Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 111 of 325
Found at i:32986338 original size:28 final size:27
Alignment explanation
Indices: 32986305--32986384 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
32986295 CTAGTGGCTA
*
32986305 TGCCACAAATTATTTGTTCTGGTGGCCC
1 TGCCACAAA-TATTTGTTCTGGTGGCAC
**
32986333 TGCCACGTATATTTGTTCTGGTGGCAC
1 TGCCACAAATATTTGTTCTGGTGGCAC
*
32986360 TGCCACAAAATATCTGTATCTGGTG
1 TGCCAC-AAATATTTGT-TCTGGTG
32986385 ACTCTGTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.52
28 14 0.32
29 7 0.16
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
TGCCACAAATATTTGTTCTGGTGGCAC
Found at i:32986395 original size:29 final size:28
Alignment explanation
Indices: 32986305--32986395 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
32986295 CTAGTGGCTA
* * * *
32986305 TGCCACAAATTATTTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** * *
32986333 TGCCAC-GTATATTTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
32986360 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
32986389 TGTCACA
1 TGCCACA
32986396 TTTTCTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.45
28 13 0.25
29 15 0.29
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:32986871 original size:19 final size:19
Alignment explanation
Indices: 32986847--32986885 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32986837 TTTTAATTAT
* *
32986847 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
32986866 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
32986885 T
1 T
32986886 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:32992909 original size:30 final size:30
Alignment explanation
Indices: 32992873--32992930 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
32992863 TCATATCTTG
32992873 GGTTTCTTTA-CTCT-GAGTTTCTTTATTCTA
1 GGTTTCTTTATCT-TGGA-TTTCTTTATTCTA
32992903 GGTTTCTTTATCTTGGATTTCTTTATTC
1 GGTTTCTTTATCTTGGATTTCTTTATTC
32992931 GGTTTTCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.59
Consensus pattern (30 bp):
GGTTTCTTTATCTTGGATTTCTTTATTCTA
Found at i:32992928 original size:15 final size:15
Alignment explanation
Indices: 32992866--32992928 Score: 60
Period size: 15 Copynumber: 4.2 Consensus size: 15
32992856 CATAGTATCA
*
32992866 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
32992881 TA-CTCT-GAGTTTCTT
1 TATCT-TGGA-TTTCTT
*
32992896 TATTCTAGG-TTTCTT
1 TA-TCTTGGATTTCTT
32992911 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
32992926 TAT
1 TAT
32992929 TCGGTTTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 8 0.21
15 28 0.72
17 3 0.08
ACGTcount: A:0.13, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:32992939 original size:14 final size:13
Alignment explanation
Indices: 32992873--32992935 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 13
32992863 TCATATCTTG
*
32992873 GGTTTCTTTACTC
1 GGTTTCTTTATTC
32992886 TGAGTTTCTTTATTC
1 -G-GTTTCTTTATTC
*
32992901 TAGGTTTCTTTATCTT
1 --GGTTTCTTTAT-TC
32992917 GGATTTCTTTATTC
1 GG-TTTCTTTATTC
32992931 GGTTT
1 GGTTT
32992936 TCTTGTTATC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
13 3 0.07
14 6 0.15
15 30 0.73
16 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.16, T:0.59
Consensus pattern (13 bp):
GGTTTCTTTATTC
Found at i:32995188 original size:49 final size:49
Alignment explanation
Indices: 32995073--32995259 Score: 239
Period size: 49 Copynumber: 3.8 Consensus size: 49
32995063 TGAGGTCGCA
* * **
32995073 TGTGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
32995123 TGTGTTGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * * *
32995172 TGTGTAGTATTAAGTGCAGGCTACTGCATGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
32995221 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
32995260 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
49 82 0.69
50 36 0.31
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:32997983 original size:41 final size:41
Alignment explanation
Indices: 32997925--32998002 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
32997915 ATAGTATGAT
*
32997925 ATTACAAGTATATCAAAAACAACCATTACTAGCCATTTGAC
1 ATTACAAGTATACCAAAAACAACCATTACTAGCCATTTGAC
32997966 ATTACAAGTATACCAAAAACAACCATTACTAGCCATT
1 ATTACAAGTATACCAAAAACAACCATTACTAGCCATT
32998003 CTAATGGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.23, G:0.06, T:0.26
Consensus pattern (41 bp):
ATTACAAGTATACCAAAAACAACCATTACTAGCCATTTGAC
Found at i:32999416 original size:17 final size:17
Alignment explanation
Indices: 32999387--32999423 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32999377 AATTAGAAGT
*
32999387 TAAA-TTTTGAAATGTG
1 TAAATTTTTAAAATGTG
32999403 TAAATTTTTAAAATGTG
1 TAAATTTTTAAAATGTG
32999420 -AAAT
1 TAAAT
32999424 AAATGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TAAATTTTTAAAATGTG
Found at i:32999954 original size:48 final size:48
Alignment explanation
Indices: 32999883--32999982 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
32999873 ATGTCATTAG
* * *
32999883 GAGATACATTATTTTGGCTTCGGGCCATGATATTAGCACTTTGGGTAC
1 GAGATACATTATGTTGCCTTCGGGCCATGATATTAGCACTTAGGGTAC
* *
32999931 GAGATACATTGA-GTTGCCTTCGGGCCATGATATTGGCACTTAGTGTAC
1 GAGATACATT-ATGTTGCCTTCGGGCCATGATATTAGCACTTAGGGTAC
32999979 GAGA
1 GAGA
32999983 CTCCTAAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (48 bp):
GAGATACATTATGTTGCCTTCGGGCCATGATATTAGCACTTAGGGTAC
Found at i:33006487 original size:38 final size:38
Alignment explanation
Indices: 33006395--33006502 Score: 117
Period size: 38 Copynumber: 2.8 Consensus size: 38
33006385 GGCTTAAAGA
* * * ** * *
33006395 CCCGCAGGCTTCGTACTGGTAAAATATCTGGGTTAAAT
1 CCCGCAGGCCTAGTGCTGGTATTATATCCGGGATAAAT
* *
33006433 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCCTAGTGCTGGTATTATATCCGGGATAAAT
* *
33006471 CCCGTAGGCCTAGTGCTGGTATTATATTCGGG
1 CCCGCAGGCCTAGTGCTGGTATTATATCCGGG
33006503 CCTTCGTGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCCTAGTGCTGGTATTATATCCGGGATAAAT
Found at i:33006549 original size:43 final size:43
Alignment explanation
Indices: 33006483--33006606 Score: 189
Period size: 43 Copynumber: 2.9 Consensus size: 43
33006473 CGTAGGCCTA
* *
33006483 GTGCTGGT-AT-TATATTCGGGCCTTCGTGCCAAGCAGGCTTC
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
* *
33006524 GTGCTGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTT
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
*
33006567 GTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
1 GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
33006607 GTAATGCCGG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 8 0.11
42 2 0.03
43 65 0.87
ACGTcount: A:0.12, C:0.23, G:0.33, T:0.31
Consensus pattern (43 bp):
GTGCTGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTC
Found at i:33006615 original size:43 final size:43
Alignment explanation
Indices: 33006495--33006619 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 43
33006485 GCTGGTATTA
* * *
33006495 TATTCGGGCCTTCGTGCCAAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
33006538 TATTCGAGCCTTCGTGCCTAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
33006581 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
33006620 AATGATATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.13, C:0.24, G:0.34, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:33008219 original size:48 final size:48
Alignment explanation
Indices: 33008125--33008228 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
33008115 TGTGCTAAGC
* * *
33008125 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
**
33008173 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAGCTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAGCTAGT
*
33008221 ATAAGACC
1 GTAAGACC
33008229 ATAGTTGGAC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
47 8 0.17
48 40 0.83
ACGTcount: A:0.30, C:0.22, G:0.31, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAGCTAGT
Found at i:33023892 original size:46 final size:45
Alignment explanation
Indices: 33023839--33024013 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
33023829 TGGTTGAGCA
33023839 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
33023885 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * *
33023932 TCCGAGCT-GTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
33023977 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33024014 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 11 0.11
46 74 0.71
47 10 0.10
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:33023957 original size:92 final size:93
Alignment explanation
Indices: 33023836--33024005 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 93
33023826 GGATGGTTGA
* * * *
33023836 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
33023901 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
