Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 51 of 144
Found at i:15927242 original size:16 final size:16
Alignment explanation
Indices: 15927199--15927254 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
15927189 TATTGAATTT
*
15927199 TTATATTTTGTATTATTT
1 TTATATTTT-TA-TATTC
* * *
15927217 TTTTACTTTTATATTG
1 TTATATTTTTATATTC
15927233 TTATATTTTTATATTC
1 TTATATTTTTATATTC
15927249 TTATAT
1 TTATAT
15927255 ATCTTTAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 23 0.72
17 2 0.06
18 7 0.22
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.70
Consensus pattern (16 bp):
TTATATTTTTATATTC
Found at i:15929067 original size:12 final size:13
Alignment explanation
Indices: 15929049--15929088 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
15929039 TAAAAATCAT
15929049 AAAAA-TTATAAA
1 AAAAAGTTATAAA
* *
15929061 CAAAATTTATAAA
1 AAAAAGTTATAAA
15929074 AAAAAGTTATAAA
1 AAAAAGTTATAAA
15929087 AA
1 AA
15929089 TTTTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAAGTTATAAA
Found at i:15932555 original size:17 final size:18
Alignment explanation
Indices: 15932535--15932573 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
15932525 TATAAATACC
15932535 TTTTAAT-A-TTTATGTTT
1 TTTTAATAACTTTAT-TTT
15932552 TTTTAATAACTTTATTTT
1 TTTTAATAACTTTATTTT
15932570 TTTT
1 TTTT
15932574 TGTTATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 8 0.40
19 5 0.25
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTAATAACTTTATTTT
Found at i:15933697 original size:6 final size:7
Alignment explanation
Indices: 15933680--15933707 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15933670 TTCTATTTGT
15933680 TTTTTAA
1 TTTTTAA
15933687 TTTTTAA
1 TTTTTAA
15933694 TTTTTAA
1 TTTTTAA
15933701 TTTTTAA
1 TTTTTAA
15933708 ACTCAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:15933771 original size:17 final size:16
Alignment explanation
Indices: 15933728--15933799 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
15933718 TCAAAGTTGT
* *
15933728 AAAATAATATAGTATTA
1 AAAATAATAAAAT-TTA
*
15933745 AAAAT-TTAAAATCTTA
1 AAAATAATAAAAT-TTA
*
15933761 AAAATAATAAAATTCA
1 AAAATAATAAAATTTA
*
15933777 AAAATAAT-GAATTT-
1 AAAATAATAAAATTTA
15933791 AAAATAATA
1 AAAATAATA
15933800 TTTTTATTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
14 8 0.18
15 4 0.09
16 22 0.49
17 11 0.24
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
AAAATAATAAAATTTA
Found at i:15936859 original size:15 final size:14
Alignment explanation
Indices: 15936839--15936873 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
15936829 TTTTTTAAAA
15936839 TTTAAAAAATATATT
1 TTTAAAAAA-ATATT
15936854 TTT-AAAAAATATT
1 TTTAAAAAAATATT
15936867 TTTAAAA
1 TTTAAAA
15936874 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 8 0.42
14 8 0.42
15 3 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAAAAAAATATT
Found at i:15948927 original size:34 final size:34
Alignment explanation
Indices: 15948884--15948950 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
15948874 TTTCTTTATA
15948884 CCCCCCCCCCTTTTTTTTTGTCTTCCCCGTGTTC
1 CCCCCCCCCCTTTTTTTTTGTCTTCCCCGTGTTC
15948918 CCCCCCCCCCTTTTTTTTTGTCTTCCCCGTGTT
1 CCCCCCCCCCTTTTTTTTTGTCTTCCCCGTGTT
15948951 GGTAGTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.09, T:0.45
Consensus pattern (34 bp):
CCCCCCCCCCTTTTTTTTTGTCTTCCCCGTGTTC
Found at i:15950081 original size:14 final size:14
Alignment explanation
Indices: 15950063--15950103 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
15950053 TAAATTTTTT
15950063 AAATTTAATTCGAA
1 AAATTTAATTCGAA
* *
15950077 CAATTTAATTCAAA
1 AAATTTAATTCGAA
*
15950091 AAATTTCATTCGA
1 AAATTTAATTCGA
15950104 TTCAACTTGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATTTAATTCGAA
Found at i:15957473 original size:25 final size:23
Alignment explanation
Indices: 15957420--15957471 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
15957410 AATTGCATTT
15957420 TTGTTTTT--ATTGCTTCTATAC
1 TTGTTTTTCGATTGCTTCTATAC
* *
15957441 TTGTTTTTCGATTGTTTCTCTAC
1 TTGTTTTTCGATTGCTTCTATAC
15957464 TTGTTTTT
1 TTGTTTTT
15957472 TTTATTGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 8 0.30
23 19 0.70
ACGTcount: A:0.10, C:0.13, G:0.12, T:0.65
Consensus pattern (23 bp):
TTGTTTTTCGATTGCTTCTATAC
Found at i:15963868 original size:52 final size:48
Alignment explanation
Indices: 15963849--15964051 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
15963839 TGACAAGTGG
* *
15963849 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15963895 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
15963947 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
15963993 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15964039 AAAGTGATAAGTG
1 AAAGTGATAAGTG
15964052 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:15963903 original size:98 final size:98
Alignment explanation
Indices: 15963783--15964051 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
15963773 TTTGAGTACT
*
15963783 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
15963848 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
15963881 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
15963946 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
15963979 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
15964044 GATAAGTG
65 GAAAAGTG
15964052 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:15964059 original size:37 final size:37
Alignment explanation
Indices: 15964015--15964160 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
15964005 GATAGCTTTA
