	4	53	46	46	0	6	1.27
32989412--32989466	29	1.9	28	92	3	92	49	41	1	7	1.41
32989412--32989467	14	3.9	15	88	2	71	50	41	1	7	1.40
32990235--32990272	20	1.9	20	89	10	60	50	0	2	47	1.15
32990379--32990414	18	2.0	18	89	10	56	69	5	0	25	1.10
32990383--32990422	18	2.2	19	86	4	55	70	5	0	25	1.08
32990574--32991061	114	4.3	114	76	9	318	27	22	18	31	1.97
32991091--32991204	40	2.9	40	79	8	117	15	19	24	40	1.90
32992002--32992047	20	2.3	20	96	0	83	19	28	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32992002--32992055	20	2.7	20	83	11	74	22	27	18	31	1.97
32993182--32993242	31	2.0	31	96	3	115	40	16	9	32	1.81
32999440--32999500	31	2.0	31	90	0	95	44	14	11	29	1.81
33001431--33001667	53	4.5	52	81	7	273	16	21	20	41	1.90
33001442--33001667	26	8.5	26	84	5	267	15	21	19	42	1.88
33001623--33001708	44	2.0	44	88	2	129	13	23	15	47	1.81
33006586--33006625	12	3.5	12	80	13	57	42	0	2	55	1.13
33006586--33006627	22	1.9	22	100	0	84	42	0	2	54	1.13
33011967--33011991	8	3.1	8	100	0	50	60	0	0	40	0.97
33014754--33014824	35	2.0	35	100	0	142	30	12	28	28	1.93
33015615--33015670	24	2.3	24	84	9	69	23	23	25	28	1.99
33030620--33030665	4	11.5	4	90	0	74	47	26	0	26	1.52
33048801--33048843	18	2.3	19	88	4	61	44	2	20	32	1.65
33050524--33050553	12	2.5	12	100	0	60	33	26	16	23	1.96
33059320--33059699	188	2.0	192	91	2	624	38	18	11	32	1.86
33060269--33060323	15	3.8	15	76	13	53	56	5	0	38	1.23
33065134--33065202	30	2.3	30	79	2	75	49	7	0	43	1.30
33070351--33070380	15	2.0	15	93	0	51	43	0	3	53	1.17
33073077--33073116	19	2.1	19	85	0	53	50	0	5	45	1.23
33079631--33079660	2	15.0	2	100	0	60	0	0	50	50	1.00
33085864--33086297	78	5.6	78	93	0	717	38	4	13	43	1.64
33086995--33087192	41	4.8	41	91	3	301	27	19	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33086961--33087192	82	2.8	82	87	7	251	27	20	28	24	1.99
33089938--33090343	108	3.8	108	93	2	683	34	18	16	30	1.93
33090790--33090830	3	13.7	3	100	0	82	65	0	0	34	0.93
33092483--33093032	44	12.7	44	69	11	228	28	22	18	30	1.97
33092419--33092729	129	2.4	128	89	1	462	28	21	20	29	1.98
33092581--33093076	175	2.9	175	89	1	730	28	21	19	30	1.98
33095060--33095089	13	2.4	12	94	5	51	0	13	0	86	0.57
33095060--33095089	6	4.8	6	92	8	51	0	13	0	86	0.57
33095087--33095162	19	3.7	21	81	10	70	9	3	9	77	1.10
33095103--33095172	19	3.6	19	81	14	81	8	2	10	78	1.06

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