genome.fa.s10.2.7.7.80.10.50.1000.171.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   200   201   202   

This is table  171  of  202  ( 24201 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)
53344185--53344240	7	7.9	7	80	4	58	39	39	3	17	1.67
53344185--53344271	36	2.4	36	90	0	138	36	37	4	20	1.74
53344417--53344458	21	2.0	22	90	4	68	42	33	0	23	1.55
53344423--53344489	21	3.2	20	83	8	64	49	28	0	22	1.50
53344416--53344489	28	2.6	28	85	4	87	48	27	0	24	1.51
53344416--53344483	14	4.9	14	72	13	50	47	27	0	25	1.53
53344393--53344589	100	2.0	100	87	2	288	51	22	1	24	1.57
53344526--53344624	7	14.1	7	71	4	56	49	31	1	18	1.54
53344578--53344624	21	2.2	21	92	0	76	53	29	0	17	1.44
53346995--53347210	91	2.4	91	84	2	281	24	12	25	36	1.92
53352043--53352084	18	2.5	17	80	7	50	52	7	0	40	1.29
53352513--53352579	16	3.9	18	73	15	61	70	7	1	20	1.20
53353973--53354025	25	2.1	25	82	6	63	52	1	22	22	1.56
53358781--53358830	25	2.0	25	96	0	91	30	32	24	14	1.94
53359238--53359301	30	2.2	29	81	10	76	29	28	6	35	1.82
53359245--53359301	30	1.9	30	85	3	80	29	24	7	38	1.82
53402309--53402343	18	1.9	18	88	0	52	51	0	5	42	1.25
53403846--53403883	20	1.9	20	89	10	60	47	2	0	50	1.15
53406768--53406833	14	4.8	14	75	3	53	42	22	1	33	1.63
53406784--53406833	21	2.4	21	82	0	64	42	20	0	38	1.52
53410332--53410366	10	3.6	10	84	7	54	57	0	8	34	1.29
53417562--53417610	20	2.5	20	75	0	53	59	4	2	34	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53417898--53418027	19	7.2	18	75	13	74	31	2	1	64	1.15
53417941--53418006	20	3.3	20	81	8	73	37	3	1	57	1.23
53417933--53417977	20	2.3	19	88	3	63	42	0	2	55	1.12
53417898--53418027	9	14.4	9	72	14	83	31	2	1	64	1.15
53435076--53435377	131	2.4	131	93	4	519	42	16	7	33	1.75
53435339--53435586	110	2.3	110	79	6	270	39	15	10	34	1.81
53435665--53435907	132	1.8	131	83	2	317	38	16	9	34	1.82
53436533--53436579	24	2.0	24	91	0	76	48	0	10	40	1.38
53437920--53437983	31	2.1	31	82	5	76	29	15	23	31	1.95
53441072--53441338	37	7.0	37	86	9	358	36	14	20	27	1.93
53441185--53441379	82	2.4	81	93	2	322	34	15	21	27	1.94
53445705--53445743	20	2.0	20	84	0	51	41	10	20	28	1.85
53448380--53448407	2	14.0	2	100	0	56	50	0	0	50	1.00
53452328--53452558	114	2.0	114	94	0	408	28	15	24	31	1.96
53456408--53456490	39	2.1	39	82	10	98	37	1	0	61	1.04
53456439--53456468	11	2.6	11	94	5	51	40	0	0	60	0.97
53461077--53461141	3	21.7	3	100	0	130	33	0	0	66	0.92
53461143--53461180	3	12.7	3	100	0	76	34	34	0	31	1.58
53466974--53467031	30	1.9	30	89	0	89	41	3	24	31	1.71
53467356--53467489	50	2.7	50	100	0	268	26	21	32	20	1.98
53467459--53467518	29	2.1	29	100	0	120	23	23	30	23	1.99
53467409--53467568	79	2.0	79	96	0	293	23	23	31	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53472624--53472659	12	3.0	12	83	0	54	63	0	19	16	1.30
53472822--53472878	26	2.2	26	80	0	69	40	7	17	35	1.77
53484526--53484844	102	3.0	103	81	10	351	39	15	16	28	1.89
53484518--53484840	107	3.1	99	81	12	353	41	14	16	27	1.88
53485600--53485781	89	2.0	88	86	6	251	34	19	9	36	1.84
53485848--53485889	20	2.0	20	86	4	57	73	2	2	21	1.06
53485867--53485915	8	5.6	8	77	17	53	71	4	2	22	1.13
53485865--53485915	17	2.8	18	79	8	59	72	3	1	21	1.11
53485866--53485925	28	2.1	28	87	6	86	71	3	1	23	1.10
53485866--53485916	18	2.8	18	79	8	59	72	3	1	21	1.11
53486188--53486232	18	2.4	19	82	14	58	40	0	4	55	1.20
53486178--53486290	47	2.4	44	78	12	111	35	0	2	61	1.10
53486178--53486290	46	2.4	45	78	12	113	35	0	2	61	1.10
53487100--53487261	82	2.0	82	88	2	245	26	12	18	42	1.86
53489000--53489040	13	3.2	13	85	0	55	68	2	29	0	1.03