*
15964015 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15964052 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
15964089 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
15964126 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15964161 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:15973431 original size:6 final size:6
Alignment explanation
Indices: 15973420--15973451 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
15973410 AGCTTTCTTT
15973420 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TC
15973452 AGGCTTTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCA
Found at i:15976004 original size:14 final size:14
Alignment explanation
Indices: 15975985--15976017 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15975975 AGGTCATTTA
*
15975985 GCCCAACCAAATTG
1 GCCCAACCAAACTG
15975999 GCCCAACCAAACTG
1 GCCCAACCAAACTG
15976013 GCCCA
1 GCCCA
15976018 GTGATTGGAG
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:0.33, C:0.42, G:0.15, T:0.09
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:15977101 original size:27 final size:27
Alignment explanation
Indices: 15977060--15977113 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
15977050 TTATCTGACG
15977060 TTGCTTTGTTATGGTGGCGTCGTAGGT
1 TTGCTTTGTTATGGTGGCGTCGTAGGT
*
15977087 TTGCTTTGTTGTGGTGGCGTCGTAGGT
1 TTGCTTTGTTATGGTGGCGTCGTAGGT
15977114 CCACTGATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.06, C:0.11, G:0.39, T:0.44
Consensus pattern (27 bp):
TTGCTTTGTTATGGTGGCGTCGTAGGT
Found at i:15981157 original size:14 final size:14
Alignment explanation
Indices: 15981138--15981169 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
15981128 AGGTCATTTA
15981138 GCCCAACCAAACTG
1 GCCCAACCAAACTG
15981152 GCCCAACCAAACTG
1 GCCCAACCAAACTG
15981166 GCCC
1 GCCC
15981170 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:15989567 original size:18 final size:18
Alignment explanation
Indices: 15989541--15989575 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15989531 AATATGTTAT
*
15989541 AAATTACATAATATATAA
1 AAATAACATAATATATAA
15989559 AAATAACATAATATATA
1 AAATAACATAATATATA
15989576 GTATTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:16004553 original size:6 final size:6
Alignment explanation
Indices: 16004542--16004570 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16004532 CCTCCTCAGT
16004542 CACCAG CACCAG CACCAG CACCAG CACCA
1 CACCAG CACCAG CACCAG CACCAG CACCA
16004571 CCTCCCGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.52, G:0.14, T:0.00
Consensus pattern (6 bp):
CACCAG
Found at i:16006939 original size:14 final size:14
Alignment explanation
Indices: 16006910--16006975 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
16006900 AATTTATAGC
*
16006910 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
16006924 ATTTACAAATATAT
1 ATATACAAATAAAT
*
16006938 ATATACAAGTACAAT
1 ATATACAAATA-AAT
* *
16006953 ATAAACAAGTAAAT
1 ATATACAAATAAAT
16006967 -T-TACAAATA
1 ATATACAAATA
16006976 TGTGTACACA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 6 0.14
13 1 0.02
14 23 0.55
15 12 0.29
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:16007120 original size:6 final size:6
Alignment explanation
Indices: 16007111--16007141 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
16007101 AATATAAAAG
16007111 TATGTA TATGTA TATGTA TATGTA TATGTA T
1 TATGTA TATGTA TATGTA TATGTA TATGTA T
16007142 TTACAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATGTA
Found at i:16007352 original size:24 final size:24
Alignment explanation
Indices: 16007320--16007365 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16007310 ACGTTCATGT
*
16007320 ATAGAAAAT-ATAATAATTATAATG
1 ATAGAAAATGAT-ATAATAATAATG
*
16007344 ATAGTAAATGATATAATAATAA
1 ATAGAAAATGATATAATAATAA
16007366 ATAATGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (24 bp):
ATAGAAAATGATATAATAATAATG
Found at i:16007378 original size:27 final size:28
Alignment explanation
Indices: 16007327--16007396 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
16007317 TGTATAGAAA
*
16007327 ATATAATAAT-TATAATGATAGTAAATG
1 ATATAATAATAAATAATGATAGTAAATG
*
16007354 ATATAATAATAAATAATGGTA-TAAATG
1 ATATAATAATAAATAATGATAGTAAATG
*
16007381 -TAGTAATAAAAAATAA
1 ATA-TAATAATAAATAA
16007397 CTAAAATGGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 28 0.74
28 8 0.21
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (28 bp):
ATATAATAATAAATAATGATAGTAAATG
Found at i:16007982 original size:13 final size:13
Alignment explanation
Indices: 16007966--16007995 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16007956 ATAAAAGAGT
*
16007966 AAAAAAAAGTAAA
1 AAAAAAAAGGAAA
16007979 AAAAAAAAGGAAA
1 AAAAAAAAGGAAA
16007992 AAAA
1 AAAA
16007996 CGAAGCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (13 bp):
AAAAAAAAGGAAA
Found at i:16009017 original size:89 final size:89
Alignment explanation
Indices: 16008901--16009119 Score: 269
Period size: 89 Copynumber: 2.5 Consensus size: 89
16008891 AAGACTTGTA
* * *
16008901 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCT-TACTTCGATCTACTTCATGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATACCT-GATCTACTTCACGC
* * *
16008965 CAATACATGAAGACAATATCTACTT
65 CAATACATAAAGACAAGATCTACTC
* * * * * * * *
16008990 TCTTTGATTTGCTTCTCTACCAGTATGGGAAGGCAAGATCTGGTATGCCTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATACCTGATCTACTTCACGCC
* * *
16009055 AGTACATAAAGACAGGATCTGCTC
66 AATACATAAAGACAAGATCTACTC
16009079 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
