Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 64 of 106
Found at i:24292183 original size:20 final size:20
Alignment explanation
Indices: 24292146--24292185 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24292136 AGTAGTGCCC
*
24292146 CTGCCCTTTGCCGCCCCTTG
1 CTGCCCTTTGCCGACCCTTG
**
24292166 CTGCCCTTTGTTGACCCTTG
1 CTGCCCTTTGCCGACCCTTG
24292186 GTGACCCTCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.42, G:0.20, T:0.35
Consensus pattern (20 bp):
CTGCCCTTTGCCGACCCTTG
Found at i:24297598 original size:2 final size:2
Alignment explanation
Indices: 24297547--24297585 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24297537 NNNNNNNAAA
24297547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24297586 ATACAAGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24307903 original size:58 final size:58
Alignment explanation
Indices: 24307767--24307930 Score: 179
Period size: 57 Copynumber: 2.8 Consensus size: 58
24307757 TGTAGGTAAC
* * * *
24307767 GACTAAATTAGCAACAAAAATTTCGTTGGTAATTTCCAATGAAATTTCGCTGAAAACA
1 GACTAAATTACCAACAAAAATTTCGTTGGTAATTTCCAATGAAATTCCACCGAAAACA
* * *
24307825 -ATTAAATTACCAACAAAAATTTTGTTGGTAATTTCCAATGGGAATTCCACCGAAAA-A
1 GACTAAATTACCAACAAAAATTTCGTTGGTAATTTCCAAT-GAAATTCCACCGAAAACA
* * * * ** *
24307882 GACTAAATTATCAACAAAAATTCCTTTTGTAATTTTTAATGGAATTCCA
1 GACTAAATTACCAACAAAAATTTCGTTGGTAATTTCCAATGAAATTCCA
24307931 TCGGCAACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
57 46 0.52
58 43 0.48
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (58 bp):
GACTAAATTACCAACAAAAATTTCGTTGGTAATTTCCAATGAAATTCCACCGAAAACA
Found at i:24311268 original size:13 final size:13
Alignment explanation
Indices: 24311250--24311274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24311240 GGAAAATGAG
24311250 ATTTTATAAAATA
1 ATTTTATAAAATA
24311263 ATTTTATAAAAT
1 ATTTTATAAAAT
24311275 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:24314100 original size:16 final size:16
Alignment explanation
Indices: 24314066--24314107 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
24314056 AATAAATCTC
24314066 AAGAAACAACCAAAGCA
1 AAGAAA-AACCAAAGCA
24314083 AAGAAAAACCCAAA-CA
1 AAGAAAAA-CCAAAGCA
24314099 AAGCAAAAA
1 AAG-AAAAA
24314108 TTTGCAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.69, C:0.21, G:0.10, T:0.00
Consensus pattern (16 bp):
AAGAAAAACCAAAGCA
Found at i:24336925 original size:19 final size:19
Alignment explanation
Indices: 24336901--24336938 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
24336891 CTGCCAAACC
24336901 CTCAAATTATACTCCAATA
1 CTCAAATTATACTCCAATA
*
24336920 CTCAAATTATACTCTAATA
1 CTCAAATTATACTCCAATA
24336939 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (19 bp):
CTCAAATTATACTCCAATA
Found at i:24339990 original size:77 final size:77
Alignment explanation
Indices: 24339863--24340027 Score: 224
Period size: 77 Copynumber: 2.1 Consensus size: 77
24339853 ATATGTCATC
* * *
24339863 AATTTTAATTTTGAGTGGTTCATAAAAAATAGGAAACAGTTTCCTACTTT-AAAGTGAATTCTTA
1 AATTTTAATTTTGAGTGATTCATAAAAAATAGGAAACAGTTTCCTACTTTAAAAG-AAATTCCTA
24339927 AAATTAAGGATAA
65 AAATTAAGGATAA
* * * **
24339940 AATTTTAATTTTGGGTGATTCATAAAGAGTAGGAAATTGTTTCCTACTTTAAAAGAAATTCCTAA
1 AATTTTAATTTTGAGTGATTCATAAAAAATAGGAAACAGTTTCCTACTTTAAAAGAAATTCCTAA
*
24340005 AATTAAGGATAG
66 AATTAAGGATAA
*
24340017 CATTTTAATTT
1 AATTTTAATTT
24340028 GGGAAATTCA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 73 0.95
78 4 0.05
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (77 bp):
AATTTTAATTTTGAGTGATTCATAAAAAATAGGAAACAGTTTCCTACTTTAAAAGAAATTCCTAA
AATTAAGGATAA
Found at i:24345189 original size:54 final size:54
Alignment explanation
Indices: 24345107--24345261 Score: 265
Period size: 54 Copynumber: 2.9 Consensus size: 54
24345097 TCATCATGTG
*
24345107 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTACACATAGTCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTACACATAGCCGGACATCC
* *
24345161 CATCTCACCCATCTCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCC
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTACACATAGCCGGACATCC
* *
24345215 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTGCATATAGCCG
1 CATCTCACCCAGCTCATGTGCATCCCACCACATCGTACACATAGCCG
24345262 AACAGTATCA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 96 1.00
ACGTcount: A:0.25, C:0.41, G:0.14, T:0.21
Consensus pattern (54 bp):
CATCTCACCCAGCTCATGTGCATCCCACCACATCGTACACATAGCCGGACATCC
Found at i:24345378 original size:2 final size:2
Alignment explanation
Indices: 24345371--24345395 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24345361 TATGACATAG
24345371 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
24345396 CAACATTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24350135 original size:46 final size:46
Alignment explanation
Indices: 24350045--24350180 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 46
24350035 CATCCTGCCA
****
24350045 CATTCAGCTCATGTGCACTCCCTACA-CGCACA-ATGCAATATCATCAT
1 CATT-AGCTCATGTGCACTCCC-ACACCGCACATA-GCTGGGTCATCAT
24350092 CATTAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCAT
1 CATTAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCAT
* * *
24350138 C---AGCTCATGTGTACTCCTACACCGCACATAGCTGGGTCCTCAT
1 CATTAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCAT
24350181 TATCACACAA
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
43 39 0.49
45 3 0.04
46 33 0.41
47 5 0.06
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (46 bp):
CATTAGCTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCAT
Found at i:24350154 original size:43 final size:43
Alignment explanation
Indices: 24350088--24350180 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 43
24350078 TGCAATATCA
*
24350088 TCATCATTAGCTCATGTGCACTCCCACACCGCACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGG
* *
24350131 TCATCATCAGCTCATGTGTACTCCTACACCGCACATAGCTGGG
1 TCATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGG
*
24350174 TCCTCAT
1 TCATCAT
24350181 TATCACACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.23, C:0.34, G:0.17, T:0.26
Consensus pattern (43 bp):
TCATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGG
Found at i:24358830 original size:8 final size:8
Alignment explanation
Indices: 24358819--24359122 Score: 374
Period size: 8 Copynumber: 37.9 Consensus size: 8
24358809 ATTATGTTGG
24358819 TATATATA
1 TATATATA
*
24358827 TATATGTA
1 TATATATA
*
24358835 TATATGTA
1 TATATATA
*
24358843 TATATGTA
1 TATATATA
24358851 TATATATA
1 TATATATA
*
24358859 TATGTATA
1 TATATATA
*
24358867 TATGTATA
1 TATATATA
*
24358875 TATGTATA
1 TATATATA
24358883 TATATATA
1 TATATATA
*
24358891 TGTATATA
1 TATATATA
*
24358899 TGTATATA
1 TATATATA
*
24358907 TATATATG
1 TATATATA
24358915 TATATATA
1 TATATATA
*
24358923 TATATGTA
1 TATATATA
*
24358931 TATATGTA
1 TATATATA
24358939 TATATATA
1 TATATATA
*
24358947 TATGTATA
1 TATATATA
*
24358955 TATATGTA
1 TATATATA
24358963 TATATATA
1 TATATATA
*
24358971 TATATATN
1 TATATATA
*
24358979 TATATGTA
1 TATATATA
*
24358987 TATATGTA
1 TATATATA
24358995 TATATATA
1 TATATATA
*
24359003 TATGTATA
1 TATATATA
*
24359011 TATGTATA
1 TATATATA
*
24359019 TATGTATA
1 TATATATA
24359027 TATATATA
1 TATATATA
*
24359035 TGTATATA
1 TATATATA
24359043 TAGTATATA
1 TA-TATATA
*
24359052 TATATATG
1 TATATATA
24359060 TATATATA
1 TATATATA
*
24359068 TATATGTA
1 TATATATA
*
24359076 TATATGTA
1 TATATATA
24359084 TATATATA
1 TATATATA
*
24359092 TATGTATA
1 TATATATA
*
24359100 TATATGTA
1 TATATATA
24359108 TATATATA
1 TATATATA
24359116 TATATAT
1 TATATAT
24359123 GTTGTGCATT
Statistics
Matches: 265, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
8 257 0.97
9 8 0.03
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.50
Consensus pattern (8 bp):
TATATATA
Found at i:24358837 original size:14 final size:14
Alignment explanation
Indices: 24358818--24359124 Score: 398
Period size: 14 Copynumber: 21.1 Consensus size: 14
24358808 CATTATGTTG
24358818 GTATATATATATAT
1 GTATATATATATAT
24358832 GTATATATGTATATAT
1 GTATATA--TATATAT
24358848 GTATATATATATAT
1 GTATATATATATAT
24358862 GTATATATGTATATAT
1 GTATATA--TATATAT
24358878 GTATATATATATAT
1 GTATATATATATAT
24358892 GTATATATGTATATAT
1 GTATATA--TATATAT
* *
24358908 ATATATGTATATAT
1 GTATATATATATAT
* *
24358922 ATATATGTATATAT
1 GTATATATATATAT
24358936 GTATATATATATAT
1 GTATATATATATAT
*
24358950 GTATATATATGTAT
1 GTATATATATATAT
*
24358964 ATATATATATATAT
1 GTATATATATATAT
* *
24358978 NTATATGTATATAT
1 GTATATATATATAT
24358992 GTATATATATATAT
1 GTATATATATATAT
24359006 GTATATATGTATATAT
1 GTATATA--TATATAT
24359022 GTATATATATATAT
1 GTATATATATATAT
24359036 GTATATATAGTATAT
1 GTATATATA-TATAT
*
24359051 ATATATATGTATATAT
1 GTATATA--TATATAT
* *
24359067 ATATATGTATATAT
1 GTATATATATATAT
24359081 GTATATATATATAT
1 GTATATATATATAT
*
24359095 GTATATATATGTAT
1 GTATATATATATAT
*
24359109 ATATATATATATAT
1 GTATATATATATAT
24359123 GT
1 GT
24359125 TGTGCATTGA
Statistics
Matches: 263, Mismatches: 19, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
14 185 0.70
15 11 0.04
16 65 0.25