53489003--53489041	17	2.3	17	91	8	62	66	2	30	0	1.05
53490134--53490210	14	5.0	15	71	20	52	42	14	9	33	1.77
53490150--53490189	20	2.0	20	90	0	62	50	12	10	27	1.72
53490138--53490204	34	1.9	35	90	3	109	46	13	8	31	1.74
53490757--53490849	18	4.7	18	69	22	62	50	1	24	23	1.56
53490799--53490858	20	3.2	18	81	11	59	51	0	25	23	1.48
53491041--53491079	18	2.2	18	100	0	78	15	20	12	51	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53494718--53494792	37	2.0	37	92	0	123	6	22	13	57	1.59
53507673--53507711	6	6.8	6	88	5	55	87	12	0	0	0.55
53507672--53507711	7	5.7	7	82	11	55	87	12	0	0	0.54
53507670--53507705	16	2.3	16	95	4	65	88	11	0	0	0.50
53508201--53508250	23	2.2	23	85	7	66	68	0	20	12	1.21
53509671--53510610	132	7.1	132	84	6	1123	28	17	24	29	1.98
53509671--53510610	265	3.5	263	88	3	1264	28	17	24	29	1.98
53510199--53510540	44	7.7	44	67	14	155	29	17	23	29	1.97
53514811--53514856	24	1.9	24	86	0	65	45	17	26	10	1.81
53518802--53519564	132	5.8	132	92	1	1253	28	18	23	29	1.98
53519892--53520002	19	5.8	19	84	0	159	40	8	12	38	1.73
53519899--53520002	38	2.7	38	93	0	181	41	7	11	39	1.70
53519892--53520028	19	6.9	21	79	10	105	39	7	13	39	1.73
53521660--53521684	2	12.5	2	100	0	50	52	0	0	48	1.00
53533836--53533873	18	2.1	18	100	0	76	52	5	5	36	1.47
53533940--53533985	23	2.0	23	100	0	92	26	13	21	39	1.90
53537854--53537899	24	1.9	24	86	8	67	47	4	6	41	1.49
53537865--53537916	24	2.2	24	82	0	59	50	5	3	40	1.45
53542276--53542327	24	2.2	24	86	6	70	48	7	3	40	1.50
53542946--53542989	20	2.2	20	87	0	61	47	6	15	29	1.72
53543368--53543409	20	2.0	21	90	9	68	26	7	33	33	1.83
53544646--53544683	20	1.9	20	88	0	58	39	7	0	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53545182--53545214	4	8.2	4	100	0	66	24	0	0	75	0.80
53545758--53546064	108	2.9	108	93	0	519	31	16	18	33	1.93
53550865--53550933	29	2.3	29	80	11	70	40	2	0	56	1.14
53558419--53558469	2	25.5	2	100	0	102	50	0	0	49	1.00
53558955--53559035	35	2.3	36	81	8	96	23	22	27	27	1.99
53559275--53559313	15	2.5	15	87	4	60	23	17	5	53	1.63
53573603--53573717	19	5.8	19	87	8	167	37	8	18	35	1.82
53573604--53573717	40	2.8	40	92	2	185	37	8	17	35	1.81
53573603--53573724	59	2.1	56	86	8	165	37	8	18	35	1.81
53574648--53574696	8	5.8	8	81	11	53	22	2	4	71	1.13
53574661--53574696	4	8.8	4	87	6	54	22	0	2	75	0.94
53592057--53592105	3	16.3	3	100	0	98	65	0	0	34	0.93
53595951--53596008	21	2.8	21	81	0	71	22	20	27	29	1.99
53619064--53619179	57	2.0	57	100	0	232	25	26	12	35	1.91
53625889--53625946	30	1.9	31	85	3	82	25	18	5	50	1.68
53627669--53628049	50	7.6	50	84	5	344	22	30	20	25	1.99
53627929--53628049	48	2.5	48	95	0	215	23	30	19	25	1.98
53628753--53628825	22	3.6	22	66	21	68	36	19	13	30	1.90
53628754--53628846	38	2.4	38	96	0	177	37	20	13	27	1.91
53631595--53631653	29	2.0	29	86	0	82	37	11	10	40	1.76
53642153--53642177	10	2.5	10	100	0	50	88	12	0	0	0.53
53650193--53650241	22	2.2	23	88	3	73	36	10	0	53	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53650338--53650383	21	2.1	22	84	11	60	45	0	10	43	1.39
53650516--53650544	2	14.5	2	100	0	58	51	0	0	48	1.00
53650980--53651011	14	2.2	15	94	5	57	53	25	0	21	1.46
53652708--53652737	12	2.5	12	94	0	51	53	3	0	43	1.17
53653777--53653806	15	1.9	16	93	6	53	26	10	16	46	1.78
53655438--53655472	13	2.6	13	90	4	52	34	5	0	60	1.21
53658836--53658884	19	2.7	18	75	6	55	63	16	6	14	1.49
53662896--53662934	18	2.2	17	86	13	53	33	0	20	46	1.51
53663160--53663303	23	6.3	23	84	1	182	22	21	25	30	1.99
53665047--53665079	18	1.9	17	88	11	50	48	6	21	24	1.72

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   200   201   202