16009120 ATATATTCGA
Statistics
Matches: 107, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
89 104 0.97
90 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATACCTGATCTACTTCACGCC
AATACATAAAGACAAGATCTACTC
Found at i:16009088 original size:44 final size:44
Alignment explanation
Indices: 16008899--16009527 Score: 462
Period size: 44 Copynumber: 14.2 Consensus size: 44
16008889 ATAAGACTTG
**
16008899 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CACCAGTACAGGAAGACAAGATCTGC
** * * * *
16008944 T-TACTTCGATCTACTTCATGCCAATACATGAAGACAATATCTAC
1 TAT-CTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGC
* * * * * ** * *
16008988 TTTCTTTGATTTGCTTCTCTACCAGTATGGGAAGGCAAGATCTGG
1 TATCTTCGATCTACTTCAC-ACCAGTACAGGAAGACAAGATCTGC
* * ** *
16009033 TATGCCT-GATCTACTTCACGCCAGTACATAAAGACAGGATCTGC
1 TAT-CTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGC
* * ** *
16009077 TCTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-A
1 TATCTTCGATCTACTTC-ACACCAGTACAGGAAGACAAGATCTGC
* * * * * * *
16009121 TATATTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGG
1 TATCTTCGATCTACTTCAC-ACCAGTACAGGAAGACAAGATCTGC
* * * **
16009166 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTAT
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGC
* * * **
16009210 TTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAG-
1 TATCTTCGATCTACTTC-ACACCAGTACAGGAAGACAAGATCT-GC
** * * *
16009255 TATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGC
* * * ** *
16009299 TTTCTACGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGG
1 TATCTTCGATCTACTTC-ACACCAGTACAGGAAGACAAGATCTGC
* *
16009344 TATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGC
* * * ** *
16009388 TTTTTTCGATCTACTT--CGCCACGTATGGGAAGACAAGATCTGG
1 TATCTTCGATCTACTTCACACCA-GTACAGGAAGACAAGATCTGC
* * *
16009431 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGC
* * * **
16009475 TTTTTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-
1 TATCTTCGATCTACTTC-ACACCAGTACAGGAAGACAAGATCTGC
*
16009519 TATATTCGA
1 TATCTTCGA
16009528 CACGCGCGGA
Statistics
Matches: 447, Mismatches: 121, Indels: 33
0.74 0.20 0.05
Matches are distributed among these distances:
42 4 0.01
43 34 0.08
44 234 0.52
45 173 0.39
46 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTACTTCACACCAGTACAGGAAGACAAGATCTGC
Found at i:16009154 original size:133 final size:133
Alignment explanation
Indices: 16008898--16009527 Score: 596
Period size: 133 Copynumber: 4.7 Consensus size: 133
16008888 GATAAGACTT
* *** *
16008898 GTATCT-TCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTACTTCGATCTACTTCA
1 GTATCTCT-GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-
*** * * * * * * * * *
16008962 TGCCA--A-TACATGAAGACAATATCTACTTTCTTTGATTTGCTTCTCTACCAGTATGGGAAGGC
63 -GCCACCAGTATGGGAAGACAAGATCTA-TATATTCGATCTACTTCGCTACCAGTATAGGAAGAC
16009024 AAGATCTG
126 AAGATCTG
* * *
16009032 GTATGC-CTGATCTACTTCACGCCAGTACATAAAGACAGGATCTGCTCTCTTCGATCTACTTCGC
1 GTAT-CTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC
* * *
16009096 CACCAGTATGGGAAGACAAGATCTATATATTCGATCCACTTCGCTACCAATATAGGAAGACAGGA
65 CACCAGTATGGGAAGACAAGATCTATATATTCGATCTACTTCGCTACCAGTATAGGAAGACAAGA
16009161 TCTG
130 TCTG
* ** *
16009165 GTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTTGATCTACTTCGCC
1 GTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
* ** * * * *
16009230 ACCAGTATGGGAAGACAAGATCTAGTATCTTTAATCTACTTCAC-GCCAGTACATGAAGACAAGA
66 ACCAGTATGGGAAGACAAGATCTA-TATATTCGATCTACTTCGCTACCAGTATAGGAAGACAAGA
16009294 TCTG
130 TCTG
* * * * *** * * *
16009298 TTTTCTAC-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTTGATCTACTTC-
1 GTATCT-CTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
* *** * * * * *
16009361 ACACCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCCA-C-GTATGGGAAGACAA
64 CCACCAGTATGGGAAGACAAGATCT-ATATATTCGATCTACTTCGCTACCAGTATAGGAAGACAA
16009424 GATCTG
128 GATCTG
* *
16009430 GTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCGCC
1 GTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
*
16009495 ACCAGTATGGGAAGACAAGATCTGTATATTCGA
66 ACCAGTATGGGAAGACAAGATCTATATATTCGA
16009528 CACGCGCGGA
Statistics
Matches: 399, Mismatches: 84, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
131 46 0.12
132 53 0.13
133 218 0.55
134 80 0.20
135 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (133 bp):
GTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCC
ACCAGTATGGGAAGACAAGATCTATATATTCGATCTACTTCGCTACCAGTATAGGAAGACAAGAT
CTG
Found at i:16009156 original size:89 final size:89
Alignment explanation
Indices: 16009063--16009518 Score: 634
Period size: 89 Copynumber: 5.1 Consensus size: 89
16009053 CCAGTACATA
* * * * * *** * * *
16009063 AAGACAGGATCTGCTCTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT-ATATATT
1 AAGACAAGATCTGGTATCTTTGATCTACTTC-ACACCAGTACATGAAGACAAGATCTGCTTTTTT
* * * *
16009127 CGATCCACTTCGCTACCAATATAGG
65 CGATCTACTTCGCCACCAGTATGGG
* * *
16009152 AAGACAGGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-ATTTTCTT
1 AAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTT-TT
*
16009216 TGATCTACTTCGCCACCAGTATGGG
65 CGATCTACTTCGCCACCAGTATGGG
* * * *
16009241 AAGACAAGATCTAGTATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTTCTA
1 AAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTT-TT
16009305 CGATCTACTTCGCCACCAGTATGGG
65 CGATCTACTTCGCCACCAGTATGGG
16009330 AAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTTTTC
1 AAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTTTTC
16009395 GATCTACTTCGCCA-C-GTATGGG