33023929 GCATCCGAGCT-GTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
33023993 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33024006 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 60 0.86
93 10 0.14
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:33028094 original size:29 final size:28
Alignment explanation
Indices: 33028006--33028107 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 28
33027996 TACTCAATCA
* *
33028006 CGCACACTTAGTGCCACGT-GATTCAAGCC
1 CGCACACTTAGTG-C-CGTACATTCAAGCT
* * * *
33028035 CGCACACATAGTGCCATATAGTCCCAA-CT
1 CGCACACTTAGTGCCGTACA-T-TCAAGCT
33028064 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCGTACATT-CAAGCT
33028093 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
33028108 AATCTCGTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
27 2 0.03
28 6 0.10
29 48 0.81
30 3 0.05
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCGTACATTCAAGCT
Found at i:33033728 original size:47 final size:47
Alignment explanation
Indices: 33033671--33034202 Score: 893
Period size: 47 Copynumber: 11.3 Consensus size: 47
33033661 GTATGAGATA
* *
33033671 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
33033718 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
33033765 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
33033812 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
33033859 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
33033906 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
33033953 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
33034000 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
33034047 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
33034094 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
33034141 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
33034188 TATAAATGTGATAAG
1 TATATATGTGATAAG
33034203 TCCCGAAGGG
Statistics
Matches: 459, Mismatches: 26, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 459 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:33034379 original size:37 final size:37
Alignment explanation
Indices: 33034320--33034402 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
33034310 CCGAGCTCTA
* *
33034320 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
33034357 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
33034394 AAGCCCCGA
1 AAGACCCGA
33034403 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:33036370 original size:40 final size:40
Alignment explanation
Indices: 33036315--33036636 Score: 538
Period size: 40 Copynumber: 8.1 Consensus size: 40
33036305 GAGAATTGAG
33036315 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
33036355 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
33036395 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
33036435 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
33036475 AGTGATATAACCGGACTACGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
33036515 AGTGATATAACCGGACTAACTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
33036555 AGTGATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * **
33036595 AGTGATATATTCGGGCGAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGACTAAGTTC-CGAAGAGCATTCGTGCT
33036635 AG
1 AG
33036637 AATTGTGAGG
Statistics
Matches: 270, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 1 0.00
40 269 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:33039833 original size:47 final size:47
Alignment explanation
Indices: 33039776--33040258 Score: 790
Period size: 47 Copynumber: 10.3 Consensus size: 47
33039766 GTATGAGATA
* * *
33039776 TATATATGTGATAAGGCCGAAAGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
33039823 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
33039870 TATATAAGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
33039917 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
33039964 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
33040011 TATATATGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
33040057 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
33040104 TATATATGTGACAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
33040150 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
33040197 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
33040244 TATAAATGTGATAAG
1 TATATATGTGATAAG
33040259 TCCCGAAGGG
Statistics
Matches: 411, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 86 0.21
47 325 0.79
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:33040435 original size:37 final size:37
Alignment explanation
Indices: 33040376--33040458 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
33040366 CCGAGCTCTA
* *
33040376 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
33040413 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
33040450 AAGCCCCGA
1 AAGACCCGA
33040459 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:33051917 original size:26 final size:26
Alignment explanation
Indices: 33051888--33051942 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
33051878 ATAAAACGAA
33051888 GTAAGCATAAAATGATAAGTAAGTTT
1 GTAAGCATAAAATGATAAGTAAGTTT
33051914 GTAAGCATAAAATGATAAGTAAGTTT
1 GTAAGCATAAAATGATAAGTAAGTTT
33051940 GTA
1 GTA
33051943 TAACATGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (26 bp):
GTAAGCATAAAATGATAAGTAAGTTT
Found at i:33054231 original size:40 final size:40
Alignment explanation
Indices: 33054176--33054303 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
33054166 CGAATGATAC
* *
33054176 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* ** *
33054216 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGCT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
33054256 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
33054296 CC-GGCTAA
1 CCGGGCTAA
33054304 ATTCCGAAGA
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
39 6 0.08
40 64 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:33059257 original size:39 final size:40
Alignment explanation
Indices: 33059085--33059261 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
33059075 CCAAGGCCAA
* * * * * *
33059085 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
33059124 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
33059164 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
33059204 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
33059243 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
33059262 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:33067279 original size:39 final size:40
Alignment explanation
Indices: 33067107--33067283 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
33067097 CCAAGGCCAA
* * * * * *
33067107 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * *
33067146 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-TGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCAC-AATTGCCTT
*
33067186 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
* * * * *
33067226 CGGGTCTTAACCCGGATATAATTTC-AGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
*
33067265 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
33067284 CATTCAATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 39 0.33
40 77 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACTACTAGCACAATTGCCTT
Found at i:33075115 original size:40 final size:39
Alignment explanation
Indices: 33075071--33075183 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 39
33075061 AAGTGACTAT
33075071 ATCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGG-CTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
* * * * *
33075111 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCC-GGCTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
* * *
33075150 ACCCGGGT-GAAGTCCCGAAGGCATTCGTGCGAGT
1 ATCCGGCTAGGA-T-CCGAAGGCATTCGTGCGAGT
33075184 CACTATAACC
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
38 3 0.05
39 26 0.46
40 26 0.46
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (39 bp):
ATCCGGCTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:33075172 original size:79 final size:82
Alignment explanation
Indices: 33075032--33075216 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
33075022 TTGAATGATG
* * *
33075032 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
33075096 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* *
33075112 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGG-GTGAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACT-AAGAT-CCGAAGGCA
*
33075173 TTCGTGCGAGTCACTATAA
64 TTCGTGCGAGTCAATATAA
**
33075192 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33075217 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 55 0.60
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:33075196 original size:40 final size:40