17 2 0.01
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
GTATATATATATAT
Found at i:24359121 original size:22 final size:22
Alignment explanation
Indices: 24358818--24359122 Score: 425
Period size: 22 Copynumber: 13.8 Consensus size: 22
24358808 CATTATGTTG
*
24358818 GTATATATATATATGTATATAT
1 GTATATATATATATATATATAT
*
24358840 GTATATATGTATATATATATAT
1 GTATATATATATATATATATAT
* *
24358862 GTATATATGTATATATGTATAT
1 GTATATATATATATATATATAT
* * *
24358884 ATATATATGTATATATGTATAT
1 GTATATATATATATATATATAT
* *
24358906 ATATATATGTATATATATATAT
1 GTATATATATATATATATATAT
*
24358928 GTATATATGTATATATATATAT
1 GTATATATATATATATATATAT
*
24358950 GTATATATATGTATATATATA-
1 GTATATATATATATATATATAT
* *
24358971 -TATATATNTATATGTATATAT
1 GTATATATATATATATATATAT
*
24358992 GTATATATATATATGTATATAT
1 GTATATATATATATATATATAT
*
24359014 GTATATATGTATATATATATAT
1 GTATATATATATATATATATAT
24359036 GTATATATAGTATATATATATAT
1 GTATATATA-TATATATATATAT
*
24359059 GTATATATATATATGTATATAT
1 GTATATATATATATATATATAT
24359081 GTATATATATATATGTATATATAT
1 GTATATATATATA--TATATATAT
24359105 GTATATATATATATATAT
1 GTATATATATATATATAT
24359123 GTTGTGCATT
Statistics
Matches: 261, Mismatches: 17, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.07
22 201 0.77
23 22 0.08
24 21 0.08
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
GTATATATATATATATATATAT
Found at i:24359337 original size:40 final size:40
Alignment explanation
Indices: 24359239--24359341 Score: 124
Period size: 38 Copynumber: 2.6 Consensus size: 40
24359229 ATAGTGCCCG
*
24359239 TGTGCATGATGTGGGGGGATACACACGATGGTACTAACTA
1 TGTGCATGATGTGGGGGGATGCACACGATGGTACTAACTA
* **
24359279 --TGCACGATGTGGGGGGATGCACACGAT-G-ACTCCGGCTA
1 TGTGCATGATGTGGGGGGATGCACACGATGGTACT--AACTA
24359317 TGTGCATGATGTGGGGGGATGCACA
1 TGTGCATGATGTGGGGGGATGCACA
24359342 TGAGCTAGGT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
36 3 0.06
37 1 0.02
38 28 0.52
40 22 0.41
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.22
Consensus pattern (40 bp):
TGTGCATGATGTGGGGGGATGCACACGATGGTACTAACTA
Found at i:24359402 original size:20 final size:20
Alignment explanation
Indices: 24359365--24359403 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24359355 ACAATGGTGG
* * *
24359365 TATTGGTGTTTATCTATGTA
1 TATTGGTATATATATATGTA
24359385 TATTGGTATATATATATGT
1 TATTGGTATATATATATGT
24359404 TATGAAATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.54
Consensus pattern (20 bp):
TATTGGTATATATATATGTA
Found at i:24374330 original size:2 final size:2
Alignment explanation
Indices: 24374312--24374363 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
24374302 ACCACATACC
* *
24374312 AT AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24374354 AT AT AT AT AT
1 AT AT AT AT AT
24374364 CAATCGTCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24377388 original size:43 final size:43
Alignment explanation
Indices: 24377341--24377457 Score: 173
Period size: 43 Copynumber: 2.7 Consensus size: 43
24377331 ACCAGCTCAC
* *
24377341 GCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTTAT
1 GCGCACTCCCTACTCGCACATAGCTGGGTCATC-CTCGGCTTAT
* *
24377384 GCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTAT
1 GCGCACTCCCTACTCGCACATAGCTGGGTCATCCTCGGCTTAT
*
24377427 GCGCACTCCCTACTCGCACATAGCTGAGTCA
1 GCGCACTCCCTACTCGCACATAGCTGGGTCA
24377458 ATATAATTAC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
GCGCACTCCCTACTCGCACATAGCTGGGTCATCCTCGGCTTAT
Found at i:24385112 original size:16 final size:16
Alignment explanation
Indices: 24385093--24385127 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24385083 ATATAAATCT
*
24385093 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
24385109 CATTTTAATTAGAAAA
1 CATTTTAATTAAAAAA
24385125 CAT
1 CAT
24385128 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:24386372 original size:19 final size:19
Alignment explanation
Indices: 24386348--24386385 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24386338 ACTTCTAAAC
*
24386348 TTCAAATCAGACTTCAATA
1 TTCAAATCAGACTCCAATA
*
24386367 TTCAAATCATACTCCAATA
1 TTCAAATCAGACTCCAATA
24386386 AGTCAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.03, T:0.32
Consensus pattern (19 bp):
TTCAAATCAGACTCCAATA
Found at i:24396409 original size:14 final size:15
Alignment explanation
Indices: 24396376--24396420 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
24396366 ATTTATATAT
*
24396376 TTTTTCTTTTCTTTTC
1 TTTTTC-TTTCTTCTC
24396392 -TTTTCTTTC-TCTC
1 TTTTTCTTTCTTCTC
24396405 TTTTTCTTTCTTCTC
1 TTTTTCTTTCTTCTC
24396420 T
1 T
24396421 CTCCCATCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 3 0.12
14 13 0.50
15 10 0.38
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTCTTTCTTCTC
Found at i:24396423 original size:19 final size:19
Alignment explanation
Indices: 24396387--24396422 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
24396377 TTTTCTTTTC
24396387 TTTTCTTTTCTTTCTCTCT
1 TTTTCTTTTCTTTCTCTCT
24396406 TTTTC-TTTC-TTCTCTCT
1 TTTTCTTTTCTTTCTCTCT
24396423 CCCATCGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTCTTTTCTTTCTCTCT
Found at i:24396619 original size:34 final size:34
Alignment explanation
Indices: 24396577--24396669 Score: 118
Period size: 34 Copynumber: 2.7 Consensus size: 34
24396567 CTCATATCAA
* *
24396577 CCTC-AAAATCAGTAGCTAAGTTGCTCTATTCT-T
1 CCTCAAAAATCAGCAGCTAAGCTGCTCTATT-TGT
24396610 CCTCAAAAATCAGCAGCTAAGCTGCTCTATTTGT
1 CCTCAAAAATCAGCAGCTAAGCTGCTCTATTTGT
* *
24396644 CCTCCAAAAATCAACAGCCAAGCTGC
1 CCT-CAAAAATCAGCAGCTAAGCTGC
24396670 CCTTTCCTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
33 5 0.09
34 28 0.53
35 20 0.38
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (34 bp):
CCTCAAAAATCAGCAGCTAAGCTGCTCTATTTGT
Found at i:24396667 original size:35 final size:34
Alignment explanation
Indices: 24396598--24396669 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
24396588 GTAGCTAAGT
* *
24396598 TGCTCTATTCTTCCTCAAAAATCAGCAGCTAAGC
1 TGCTCTATTCTTCCTCAAAAATCAACAGCCAAGC
24396632 TGCTCTATT-TGTCCTCCAAAAATCAACAGCCAAGC
1 TGCTCTATTCT-TCCT-CAAAAATCAACAGCCAAGC
24396667 TGC
1 TGC
24396670 CCTTTCCTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 1 0.03
34 13 0.38
35 20 0.59
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (34 bp):
TGCTCTATTCTTCCTCAAAAATCAACAGCCAAGC
Found at i:24396698 original size:34 final size:35
Alignment explanation
Indices: 24396581--24396698 Score: 107
Period size: 34 Copynumber: 3.4 Consensus size: 35
24396571 TATCAACCTC
* * * * *
24396581 AAAATCAGTAGCTAAGTTGCTCTATTCTTCCT-CA
1 AAAATCAGCAGCCAAGCTGCCCTATTCCTCCTCCA
* * **
24396615 AAAATCAGCAGCTAAGCTGCTCTATTTGTCCTCCA
1 AAAATCAGCAGCCAAGCTGCCCTATTCCTCCTCCA
* *
24396650 AAAATCAACAGCCAAGCTGCCCT-TTCCTCC-CTA
1 AAAATCAGCAGCCAAGCTGCCCTATTCCTCCTCCA
24396683 AAAACTCAGCAGCCAA
1 AAAA-TCAGCAGCCAA
24396699 AGCTTCCAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
33 6 0.08
34 43 0.61
35 22 0.31
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (35 bp):
AAAATCAGCAGCCAAGCTGCCCTATTCCTCCTCCA
Found at i:24399461 original size:12 final size:12
Alignment explanation
Indices: 24399446--24399476 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24399436 TCAAAGTTAT
*
24399446 CATCATTATCTA
1 CATCATCATCTA
24399458 CATCATCATCTA
1 CATCATCATCTA
24399470 CATCATC
1 CATCATC
24399477 GTTAGTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (12 bp):
CATCATCATCTA
Found at i:24399935 original size:1 final size:1
Alignment explanation
Indices: 24399929--24399971 Score: 68
Period size: 1 Copynumber: 43.0 Consensus size: 1
24399919 AATAGTTTCC
* *
24399929 TTTTTTTTTTTTTTATTTTTTTTTTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24399972 CTTGGNNNNN
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:24399952 original size:18 final size:18
Alignment explanation
Indices: 24399924--24399971 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
24399914 ATGGTAATAG
*
24399924 TTTCCTTTTTTTTTTTTT
1 TTTCTTTTTTTTTTTTTT
*
24399942 TAT-TTTTTTTTTTTTTT
1 TTTCTTTTTTTTTTTTTT
24399959 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
24399972 CTTGGNNNNN
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.02, C:0.06, G:0.00, T:0.92
Consensus pattern (18 bp):
TTTCTTTTTTTTTTTTTT
Found at i:24399953 original size:19 final size:19
Alignment explanation
Indices: 24399929--24399971 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
24399919 AATAGTTTCC
24399929 TTTTTTTTTTTTTTATTTT
1 TTTTTTTTTTTTTTATTTT
*
24399948 TTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTATTTT
24399967 TTTTT
1 TTTTT
24399972 CTTGGNNNNN
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.02, C:0.02, G:0.00, T:0.95
Consensus pattern (19 bp):
TTTTTTTTTTTTTTATTTT
Found at i:24415543 original size:20 final size:20
Alignment explanation
Indices: 24415484--24415546 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
24415474 TATATGCCCA
*
24415484 TCATCATCATC-TCACCAAC
1 TCATCATCATCATCACCAGC
*
24415503 CCATCATCATCATCACCAGC
1 TCATCATCATCATCACCAGC
*
24415523 TCATCATCATCATCACTAGC
1 TCATCATCATCATCACCAGC