66 GATCTACTTCGCCACCAGTATGGG
*
16009417 AAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTC
1 AAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTTTTC
16009482 GATCTACTTCGCCACCAGTATGGG
66 GATCTACTTCGCCACCAGTATGGG
16009506 AAGACAAGATCTG
1 AAGACAAGATCTG
16009519 TATATTCGAC
Statistics
Matches: 337, Mismatches: 25, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
87 85 0.25
88 25 0.07
89 223 0.66
90 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (89 bp):
AAGACAAGATCTGGTATCTTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTTTTC
GATCTACTTCGCCACCAGTATGGG
Found at i:16009311 original size:222 final size:221
Alignment explanation
Indices: 16008903--16009447 Score: 675
Period size: 222 Copynumber: 2.5 Consensus size: 221
16008893 GACTTGTATC
* * * *
16008903 TTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTACTTCGATCTACTTCATGCCAA
1 TTCGATCTACTTCA-CACCAGTATAGGAAGACAAGATCTGCTT-CTTTGATCTACTTCACGCCAG
* * * * * * *
16008968 TACATGAAGACAATATCTACTTTCTTTGATTTGCTTCTCTACCAGTATGGGAAGGCAAGATCTGG
64 TACATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAG
* * *
16009033 TATGCCTGATCTACTTCACGCCAGTACATAAAGACAGGATCTGCTCTCTTCGATCTACTTCGCCA
129 TATGCCTAATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTCTCTACGATCTACTTCGCCA
16009098 CCAGTATGGGAAGACAAGATCT-ATATA
194 CCAGTATGGGAAGACAAGATCTGATATA
* * * * *
16009125 TTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGGTATCTTTGATCTACTTCACGCCAG
1 TTCGATCTACTTCAC-ACCAGTATAGGAAGACAAGATCTGCT-TCTTTGATCTACTTCACGCCAG
*
16009190 TACATGAAGACAAGATCTATTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAG
64 TACATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAG
* * * *
16009255 TAT-CTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTACGATCTACTTCGCC
129 TATGC-CTAATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTCTCTACGATCTACTTCGCC
* *
16009319 ACCAGTATGGGAAGACAAGATCTGGTATC
193 ACCAGTATGGGAAGACAAGATCTGATATA
* * * *
16009348 TTTGATCTACTTCACACCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTT--CGCCACG
1 TTCGATCTACTTCACACCAGTATAGGAAGACAAGATCTGCTTCTTT-GATCTACTTCACGCCA-G
*** ** *
16009411 TATGGGAAGACAAGATCTGGTATCTTTGATCTACTTC
64 TACATGAAGACAAGATCTACTTTCTTTGATCTACTTC
16009448 ACGCCAGTAC
Statistics
Matches: 276, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
220 5 0.02
221 38 0.14
222 217 0.79
223 16 0.06
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (221 bp):
TTCGATCTACTTCACACCAGTATAGGAAGACAAGATCTGCTTCTTTGATCTACTTCACGCCAGTA
CATGAAGACAAGATCTACTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAGTA
TGCCTAATCTACTTCACGCCAGTACATAAAGACAAGATCTGCTCTCTACGATCTACTTCGCCACC
AGTATGGGAAGACAAGATCTGATATA
Found at i:16015032 original size:32 final size:32
Alignment explanation
Indices: 16014991--16015082 Score: 175
Period size: 32 Copynumber: 2.9 Consensus size: 32
16014981 GATATTAACA
*
16014991 AATATGTAAAACTCATATCAAGCAAGAGTGTT
1 AATATGTAAAACTCACATCAAGCAAGAGTGTT
16015023 AATATGTAAAACTCACATCAAGCAAGAGTGTT
1 AATATGTAAAACTCACATCAAGCAAGAGTGTT
16015055 AATATGTAAAACTCACATCAAGCAAGAG
1 AATATGTAAAACTCACATCAAGCAAGAG
16015083 GACTTTTATC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (32 bp):
AATATGTAAAACTCACATCAAGCAAGAGTGTT
Found at i:16019694 original size:21 final size:21
Alignment explanation
Indices: 16019670--16019710 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16019660 TTTTTTTCTA
16019670 TTTTTGAAT-AAATTTTAAATG
1 TTTTT-AATGAAATTTTAAATG
16019691 TTTTTAATGAAATTTTAAAT
1 TTTTTAATGAAATTTTAAAT
16019711 TATTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTTTAATGAAATTTTAAATG
Found at i:16023982 original size:6 final size:6
Alignment explanation
Indices: 16023956--16024052 Score: 115
Period size: 6 Copynumber: 16.0 Consensus size: 6
16023946 TGTAAATGAA
* * * *
16023956 TTCATT TCTCGTT TTCATT TCCATT TCCATT TTCATT TTCATT TCCATT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TTCATT TTCATT
* *
16024005 TCCATT TTCATT TTCATT TTCATT TTCA-T TTCTATT TTCGTT TTCATT
1 TTCATT TTCATT TTCATT TTCATT TTCATT TTC-ATT TTCATT TTCATT
16024053 CAACACGTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
5 4 0.05
6 67 0.84
7 9 0.11
ACGTcount: A:0.14, C:0.22, G:0.02, T:0.62
Consensus pattern (6 bp):
TTCATT
Found at i:16023990 original size:18 final size:18
Alignment explanation
Indices: 16023956--16024052 Score: 131
Period size: 18 Copynumber: 5.3 Consensus size: 18
16023946 TGTAAATGAA
*
16023956 TTCATTTCTCGTTTTCATT
1 TTCATTTC-CATTTTCATT
*
16023975 TCCATTTCCATTTTCATT
1 TTCATTTCCATTTTCATT
*
16023993 TTCATTTCCATTTCCATT
1 TTCATTTCCATTTTCATT
*
16024011 TTCATTTTCATTTTCATT
1 TTCATTTCCATTTTCATT
* *
16024029 TTCATTTCTATTTTCGTT
1 TTCATTTCCATTTTCATT
16024047 TTCATT
1 TTCATT
16024053 CAACACGTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
18 62 0.90
19 7 0.10
ACGTcount: A:0.14, C:0.22, G:0.02, T:0.62
Consensus pattern (18 bp):
TTCATTTCCATTTTCATT
Found at i:16030890 original size:21 final size:21
Alignment explanation
Indices: 16030848--16030890 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16030838 AATTAGTGAC
*
16030848 AAATATTCTATATTATGCTTA
1 AAATATTCTATATTATACTTA
16030869 AAATATT-TATATTATACATTA
1 AAATATTCTATATTATAC-TTA
16030890 A
1 A
16030891 TGCATCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATATTCTATATTATACTTA
Found at i:16038577 original size:68 final size:68
Alignment explanation
Indices: 16038497--16038634 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
16038487 AGGAGTGTGG
16038497 AAAAGCTCATGCATGTTTGTTTGTGAGGAACTTGAAAAGACAATAATTGCTAGAAATATAAATAA