Alignment explanation
Indices: 33075033--33075224 Score: 160
Period size: 40 Copynumber: 4.8 Consensus size: 40
33075023 TGAATGATGT
* * * * *
33075033 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTCACTAAAC
* * * * *
33075073 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTCACTAAAC
* * *
33075113 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAAC
33075152 CCGGG-TGAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGCT-AAGTCCCGAAGGCATTCGTGCGAGTCACTA-AAC
** * *
33075192 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTC
33075225 GTTATATCCG
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 32 0.26
40 82 0.66
41 10 0.08
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTCACTAAAC
Found at i:33080031 original size:17 final size:17
Alignment explanation
Indices: 33079990--33080032 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
33079980 CACACGAGAA
* *
33079990 GACACACAGACGTGTGT
1 GACACACGGACGTCTGT
33080007 GACACACGGACGTCTGT
1 GACACACGGACGTCTGT
33080024 GACACACGG
1 GACACACGG
33080033 CCTAGTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.14
Consensus pattern (17 bp):
GACACACGGACGTCTGT
Found at i:33085245 original size:46 final size:45
Alignment explanation
Indices: 33085189--33085364 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
33085179 TGGTTGAGCA
33085189 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
33085235 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
33085282 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
33085328 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33085365 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.63
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:33085345 original size:93 final size:93
Alignment explanation
Indices: 33085186--33085356 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
33085176 GGATGGTTGA
* *
33085186 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
33085251 TGAGTCTGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
33085279 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
33085344 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
33085357 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:33088494 original size:39 final size:39
Alignment explanation
Indices: 33088440--33088602 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
33088430 TGTGTATGAA
*
33088440 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
33088479 TGTGCGAGTTGTGATATCCGGGCTAAGCTCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
33088518 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
33088557 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
33088597 TGTGCG
1 TGTGCG
33088603 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:33089228 original size:2 final size:2
Alignment explanation
Indices: 33089221--33089245 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33089211 TTGTGATTTG
33089221 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
33089246 GGTTTCATGA
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:33094096 original size:46 final size:46
Alignment explanation
Indices: 33094041--33094212 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
33094031 TGAGCATCCA
*
33094041 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*** * *
33094087 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGTCCG
* * *
33094134 AGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
33094180 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33094213 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.60
47 31 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:33098377 original size:21 final size:19
Alignment explanation
Indices: 33098339--33098383 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
33098329 TTTAAAATGT
*
33098339 TTAAAAACCATAAAAATTA
1 TTAAAAACAATAAAAATTA
33098358 TTAAAAACTAATAGAAAATTA
1 TTAAAAAC-AATA-AAAATTA
33098379 -TAAAA
1 TTAAAA
33098384 TTATAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (19 bp):
TTAAAAACAATAAAAATTA
Found at i:33098922 original size:19 final size:20
Alignment explanation
Indices: 33098898--33098969 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 20
33098888 ATATATTTTG
33098898 TATTTTATATTTAAATTTAA
1 TATTTTATATTTAAATTTAA
33098918 T-TTTT-T-TTTATAATTTTAA
1 TATTTTATATTTA-AA-TTTAA
* *
33098937 TATATTA-ATGTAAATTTAA
1 TATTTTATATTTAAATTTAA
*
33098956 TAAGTTTATATTTA
1 T-ATTTTATATTTA
33098970 TATACTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
17 4 0.10
18 3 0.08
19 16 0.40
20 10 0.25
21 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TATTTTATATTTAAATTTAA
Found at i:33103923 original size:42 final size:43
Alignment explanation
Indices: 33103801--33103926 Score: 166
Period size: 43 Copynumber: 3.0 Consensus size: 43
33103791 GTTTTTACAA
* *
33103801 AAAAATGCCACAAAAGAACATGACCTTTAGTGGCACTTTCCCC
1 AAAAATGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCCCC
* *
33103844 AAAAATGCTACTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
1 AAAAATGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCCCC
* * *
33103887 AAAAACT-CCGCTAAAG-ACATGATCTTTAGTGACGCTTTCC
1 AAAAA-TGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCC
33103927 TTAAAAACGC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
42 21 0.29
43 51 0.70
44 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
AAAAATGCCACTAAAGAACATGACCTTTAGTGGCGCTTTCCCC
Found at i:33103946 original size:42 final size:43
Alignment explanation
Indices: 33103813--33103945 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 43
33103803 AAATGCCACA
* * *
33103813 AAAGAACATGACCTTTAGTGGCACTTTCCCCAAAAATGCTACT
1 AAAGAACATGACCTTTAGTGGCGCTTTCCCCAAAAACGCTAGT
* * *
33103856 AAAGAACATGACCTTTAGCGGCGCTTTCCCCAAAAACTC-CGCT
1 AAAGAACATGACCTTTAGTGGCGCTTTCCCCAAAAACGCTAG-T
* * **
33103899 AAAG-ACATGATCTTTAGTGACGCTTTCCTTAAAAACGCTAGT
1 AAAGAACATGACCTTTAGTGGCGCTTTCCCCAAAAACGCTAGT
33103941 AAAGA
1 AAAGA
33103946 CCACATTAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 33 0.45
43 41 0.55
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
AAAGAACATGACCTTTAGTGGCGCTTTCCCCAAAAACGCTAGT
Found at i:33104237 original size:11 final size:11
Alignment explanation
Indices: 33104221--33104249 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
33104211 AGAAACTTCA
33104221 ACTACAAGTAT
1 ACTACAAGTAT
33104232 ACTACAAGTAT
1 ACTACAAGTAT
33104243 ACTACAA
1 ACTACAA
33104250 TTACTTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (11 bp):
ACTACAAGTAT
Found at i:33106046 original size:30 final size:30
Alignment explanation
Indices: 33105962--33106049 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
33105952 AAAATTAAAT
* **
33105962 ATAAATTTTAATTTAATGTGTATTTTCATAC
1 ATAAAATTTAATTTAAT-TCAATTTTCATAC
* * *
33105993 ATGAAATTTAATTT-TTTATAATTTT-ATAC
1 ATAAAATTTAATTTAATT-CAATTTTCATAC
33106022 ATAAAATTTAAATTTAATTCAATTTTCA
1 ATAAAATTT-AATTTAATTCAATTTTCA
33106050 CAAATCACTA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
29 13 0.29
30 17 0.38
31 15 0.33
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (30 bp):
ATAAAATTTAATTTAATTCAATTTTCATAC
Found at i:33108328 original size:41 final size:40
Alignment explanation
Indices: 33108212--33108370 Score: 138
Period size: 40 Copynumber: 3.9 Consensus size: 40
33108202 AAAACATTTG
* * ** *
33108212 TTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGCGGCT
1 TTTAT-GGAAAAACGCCACTATTGCTTTACCTTTTGCAACA
* ** * * * * * *
33108253 TTTTTTTATAATCACCAATATTGCTTTACGTTTTGCAACG
1 TTTATGGAAAAACGCCACTATTGCTTTACCTTTTGCAACA
* *
33108293 TTTATGAGAAAAACGCCGCTATTGCTTTACCTTTTGCGACA
1 TTTATG-GAAAAACGCCACTATTGCTTTACCTTTTGCAACA
* *
33108334 TTTATGTAAAAATGCCACTATTGCTTTACCTTTTGCA
1 TTTATGGAAAAACGCCACTATTGCTTTACCTTTTGCA
33108371 GCGGCTAATG
Statistics
Matches: 89, Mismatches: 28, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
40 54 0.61
41 35 0.39
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (40 bp):
TTTATGGAAAAACGCCACTATTGCTTTACCTTTTGCAACA
Found at i:33108356 original size:40 final size:41
Alignment explanation
Indices: 33108271--33108370 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 41
33108261 TAATCACCAA
* * *
33108271 TATTGCTTTACGTTTTGCAACGTTTATGAGAAAAACGCCGC
1 TATTGCTTTACCTTTTGCAACATTTATGAGAAAAACGCCAC
* * *
33108312 TATTGCTTTACCTTTTGCGACATTTATG-TAAAAATGCCAC
1 TATTGCTTTACCTTTTGCAACATTTATGAGAAAAACGCCAC
33108352 TATTGCTTTACCTTTTGCA
1 TATTGCTTTACCTTTTGCA
33108371 GCGGCTAATG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
40 27 0.52
41 25 0.48
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (41 bp):
TATTGCTTTACCTTTTGCAACATTTATGAGAAAAACGCCAC
Found at i:33108356 original size:81 final size:81
Alignment explanation
Indices: 33108211--33108370 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 81