24415543 TCAT
1 TCAT
24415547 GCGCACTCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.30, C:0.40, G:0.03, T:0.27
Consensus pattern (20 bp):
TCATCATCATCATCACCAGC
Found at i:24415596 original size:43 final size:43
Alignment explanation
Indices: 24415545--24415654 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
24415535 TCACTAGCTC
** *
24415545 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATC-CTCGGCTT
* *
24415588 ATGTGCACTCCCTACTCGCACATAACTGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACTAGGTCATCCTCGGCTT
24415631 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
24415655 GCCAAGTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 59 0.98
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACTAGGTCATCCTCGGCTT
Found at i:24421067 original size:37 final size:37
Alignment explanation
Indices: 24421026--24421128 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
24421016 CATATGCATT
24421026 CATCATCATGTGTGCACTTCCTACTCGCACACT-TCAA
1 CATCATCATGTGTGCACTTCCTACTCGCACACTCT-AA
* *
24421063 CATCATCATGTGTGCACTCCCTACTCTCACACTCTAA
1 CATCATCATGTGTGCACTTCCTACTCGCACACTCTAA
24421100 CATCATCATGTGTGCAC-TCCTTACTCGCA
1 CATCATCATGTGTGCACTTCC-TACTCGCA
24421129 TACTGTAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
36 2 0.03
37 57 0.95
38 1 0.02
ACGTcount: A:0.23, C:0.36, G:0.11, T:0.30
Consensus pattern (37 bp):
CATCATCATGTGTGCACTTCCTACTCGCACACTCTAA
Found at i:24421185 original size:22 final size:22
Alignment explanation
Indices: 24421160--24421203 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24421150 TTTAAACTAG
24421160 CTTT-AAACCTAAAAACTCTTAT
1 CTTTAAAACC-AAAAACTCTTAT
*
24421182 CTTTAAAACCAAAAGCTCTTAT
1 CTTTAAAACCAAAAACTCTTAT
24421204 ACCAACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (22 bp):
CTTTAAAACCAAAAACTCTTAT
Found at i:24424140 original size:19 final size:19
Alignment explanation
Indices: 24424108--24424146 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24424098 TTCTGGGACT
24424108 TTAATATTCTTATTTCATC
1 TTAATATTCTTATTTCATC
*
24424127 TTAA-ATTCTCTATTTTATC
1 TTAATATTCT-TATTTCATC
24424146 T
1 T
24424147 AGTTCGAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (19 bp):
TTAATATTCTTATTTCATC
Found at i:24428248 original size:5 final size:5
Alignment explanation
Indices: 24428242--24428279 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
24428232 CTATTCAACC
* *
24428242 TAACC TAACT TAACT TAACT TAACT TATCT TAACT TAA
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAA
24428280 TTGGACTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
TAACT
Found at i:24428351 original size:11 final size:11
Alignment explanation
Indices: 24428311--24428349 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
24428301 TACTGTAAAT
24428311 TTTAAAACAAC
1 TTTAAAACAAC
24428322 TTTAAAACAAC
1 TTTAAAACAAC
* *
24428333 TTTAAACCAGC
1 TTTAAAACAAC
24428344 TTTAAA
1 TTTAAA
24428350 CCTAGAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.31
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:24433872 original size:19 final size:19
Alignment explanation
Indices: 24433848--24433885 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24433838 CCATTTGACT
24433848 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
24433867 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
24433886 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:24437793 original size:596 final size:597
Alignment explanation
Indices: 24436659--24437840 Score: 2278
Period size: 596 Copynumber: 2.0 Consensus size: 597
24436649 TATAAAAGGA
*
24436659 GAAAGTTTGGAGGGTTATACGGTAAATAAAGAAAAGTTAAGGGTTATGTGTAATTTTAATATTTA
1 GAAAGTTTGGAGGGTTATACGATAAATAAAGAAAAGTTAAGGGTTATGTGTAATTTTAATATTTA
24436724 GAGGCTAATGAGATATTATTGAATGATATGATGGCATTAAAAAGGAAAATGTATGTGAAATGATA
66 GAGGCTAATGAGATATTATTGAATGATATGATGGCATTAAAAAGGAAAATGTATGTGAAATGATA
*
24436789 TGTAAATTAAATGGATGGGATAAATAAAGAAAGAGAACTAAGGAGATAAAGAAAAAAAAAAAGAA
131 TGTAAATTAAATGGATGGGATAAATAAAGAAAGAGAACTAAGAAGATAAAGAAAAAAAAAAAGAA
24436854 TGGAGGTGACGAATGTGAATAATACTTTAAGGGTTGGCCATGAGCTTTAAAACATAAATAGATGA
196 TGGAGGTGACGAATGTGAATAATACTTTAAGGGTTGGCCATGAGCTTTAAAACATAAATAGATGA
24436919 GGAAAAGTCAAAGGAAGGCATGGGTTCATGGGCTAGTAGCCCATGTGACCAAATGGAGAGAAGGA
261 GGAAAAGTCAAAGGAAGGCATGGGTTCATGGGCTAGTAGCCCATGTGACCAAATGGAGAGAAGGA
24436984 TAAGATTAAATAATAAAGAATAAAGAAAGTAAAGAAATGAAATGAAGGTGGTAGGGGCCAGCTAA
326 TAAGATTAAATAATAAAGAATAAAGAAAGTAAAGAAATGAAATGAAGGTGGTAGGGGCCAGCTAA
24437049 ATTGGTGAGTAAAGGGAGGAGTGAAAGAGAGATAAAGGAGATGAAACGGAAAAAGAAAGAAAAGT
391 ATTGGTGAGTAAAGGGAGGAGTGAAAGAGAGATAAAGGAGATGAAACGGAAAAAGAAAGAAAAGT
24437114 CAAGAAAGAAGGAGAAGAAATGATGAAGGGGCCGGCCAAAAGAAATAAAAGAAGAAGAAAAGGAA
456 CAAGAAAGAAGGAGAAGAAATGATGAAGGGGCCGGCCAAAAGAAATAAAAGAAGAAGAAAAGGAA
24437179 AGAGAGAGAGAGGAAGAATAGCGTGTCGGAGGAGAAAGAAGGGAGAGAAGAAAAAAAAAAAAAAA
521 AGAGAGAGAGAGGAAGAATAGCGTGTCGGAGGAGAAAGAAGGGAGAGAAGAAAAAAAAAAAAAAA
24437244 AGAAGAANAAGAT
586 AGAAGAA-AAGAT
* * *
24437257 GAAAGTTTGGAGGGTTATATGATAAATAAAGAAAAGTTTAGGGTTATGTGTAATTTTAATATTTT
1 GAAAGTTTGGAGGGTTATACGATAAATAAAGAAAAGTTAAGGGTTATGTGTAATTTTAATATTTA
*
24437322 GAGGCTAATGAGATATTATTGAATGATATGGTGGCATT-AAAAGGAAAATGTATGTGAAATGATA
66 GAGGCTAATGAGATATTATTGAATGATATGATGGCATTAAAAAGGAAAATGTATGTGAAATGATA
*
24437386 TGTAAATTAAATGGATGGGATAAATAAAGAAAGAGAACTAATAAGATAAAG-AAAAAAAAAAGAA
131 TGTAAATTAAATGGATGGGATAAATAAAGAAAGAGAACTAAGAAGATAAAGAAAAAAAAAAAGAA
24437450 TGGAGGTGACGAATGTGAATAATACTTTAAGGGTTGGCCATGAGCTTTAAAACATAAATAGATGA
196 TGGAGGTGACGAATGTGAATAATACTTTAAGGGTTGGCCATGAGCTTTAAAACATAAATAGATGA
24437515 GGAAAAGTCAAAGGAAGGCATGGGTTCATGGGCTAGTAGCCCATGTGACCAAATGGAGAGAAGGA
261 GGAAAAGTCAAAGGAAGGCATGGGTTCATGGGCTAGTAGCCCATGTGACCAAATGGAGAGAAGGA
24437580 TAAGATTAAATAATAAAGAATAAAGAAAGTAAAGAAATGAAATGAAGGTGGTAGGGGCCAGCTAA
326 TAAGATTAAATAATAAAGAATAAAGAAAGTAAAGAAATGAAATGAAGGTGGTAGGGGCCAGCTAA
24437645 ATTGGTGAGTAAAGGGAGGAGTGAAAGAGAGATAAAGGAGATGAAACGGAAAAAGAAAGAAAAGT
391 ATTGGTGAGTAAAGGGAGGAGTGAAAGAGAGATAAAGGAGATGAAACGGAAAAAGAAAGAAAAGT
24437710 CAAGAAAGAAGGAGAAGAAATGATGAAGGGGCCGGCCAAAAGAAATAAAAGAAGAAGAAAAGGAA
456 CAAGAAAGAAGGAGAAGAAATGATGAAGGGGCCGGCCAAAAGAAATAAAAGAAGAAGAAAAGGAA
24437775 AGAGAGAGAGAGGAAGAATAGCGTGTCGGAGGAGAAAGAAGGGAGAGAAGAAAAAAAAAAAAAAA
521 AGAGAGAGAGAGGAAGAATAGCGTGTCGGAGGAGAAAGAAGGGAGAGAAGAAAAAAAAAAAAAAA
24437840 A
586 A
24437841 AAAAGAAAGG
Statistics
Matches: 577, Mismatches: 7, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
596 404 0.70
597 75 0.13
598 98 0.17
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.18
Consensus pattern (597 bp):
GAAAGTTTGGAGGGTTATACGATAAATAAAGAAAAGTTAAGGGTTATGTGTAATTTTAATATTTA
GAGGCTAATGAGATATTATTGAATGATATGATGGCATTAAAAAGGAAAATGTATGTGAAATGATA
TGTAAATTAAATGGATGGGATAAATAAAGAAAGAGAACTAAGAAGATAAAGAAAAAAAAAAAGAA
TGGAGGTGACGAATGTGAATAATACTTTAAGGGTTGGCCATGAGCTTTAAAACATAAATAGATGA
GGAAAAGTCAAAGGAAGGCATGGGTTCATGGGCTAGTAGCCCATGTGACCAAATGGAGAGAAGGA
TAAGATTAAATAATAAAGAATAAAGAAAGTAAAGAAATGAAATGAAGGTGGTAGGGGCCAGCTAA
ATTGGTGAGTAAAGGGAGGAGTGAAAGAGAGATAAAGGAGATGAAACGGAAAAAGAAAGAAAAGT
CAAGAAAGAAGGAGAAGAAATGATGAAGGGGCCGGCCAAAAGAAATAAAAGAAGAAGAAAAGGAA
AGAGAGAGAGAGGAAGAATAGCGTGTCGGAGGAGAAAGAAGGGAGAGAAGAAAAAAAAAAAAAAA
AGAAGAAAAGAT
Found at i:24437967 original size:36 final size:36
Alignment explanation
Indices: 24437921--24438043 Score: 167
Period size: 36 Copynumber: 3.4 Consensus size: 36
24437911 GTGCTACCGA
*
24437921 TTTAAGGAGAAAAAGAAAAGGTTGAGCTG-CTGCTAG
1 TTTAAGGAGAAAAAGAAAAGGTTGAGCTGTC-GCCAG
* *
24437957 TTTAAAGAGAAAAAGAAAAGGTTGAGCTGTCGCCGG
1 TTTAAGGAGAAAAAGAAAAGGTTGAGCTGTCGCCAG
** *
24437993 TTTAAGGAGAAAAAGAAAAGGTTGAGCTGTTACCGG
1 TTTAAGGAGAAAAAGAAAAGGTTGAGCTGTCGCCAG
24438029 TTTAAGGAGGAAAAA
1 TTTAAGGA-GAAAAA
24438044 TGGGCTGAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
36 72 0.91
37 7 0.09
ACGTcount: A:0.41, C:0.08, G:0.30, T:0.21
Consensus pattern (36 bp):
TTTAAGGAGAAAAAGAAAAGGTTGAGCTGTCGCCAG
Found at i:24440078 original size:338 final size:335
Alignment explanation
Indices: 24439463--24440136 Score: 1258
Period size: 338 Copynumber: 2.0 Consensus size: 335
24439453 CAAATTTATC
*
24439463 TGCTTTATGCTTCTTTCCCATCTATCCCTTGCTAACGGAGCCAATGATCACTGAGTCTGTGAGGC
1 TGCTTTATGCTTCTTTCCCATCTATCCCTTGCTAACGGAGCCAATGATCACTGAGTCTGTGAGAC
*
24439528 TCACACCCCTCTTATTTCTCTTTTTGCAGACAGGGATCGGCCTAACATGTAATCATCGACGTGTA
66 TCACACCCCTCTTATTTCCCTTTTTGCAGACAGGGATCGGCCTAACATGTAATCATCGACGTGTA
*
24439593 TGGTCCACCGCAAATAGGTAAAGGTATCTCATAGCATTTTATCTTGAGTCACTTCATTGTTAGAG
131 TGGTCCACCGCAAATAGGTAAAGGCATCTCATAGCATTTTATCTTGAGTCACTTCATTGTTAGAG
*
24439658 ATCGAGTCGTAGCACTTTCTTTATTAAGTTGTAAATAGATACTGATTTTGTTATAAGTAAATAAT
196 ATCGAGTCGTAGCACTTTATTTATTAAGTTGTAAATAGATACTGATTTTGTTATAAGTAAATAAT
24439723 TGAAGAATGTGAATTTCAATGTATATACTTGTGATTAAATGGTTTAAAGCTTGAATCAATTATTA
261 TGAAGAATGTGAATTTCAATGTATATACTTGTGATTAAATGGTTTAAAGCTTGAATCAATTATTA
24439788 TGTTTATGGT
326 TGTTTATGGT
24439798 TNGCTTTATGCTTCTTTCCCATCTATCCCTTGCTAACGGAGCCAATGATCACTGAGTCTGTGAGA
1 T-GCTTTATGCTTCTTTCCCATCTATCCCTTGCTAACGGAGCCAATGATCACTGAGTCTGTGAGA
* *