1 AAAAGCTCATGCATGTTTGTTTGTGAGGAACTTGAAAAGACAATAATTGCTAGAAATATAAATAA
16038562 GTA
66 GTA
16038565 AAAAGCTCATGCATGTTTGTTTGTGAGGAACTTGAAAAGACAATAATTGCTAGAAATATAAATAA
1 AAAAGCTCATGCATGTTTGTTTGTGAGGAACTTGAAAAGACAATAATTGCTAGAAATATAAATAA
16038630 GTA
66 GTA
16038633 AA
1 AA
16038635 TACAGTTATT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (68 bp):
AAAAGCTCATGCATGTTTGTTTGTGAGGAACTTGAAAAGACAATAATTGCTAGAAATATAAATAA
GTA
Found at i:16042250 original size:22 final size:22
Alignment explanation
Indices: 16042207--16042251 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
16042197 CTTCAATCTT
**
16042207 TCAATATTCTCTCAAATTTCTC
1 TCAATATTCTCTCAAAGCTCTC
16042229 TCAAT-TTCCTCTCAAAGCTCTC
1 TCAATATT-CTCTCAAAGCTCTC
16042251 T
1 T
16042252 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.42
Consensus pattern (22 bp):
TCAATATTCTCTCAAAGCTCTC
Found at i:16044204 original size:9 final size:9
Alignment explanation
Indices: 16044190--16044283 Score: 100
Period size: 9 Copynumber: 10.4 Consensus size: 9
16044180 TTTGGTTAAA
*
16044190 AATTAACCT
1 AATTAACCG
*
16044199 AATTAACCT
1 AATTAACCG
*
16044208 AATTACCCG
1 AATTAACCG
16044217 AATTAACCG
1 AATTAACCG
16044226 AATT-ACCTG
1 AATTAACC-G
16044235 AATTAACCG
1 AATTAACCG
* *
16044244 AATTACCCA
1 AATTAACCG
*
16044253 AATTAACTG
1 AATTAACCG
*
16044262 AATTACCCG
1 AATTAACCG
*
16044271 AATTAATCG
1 AATTAACCG
16044280 AATT
1 AATT
16044284 GAATCACTAC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
8 3 0.04
9 65 0.92
10 3 0.04
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:16044220 original size:18 final size:18
Alignment explanation
Indices: 16044199--16044283 Score: 125
Period size: 18 Copynumber: 4.7 Consensus size: 18
16044189 AAATTAACCT
*
16044199 AATTAACCTAATTACCCG
1 AATTAACCGAATTACCCG
*
16044217 AATTAACCGAATTACCTG
1 AATTAACCGAATTACCCG
*
16044235 AATTAACCGAATTACCCA
1 AATTAACCGAATTACCCG
*
16044253 AATTAACTGAATTACCCG
1 AATTAACCGAATTACCCG
*
16044271 AATTAATCGAATT
1 AATTAACCGAATT
16044284 GAATCACTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.28
Consensus pattern (18 bp):
AATTAACCGAATTACCCG
Found at i:16044229 original size:27 final size:28
Alignment explanation
Indices: 16044190--16044283 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 28
16044180 TTTGGTTAAA
*
16044190 AATTAACCTAATTAACCT-AATTACCCG
1 AATTAACCGAATTAACCTGAATTACCCG
*
16044217 AATTAACCGAATT-ACCTGAATTAACCG
1 AATTAACCGAATTAACCTGAATTACCCG
* *
16044244 AATTACCCAAATTAA-CTGAATTACCCG
1 AATTAACCGAATTAACCTGAATTACCCG
*
16044271 AATTAATCGAATT
1 AATTAACCGAATT
16044284 GAATCACTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
26 4 0.07
27 52 0.91
28 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29
Consensus pattern (28 bp):
AATTAACCGAATTAACCTGAATTACCCG
Found at i:16045183 original size:116 final size:119
Alignment explanation
Indices: 16044932--16045207 Score: 450
Period size: 116 Copynumber: 2.3 Consensus size: 119
16044922 TTGTACAAAC
* * *
16044932 ATTTTGAATATTTTTATATTATTTCATGTAATGAAATAGAAGGTTGTTTTGAATAAAGTAATTGT
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAAT-AAG-AA-TGT
* *
16044997 AATTGTAATTTACTTTTATATTTTTAATAAAATAGAAATTCTTTTAAATAATGCAAT
63 AATTGTAATTTACATTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
16045054 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAAT-A-AA-GTAAT
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAGAATGTAAT
16045116 TGTAATTTACATTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
66 TGTAATTTACATTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
*
16045170 ATTTTGAATATTTCTATATTATTTGATGTAATAAAATA
1 ATTTTGAATATTTCTATATTATTTCATGTAATAAAATA
16045208 TAAATAATAC
Statistics
Matches: 148, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
116 94 0.64
118 2 0.01
120 1 0.01
122 51 0.34
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.47
Consensus pattern (119 bp):
ATTTTGAATATTTCTATATTATTTCATGTAATAAAATAAAAGGTTGTTTTGAATAAGAATGTAAT
TGTAATTTACATTTATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAAT
Found at i:16045188 original size:55 final size:55
Alignment explanation
Indices: 16045013--16045189 Score: 157
Period size: 55 Copynumber: 3.1 Consensus size: 55
16045003 AATTTACTTT
*
16045013 TATATTTTTAATAAAATAGAAATTCTTTTAAATAATGCAATATTTTGAATATTTC
1 TATATTTTTAATAAAATAGAAATTCTTTTAAATAAAGCAATATTTTGAATATTTC
* * * *
16045068 TATATTATTTCATGTAATAAAATA-AAAGGTTGTTTTGAATAAAG-TA-ATTGT-AAT-TTACAT
1 --TA-TATTT--T-TAATAAAATAGAAA--TTCTTTTAAATAAAGCAATATTTTGAATATT---T
*
16045128 T
55 C
*
16045129 TATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTGAATATTTC
1 TATATTTTTAATAAAATAGAAATTCTTTTAAATAAAGCAATATTTTGAATATTTC
16045184 TATATT
1 TATATT
16045190 ATTTGATGTA
Statistics
Matches: 94, Mismatches: 12, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
54 12 0.13
55 18 0.19
56 8 0.09
57 5 0.05
58 14 0.15
59 5 0.05
60 8 0.09
61 12 0.13
62 12 0.13
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (55 bp):
TATATTTTTAATAAAATAGAAATTCTTTTAAATAAAGCAATATTTTGAATATTTC
Found at i:16048258 original size:126 final size:125
Alignment explanation
Indices: 16048030--16048319 Score: 472
Period size: 126 Copynumber: 2.3 Consensus size: 125
16048020 TAGGCCAAAT
* * *
16048030 AGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAAAGCA
1 AGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATAATTTTGCTGACAAAGCA
* *
16048095 TCTTGCTTAAAGCGTTTTTGACACTATTTGCTTAGAAACGTCTTCTCAAAATTATTCTTTC
66 TCTTGCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTTCTCAAAATTATT-TTTC
* * * *
16048156 AGGAACTACAGTAGCAAAAAAGCGTTCACGTGGGAGCTTCTTTCAATAATTTTGCTGACAAAGCG