33108201 AAAAACATTT
* * * * * *
33108211 GTTTATGGGAAAAACGCCGCTATTGCTTTACCTTTAGCGGCTTTTTTTTATAATCACCAATATTG
1 GTTTATGAGAAAAACGCCGCTATTGCTTTACCTTTAGCGACTTTATGTAAAAATCACCAATATTG
*
33108276 CTTTACGTTTTGCAAC
66 CTTTACCTTTTGCAAC
* * *
33108292 GTTTATGAGAAAAACGCCGCTATTGCTTTACCTTTTGCGACATTTATGTAAAAAT-GCCACTATT
1 GTTTATGAGAAAAACGCCGCTATTGCTTTACCTTTAGCGAC-TTTATGTAAAAATCACCAATATT
33108356 GCTTTACCTTTTGCA
65 GCTTTACCTTTTGCA
33108371 GCGGCTAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
81 59 0.87
82 9 0.13
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (81 bp):
GTTTATGAGAAAAACGCCGCTATTGCTTTACCTTTAGCGACTTTATGTAAAAATCACCAATATTG
CTTTACCTTTTGCAAC
Found at i:33110213 original size:21 final size:21
Alignment explanation
Indices: 33110187--33110228 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
33110177 TCTGAGAATG
33110187 AAATTTGGCTCATTTATAGTC
1 AAATTTGGCTCATTTATAGTC
33110208 AAATTTGGCTCATTTATAGTC
1 AAATTTGGCTCATTTATAGTC
33110229 TAAGGCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
AAATTTGGCTCATTTATAGTC
Found at i:33110596 original size:126 final size:126
Alignment explanation
Indices: 33110244--33110638 Score: 592
Period size: 126 Copynumber: 3.1 Consensus size: 126
33110234 CCAAATAGGA
* * *
33110244 ACTACTGTAGAAAAAGAGTATCCACGTTGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
33110309 GCTTGAAGCATTTTGGATACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * * * * *
33110370 GCTACTGTAGAAAAAAAAACGTTCACGTGGGAGTTTTTTTTCAGTAATTTTGCTGACAGTGTATC
1 ACTACTGTAG-AAAAAGAGCATCCACGTGGGAG-CTTTTTTCAGTAATTTTGCTGACAGTGCATC
*
33110435 CTGCTTGAACCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
64 CTGCTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * *
33110498 ACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTCCTGTAATTTTGTTGACAGTCCATCCT
1 ACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
** *
33110563 GCTTGAAGTGTTTTGAACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 GCTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
33110624 ACTACTGTAGAAAAA
1 ACTACTGTAGAAAAA
33110639 AAAGTTTTTA
Statistics
Matches: 239, Mismatches: 28, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
126 108 0.45
127 34 0.14
128 97 0.41
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
GCTTGAAGCATTTTGGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:33110767 original size:6 final size:6
Alignment explanation
Indices: 33110751--33110799 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
33110741 TCCTTAAAAT
*
33110751 CCTAAC TCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC
33110799 C
1 C
33110800 AAGCAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.33, C:0.49, G:0.00, T:0.18
Consensus pattern (6 bp):
CCTAAC
Found at i:33117378 original size:29 final size:29
Alignment explanation
Indices: 33117227--33117357 Score: 244
Period size: 29 Copynumber: 4.5 Consensus size: 29
33117217 ATGACGAGAT
33117227 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
33117256 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
33117285 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
33117314 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
33117343 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
33117358 GAGCTCGAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 98 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:33117404 original size:87 final size:87
Alignment explanation
Indices: 33117227--33117415 Score: 229
Period size: 87 Copynumber: 2.2 Consensus size: 87
33117217 ATGACGAGAT
* *
33117227 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACT
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
* *
33117292 AAGTGTGCATGCTGGAAAAATA
66 AAGTGTGCAGGCTGGAAAAACA
* * *
33117314 TGGCACTGAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAAGGGTATGGCAC
1 TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAAAGATATGGCAC
** * * **
33117378 TGTGTGTGCGGGCT-TAAATCGCA
65 TAAGTGTGCAGGCTGGAAA-AACA
33117401 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
33117416 GAAATCGAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
86 3 0.03
87 82 0.95
88 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (87 bp):
TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAAAGATATGGCACT
AAGTGTGCAGGCTGGAAAAACA
Found at i:33121813 original size:76 final size:73
Alignment explanation
Indices: 33121718--33121862 Score: 245
Period size: 76 Copynumber: 1.9 Consensus size: 73
33121708 CGTGTATCCC
33121718 CTGATGTTTATTAGAAACCAAGTCAGTATGCTCCACACGGCCCAGCACATGGGCGTGTGACTTGG
1 CTGATGTTTATTAGAAACCAAGTCAGTATGCTCCACACGGCCCAGCACATGGGC-T-TG-CTTGG
33121783 CCGTCTGTCTA
63 CCGTCTGTCTA
* *
33121794 CTGATGTTTATTAGAAACCAAGTCAGTATGCTCCACATGGCTCAGCACATGGGCTTGCTTGGCCG
1 CTGATGTTTATTAGAAACCAAGTCAGTATGCTCCACACGGCCCAGCACATGGGCTTGCTTGGCCG
33121859 TCTG
66 TCTG
33121863 GCATAAGTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
73 12 0.18
74 2 0.03
75 1 0.01
76 52 0.78
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.28
Consensus pattern (73 bp):
CTGATGTTTATTAGAAACCAAGTCAGTATGCTCCACACGGCCCAGCACATGGGCTTGCTTGGCCG
TCTGTCTA
Found at i:33122816 original size:24 final size:24
Alignment explanation
Indices: 33122789--33122838 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
33122779 TAAACCCTTA
33122789 AAATCCTTAAACTTCTACTGATAC
1 AAATCCTTAAACTTCTACTGATAC
33122813 AAATCCTTAAACTTCTACTGATAC
1 AAATCCTTAAACTTCTACTGATAC
33122837 AA
1 AA
33122839 GTGGACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (24 bp):
AAATCCTTAAACTTCTACTGATAC
Found at i:33129659 original size:15 final size:15
Alignment explanation
Indices: 33129639--33129707 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
33129629 GTATCTTGGG
33129639 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
33129654 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
33129669 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
33129684 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
33129699 TTTCTTTAT
1 TTTCTTTAT
33129708 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:33129708 original size:30 final size:30
Alignment explanation
Indices: 33129630--33129717 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
33129620 CATAGTATCG
* * * *
33129630 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
33129660 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
33129690 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
33129718 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:33132157 original size:46 final size:46
Alignment explanation
Indices: 33132104--33132279 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
33132094 TATTTGGGCA
33132104 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
33132150 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
33132197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
33132243 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33132280 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:33132259 original size:93 final size:93
Alignment explanation
Indices: 33132100--33132271 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
33132090 GGGATATTTG
* *
33132100 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
33132165 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
33132193 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
33132258 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
33132272 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:33137837 original size:12 final size:13
Alignment explanation
Indices: 33137812--33137840 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
33137802 ACTAAAATTT
33137812 TAAATAAGTAAAA
1 TAAATAAGTAAAA
33137825 TAAATAA-TAAAA
1 TAAATAAGTAAAA
33137837 TAAA
1 TAAA
33137841 AGTTCCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
TAAATAAGTAAAA
Found at i:33138792 original size:24 final size:24
Alignment explanation
Indices: 33138764--33138872 Score: 121
Period size: 25 Copynumber: 4.4 Consensus size: 24
33138754 CCGGAGGCCT
*
33138764 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
33138788 AGCCTTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
33138813 AACCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTGATAAACTGGGGCAA
* * *
33138838 AGCCCTTTTCGGTAAACTAGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
33138863 AGCCCTTTTG
1 AGCCCTTTTG
33138873 CACTTCCTCC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
24 16 0.22
25 58 0.78
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:33138811 original size:25 final size:25
Alignment explanation
Indices: 33138777--33138871 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
33138767 CTCTTTTAAT
*
33138777 AACTGGGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
33138802 AACTGGGGCAAAACCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
33138827 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
33138852 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
33138872 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:33141203 original size:3 final size:3
Alignment explanation
Indices: 33141195--33141255 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
33141185 ATTTAATTAC
33141195 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
33141243 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
33141256 TTCATAAACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:33142479 original size:20 final size:20
Alignment explanation
Indices: 33142454--33142508 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
33142444 AAGGGAATGG
33142454 GGAAGAAAATGAAGAATAAT
1 GGAAGAAAATGAAGAATAAT
33142474 GGAAGAAAATGAAGAATAAT
1 GGAAGAAAATGAAGAATAAT
*
33142494 GGAAGAGAATGAAGA
1 GGAAGAAAATGAAGA
33142509 GAGAAAAGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (20 bp):
GGAAGAAAATGAAGAATAAT
Found at i:33142510 original size:9 final size:9
Alignment explanation
Indices: 33142455--33142508 Score: 63
Period size: 9 Copynumber: 5.6 Consensus size: 9
33142445 AGGGAATGGG
33142455 GAAGAAAAT
1 GAAGAAAAT
33142464 GAAGAATAAT
1 GAAGAA-AAT
33142474 GGAAGAAAAT
1 -GAAGAAAAT
33142484 GAAGAATAAT
1 GAAGAA-AAT
*
33142494 GGAAGAGAAT
1 -GAAGAAAAT
33142504 GAAGA
1 GAAGA
33142509 GAGAAAAGCG
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
9 17 0.43
10 12 0.30
11 11 0.28
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (9 bp):
GAAGAAAAT
Found at i:33143407 original size:17 final size:17
Alignment explanation
Indices: 33143373--33143407 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
33143363 AAATTTATGG
*
33143373 TGAAATGTGTGAATTAA
1 TGAAATGTGTGAACTAA
*
33143390 TGAAATGTGTGGACTAA
1 TGAAATGTGTGAACTAA
33143407 T
1 T
33143408 ATAAGCTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (17 bp):
TGAAATGTGTGAACTAA
Found at i:33145997 original size:21 final size:20
Alignment explanation
Indices: 33145964--33146002 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33145954 GATTATTTTG
33145964 ATGTTTAACGATAGATTATGA
1 ATGTTTAACGATAG-TTATGA
* *
33145985 ATGTTTGATGATAGTTAT
1 ATGTTTAACGATAGTTAT
33146003 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.44
Consensus pattern (20 bp):
ATGTTTAACGATAGTTATGA
Found at i:33148259 original size:40 final size:39
Alignment explanation
Indices: 33148214--33148343 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
33148204 CGGAATATAA
33148214 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
33148254 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
33148294 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
33148334 CCGGATATAA
1 CCGGATATAA
33148344 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:33148358 original size:40 final size:40
Alignment explanation
Indices: 33148230--33148381 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
33148220 ATAACCATGT
* * *
33148230 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
33148270 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
33148310 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
33148350 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
33148382 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:33148364 original size:80 final size:80
Alignment explanation
Indices: 33148230--33148379 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
33148220 ATAACCATGT
*
33148230 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
33148294 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
33148310 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
33148373 CCCGGAT
64 CCCGGAT
33148380 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:33159419 original size:24 final size:24
Alignment explanation
Indices: 33159385--33159455 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
33159375 CTGTCAGGAG
33159385 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
*
33159409 AGGATTCAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
33159433 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
33159456 GGAAATCTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.35, C:0.03, G:0.38, T:0.24
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:33159468 original size:48 final size:48
Alignment explanation
Indices: 33159385--33159478 Score: 111
Period size: 48 Copynumber: 1.9 Consensus size: 48
33159375 CTGTCAGGAG
** * *
33159385 AGGATTTAGGAGTTGATAAGGGATAGGATTCAGGAGTTGAT-AAGGGAT
1 AGGATTTAGGAGCAGATAAGGGA-AGGAATCAGGAGCTGATCAAGGGAT
33159433 AGGATTTAGGAGCAGATAAGGG-AGGAAATCTAGGAGCTGATCAAGG
1 AGGATTTAGGAGCAGATAAGGGAAGG-AATC-AGGAGCTGATCAAGG
33159479 AACAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
46 3 0.08
47 3 0.08
48 29 0.74
49 4 0.10
ACGTcount: A:0.35, C:0.05, G:0.37, T:0.22
Consensus pattern (48 bp):
AGGATTTAGGAGCAGATAAGGGAAGGAATCAGGAGCTGATCAAGGGAT
Found at i:33160934 original size:27 final size:26
Alignment explanation
Indices: 33160876--33160988 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
33160866 AGGAAGCGTC
* *
33160876 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
33160904 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
33160931 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
33160959 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
33160985 CTGG
1 CTGG
33160989 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.50
28 31 0.41
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:33160961 original size:55 final size:54
Alignment explanation
Indices: 33160876--33160988 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
33160866 AGGAAGCGTC
*
33160876 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
33160931 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
33160985 CTGG
1 CTGG
33160989 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 20 0.38
55 32 0.62
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:33164888 original size:44 final size:44
Alignment explanation
Indices: 33164825--33164912 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
33164815 GGAATTACCC
33164825 GGATTGCTGTCGATCAGAGAGGTCAAGTTTGCTATTGAGTTAGT
1 GGATTGCTGTCGATCAGAGAGGTCAAGTTTGCTATTGAGTTAGT
33164869 GGATTGCTGTCGATCAGAGAGGTCAAGTTTGCTATTGAGTTAGT
1 GGATTGCTGTCGATCAGAGAGGTCAAGTTTGCTATTGAGTTAGT
33164913 ACCGAGAACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.23, C:0.11, G:0.32, T:0.34
Consensus pattern (44 bp):
GGATTGCTGTCGATCAGAGAGGTCAAGTTTGCTATTGAGTTAGT
Found at i:33177712 original size:40 final size:39
Alignment explanation
Indices: 33177581--33177763 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
33177571 TACTCGTTCA
* * *
33177581 AATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCAC
1 AATGCCTTCGGGACTTAGTCCGGATT-TAGTAACTCGCAC
*
33177620 AGATGCCTTCGGGACTTAATCCGGATTTAGTAACTCGCAC
1 A-ATGCCTTCGGGACTTAGTCCGGATTTAGTAACTCGCAC
33177660 AAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCAC
1 -AATGCCTTCGGGA-CTTAGTCCGGATTTAGTAACTCGCAC
* * *
33177700 GAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGTCCGGATTTAGTAAC-TCGCAC
*
33177741 AAAGCCTTCGGGACTTAG-CCGGA
1 AATGCCTTCGGGACTTAGTCCGGA
33177764 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
39 9 0.07
40 108 0.84
41 11 0.09
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGTCCGGATTTAGTAACTCGCAC
Found at i:33185622 original size:40 final size:40
Alignment explanation
Indices: 33185585--33185770 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
33185575 GCTACTCGTT
*
33185585 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
33185625 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
33185665 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
33185705 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
33185746 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33185771 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:33193964 original size:40 final size:40
Alignment explanation
Indices: 33193933--33194208 Score: 254
Period size: 40 Copynumber: 6.9 Consensus size: 40
33193923 GTGCGTTTAA
*
33193933 GGGTACTGAAGTACAAACAAGGGCATGTATGTGCATTCAG
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGCATTCAG
* * * *
33193973 GGGTACCGAAGTACAAACAGGGGCATGTATGTGTATTCAG
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGCATTCAG
* * * * * *
33194013 GGGTA-TCAAAGTACAAGCATGGGCACCTATATGCATTTAG
1 GGGTACT-GAAGTACAAACAAGGGCACGTATGTGCATTCAG
* *
33194053 GGGTA-TCGAAGTACAAA-AAGGGGCACGTATGTGAATTTA-
1 GGGTACT-GAAGTACAAACAA-GGGCACGTATGTGCATTCAG
** * * * *
33194092 GGGTACAAAAGTACAAATAAGGGCATGTATGTACGTTCAG
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGCATTCAG
** *
33194132 GGGTACCAAAGTACAAACAAGGGCACGTATGTGCGTTCAG