24439863 CTCACACCCCTTTTATCTCTCCCTTTTTGCAGACAGGGATCGGCCTAACATGTAATTATCGACGT
65 CTCACACCCCTCTTAT-T-TCCCTTTTTGCAGACAGGGATCGGCCTAACATGTAATCATCGACGT
*
24439928 GTATGGTCCACCGTAAATAGGTAAAGGCATCTCATAGCATTTTATCTTGAGTCACTTCATTGTTA
128 GTATGGTCCACCGCAAATAGGTAAAGGCATCTCATAGCATTTTATCTTGAGTCACTTCATTGTTA
24439993 GAGATCGAGTCGTAGCACTTTATTTATTAAGTTGTAAATAGATACTGATTTTGTTATAAGTAAAT
193 GAGATCGAGTCGTAGCACTTTATTTATTAAGTTGTAAATAGATACTGATTTTGTTATAAGTAAAT
24440058 AATTGAAGAATGTGAATTTCAATGTATATACTTGTGATTAAATGGTTTAAAGCTTGAATCAATTA
258 AATTGAAGAATGTGAATTTCAATGTATATACTTGTGATTAAATGGTTTAAAGCTTGAATCAATTA
24440123 TTATGTTTATGGT
323 TTATGTTTATGGT
24440136 T
1 T
24440137 TAAATCATGG
Statistics
Matches: 329, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
335 1 0.00
336 77 0.23
337 1 0.00
338 250 0.76
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (335 bp):
TGCTTTATGCTTCTTTCCCATCTATCCCTTGCTAACGGAGCCAATGATCACTGAGTCTGTGAGAC
TCACACCCCTCTTATTTCCCTTTTTGCAGACAGGGATCGGCCTAACATGTAATCATCGACGTGTA
TGGTCCACCGCAAATAGGTAAAGGCATCTCATAGCATTTTATCTTGAGTCACTTCATTGTTAGAG
ATCGAGTCGTAGCACTTTATTTATTAAGTTGTAAATAGATACTGATTTTGTTATAAGTAAATAAT
TGAAGAATGTGAATTTCAATGTATATACTTGTGATTAAATGGTTTAAAGCTTGAATCAATTATTA
TGTTTATGGT
Found at i:24447200 original size:106 final size:103
Alignment explanation
Indices: 24447018--24447231 Score: 286
Period size: 106 Copynumber: 2.0 Consensus size: 103
24447008 AAGCACTTGG
* *
24447018 TTAAAATTGTTTAATTAAGTTATGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGACCTAAC
1 TTAAAATTGTTTAATTAAGTCATGCCTAATTAATTAAATTGTTTAATTAAATCATTGGACCTAAC
* *
24447083 TAATTAAATTGTTTAATTAAGTCA-TGGGTCTAGTTGA
66 TAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGA
* ** * *
24447120 TTAAAATTGTTTAATTAAGTCATTGGGCCTAATTGATTAAAATTGTTTAATTAAATTGTTGGGCT
1 TTAAAATTGTTTAATTAAGTCA-T--GCCTAATTAATT-AAATTGTTTAATTAAATCATTGGACC
* *
24447185 TAATTAATTAAATTGTTTAATTAAGTTATTGGGCCTAATTGA
62 TAACTAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGA
24447227 TTAAA
1 TTAAA
24447232 TTAAACAATT
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
102 21 0.22
103 1 0.01
105 11 0.11
106 47 0.49
107 16 0.17
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (103 bp):
TTAAAATTGTTTAATTAAGTCATGCCTAATTAATTAAATTGTTTAATTAAATCATTGGACCTAAC
TAATTAAATTGTTTAATTAAGTCATTGGGCCTAATTGA
Found at i:24447204 original size:71 final size:69
Alignment explanation
Indices: 24447018--24447231 Score: 265
Period size: 71 Copynumber: 3.1 Consensus size: 69
24447008 AAGCACTTGG
** * *
24447018 TTAAAATTGTTTAATTAA-GTTATGCCTAATTAATTAAATTGTTTAATTAAGTCATTGGACCTAA
1 TTAAAATTGTTTAATTAATGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
* *
24447082 CTAA
66 TTGA
* *
24447086 TT-AAATTGTTTAATTAA-GTCATGGG-TCTAGTTGATTAAAATTGTTTAATTAAGTCATTGGGC
1 TTAAAATTGTTTAATTAATGT--TGGGCT-TAATTAATT-AAATTGTTTAATTAAGTCATTGGGC
24447148 CTAATTGA
62 CTAATTGA
*
24447156 TTAAAATTGTTTAATTAAATTGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTTATTGGGCCT
1 TTAAAATTGTTTAATT-AA-TGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCT
24447221 AATTGA
64 AATTGA
24447227 TTAAA
1 TTAAA
24447232 TTAAACAATT
Statistics
Matches: 126, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
67 17 0.13
68 2 0.02
69 9 0.07
70 32 0.25
71 50 0.40
72 13 0.10
73 1 0.01
74 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (69 bp):
TTAAAATTGTTTAATTAATGTTGGGCTTAATTAATTAAATTGTTTAATTAAGTCATTGGGCCTAA
TTGA
Found at i:24447247 original size:35 final size:35
Alignment explanation
Indices: 24447021--24447233 Score: 263
Period size: 35 Copynumber: 6.1 Consensus size: 35
24447011 CACTTGGTTA
*
24447021 AAATTGTTTAATTAAGTTA-T--GCCTAATTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
* * * *
24447053 AAATTGTTTAATTAAGTCATTGGACCTAACTAATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
* * *
24447088 AAATTGTTTAATTAAGTCA-TGGGTCTAGTTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
*
24447122 AAAATTGTTTAATTAAGTCATTGGGCCTAATTGATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
* * * *
24447158 AAAATTGTTTAATTAAATTGTTGGGCTTAATTAATT
1 -AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
24447194 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
1 AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
24447229 AAATT
1 AAATT
24447234 AAACAATTAA
Statistics
Matches: 157, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
32 18 0.11
33 1 0.01
34 10 0.06
35 84 0.54
36 44 0.28
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.44
Consensus pattern (35 bp):
AAATTGTTTAATTAAGTTATTGGGCCTAATTGATT
Found at i:24448451 original size:21 final size:21
Alignment explanation
Indices: 24448413--24448452 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24448403 CTGGAACAAG
*
24448413 GTCAACTATGCTTCTTTTGTA
1 GTCAACTATGCTTATTTTGTA
24448434 GTCAACTATGGC-TATTTTG
1 GTCAACTAT-GCTTATTTTG
24448453 AACTTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (21 bp):
GTCAACTATGCTTATTTTGTA
Found at i:24448481 original size:71 final size:72
Alignment explanation
Indices: 24448353--24448511 Score: 230
Period size: 71 Copynumber: 2.2 Consensus size: 72
24448343 TGACTATACC
* *
24448353 TCTTTTATAGTCAACTATGGCTGTTCTTCAACTTGATTTTCTTGATCTTTCTGGAACAAGGTCAA
1 TCTTTTATAGTCAACTATGGCTATTCTTCAACTTGATTTTCTTGATCTTTCTGGAACAAGATCAA
*
24448418 CTATGCT
66 CTATGCG
* * * *
24448425 TCTTTTGTAGTCAACTATGGCTATT-TTGAACTTGATTTTCTTGATCTTTCTTGAACAAGATCTA
1 TCTTTTATAGTCAACTATGGCTATTCTTCAACTTGATTTTCTTGATCTTTCTGGAACAAGATCAA
24448489 CTATGCG
66 CTATGCG
* *
24448496 TCCTTTCTAGTCAACT
1 TCTTTTATAGTCAACT
24448512 CAGGCTTTAT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 55 0.71
72 23 0.29
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (72 bp):
TCTTTTATAGTCAACTATGGCTATTCTTCAACTTGATTTTCTTGATCTTTCTGGAACAAGATCAA
CTATGCG
Found at i:24450808 original size:31 final size:31
Alignment explanation
Indices: 24450755--24450818 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
24450745 TTGACAGTTG
* * **
24450755 GATTTGGTATTTGTCTTGACTTTGATCTTTA
1 GATTGGGTAATTGTCTCAACTTTGATCTTTA
* *
24450786 GATTGGGTAATTGTCTCAACTTTGGTGTTTA
1 GATTGGGTAATTGTCTCAACTTTGATCTTTA
24450817 GA
1 GA
24450819 CTTGACTTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.19, C:0.09, G:0.23, T:0.48
Consensus pattern (31 bp):
GATTGGGTAATTGTCTCAACTTTGATCTTTA
Found at i:24458024 original size:51 final size:50
Alignment explanation
Indices: 24457969--24458091 Score: 192
Period size: 51 Copynumber: 2.4 Consensus size: 50
24457959 ATCCCATTAG
* *
24457969 AATTCGGTTGGAAATTTCCAACGAAATTCTGTTAGAAACGAATGTGGAAAT
1 AATTC-GTTGGAAATTTCCAACAAAATTCCGTTAGAAACGAATGTGGAAAT
*
24458020 AATTCCGTTGGAAATTTCCAACAAAATTCCGTTGGAAACGAATGTGGAAAT
1 AATT-CGTTGGAAATTTCCAACAAAATTCCGTTAGAAACGAATGTGGAAAT
24458071 AATTTCGTTGGAAATTTCCAA
1 AA-TTCGTTGGAAATTTCCAA
24458092 TGGAATTTCA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
51 64 0.96
52 3 0.04
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.30
Consensus pattern (50 bp):
AATTCGTTGGAAATTTCCAACAAAATTCCGTTAGAAACGAATGTGGAAAT
Found at i:24458033 original size:27 final size:27
Alignment explanation
Indices: 24457993--24458084 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
24457983 TTTCCAACGA
* *
24457993 AATTCTGTTAGAAACGAATGTGGAAAT
1 AATTCCGTTGGAAACGAATGTGGAAAT
* ** *
24458020 AATTCCGTTGG--A--AATTTCCAACAA
1 AATTCCGTTGGAAACGAATGTGGAA-AT
24458044 AATTCCGTTGGAAACGAATGTGGAAAT
1 AATTCCGTTGGAAACGAATGTGGAAAT
*
24458071 AATTTCGTTGGAAA
1 AATTCCGTTGGAAA
24458085 TTTCCAATGG
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
23 6 0.12
24 12 0.24
25 1 0.02
26 1 0.02
27 23 0.47
28 6 0.12
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (27 bp):
AATTCCGTTGGAAACGAATGTGGAAAT
Found at i:24458603 original size:19 final size:19
Alignment explanation
Indices: 24458581--24458617 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24458571 AAGCCAACTT
*
24458581 TGCTATTGGCAGCCATCTG
1 TGCTACTGGCAGCCATCTG
*
24458600 TGCTACTGGTAGCCATCT
1 TGCTACTGGCAGCCATCT
24458618 TTGATGAGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.32
Consensus pattern (19 bp):
TGCTACTGGCAGCCATCTG
Found at i:24459366 original size:24 final size:23
Alignment explanation
Indices: 24459325--24459378 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
24459315 AATCTTTCAA
* *
24459325 AAAAAAAACCAGATTCAAACAAC
1 AAAAAAAACCAAAATCAAACAAC
* *
24459348 AAAAAAAACCACAAATCAACCACC
1 AAAAAAAACCA-AAATCAAACAAC
24459372 AAAAAAA
1 AAAAAAA
24459379 TCCTAAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.69, C:0.24, G:0.02, T:0.06
Consensus pattern (23 bp):
AAAAAAAACCAAAATCAAACAAC
Found at i:24459915 original size:21 final size:21
Alignment explanation
Indices: 24459891--24459934 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
24459881 GATAACTAGC
24459891 AATTTCATA-ATA-ATATAGGTT
1 AATTT-ATATATATATATA-GTT
24459912 AATTTATATATATATATAGTT
1 AATTTATATATATATATAGTT
24459933 AA
1 AA
24459935 CATATTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 3 0.14
21 13 0.62
22 5 0.24
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (21 bp):
AATTTATATATATATATAGTT