1 AGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATAATTTTGCTGACAAAGCA
*
16048221 TCTTGCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTTTTCAAAATTATTTTTC
66 TCTTGCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTTCTCAAAATTATTTTTC
*
16048281 ACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
1 AGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
16048320 TTTTAAATTA
Statistics
Matches: 150, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 39 0.26
126 111 0.74
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (125 bp):
AGGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATAATTTTGCTGACAAAGCA
TCTTGCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTTCTCAAAATTATTTTTC
Found at i:16048453 original size:104 final size:104
Alignment explanation
Indices: 16048335--16048705 Score: 422
Period size: 104 Copynumber: 3.7 Consensus size: 104
16048325 AATTAAACAA
* * * *
16048335 TAATTTAATTAAGTAACCCTAAACCCCAAACCCTGATTTATTTAA-TTTTTCTCTTAAAAACCCT
1 TAATTTACTCAAGTAACCCTAAACCCTAAACCCTAATTTATTTAATTTTTTC-CTTAAAAACCCT
* *
16048399 AAACCCTAAACCCTAATCTAATTTTTTTAAAATTTATAAT
65 AAACACTAAACCCTAATCTAATTTTTTAAAAATTTATAAT
* * * * *
16048439 TAATGTACTGAAGTAACCCTAAACCCTAAGCCCTAATTTATTTGATTTTTTCCTTAAAAATCCTA
1 TAATTTACTCAAGTAACCCTAAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTA
16048504 AACACTAAACCCTAATCTAATTTTTTAAAAATTTATAAT
66 AACACTAAACCCTAATCTAATTTTTTAAAAATTTATAAT
* * * *
16048543 TAATTTACTCAAG-----C--AACCTTAAGCTCTAATTTATTTAATTTTTTCCTTAAAAACCATA
1 TAATTTACTCAAGTAACCCTAAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTA
* * * *
16048601 AAAACGAAACCCTAATCTAA-TTTTAAAAAAATTATAAT
66 AACACTAAACCCTAATCTAATTTTTTAAAAATTTATAAT
* * * * * *
16048639 TAATTTAATTAAGAAACCCTAAACCCTAAACTC-ATATTTATTT-ATTTTTTTCTTTAAAACCCT
1 TAATTTACTCAAGTAACCCTAAACCCTAAACCCTA-ATTTATTTAATTTTTTCCTTAAAAACCCT
16048702 AAAC
65 AAAC
16048706 CCAAAAACCC
Statistics
Matches: 229, Mismatches: 29, Indels: 20
0.82 0.10 0.07
Matches are distributed among these distances:
96 27 0.12
97 57 0.25
99 1 0.00
101 1 0.00
102 21 0.09
103 18 0.08
104 98 0.43
105 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (104 bp):
TAATTTACTCAAGTAACCCTAAACCCTAAACCCTAATTTATTTAATTTTTTCCTTAAAAACCCTA
AACACTAAACCCTAATCTAATTTTTTAAAAATTTATAAT
Found at i:16052716 original size:33 final size:33
Alignment explanation
Indices: 16052645--16052726 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
16052635 CATCATGAGG
**
16052645 TAGTCCACTGGGACAGTAAGCATTGAACAGAGA
1 TAGTCCACTGGGACAGTAAGCACAGAACAGAGA
* *
16052678 TAGTCCACTGGGATAGTAAGCACAG-ACATAGA
1 TAGTCCACTGGGACAGTAAGCACAGAACAGAGA
* *
16052710 TAAGTCCGCTAGGACAG
1 T-AGTCCACTGGGACAG
16052727 CAAACACAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 7 0.17
33 34 0.83
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (33 bp):
TAGTCCACTGGGACAGTAAGCACAGAACAGAGA
Found at i:16052760 original size:29 final size:28
Alignment explanation
Indices: 16052707--16052766 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
16052697 GCACAGACAT
*
16052707 AGATAAGTCCGCTAGGACAGCAAACACA
1 AGATAAGTCCGCTAGGACAACAAACACA
* * *
16052735 AGATAACGTCCGCTGGGACAATAAACATA
1 AGATAA-GTCCGCTAGGACAACAAACACA
16052764 AGA
1 AGA
16052767 ACTGTTCGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (28 bp):
AGATAAGTCCGCTAGGACAACAAACACA
Found at i:16068079 original size:14 final size:14
Alignment explanation
Indices: 16068060--16068104 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
16068050 ATAAGGAAAT
16068060 ATAAATGAAATATA
1 ATAAATGAAATATA
* *
16068074 ATAAAT---ATTTT
1 ATAAATGAAATATA
16068085 ATAAATGAAATATA
1 ATAAATGAAATATA
16068099 ATAAAT
1 ATAAAT
16068105 ATTCAAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
11 9 0.38
14 15 0.62
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
ATAAATGAAATATA
Found at i:16068087 original size:25 final size:25
Alignment explanation
Indices: 16068059--16068107 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
16068049 TATAAGGAAA
16068059 TATAAATGAAATATAATAAATATTT
1 TATAAATGAAATATAATAAATATTT
16068084 TATAAATGAAATATAATAAATATT
1 TATAAATGAAATATAATAAATATT
16068108 CAAAAAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (25 bp):
TATAAATGAAATATAATAAATATTT
Found at i:16069819 original size:14 final size:14
Alignment explanation
Indices: 16069800--16069841 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
16069790 TATTTTACCC
* *
16069800 TGAACCTCGAACTT
1 TGAACCTCAAACCT
*
16069814 TGAACCTTAAACCT
1 TGAACCTCAAACCT
16069828 TGAACCTCAAACCT
1 TGAACCTCAAACCT
16069842 CGAGGTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.26
Consensus pattern (14 bp):
TGAACCTCAAACCT
Found at i:16074213 original size:30 final size:31
Alignment explanation
Indices: 16074157--16074243 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 31
16074147 TGGGTAACCT
* * *
16074157 TGATATAATGTCAACTTG-AGTGAGCAACCC
1 TGATATAATGTCAACTTGTAGTAAGCAAACA
*
16074187 TGTTATAATGTCAACTTGTA-TAAGCAAACA
1 TGATATAATGTCAACTTGTAGTAAGCAAACA
* *
16074217 TGATATAATGTCATCTTGT-GTATGCAA
1 TGATATAATGTCAACTTGTAGTAAGCAA
16074244 TTTAATCACC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 47 0.98
31 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (31 bp):
TGATATAATGTCAACTTGTAGTAAGCAAACA
Found at i:16076866 original size:30 final size:30
Alignment explanation
Indices: 16076830--16076888 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
16076820 AATCAAGCAT
* *
16076830 TGAAAATCCCAATCTGTAATTTTGCTTCAG
1 TGAAAATCCCAATATCTAATTTTGCTTCAG