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGCATTCAG
* ** * *
33194172 GGGTATTGAAGTACAAGTAGGGGCACATATGTGCATT
1 GGGTACTGAAGTACAAACAAGGGCACGTATGTGCATT
33194209 ATATAATAAT
Statistics
Matches: 194, Mismatches: 37, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
39 29 0.15
40 165 0.85
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (40 bp):
GGGTACTGAAGTACAAACAAGGGCACGTATGTGCATTCAG
Found at i:33194106 original size:119 final size:120
Alignment explanation
Indices: 33193888--33194204 Score: 354
Period size: 119 Copynumber: 2.7 Consensus size: 120
33193878 ATACTATATG
* * * * *
33193888 ATTCAGGGTTACCAAAGTATAAA-TAGGGAACCTATGTGCGTTTAAGGGTA-CTGAAGTACAAAC
1 ATTCAGGGGTACCAAAGTACAAACAAGGGCACCTATGTGCGTTTAGGGGTATC-GAAGTACAAA-
* * ** * **
33193951 AA-GGGCATGTATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCATGTATGTGT
64 AAGGGGCACGTATGTGAATTCAGGGGTACAAAAGTACAAACAAGGGCATGTATGTAC
* * * * *
33194007 ATTCAGGGGTATCAAAGTACAAGCATGGGCACCTATATGCATTTAGGGGTATCGAAGTACAAAAA
1 ATTCAGGGGTACCAAAGTACAAACAAGGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAA
* *
33194072 GGGGCACGTATGTGAATTTA-GGGTACAAAAGTACAAATAAGGGCATGTATGTAC
66 GGGGCACGTATGTGAATTCAGGGGTACAAAAGTACAAACAAGGGCATGTATGTAC
* * * * **
33194126 GTTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGCGTTCAGGGGTATTGAAGTACAAGTA
1 ATTCAGGGGTACCAAAGTACAAACAAGGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAA
*
33194191 GGGGCACATATGTG
66 GGGGCACGTATGTG
33194205 CATTATATAA
Statistics
Matches: 164, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
119 116 0.71
120 47 0.29
121 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.23
Consensus pattern (120 bp):
ATTCAGGGGTACCAAAGTACAAACAAGGGCACCTATGTGCGTTTAGGGGTATCGAAGTACAAAAA
GGGGCACGTATGTGAATTCAGGGGTACAAAAGTACAAACAAGGGCATGTATGTAC
Found at i:33198762 original size:28 final size:28
Alignment explanation
Indices: 33198730--33198799 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
33198720 ATAGTAAGTC
33198730 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
33198758 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
33198786 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33198800 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:33206543 original size:28 final size:28
Alignment explanation
Indices: 33206511--33206580 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
33206501 ATAGTAAGTC
33206511 CGCACACTTAGTGCT-TA-ATAGTCAAACT
1 CGCACACTTAGTGCTATACA-A-TCAAACT
*
33206539 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
33206567 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33206581 CAATCTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 35 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:33208685 original size:11 final size:11
Alignment explanation
Indices: 33208669--33208693 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33208659 GCGTTAAATG
33208669 ATTATGTGTGT
1 ATTATGTGTGT
33208680 ATTATGTGTGT
1 ATTATGTGTGT
33208691 ATT
1 ATT
33208694 CGACTTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (11 bp):
ATTATGTGTGT
Found at i:33211531 original size:49 final size:49
Alignment explanation
Indices: 33211401--33211567 Score: 210
Period size: 49 Copynumber: 3.4 Consensus size: 49
33211391 CTAGTACGCA
* * * *
33211401 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCAAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
*
33211450 TAGCAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
* ** * *
33211499 TAGTAGCCTGCACTTAGTACTACACACATGACCCAACCAT-CTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAATTATCCAG-TACACG
*
33211549 TAGTAGCCTGTACTTAGTA
1 TAGTAGCCTGCACTTAGTA
33211568 GCCTGCACTT
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 75 0.72
50 29 0.28
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
Found at i:33211568 original size:14 final size:14
Alignment explanation
Indices: 33211549--33211581 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
33211539 CTGATACATG
*
33211549 TAGTAGCCTGTACT
1 TAGTAGCCTGCACT
33211563 TAGTAGCCTGCACT
1 TAGTAGCCTGCACT
33211577 TAGTA
1 TAGTA
33211582 CTACACATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.33
Consensus pattern (14 bp):
TAGTAGCCTGCACT
Found at i:33212509 original size:29 final size:29
Alignment explanation
Indices: 33212467--33212597 Score: 212
Period size: 29 Copynumber: 4.5 Consensus size: 29
33212457 ATAGTGAATC
33212467 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
33212496 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
33212526 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* *
33212555 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AGCT
33212583 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33212598 GTACAATTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
27 2 0.02
28 18 0.18
29 49 0.50
30 29 0.30
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:33212559 original size:59 final size:57
Alignment explanation
Indices: 33212467--33212597 Score: 219
Period size: 59 Copynumber: 2.3 Consensus size: 57
33212457 ATAGTGAATC
*
33212467 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
33212526 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
33212583 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33212598 GTACAATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
56 2 0.03
57 18 0.26
59 50 0.71
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:33212618 original size:59 final size:57
Alignment explanation
Indices: 33212467--33212627 Score: 180
Period size: 59 Copynumber: 2.8 Consensus size: 57
33212457 ATAGTGAATC
* * * * *
33212467 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAA--TTCAACT
* * * *
33212526 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTC-AACT
*
33212583 CGCACACTTAGTGCTGTACAATTTTAAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTT-AAACCCGCACACTTAGTGC
33212628 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 5 0.05
59 66 0.71
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTCAACT
Found at i:33212618 original size:88 final size:87
Alignment explanation
Indices: 33212467--33212627 Score: 225
Period size: 88 Copynumber: 1.8 Consensus size: 87
33212457 ATAGTGAATC
* * * * * *
33212467 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACA
1 CGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
33212532 CTTAGTGCTATATATTTTCAGCT
65 CTTAGTGCTATATATTTTCAGCT
*
33212555 CGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAACCCGCAC
1 CGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTT-AAACCCGCAC
33212619 ACTTAGTGC
64 ACTTAGTGC
33212628 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
86 2 0.03
87 26 0.41
88 36 0.56
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (87 bp):
CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
TTAGTGCTATATATTTTCAGCT
Found at i:33215296 original size:15 final size:15
Alignment explanation
Indices: 33215242--33215304 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
33215232 TAAAGATAAC
*
33215242 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
33215256 AA-AAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
33215270 GA-AAACCCAGAATA
1 AAGAAATCCAGAATA
33215284 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
33215299 AAGAAA
1 AAGAAA
33215305 CCCAAGATAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.15
14 16 0.40
15 18 0.45
ACGTcount: A:0.63, C:0.14, G:0.13, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:33218006 original size:49 final size:49
Alignment explanation
Indices: 33217952--33218130 Score: 245
Period size: 49 Copynumber: 3.7 Consensus size: 49
33217942 CTGGTACGCA
* *
33217952 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* *
33218001 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
** * * *
33218050 TAGTAGCCTGCACTTAGTACTACACACATGATCCAA--GTCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAATTATCCGGTACACG
*
33218098 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
33218131 TCACAATAGA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 2 0.02
48 36 0.31
49 75 0.64
50 4 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:33220307 original size:15 final size:15
Alignment explanation
Indices: 33220253--33220315 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
33220243 TAAAGATAAC
*
33220253 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
33220267 AA-AAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
33220281 GA-AAACCCAGAATA
1 AAGAAATCCAGAATA
33220295 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
33220310 AAGAAA
1 AAGAAA
33220316 CCCAAGATAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.15
14 16 0.40
15 18 0.45
ACGTcount: A:0.63, C:0.14, G:0.13, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:33223159 original size:50 final size:49