Found at i:24459979 original size:19 final size:19
Alignment explanation
Indices: 24459957--24459999 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
24459947 CTATGATTCT
*
24459957 AATTTATATATTTATAATA
1 AATTAATATATTTATAATA
*
24459976 AATTAATATATTTTTAATA
1 AATTAATATATTTATAATA
*
24459995 TATTA
1 AATTA
24460000 TATTAATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAATATATTTATAATA
Found at i:24460682 original size:14 final size:14
Alignment explanation
Indices: 24460665--24460711 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
24460655 TTTCCGTTGG
24460665 AAATTTTCAATGAA
1 AAATTTTCAATGAA
* ** *
24460679 AAATTTCCGTTG-G
1 AAATTTTCAATGAA
24460692 AAATTTTCAATGAA
1 AAATTTTCAATGAA
24460706 AAATTT
1 AAATTT
24460712 CCAACGGAAT
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (14 bp):
AAATTTTCAATGAA
Found at i:24460686 original size:27 final size:27
Alignment explanation
Indices: 24460652--24460713 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
24460642 AAGTTAAACT
24460652 AAATTTCCGTTGGAAATTTTCAATGAA
1 AAATTTCCGTTGGAAATTTTCAATGAA
24460679 AAATTTCCGTTGGAAATTTTCAATGAA
1 AAATTTCCGTTGGAAATTTTCAATGAA
24460706 AAATTTCC
1 AAATTTCC
24460714 AACGGAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (27 bp):
AAATTTCCGTTGGAAATTTTCAATGAA
Found at i:24460720 original size:27 final size:27
Alignment explanation
Indices: 24460663--24460725 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
24460653 AATTTCCGTT
***
24460663 GGAAATTTTCAATGAAAAATTTCCGTT
1 GGAAATTTTCAATGAAAAATTTCCAAC
24460690 GGAAATTTTCAATGAAAAATTTCCAAC
1 GGAAATTTTCAATGAAAAATTTCCAAC
*
24460717 GGAATTTTT
1 GGAAATTTT
24460726 TTCGTCCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (27 bp):
GGAAATTTTCAATGAAAAATTTCCAAC
Found at i:24474471 original size:2 final size:2
Alignment explanation
Indices: 24474466--24474496 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24474456 ATACTTTTGT
24474466 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24474497 GGTTTGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24479663 original size:5 final size:6
Alignment explanation
Indices: 24479651--24479675 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24479641 CAAACCCACG
24479651 AACAAA AACAAA AACAAA AACAAA A
1 AACAAA AACAAA AACAAA AACAAA A
24479676 GATTTAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (6 bp):
AACAAA
Found at i:24480726 original size:19 final size:19
Alignment explanation
Indices: 24480702--24480762 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
24480692 CTTGATTTCA
24480702 ATTTTTAATAAATATTAAT
1 ATTTTTAATAAATATTAAT
24480721 ATTTTTAAATATTAATATTAA-
1 ATTTTT-AATA--AATATTAAT
* *
24480742 ATTATAAATAAAATATTAAT
1 ATTTTTAAT-AAATATTAAT
24480762 A
1 A
24480763 GTTTAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 14 0.40
20 8 0.23
21 5 0.14
22 8 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTTAATAAATATTAAT
Found at i:24480771 original size:16 final size:14
Alignment explanation
Indices: 24480711--24480776 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 14
24480701 AATTTTTAAT
*
24480711 AAATATTAATATTTTT
1 AAATATTAATA--TTA
24480727 AAATATTAATATTA
1 AAATATTAATATTA
*
24480741 AATTA-TAA-A-TA
1 AAATATTAATATTA
24480752 AAATATTAATAGTTTA
1 AAATATTAATA--TTA
24480768 AAATATTAA
1 AAATATTAA
24480777 AAATTAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 6 0.14
12 4 0.10
13 4 0.10
14 6 0.14
16 22 0.52
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
AAATATTAATATTA
Found at i:24480858 original size:17 final size:15
Alignment explanation
Indices: 24480818--24480880 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 15
24480808 ATTATCAATT
24480818 ATTAAAAA-AAATAAA
1 ATTAAAAATAAAT-AA
* *
24480833 ATTATAAATTAATACA
1 ATTAAAAATAAATA-A
24480849 ATTTAAAAATAAATTAA
1 A-TTAAAAATAAA-TAA
24480866 ATTAAAAATAAATAA
1 ATTAAAAATAAATAA
24480881 GCATAATAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.28
16 16 0.40
17 11 0.28
18 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAAAAATAAATAA
Found at i:24480985 original size:27 final size:27
Alignment explanation
Indices: 24480929--24480984 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
24480919 TTAAATTATC
* * *
24480929 AATTATTAATATTTTAAATCAATTAAA
1 AATTATTAATATTTAAAATAAAATAAA
24480956 AATTATTAATATTTAAAAATAAAATAAA
1 AATTATTAATATTT-AAAATAAAATAAA
24480984 A
1 A
24480985 TAAAATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
AATTATTAATATTTAAAATAAAATAAA
Found at i:24481065 original size:42 final size:42
Alignment explanation
Indices: 24481015--24481167 Score: 166
Period size: 42 Copynumber: 3.5 Consensus size: 42
24481005 ATATTTAAAT
*
24481015 TAAATAAAATTTTAATATTTTAAAATATTAATGATTAAATGA
1 TAAATAAAATATTAATATTTTAAAATATTAATGATTAAATGA
*
24481057 TAAATAAAATATTAATATTTAAATGGTCAATTATTAAT-ATTTTAAAT-A
1 TAAATAAAATATTAATATTTTAA-----AA-TATTAATGA--TTAAATGA
* * *
24481105 TATTATCAACTATTAATATTTTAAAATATTAATGATTAAATGA
1 TA-AATAAAATATTAATATTTTAAAATATTAATGATTAAATGA
24481148 TAAATAAAATATTAATATTT
1 TAAATAAAATATTAATATTT
24481168 AATGGTCAAT
Statistics
Matches: 91, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
42 42 0.46
43 10 0.11
44 3 0.03
47 3 0.03
48 10 0.11
49 23 0.25
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (42 bp):
TAAATAAAATATTAATATTTTAAAATATTAATGATTAAATGA
Found at i:24481103 original size:49 final size:48
Alignment explanation
Indices: 24481049--24481193 Score: 164
Period size: 49 Copynumber: 3.1 Consensus size: 48
24481039 ATATTAATGA
24481049 TTAAATGATAAATAAAATATTAATATTTAAATGGTCAATTATTAATATT
1 TTAAATGATAAATAAAATATTAATATTT-AATGGTCAATTATTAATATT
* * *
24481098 TTAAAT-ATATTATCAACTATTAATATTTTAA-----AA-TATTAATGA--
1 TTAAATGATA-AATAAAATATTAATA-TTTAATGGTCAATTATTAAT-ATT
24481140 TTAAATGATAAATAAAATATTAATATTTAATGGTCAATTATTAATATT
1 TTAAATGATAAATAAAATATTAATATTTAATGGTCAATTATTAATATT
24481188 TTAAAT
1 TTAAAT
24481194 AAATTATCAA
Statistics
Matches: 78, Mismatches: 6, Indels: 25
0.72 0.06 0.23
Matches are distributed among these distances:
41 5 0.06
42 18 0.23
43 10 0.13
44 3 0.04
46 3 0.04
47 7 0.09
48 9 0.12
49 20 0.26
50 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (48 bp):
TTAAATGATAAATAAAATATTAATATTTAATGGTCAATTATTAATATT
Found at i:24481118 original size:27 final size:26
Alignment explanation
Indices: 24481083--24481135 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
24481073 ATTTAAATGG
*
24481083 TCAATTATTAATATTTTAAATATATTA
1 TCAACTATTAATATTTTAAA-ATATTA
24481110 TCAACTATTAATATTTTAAAATATTA
1 TCAACTATTAATATTTTAAAATATTA
24481136 ATGATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (26 bp):
TCAACTATTAATATTTTAAAATATTA
Found at i:24481121 original size:91 final size:90
Alignment explanation
Indices: 24481026--24481217 Score: 357
Period size: 91 Copynumber: 2.1 Consensus size: 90
24481016 AAATAAAATT
24481026 TTAATATTTTAAAATATTAATGATTAAATGATAAATAAAATATTAATATTTAAATGGTCAATTAT
1 TTAATATTTTAAAATATTAATGATTAAATGATAAATAAAATATTAATATTT-AATGGTCAATTAT
*
24481091 TAATATTTTAAATATATTATCAACTA
65 TAATATTTTAAATAAATTATCAACTA
24481117 TTAATATTTTAAAATATTAATGATTAAATGATAAATAAAATATTAATATTTAATGGTCAATTATT
1 TTAATATTTTAAAATATTAATGATTAAATGATAAATAAAATATTAATATTTAATGGTCAATTATT
*
24481182 AATATTTTAAATAAATTATCAATTA
66 AATATTTTAAATAAATTATCAACTA
24481207 TTAATATTTTA
1 TTAATATTTTA
24481218 GGAATAAAAT
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
90 48 0.48
91 51 0.52
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (90 bp):
TTAATATTTTAAAATATTAATGATTAAATGATAAATAAAATATTAATATTTAATGGTCAATTATT
AATATTTTAAATAAATTATCAACTA
Found at i:24481254 original size:90 final size:89
Alignment explanation
Indices: 24481026--24481259 Score: 283
Period size: 90 Copynumber: 2.6 Consensus size: 89
24481016 AAATAAAATT
* * * *
24481026 TTAATATTTTAAAATATTAATGATTAAATGATAAATAAAATATTAATATTTAAATGGTCAATTAT
1 TTAATATTTTAAAATATAAATAAATAAA-GATAAATAAAATAATAATATTT-AATGGTCAATTAT
*
24481091 TAATATTTTAAATATATTATCAACTA
64 TAATATTTTAAATAAATTATCAACTA
* * * *
24481117 TTAATATTTTAAAATATTAATGATTAAATGATAAATAAAATATTAATATTTAATGGTCAATTATT
1 TTAATATTTTAAAATATAAATAAATAAA-GATAAATAAAATAATAATATTTAATGGTCAATTATT
*
24481182 AATATTTTAAATAAATTATCAATTA
65 AATATTTTAAATAAATTATCAACTA
* * *
24481207 TTAATATTTTAGGAATA-AAATAAAATAAA-ATAATTAATCATAATAATATTTAA
1 TTAATATTTTA-AAATATAAAT-AAATAAAGATAAATAA-AATAATAATATTTAA
24481260 ATTAAATAAA
Statistics
Matches: 131, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
89 7 0.05
90 64 0.49
91 60 0.46
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (89 bp):
TTAATATTTTAAAATATAAATAAATAAAGATAAATAAAATAATAATATTTAATGGTCAATTATTA
ATATTTTAAATAAATTATCAACTA
Found at i:24481509 original size:14 final size:13
Alignment explanation
Indices: 24481433--24481509 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 13
24481423 TTAATCATAA
*
24481433 TAATATTTAA-AT
1 TAATATTAAATAT
24481445 TAA-ATTAAATAT
1 TAATATTAAATAT
24481457 TAATATTTTAAAATAT
1 TAATA--TT-AAATAT
24481473 TAATCA-TAAATTAT
1 TAAT-ATTAAA-TAT
24481487 TAATA--AAATAT
1 TAATATTAAATAT
24481498 TAATATTTAAAT
1 TAATA-TTAAAT