16076860 TGAAAATCCCAATATCTAATTTTGCTTCA
1 TGAAAATCCCAATATCTAATTTTGCTTCA
16076889 AACTATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (30 bp):
TGAAAATCCCAATATCTAATTTTGCTTCAG
Found at i:16079580 original size:27 final size:27
Alignment explanation
Indices: 16079545--16079747 Score: 178
Period size: 27 Copynumber: 7.5 Consensus size: 27
16079535 TAAAAGTTAA
*
16079545 AACATTATATTAAAACAGTATATTTAT
1 AACAATATATTAAAACAGTATATTTAT
* *
16079572 AACAATATATTAAAACAATTTA-TTA-
1 AACAATATATTAAAACAGTATATTTAT
* * * *
16079597 AAAAAGTATATTTATAATAGTATA-TTAA
1 AACAA-TATA-TTAAAACAGTATATTTAT
* * * * *
16079625 AACAATATATTTATAATAATATATTAAA
1 AACAATATA-TTAAAACAGTATATTTAT
* *
16079653 AAAAATATATTAAAAAAGTATATTTAT
1 AACAATATATTAAAACAGTATATTTAT
* * *
16079680 AATAGTATATTAAAACAATATATTTAT
1 AACAATATATTAAAACAGTATATTTAT
*
16079707 AACAATATATTAAAAAAGTATATTTAT
1 AACAATATATTAAAACAGTATATTTAT
* *
16079734 AATAGTATATTAAA
1 AACAATATATTAAA
16079748 TGTTAAAATA
Statistics
Matches: 145, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.03
26 7 0.05
27 119 0.82
28 15 0.10
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (27 bp):
AACAATATATTAAAACAGTATATTTAT
Found at i:16079673 original size:54 final size:53
Alignment explanation
Indices: 16079541--16079747 Score: 227
Period size: 54 Copynumber: 3.8 Consensus size: 53
16079531 ATATTAAAAG
* * * *
16079541 TTAAAACATTATATTAAAACAGTATATTTATAACAATATATTAAAACAATTTA
1 TTAAAAAAATATATTAAAAAAGTATATTTATAACAATATATTAAAACAATATA
* * * * * *
16079594 TTAAAAAAGTATATTTATAATAGTATA-TTAAAACAATATATTTATAATAATATA
1 TTAAAAAAATATA-TTAAAAAAGTATATTTATAACAATATA-TTAAAACAATATA
* *
16079648 TTAAAAAAAATATATTAAAAAAGTATATTTATAATAGTATATTAAAACAATATA
1 TT-AAAAAAATATATTAAAAAAGTATATTTATAACAATATATTAAAACAATATA
* * * *
16079702 TTTATAACAATATATTAAAAAAGTATATTTATAATAGTATATTAAA
1 -TTAAAAAAATATATTAAAAAAGTATATTTATAACAATATATTAAA
16079748 TGTTAAAATA
Statistics
Matches: 131, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
53 23 0.18
54 86 0.66
55 22 0.17
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (53 bp):
TTAAAAAAATATATTAAAAAAGTATATTTATAACAATATATTAAAACAATATA
Found at i:16079695 original size:68 final size:68
Alignment explanation
Indices: 16079550--16079723 Score: 305
Period size: 68 Copynumber: 2.6 Consensus size: 68
16079540 GTTAAAACAT
* * *
16079550 TATATTAAAACAGTATATTTATAACAATATATT-AAAACAATTTATTAAAAAAGTATATTTATAA
1 TATATTAAAACAATATATTTATAACAATATATTAAAAAAAATATATTAAAAAAGTATATTTATAA
16079614 TAG
66 TAG
*
16079617 TATATTAAAACAATATATTTATAATAATATATTAAAAAAAATATATTAAAAAAGTATATTTATAA
1 TATATTAAAACAATATATTTATAACAATATATTAAAAAAAATATATTAAAAAAGTATATTTATAA
16079682 TAG
66 TAG
16079685 TATATTAAAACAATATATTTATAACAATATATTAAAAAA
1 TATATTAAAACAATATATTTATAACAATATATTAAAAAA
16079724 GTATATTTAT
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
67 31 0.31
68 70 0.69
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (68 bp):
TATATTAAAACAATATATTTATAACAATATATTAAAAAAAATATATTAAAAAAGTATATTTATAA
TAG
Found at i:16079741 original size:68 final size:67
Alignment explanation
Indices: 16079550--16079744 Score: 302
Period size: 68 Copynumber: 2.9 Consensus size: 67
16079540 GTTAAAACAT
* *
16079550 TATATTAAAACAGTATATTTATAACAATATATTAAAACAATTTA-TTAAAAAAGTATATTTATAA
1 TATATTAAAACAATATATTTATAACAATATATTAAAA-AATATATTTAAAAAAGTATATTTATAA
16079614 TAG
65 TAG
* *
16079617 TATATTAAAACAATATATTTATAATAATATATTAAAAAAAATATATTAAAAAAGTATATTTATAA
1 TATATTAAAACAATATATTTATAACAATATATTAAAAAATATAT-TTAAAAAAGTATATTTATAA
16079682 TAG
65 TAG
* *
16079685 TATATTAAAACAATATATTTATAACAATATATTAAAAAAGTATATTTATAATAGTATATT
1 TATATTAAAACAATATATTTATAACAATATATTAAAAAA-TATATTTAAAAAAGTATATT
16079745 AAATGTTAAA
Statistics
Matches: 117, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
66 4 0.03
67 35 0.30
68 74 0.63
69 4 0.03
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (67 bp):
TATATTAAAACAATATATTTATAACAATATATTAAAAAATATATTTAAAAAAGTATATTTATAAT
AG
Found at i:16079782 original size:22 final size:20
Alignment explanation
Indices: 16079729--16079807 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
16079719 AAAAAGTATA
16079729 TTTATAATAGTATATTAAAT
1 TTTATAATAGTATATTAAAT
* *
16079749 GTTAAAATAGTATATTACAAAT
1 TTTATAATAGTATATT--AAAT
* *
16079771 TTTATAACAGTA-ATCAATAT
1 TTTATAATAGTATATTAA-AT
* *
16079791 ATTAAAATAGTATATTA
1 TTTATAATAGTATATTA
16079808 CATTAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
19 2 0.04
20 25 0.56
21 5 0.11
22 13 0.29
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (20 bp):
TTTATAATAGTATATTAAAT
Found at i:16082853 original size:22 final size:22
Alignment explanation
Indices: 16082823--16082864 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16082813 GCGACTTATC
* *
16082823 GCAATTTACTAGCAGCTTGTTT
1 GCAACTTACTAACAGCTTGTTT
16082845 GCAACTTACTAACAGCTTGT
1 GCAACTTACTAACAGCTTGT
16082865 CTACAAACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (22 bp):
GCAACTTACTAACAGCTTGTTT
Found at i:16082930 original size:68 final size:68
Alignment explanation
Indices: 16082847--16082976 Score: 163
Period size: 68 Copynumber: 1.9 Consensus size: 68
16082837 GCTTGTTTGC
* *
16082847 AACTTACTAACAGCTTGTCTACAAACTATT-AGCAGTTTTACTGCATACTATTACTAGCGGTTAT
1 AACTTACTAACAGCTTGTCTACAAACCATTGA-CAGTTTTACGGCATACTATTACTAGCGGTTAT
16082911 TCGT
65 TCGT
* * * * * * *
16082915 AACTTACTGATAGCTTGTCTGCAACCCATTGACAGTTTTACGGCATGCTGTTACTAGTGGTT
1 AACTTACTAACAGCTTGTCTACAAACCATTGACAGTTTTACGGCATACTATTACTAGCGGTT
16082977 TATCCGCAAC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
68 51 0.98
69 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (68 bp):