Alignment explanation
Indices: 33222978--33223158 Score: 254
Period size: 49 Copynumber: 3.7 Consensus size: 49
33222968 CTGGTACGCA
* *
33222978 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
*
33223027 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
** ** * *
33223076 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* *
33223126 TAGTAGCCTACACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
33223159 TCACAATAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
49 78 0.66
50 41 0.34
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:33235003 original size:30 final size:28
Alignment explanation
Indices: 33234967--33235067 Score: 130
Period size: 28 Copynumber: 3.5 Consensus size: 28
33234957 GACAAGATTG
* * *
33234967 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATATA
*
33234997 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
33235025 GCACTAAGTGTGCGAGTTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATATA
33235054 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33235068 GATTCACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 26 0.41
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:33243893 original size:40 final size:40
Alignment explanation
Indices: 33243848--33244014 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
33243838 CGGAATATAA
33243848 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
33243888 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
33243928 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
33243968 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
33244007 CCGGATAT
1 CCGGATAT
33244015 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:33243998 original size:80 final size:79
Alignment explanation
Indices: 33243848--33244014 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
33243838 CGGAATATAA
* *
33243848 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
33243913 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
33243928 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
33243990 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
33244007 CCGGATAT
1 CCGGATAT
33244015 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:33244863 original size:17 final size:19
Alignment explanation
Indices: 33244840--33244885 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
33244830 AAGAAGCATG
33244840 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
33244858 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
33244876 AATCATGCTC
1 AATCATGCTC
33244886 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:33254723 original size:66 final size:68
Alignment explanation
Indices: 33254647--33254833 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
33254637 TAGTACCACT
*
33254647 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
33254709 CACG
65 CACG
33254713 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
33254778 ATCACG
63 ATCACG
33254784 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
33254834 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:33254758 original size:71 final size:71
Alignment explanation
Indices: 33254670--33254833 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
33254660 CGATTTGTCT
33254670 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
33254735 CTTTCA
66 CTTTCA
33254741 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
33254806 CTTTCA
66 CTTTCA
33254812 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
33254834 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:33254871 original size:71 final size:70
Alignment explanation
Indices: 33254670--33254867 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
33254660 CGATTTGTCT
* * *
33254670 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
33254735 CTTTCA
65 CTTTCA
* * *
33254741 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
33254806 CTTTCA
65 CTTTCA
* *
33254812 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
33254868 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:33259842 original size:2 final size:2
Alignment explanation
Indices: 33259835--33259863 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33259825 GAGACTAGTC
33259835 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 A
33259864 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33261894 original size:30 final size:30
Alignment explanation
Indices: 33261860--33261920 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33261850 TCCTTAACTC
33261860 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
33261890 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
33261920 A
1 A
33261921 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:33264987 original size:46 final size:46
Alignment explanation
Indices: 33264937--33265112 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
33264927 TGGTTGAGCA
* *
33264937 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
33264983 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAATTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
*
33265028 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
33265076 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33265113 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 5 0.05
45 4 0.04
46 63 0.57
47 28 0.25
48 4 0.04
50 6 0.05
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:33265093 original size:93 final size:93
Alignment explanation
Indices: 33264934--33265105 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
33264924 GGATGGTTGA
* * *
33264934 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
33264999 TGAGTCCGAGTTCGTGAGATGTAATTAG
66 TGAGTCCGAGTTCGTGAGATGTAATTAG
* *
33265027 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
33265092 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
33265106 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAATTAG
Found at i:33268918 original size:2 final size:2
Alignment explanation
Indices: 33268911--33268937 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33268901 GAGACTAGTC
33268911 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 A
33268938 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33285532 original size:100 final size:100
Alignment explanation
Indices: 33285418--33285605 Score: 333
Period size: 100 Copynumber: 1.9 Consensus size: 100
33285408 GAAGCTATCT
33285418 GGTACGCATAGTAGCCTGCACCTAGTACTACACATGCAACCAATAA-TCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACCTAGTACTACACATGCAACCAATAATTC-GGTACACGTAGTAGC
33285482 CTGCACTTAGTACTACACACGTGATCACAGTTTTTG
65 CTGCACTTAGTACTACACACGTGATCACAGTTTTTG
* * *
33285518 GGTACGCATAGTAGCCTGCACGTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACCTAGTACTACACATGCAACCAATAATTCGGTACACGTAGTAGCC
33285583 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
33285606 CCTCACAATA
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
100 82 0.98
101 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACCTAGTACTACACATGCAACCAATAATTCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:33285536 original size:51 final size:48
Alignment explanation
Indices: 33285417--33285607 Score: 202
Period size: 49 Copynumber: 3.9 Consensus size: 48
33285407 CGAAGCTATC
* * * ** * *
33285417 TGGTACGCATAGTAGCCTGCACCTAGTACTACACATGCAACCAATAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT-TTT
* *
33285466 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTT
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTTT
* * * *
33285516 TGGGTACGCATAGTAGCCTGCACGTAGTACTACACATGCGACCAATTATT
1 T-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATT-TT
* *
33285566 CGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
33285608 TCACAATAGT
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
49 74 0.63
50 6 0.05
51 37 0.32
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (48 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTTT
Found at i:33293412 original size:68 final size:70
Alignment explanation
Indices: 33293340--33293537 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
33293330 ACACCCTGTA
* * * *
33293340 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
33293402 ATAAAT
65 ATAAAT
*
33293408 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
33293473 ATAAAT
65 ATAAAT
*
33293479 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
33293538 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:33293451 original size:41 final size:41
Alignment explanation
Indices: 33293406--33293523 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
33293396 TGAAAGATAA
33293406 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
33293447 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33293477 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33293518 ATGTAG