24481510 GGTCAATTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
11 13 0.24
12 11 0.20
13 5 0.09
14 12 0.22
15 2 0.04
16 10 0.19
17 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATATTAAATAT
Found at i:24483831 original size:19 final size:19
Alignment explanation
Indices: 24483807--24483844 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24483797 CCATTTGACT
24483807 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
24483826 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
24483845 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:24487739 original size:16 final size:16
Alignment explanation
Indices: 24487720--24487754 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24487710 GTATAAATCT
*
24487720 CATTTTTATTAAAAAA
1 CATTTTAATTAAAAAA
*
24487736 CATTTTAATTGAAAAA
1 CATTTTAATTAAAAAA
24487752 CAT
1 CAT
24487755 AATATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.40
Consensus pattern (16 bp):
CATTTTAATTAAAAAA
Found at i:24488935 original size:28 final size:29
Alignment explanation
Indices: 24488887--24488952 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 29
24488877 GTAAATTTTT
* ** *
24488887 AAAAATTACACTTTTGCCCCCGTAAAGTG
1 AAAAATTACACTTTTGACCCCAAAAACTG
*
24488916 AAAAATTACA-TTTTTACCCCAAAAACTG
1 AAAAATTACACTTTTGACCCCAAAAACTG
24488944 AAAAATTAC
1 AAAAATTAC
24488953 CCATAGACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (29 bp):
AAAAATTACACTTTTGACCCCAAAAACTG
Found at i:24490550 original size:21 final size:20
Alignment explanation
Indices: 24490525--24490584 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
24490515 AAATGTCTAA
*
24490525 AATAATTATTTGAAATGAAAT
1 AATAATTATTTG-AATAAAAT
* *
24490546 TATAATTGTTTGAATAAAAT
1 AATAATTATTTGAATAAAAT
24490566 AATAA-TATTT-AATAAAAT
1 AATAATTATTTGAATAAAAT
24490584 A
1 A
24490585 TTCTATTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
18 9 0.26
19 4 0.12
20 11 0.32
21 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
AATAATTATTTGAATAAAAT
Found at i:24499918 original size:15 final size:15
Alignment explanation
Indices: 24499898--24499943 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
24499888 TTCTTAAAAT
24499898 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
24499913 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
**
24499928 AGTTTTAAAACCAAA
1 AACTTTAAAACCAAA
24499943 A
1 A
24499944 TCTCTTATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:24500323 original size:21 final size:20
Alignment explanation
Indices: 24500298--24500356 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
24500288 AGATGTCTAA
*
24500298 AATAATTATTTGAAATGAAAT
1 AATAATTATTTG-AATAAAAT
* *
24500319 TATAATTGTTTGAATAAAAT
1 AATAATTATTTGAATAAAAT
24500339 AATAA-TATTT--ATAAAAT
1 AATAATTATTTGAATAAAAT
24500356 A
1 A
24500357 TTCTATTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 8 0.24
19 4 0.12
20 11 0.33
21 10 0.30
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (20 bp):
AATAATTATTTGAATAAAAT
Found at i:24502272 original size:11 final size:11
Alignment explanation
Indices: 24502245--24502288 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
24502235 CCTAGGGTTC
24502245 TTGTTCTT-C-
1 TTGTTCTTCCT
24502254 TT-TTCTTCCT
1 TTGTTCTTCCT
24502264 TTGTTCTTCCTT
1 TTGTTCTTCC-T
24502276 TTGTT-TTCCT
1 TTGTTCTTCCT
24502286 TTG
1 TTG
24502289 GCCAGCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 3 0.10
10 6 0.19
11 11 0.35
12 6 0.19
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:24503129 original size:19 final size:20
Alignment explanation
Indices: 24503108--24503145 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
24503098 CACTCTTTTT
24503108 TTTTCCT-TTTC-TTCTTTC
1 TTTTCCTGTTTCTTTCTTTC
24503126 TTTTCCTGTTTCTTTCTTTC
1 TTTTCCTGTTTCTTTCTTTC
24503146 ACTTCTGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTCCTGTTTCTTTCTTTC
Found at i:24505633 original size:11 final size:10
Alignment explanation
Indices: 24505608--24505644 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
24505598 GTGGCTGAAA
24505608 TTGATGATAT
1 TTGATGATAT
24505618 TTGATGATATT
1 TTGATGATA-T
*
24505629 TTGATGATAG
1 TTGATGATAT
24505639 TTGATG
1 TTGATG
24505645 TTTGGTGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (10 bp):
TTGATGATAT
Found at i:24601066 original size:28 final size:27
Alignment explanation
Indices: 24601027--24601079 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
24601017 ATATCCTGGT
*
24601027 GGTGGAAAATTACAATTTTGCCCTTGA
1 GGTGGAAAATTACAATTTTACCCTTGA
*
24601054 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
24601080 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTGA
Found at i:24601149 original size:20 final size:20
Alignment explanation
Indices: 24601124--24601169 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
24601114 CTTCTAAACC
24601124 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
24601144 TCAAATTATACTCCAATCAG
1 TCAAATCATACTCCAATAAG
24601164 TCAAAT
1 TCAAAT
24601170 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:24601574 original size:34 final size:34
Alignment explanation
Indices: 24601523--24601602 Score: 117
Period size: 34 Copynumber: 2.3 Consensus size: 34
24601513 GCAGCCAAAG
*
24601523 CTTCAAAGATTAGTAGCCAAAA-CCGCACCTTCAGC
1 CTTCAAA-ATCAGTAGCCAAAATCC-CACCTTCAGC
24601558 CTTCAAAATCAGTAGCCAAAATCCCACCTTCAGC
1 CTTCAAAATCAGTAGCCAAAATCCCACCTTCAGC
*
24601592 CGTCAAAATCA
1 CTTCAAAATCA
24601603 ACTCATTCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
34 33 0.79
35 9 0.21
ACGTcount: A:0.36, C:0.33, G:0.11, T:0.20
Consensus pattern (34 bp):
CTTCAAAATCAGTAGCCAAAATCCCACCTTCAGC
Found at i:24607639 original size:13 final size:13
Alignment explanation
Indices: 24607621--24607645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24607611 ATTTTCAAAA
24607621 ATTTTATAAAATT
1 ATTTTATAAAATT
24607634 ATTTTATAAAAT
1 ATTTTATAAAAT
24607646 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:24608858 original size:28 final size:29
Alignment explanation
Indices: 24608800--24608859 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
24608790 CAAATTTTTT
** *
24608800 AAAAATTACACTTTTGCCCCCGTAAAGTG
1 AAAAATTACACTTTTGCCCCCAAAAACTG
* *
24608829 AAAAATTACATTTTTG-TCCCAAAAACTG
1 AAAAATTACACTTTTGCCCCCAAAAACTG
24608857 AAA
1 AAA
24608860 GATTGCCCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTGCCCCCAAAAACTG
Found at i:24615280 original size:20 final size:20
Alignment explanation
Indices: 24615255--24615300 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
24615245 CTTTTGCCCC
*
24615255 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAAA
24615275 ATTTGACTTATTGGAGTAAA
1 ATTTGACTTATTGGAGTAAA
24615295 ATTTGA
1 ATTTGA
24615301 GATTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAAA
Found at i:24619704 original size:13 final size:13
Alignment explanation
Indices: 24619686--24619710 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24619676 AGAGAAATTG
24619686 TGATTTTATAAAA
1 TGATTTTATAAAA
24619699 TGATTTTATAAA
1 TGATTTTATAAA
24619711 TTTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:24620934 original size:15 final size:16
Alignment explanation
Indices: 24620914--24620954 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
24620904 CAGAGATTTT
24620914 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
24620929 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
24620945 G-TTTTAAAGT
1 GATTTTAAAGT
24620955 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:24620955 original size:15 final size:15
Alignment explanation
Indices: 24620910--24620955 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
24620900 AGATCAGAGA
*
24620910 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
24620924 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
24620940 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
24620955 T
1 T
24620956 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:24621015 original size:14 final size:15
Alignment explanation
Indices: 24620990--24621022 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
24620980 TGCGTGGCCC
24620990 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
24621005 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
24621019 AAGT
1 AAGT
24621023 CAGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Found at i:24621029 original size:19 final size:19
Alignment explanation
Indices: 24620991--24621030 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
24620981 GCGTGGCCCA
*
24620991 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTCAAGTT
*
24621010 AGTTAAGTTAAGTCAGGTT
1 AGTTAAGTTAAGTCAAGTT
24621029 AG
1 AG
24621031 GTAGAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (19 bp):
AGTTAAGTTAAGTCAAGTT
Found at i:24621032 original size:5 final size:5
Alignment explanation
Indices: 24620990--24621022 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
24620980 TGCGTGGCCC
24620990 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
24621023 CAGGTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:24637765 original size:17 final size:18