1 ATGTAG
33293524 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:33293463 original size:71 final size:71
Alignment explanation
Indices: 33293374--33293537 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
33293364 GAGATGTATC
33293374 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33293439 AGGACA
66 AGGACA
33293445 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33293510 AGGACA
66 AGGACA
33293516 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33293538 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33300978 original size:68 final size:70
Alignment explanation
Indices: 33300906--33301103 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
33300896 ACACCCTGTA
* * * *
33300906 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
33300968 ATAAAT
65 ATAAAT
*
33300974 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
33301039 ATAAAT
65 ATAAAT
*
33301045 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
33301104 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:33301017 original size:41 final size:41
Alignment explanation
Indices: 33300972--33301089 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
33300962 TGAAAGATAA
33300972 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
33301013 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33301043 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
33301084 ATGTAG
1 ATGTAG
33301090 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:33301029 original size:71 final size:71
Alignment explanation
Indices: 33300940--33301103 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
33300930 GAGATGTATC
33300940 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33301005 AGGACA
66 AGGACA
33301011 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
33301076 AGGACA
66 AGGACA
33301082 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
33301104 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:33303534 original size:2 final size:2
Alignment explanation
Indices: 33303527--33303562 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
33303517 TTTATTCTTC
33303527 AT AT AT AT 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
33303563 TCCTACCACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33304010 original size:22 final size:22
Alignment explanation
Indices: 33303961--33304003 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33303951 TAACATGTGT
*
33303961 CACATATA-TCATGAGCTCAGAC
1 CACATA-ACTCATGAGCTCAAAC
33303983 CACATAACTCATGAGCTCAAA
1 CACATAACTCATGAGCTCAAA
33304004 TCGCATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.40, C:0.28, G:0.12, T:0.21
Consensus pattern (22 bp):
CACATAACTCATGAGCTCAAAC
Found at i:33312480 original size:47 final size:44
Alignment explanation
Indices: 33312321--33312589 Score: 211
Period size: 47 Copynumber: 5.8 Consensus size: 44
33312311 GGGATATATT
* * *
33312321 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATACACGT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGG--CT-ATCT-C-TGTA
* * * *
33312371 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-TA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTA
* * *
33312415 GCCTATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--A
33312461 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTA
* * * *
33312508 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTA
* *
33312556 GCCGAAGCATGTCCTAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
33312590 ACACCAATCA
Statistics
Matches: 182, Mismatches: 23, Indels: 32
0.77 0.10 0.14
Matches are distributed among these distances:
43 6 0.03
44 30 0.16
45 3 0.02
46 26 0.14
47 60 0.33
48 28 0.15
49 15 0.08
50 14 0.08
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCTCTGTA
Found at i:33312575 original size:94 final size:94
Alignment explanation
Indices: 33312324--33312591 Score: 302
Period size: 94 Copynumber: 2.9 Consensus size: 94
33312314 ATATATTGCC
* * *
33312324 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATACACGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--ATA-ATGTGGCCGATGCATGTCCCAG
*
33312388 ACATGTCTTACACTAGCA-CAACTCTTAGCCT
63 ACATGTCTTACACTGGCACCAACTCTTAGCCT
* * * *
33312419 -ATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-T-GTCGAGGCCGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAAT-GTGGCCGATGCATGTCCCAG
*
33312479 ACATGTCTTACACTGGCACTCATCTCTGT-G-CT
63 ACATGTCTTACACTGGCAC-CAACTCT-TAGCCT
* *
33312511 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCTAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
33312576 TGTCTTACACTGGCAC
66 TGTCTTACACTGGCAC
33312592 ACCAATCACC
Statistics
Matches: 146, Mismatches: 15, Indels: 25
0.78 0.08 0.13
Matches are distributed among these distances:
90 1 0.01
91 34 0.23
92 15 0.10
93 25 0.17
94 57 0.39
95 14 0.10
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTGGCACCAACTCTTAGCCT
Found at i:33312955 original size:30 final size:30
Alignment explanation
Indices: 33312921--33312977 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
33312911 AATTTACATC
* *
33312921 TTTGGCAAAATGACCATTTTGCCCCTAGAA
1 TTTGGCAAAATAACCATTTTACCCCTAGAA
33312951 TTTGGCAAAATAACCATTTTACCCCTA
1 TTTGGCAAAATAACCATTTTACCCCTA
33312978 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (30 bp):
TTTGGCAAAATAACCATTTTACCCCTAGAA
Found at i:33319199 original size:17 final size:17
Alignment explanation
Indices: 33319177--33319210 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33319167 CAACAGCGGT
*
33319177 TGAAATAGGTGGGCAGG
1 TGAAATAAGTGGGCAGG
33319194 TGAAATAAGTGGGCAGG
1 TGAAATAAGTGGGCAGG
33319211 AAAGCGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (17 bp):
TGAAATAAGTGGGCAGG
Found at i:33319994 original size:26 final size:24
Alignment explanation
Indices: 33319954--33320013 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
33319944 TTATTTTATT
* * *
33319954 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
33319978 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
33320004 AAATAAATAT
1 AAATAAATAT
33320014 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:33320025 original size:22 final size:22
Alignment explanation
Indices: 33319984--33320042 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
33319974 ATAATAAATC
* *
33319984 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
33320004 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
33320026 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
33320043 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:33320469 original size:18 final size:19
Alignment explanation
Indices: 33320448--33320498 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 19
33320438 TTTGAATTTG
33320448 AATTTAAAAATATA-CAAA
1 AATTTAAAAATATATCAAA
*
33320466 AA-TTAAAAAT-TATTAAA
1 AATTTAAAAATATATCAAA
*
33320483 ATTTATAAAAATATAT
1 AATT-TAAAAATATAT
33320499 GAGATACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 2 0.07
17 12 0.44
18 3 0.11
19 7 0.26
20 3 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTTAAAAATATATCAAA
Found at i:33321295 original size:31 final size:31
Alignment explanation
Indices: 33321259--33321339 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
33321249 TCTTAACGAT
* *
33321259 AGAGTGACTAAAATTAATAACTTATCTAACG
1 AGAGTGACTAAAATTAACAACTTATCTAACA
* * * *
33321290 AGAGTGATTAAAATTGACAACTTATTTAATA
1 AGAGTGACTAAAATTAACAACTTATCTAACA
33321321 AGAGTGACTAAAA-TAACAA
1 AGAGTGACTAAAATTAACAA
33321340 AATTTTGAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
30 5 0.12
31 37 0.88
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (31 bp):
AGAGTGACTAAAATTAACAACTTATCTAACA
Found at i:33322189 original size:50 final size:50
Alignment explanation
Indices: 33322135--33322233 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 50
33322125 AAAGAAAAAG
33322135 AAGAAGAGAAGAAGAAAAGAAAATTTCTAAAGTGGTTCAGTAGTAGTATT
1 AAGAAGAGAAGAAGAAAAGAAAATTTCTAAAGTGGTTCAGTAGTAGTATT
*
33322185 AAGAAGAGAAGAAGAAAATAAAATTTCTAAAGTGGTTCAGTAGTAGTAT
1 AAGAAGAGAAGAAGAAAAGAAAATTTCTAAAGTGGTTCAGTAGTAGTAT
33322234 AAGGTTGTGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.48, C:0.04, G:0.23, T:0.24
Consensus pattern (50 bp):
AAGAAGAGAAGAAGAAAAGAAAATTTCTAAAGTGGTTCAGTAGTAGTATT
Found at i:33325954 original size:23 final size:20
Alignment explanation
Indices: 33325928--33325971 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 20
33325918 TTAAATGTTA
33325928 GAATTAGCTTGGTTATAATACTT
1 GAATTAGC-TGG-TAT-ATACTT
*
33325951 GAATTGGCTGGTATATACTT
1 GAATTAGCTGGTATATACTT
33325971 G
1 G
33325972 TAAGTGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 3 0.15
23 7 0.35
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (20 bp):
GAATTAGCTGGTATATACTT
Done.