Alignment explanation
Indices: 24637739--24637782 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
24637729 GAGTCATGTT
*
24637739 TTAATCTAAATAGACA-A
1 TTAATTTAAATAGACACA
* *
24637756 TTAATTTAAATAGTCACT
1 TTAATTTAAATAGACACA
24637774 TTAATTTAA
1 TTAATTTAA
24637783 TAATCACATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (18 bp):
TTAATTTAAATAGACACA
Found at i:24637784 original size:17 final size:18
Alignment explanation
Indices: 24637756--24637789 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24637746 AAATAGACAA
*
24637756 TTAATTTAAATAGTCACT
1 TTAATTTAAATAATCACT
24637774 TTAATTT-AATAATCAC
1 TTAATTTAAATAATCAC
24637790 ATCTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (18 bp):
TTAATTTAAATAATCACT
Found at i:24653466 original size:17 final size:17
Alignment explanation
Indices: 24653444--24653478 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
24653434 TAGTCAGATT
24653444 AAAGTATGAACTTAATG
1 AAAGTATGAACTTAATG
24653461 AAAGTATGAACTTAATG
1 AAAGTATGAACTTAATG
24653478 A
1 A
24653479 GTCTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.29
Consensus pattern (17 bp):
AAAGTATGAACTTAATG
Found at i:24654832 original size:200 final size:199
Alignment explanation
Indices: 24654480--24654881 Score: 610
Period size: 200 Copynumber: 2.0 Consensus size: 199
24654470 CACAATCCAC
* * *
24654480 AAAAGATTTTTACTTTTTAAATGGGAAGGGATAACCCTTACAAGATAACTTTTCAAAGTTAAGTT
1 AAAAGATTCTTACTTTTTAAATGGAAAAGGATAACCCTTACAAGATAACTTTTCAAAGTTAAGTT
* *
24654545 AGAACCTTTATAAGATGTGTGTACAAAGGAATAACAGTAAGGATTTACCTCACAAAGGCTGGATG
66 AGAACCTTTACAAGATGTGTGTACAAAGGAATAACAGTAAGGATTTACCTCACAAAGGCTGAATG
* * * *
24654610 CTAGAGATTTTAGCTTAGGTGTAGTGAGAGAAGAAATTGCAACTTGAGTAGAGTAAGGATTCAAC
131 CTAGAGATTTTAGCTAAGGTGTAGTGAGAGAAGAAATTGCAACTTGAGTAAAGCAAAGATTCAAC
24654675 TTTG
196 TTTG
* *
24654679 AAAAGGATTCTTACTTTTTAAATGGAAAATGATAACCCTTACAAGATAGCTTTTC-AAGATTAA-
1 AAAA-GATTCTTACTTTTTAAATGGAAAAGGATAACCCTTACAAGATAACTTTTCAAAG-TTAAG
* * * *
24654742 TATAGAACCTTTACAAGATGTGTGTACAAAGGAATAATAGTAAGGATTTGCTTCACAAAGGTTGA
64 T-TAGAACCTTTACAAGATGTGTGTACAAAGGAATAACAGTAAGGATTTACCTCACAAAGGCTGA
* *
24654807 ATGCTAGAGATTTTAGCTAAGGTGTAGTGAGAGAAGAAATTTCAGCTTGAGTAAAGCAAAGATTC
128 ATGCTAGAGATTTTAGCTAAGGTGTAGTGAGAGAAGAAATTGCAACTTGAGTAAAGCAAAGATTC
24654872 AACTTTG
193 AACTTTG
24654879 AAA
1 AAA
24654882 GGTTGATGGA
Statistics
Matches: 183, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
199 8 0.04
200 175 0.96
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (199 bp):
AAAAGATTCTTACTTTTTAAATGGAAAAGGATAACCCTTACAAGATAACTTTTCAAAGTTAAGTT
AGAACCTTTACAAGATGTGTGTACAAAGGAATAACAGTAAGGATTTACCTCACAAAGGCTGAATG
CTAGAGATTTTAGCTAAGGTGTAGTGAGAGAAGAAATTGCAACTTGAGTAAAGCAAAGATTCAAC
TTTG
Found at i:24657535 original size:5 final size:5
Alignment explanation
Indices: 24657525--24657556 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
24657515 GATATTTTTT
*
24657525 ATATA ATATA ATATA ATATA ATGTA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
24657557 TTGATTCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:24657604 original size:128 final size:125
Alignment explanation
Indices: 24657397--24657651 Score: 384
Period size: 128 Copynumber: 2.0 Consensus size: 125
24657387 ATCGTATATA
* *
24657397 ATATAACATAATATAATGTAATGTAATATAATTTGATTCTGTCATAATGTCTCGACGTAACTCAA
1 ATATAACATAATATAATATAATGTAATATAATTTGATTCTATCATAATGTCTCGACGTAACTCAA
24657462 TCAATCCATTTAAATACTTCTTATTTTTTTAATTTTCGTTAATTTATAGAAATGATATTTTTT
66 TCAATCCATTTAAATAC-T-TT-TTTTTTTAATTTTCGTTAATTTATAGAAATGATATTTTTT
* ** *
24657525 ATATAATATAATATAATATAATGTAATATAATTTGATTCTATTGTAATGTCTCGACTTAACTCAA
1 ATATAACATAATATAATATAATGTAATATAATTTGATTCTATCATAATGTCTCGACGTAACTCAA
** * * *
24657590 TTGATCTATTTAAATACTTTTTTTTTTAATTTTCGTTGATTTATAGAAGTGATATTTTTT
66 TCAATCCATTTAAATACTTTTTTTTTTAATTTTCGTTAATTTATAGAAATGATATTTTTT
24657650 AT
1 AT
24657652 TTTGTTATCA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
125 40 0.34
126 2 0.02
127 1 0.01
128 73 0.63
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.48
Consensus pattern (125 bp):
ATATAACATAATATAATATAATGTAATATAATTTGATTCTATCATAATGTCTCGACGTAACTCAA
TCAATCCATTTAAATACTTTTTTTTTTAATTTTCGTTAATTTATAGAAATGATATTTTTT
Found at i:24666732 original size:13 final size:13
Alignment explanation
Indices: 24666714--24666738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24666704 AGAGAAATTG
24666714 TGATTTTATAAAA
1 TGATTTTATAAAA
24666727 TGATTTTATAAA
1 TGATTTTATAAA
24666739 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:24668904 original size:11 final size:11
Alignment explanation
Indices: 24668864--24668902 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
24668854 CACTGTAAAT
24668864 TTTAAAACAGC
1 TTTAAAACAGC
*
24668875 TTTAAAACAAC
1 TTTAAAACAGC
*
24668886 TTTAAACCAGC
1 TTTAAAACAGC
24668897 TTTAAA
1 TTTAAA
24668903 CCCAAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.31
Consensus pattern (11 bp):
TTTAAAACAGC
Found at i:24668954 original size:22 final size:22
Alignment explanation
Indices: 24668896--24668961 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
24668886 TTTAAACCAG
* * *
24668896 CTTTAAACCCAAAAACTCTAAT
1 CTTTAAAACCAAAAGCTCTGAT
*
24668918 CTTTAAAATCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
*
24668940 CTTTAAAACCAAAAGCTTTGAT
1 CTTTAAAACCAAAAGCTCTGAT
24668962 ACCAACCGAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:24672701 original size:52 final size:52
Alignment explanation
Indices: 24672638--24672760 Score: 194
Period size: 52 Copynumber: 2.4 Consensus size: 52
24672628 AATAAAGAAT
24672638 AAATCAAGGTAAAATATTTTCCTAAGCTAAATGCAAGCAAAACATGAA-CAAC
1 AAATCAAGGTAAAATATTTTCCTAAGCTAAATGCAAGCAAAACAT-AAGCAAC
* * *
24672690 AAATCAAGGTAAAATCTTTTCCTAAGTTAAATGCAAGCAAAGCATAAGCAAC
1 AAATCAAGGTAAAATATTTTCCTAAGCTAAATGCAAGCAAAACATAAGCAAC
*
24672742 AAATCAAGTTAAAATATTT
1 AAATCAAGGTAAAATATTT
24672761 CTAAAAGGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 2 0.03
52 63 0.97
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.24
Consensus pattern (52 bp):
AAATCAAGGTAAAATATTTTCCTAAGCTAAATGCAAGCAAAACATAAGCAAC
Found at i:24672778 original size:52 final size:52
Alignment explanation
Indices: 24672638--24672781 Score: 145
Period size: 52 Copynumber: 2.8 Consensus size: 52
24672628 AATAAAGAAT
*
24672638 AAATCAAGGTAAAAT-ATTTTCCTAA-GCTAAATGCAAGCAAAACATGAACAAC
1 AAATCAAGGTAAAATCA-TTTCCTAAGGC-AAAAGCAAGCAAAACATGAACAAC
* ** * *
24672690 AAATCAAGGTAAAATCTTTTCCTAAGTTAAATGCAAGCAAAGCAT-AAGCAAC
1 AAATCAAGGTAAAATCATTTCCTAAGGCAAAAGCAAGCAAAACATGAA-CAAC
*
24672742 AAATCAAGTTAAAAT-ATTT-CTAAAAGGCAAAAGCAAGCAA
1 AAATCAAGGTAAAATCATTTCCT--AAGGCAAAAGCAAGCAA
24672782 TAAAACACAA
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
50 2 0.03
51 5 0.06
52 71 0.91
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (52 bp):
AAATCAAGGTAAAATCATTTCCTAAGGCAAAAGCAAGCAAAACATGAACAAC
Found at i:24672995 original size:33 final size:33
Alignment explanation
Indices: 24672902--24673032 Score: 147
Period size: 33 Copynumber: 3.9 Consensus size: 33
24672892 TAAGAGAAAT
* *
24672902 ATGCTTTTTATGGGATCAAGCGAAA-CACTCACA
1 ATGCTTTTTATGAGATCAAGCGAAATC-CTTACA
* **
24672935 ATAGCTTTTTCATGGGATCAAATGAAATCCTTACA
1 AT-GCTTTTT-ATGAGATCAAGCGAAATCCTTACA
24672970 ATGCTTTTTATGAGATCAAGCGAAATCCTTACA
1 ATGCTTTTTATGAGATCAAGCGAAATCCTTACA
* * * *
24673003 GTGCTTTTCATGAGATCAAGTGAAACCCTT
1 ATGCTTTTTATGAGATCAAGCGAAATCCTT
24673033 CAACTATGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
33 49 0.58
34 14 0.16
35 21 0.25
36 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGCTTTTTATGAGATCAAGCGAAATCCTTACA
Found at i:24673046 original size:68 final size:68
Alignment explanation
Indices: 24672901--24673046 Score: 172
Period size: 68 Copynumber: 2.1 Consensus size: 68
24672891 TTAAGAGAAA
* * *
24672901 TATGCTTTTTATGGGATCAAGCGAAACACTCACAATAGCTTTTTCATGGGATCAAATGAAATCCT
1 TATGCTTTTTATGAGATCAAGCGAAACACTCACAATAGCTTTTTCATGAGATCAAATGAAACCCT
24672966 TAC
66 TAC
* * * *
24672969 AATGCTTTTTATGAGATCAAGCGAAATC-CTTACAGT-GC-TTTTCATGAGATCAAGTGAAACCC
1 TATGCTTTTTATGAGATCAAGCGAAA-CACTCACAATAGCTTTTTCATGAGATCAAATGAAACCC
24673031 TTCAAC
65 TT--AC
*
24673037 TATGGTTTTT
1 TATGCTTTTT
24673047 CACAGGCTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
66 23 0.35
67 2 0.03
68 40 0.61
69 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (68 bp):
TATGCTTTTTATGAGATCAAGCGAAACACTCACAATAGCTTTTTCATGAGATCAAATGAAACCCT
TAC
Found at i:24677517 original size:60 final size:60
Alignment explanation
Indices: 24677422--24677585 Score: 179
Period size: 60 Copynumber: 2.7 Consensus size: 60
24677412 TAGCTTCTCG
* * *
24677422 CTGCAGCGAAAAAGAATCTCGCTGCAGCGAAAAACTCTCTGTTTCATCAGCT-GAATTTCA
1 CTGCAGCGAGAAAGAATCTCGTTGCAGCGAAAAACTCTCTGTTTC-TCAGCTACAATTTCA
* * ** * *
24677482 CTGCAGCGAGAAAGAATCTCGTTGCAGCGAGAAACTTTCTGTTTCTGGGTTACAATTTCG
1 CTGCAGCGAGAAAGAATCTCGTTGCAGCGAAAAACTCTCTGTTTCTCAGCTACAATTTCA
** * *
24677542 CTGCAGCGAGATTGAATCTCGTTGCAACGGAAAAC-CTTCTGTTT
1 CTGCAGCGAGAAAGAATCTCGTTGCAGCGAAAAACTC-TCTGTTT
24677586 TGATCTCCTA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
59 3 0.03
60 84 0.97
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (60 bp):
CTGCAGCGAGAAAGAATCTCGTTGCAGCGAAAAACTCTCTGTTTCTCAGCTACAATTTCA
Found at i:24679385 original size:20 final size:20
Alignment explanation
Indices: 24679360--24679400 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24679350 ATCGAATCTC
*
24679360 ATTTCATTTCATATAAATCA
1 ATTTCATTTCATAAAAATCA
24679380 ATTTCATTTCATAAAAATCA
1 ATTTCATTTCATAAAAATCA
24679400 A
1 A
24679401 GAAGGCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTCATTTCATAAAAATCA
Found at i:24699383 original size:22 final size:22
Alignment explanation
Indices: 24699358--24699400 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24699348 TTTGTGTTAT
24699358 TAAA-ATAACTTAAAAGAACAAA
1 TAAAGATAAC-TAAAAGAACAAA
*
24699380 TAAAGATAACTGAAAGAACAA
1 TAAAGATAACTAAAAGAACAA
24699401 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.16
Consensus pattern (22 bp):
TAAAGATAACTAAAAGAACAAA
Found at i:24705558 original size:28 final size:27
Alignment explanation
Indices: 24705527--24705579 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
24705517 TTTGGAGTAA
*
24705527 AAGGGTAAAATGGTAATTTTGCCACCTC
1 AAGGGCAAAATGGTAATTTT-CCACCTC
*
24705555 AAGGGCAAAATTGTAATTTTCCACC
1 AAGGGCAAAATGGTAATTTTCCACC
24705580 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (27 bp):
AAGGGCAAAATGGTAATTTTCCACCTC
Found at i:24712543 original size:42 final size:42
Alignment explanation
Indices: 24712476--24712601 Score: 189
Period size: 42 Copynumber: 3.0 Consensus size: 42
24712466 AGCTCATATG
* *
24712476 CAACTGCTTATGCGCACTCCTACTCGCACATAGCCGAGTCAA
1 CAACGGCTTATGCGCACTCCTACTCGCACATAGCCGGGTCAA
* * *
24712518 CAACGGCTTATGCGCACTCCCACTCGCACATAGTCGGGTCAG
1 CAACGGCTTATGCGCACTCCTACTCGCACATAGCCGGGTCAA
* *
24712560 CAACGGCTGATGCACACTCCTACTCGCACATAGCCGGGTCAA
1 CAACGGCTTATGCGCACTCCTACTCGCACATAGCCGGGTCAA
24712602 TATCATTACA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.25, C:0.36, G:0.21, T:0.19
Consensus pattern (42 bp):
CAACGGCTTATGCGCACTCCTACTCGCACATAGCCGGGTCAA
Found at i:24722610 original size:42 final size:42
Alignment explanation
Indices: 24722549--24722674 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
24722539 CAACTCATAT
*
24722549 GCAACGACTTATGCGCACTCCTACTCGCACATAGCAGGGTCA
1 GCAACGGCTTATGCGCACTCCTACTCGCACATAGCAGGGTCA
* * * *
24722591 GCAACGGCTTAAGCTCACTCCCATTCGCACATAGCTA-GGTCA
1 GCAACGGCTTATGCGCACTCCTACTCGCACATAGC-AGGGTCA
* * * *
24722633 ACAATGGCTGATGCGCACTCCTACTCGCACATAGCTGGGTCA
1 GCAACGGCTTATGCGCACTCCTACTCGCACATAGCAGGGTCA
24722675 ATATCATTAC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 68 0.99
43 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (42 bp):
GCAACGGCTTATGCGCACTCCTACTCGCACATAGCAGGGTCA
Found at i:24722705 original size:2 final size:2
Alignment explanation
Indices: 24722698--24722761 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
24722688 ACATTATTCG
24722698 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24722740 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
24722762 NNNNNNNNNN
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24723486 original size:19 final size:19
Alignment explanation
Indices: 24723438--24723487 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
24723428 GATGGAAGGA
*
24723438 GGAAGAAGAAGAAGCTGTT
1 GGAAGAAGAAGAAGCTGCT
*
24723457 GGAA-ATTGAAGAAGCTGCT
1 GGAAGA-AGAAGAAGCTGCT
*
24723476 GGAAGGAGAAGA
1 GGAAGAAGAAGA
24723488 TATTTATAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.42, C:0.06, G:0.38, T:0.14
Consensus pattern (19 bp):
GGAAGAAGAAGAAGCTGCT
Found at i:24724137 original size:73 final size:73
Alignment explanation
Indices: 24724033--24724179 Score: 199
Period size: 73 Copynumber: 2.0 Consensus size: 73
24724023 TGTTGAAAAT
*
24724033 GATAAGTATTGAGTATTGGGAATCAATCATTTAGGA-CGG-TTTTCTTTTTTTAGATCTAGGAAA
1 GATAAATATTGAGTATTGGGAATCAATCATTTAGGATCGGTTTTTCTTTTTTTAGATCT-GGAAA
24724096 ATAGAGATA
65 ATAGAGATA
* * * * *
24724105 GATAAATATTGAGTATTTGGGTATCAATCATTTGGGATGGGTTTTTTTTTTTTTAGATCTTGAAA
1 GATAAATATTGAGTA-TTGGGAATCAATCATTTAGGATCGGTTTTTCTTTTTTTAGATCTGGAAA
*
24724170 ATAGGGATA
65 ATAGAGATA
24724179 G
1 G
24724180 TGTGAAACCT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
72 14 0.22
73 19 0.29
74 15 0.23
75 17 0.26
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (73 bp):
GATAAATATTGAGTATTGGGAATCAATCATTTAGGATCGGTTTTTCTTTTTTTAGATCTGGAAAA
TAGAGATA
Found at i:24732178 original size:36 final size:36
Alignment explanation
Indices: 24732123--24732235 Score: 201
Period size: 36 Copynumber: 3.1 Consensus size: 36
24732113 CATTGATTTA
24732123 AGTATAAAGAGAA-AGATTAAATTCAAATGAAAGCTTG
1 AGTAT-AAGA-AAGAGATTAAATTCAAATGAAAGCTTG
24732160 AGTATAAGAAAGAGATTAAATTCAAATGAAAGCTTG
1 AGTATAAGAAAGAGATTAAATTCAAATGAAAGCTTG
24732196 AGTATAAGAAAGAGATTAAATTCAAATGAAAGCTTG
1 AGTATAAGAAAGAGATTAAATTCAAATGAAAGCTTG
24732232 AGTA
1 AGTA
24732236 ATTCCACAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
35 2 0.03
36 68 0.91
37 5 0.07
ACGTcount: A:0.50, C:0.05, G:0.19, T:0.25
Consensus pattern (36 bp):
AGTATAAGAAAGAGATTAAATTCAAATGAAAGCTTG
Found at i:24737003 original size:19 final size:20
Alignment explanation
Indices: 24736976--24737021 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
24736966 AGGAGACAAG
*
24736976 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
24736995 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
24737014 ATAATATT
1 ATAATATT
24737022 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:24737522 original size:27 final size:27
Alignment explanation
Indices: 24737492--24737549 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
24737482 TTGGAGTAAA
*
24737492 AGGGTAAAATGGTAATTTTGCCACC-CC
1 AGGGCAAAATGGTAATTTT-CCACCACC
*
24737519 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATGGTAATTTTCCACCACC
24737547 AGG
1 AGG
24737550 ACATTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATGGTAATTTTCCACCACC
Found at i:24738687 original size:13 final size:13
Alignment explanation
Indices: 24738669--24738693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24738659 AGAGAAATTG
24738669 TGATTTTATAAAA
1 TGATTTTATAAAA
24738682 TGATTTTATAAA
1 TGATTTTATAAA
24738694 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:24740509 original size:19 final size:20
Alignment explanation
Indices: 24740482--24740527 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
24740472 AGGAGACAAG
*
24740482 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
24740501 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
24740520 ATAATATT
1 ATAATATT
24740528 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:24746915 original size:22 final size:21
Alignment explanation
Indices: 24746880--24746921 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24746870 CAATGCGTTC
*
24746880 CTTTTTACTTTATTTTTCTTTT
1 CTTTTTACTCTA-TTTTCTTTT
*
24746902 CTTTTTTCTCTATTTTCTTT
1 CTTTTTACTCTATTTTCTTT
24746922 ACATGGGCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (21 bp):
CTTTTTACTCTATTTTCTTTT
Found at i:24749104 original size:16 final size:15
Alignment explanation
Indices: 24749066--24749107 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
24749056 TTCCCCTTCT
24749066 TCCTTT-ATCTCTCC
1 TCCTTTGATCTCTCC
**
24749080 TAATTTGATCTCTCAC
1 TCCTTTGATCTCTC-C
24749096 TCCTTTGATCTC
1 TCCTTTGATCTC
24749108 CATGCACCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 4 0.18
15 7 0.32
16 11 0.50
ACGTcount: A:0.14, C:0.33, G:0.05, T:0.48
Consensus pattern (15 bp):
TCCTTTGATCTCTCC
Found at i:24749289 original size:22 final size:24
Alignment explanation
Indices: 24749240--24749293 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 24
24749230 AAATCTTATA
24749240 AAAGTTCACCTTAGAACTTTGTTTTT
1 AAAGTTCACCTTAGAAC--TGTTTTT
24749266 AAAGTTCACCTTAGAAC-G-TTTT
1 AAAGTTCACCTTAGAACTGTTTTT
24749288 AAAGTT
1 AAAGTT
24749294 AAAATTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 10 0.36
23 1 0.04
26 17 0.61
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (24 bp):
AAAGTTCACCTTAGAACTGTTTTT
Found at i:24754594 original size:21 final size:20
Alignment explanation
Indices: 24754568--24754609 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24754558 TAATTTAAAA
24754568 TAAAATAACATAAAATTTAAC
1 TAAAATAAC-TAAAATTTAAC
*
24754589 TAAAATAACTTAAA-TTAAC
1 TAAAATAACTAAAATTTAAC
24754608 TA
1 TA
24754610 CTCAACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 4 0.20
21 9 0.45
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAATAACTAAAATTTAAC
Found at i:24756126 original size:22 final size:22
Alignment explanation
Indices: 24756101--24756145 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24756091 AATAGAATGT
24756101 TTCTCACTACAGCGAGAAAGCA
1 TTCTCACTACAGCGAGAAAGCA
** *
24756123 TTCTTGCTGCAGCGAGAAAGCA
1 TTCTCACTACAGCGAGAAAGCA
24756145 T
1 T
24756146 GCTCGCTGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (22 bp):
TTCTCACTACAGCGAGAAAGCA
Done.