AACTTACTAACAGCTTGTCTACAAACCATTGACAGTTTTACGGCATACTATTACTAGCGGTTATT
CGT
Found at i:16085467 original size:19 final size:19
Alignment explanation
Indices: 16085443--16085523 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 19
16085433 AATCTTCAAG
16085443 GATATGAAATCTTAGATAT
1 GATATGAAATCTTAGATAT
*
16085462 GATATGCAATCTTAGATAT
1 GATATGAAATCTTAGATAT
*
16085481 AATAT-ATAATCTTAGATAT
1 GATATGA-AATCTTAGATAT
* *
16085500 GGTATGCAATCTTAGA-A-
1 GATATGAAATCTTAGATAT
16085517 GATATGA
1 GATATGA
16085524 TTTTGTAATC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
17 5 0.10
18 1 0.02
19 46 0.88
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGAAATCTTAGATAT
Found at i:16086173 original size:22 final size:22
Alignment explanation
Indices: 16086133--16086205 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
16086123 ATACGCATAT
* *
16086133 TTATTTTTTGTAGTATAATATAA
1 TTATTTTTTATA-TGTAATATAA
16086156 TTATTTTTTATATGTAAT-T-A
1 TTATTTTTTATATGTAATATAA
* *
16086176 TTTTTTTATCTATATGT-ATATAT
1 TTATTTT-T-TATATGTAATATAA
16086199 TTATTTT
1 TTATTTT
16086206 AGTATACATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 7 0.17
21 4 0.10
22 13 0.32
23 17 0.41
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATTTTTTATATGTAATATAA
Found at i:16086211 original size:22 final size:22
Alignment explanation
Indices: 16086150--16086211 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
16086140 TTGTAGTATA
* *
16086150 ATATAATTATTTT-TTATATGT
1 ATATATTTATTTTACTATATGT
16086171 A-ATTATTT-TTTTATCTATATGT
1 ATA-TATTTATTTTA-CTATATGT
*
16086193 ATATATTTATTTTAGTATA
1 ATATATTTATTTTACTATA
16086212 CATATGTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 17 0.52
23 6 0.18
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (22 bp):
ATATATTTATTTTACTATATGT
Found at i:16095622 original size:21 final size:22
Alignment explanation
Indices: 16095598--16095643 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
16095588 AAAAATGCCC
*
16095598 TTGATAT-TTATAAATTAAGTT
1 TTGATATAATATAAATTAAGTT
*
16095619 TTGATATGAATATATATTAAGTT
1 TTGATAT-AATATAAATTAAGTT
16095642 TT
1 TT
16095644 AATTCTAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
23 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
TTGATATAATATAAATTAAGTT
Found at i:16096943 original size:18 final size:18
Alignment explanation
Indices: 16096922--16096956 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16096912 AAACCCAAAT
16096922 AAAGAAA-ATACAAAAAAA
1 AAAGAAACA-ACAAAAAAA
16096940 AAAGAAACAACAAAAAA
1 AAAGAAACAACAAAAAA
16096957 CAGAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.83, C:0.09, G:0.06, T:0.03
Consensus pattern (18 bp):
AAAGAAACAACAAAAAAA
Found at i:16097891 original size:11 final size:11
Alignment explanation
Indices: 16097871--16097908 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
16097861 AGCTCGGCCC
16097871 ATATTAAATAT
1 ATATTAAATAT
*
16097882 ATATTTAATAT
1 ATATTAAATAT
*
16097893 ATATAAAATAT
1 ATATTAAATAT
16097904 ATATT
1 ATATT
16097909 TGATTAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:16101116 original size:13 final size:14
Alignment explanation
Indices: 16101083--16101117 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
16101073 AGAAATGCTT
16101083 TTGAAAAGCACTTC
1 TTGAAAAGCACTTC
16101097 TTGAAAAGCACTTC
1 TTGAAAAGCACTTC
16101111 -TGAAAAG
1 TTGAAAAG
16101118 GAGCTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (14 bp):
TTGAAAAGCACTTC
Found at i:16101613 original size:13 final size:13
Alignment explanation
Indices: 16101597--16101636 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
16101587 TTTAAACCAA
16101597 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
16101610 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
16101623 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
16101636 A
1 A
16101637 ATGAAGAACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:16106655 original size:28 final size:28
Alignment explanation
Indices: 16106619--16106718 Score: 191
Period size: 28 Copynumber: 3.6 Consensus size: 28
16106609 TAATGAGATT
16106619 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
16106647 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
*
16106675 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGATTGATTATTA
16106703 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
16106719 ACTTATTAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTGATTATTA
Found at i:16107650 original size:141 final size:142
Alignment explanation
Indices: 16107442--16107958 Score: 851
Period size: 141 Copynumber: 3.7 Consensus size: 142
16107432 TAATGCTTAA
* * *
16107442 ATGCTGCCCAAATTGTTATATATATGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAATTTGGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGATGTAAAAATGCTGCTCAATTTGGT
16107507 ATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAA
66 ATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAA
16107572 TTTGTTGTATTT
131 TTTGTTGTATTT
16107584 ATGCTGCCCAAATTGTTGTATATATGCTGTCC-AATTTTGATGTAAAAATGCTGCTCAATTTGGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGATGTAAAAATGCTGCTCAATTTGGT
*
16107648 ATATATATGCTGCCCAATTTGTTGTATATATGCTGTCTAATTTTTGGTGTAAAAATGCTGCTCAA
66 ATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAA
16107713 TTTGTTGTATTT
131 TTTGTTGTATTT
* *
16107725 ATGCTGCCCAAATTGTTGTATATATGCTGGCC-AGTTTTGATGTAAAAATGCTGCTCAATTTGGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGATGTAAAAATGCTGCTCAATTTGGT
* * *
16107789 ATATATATGCTGCCTAATTTGCTGTATATATGCTGTCCAATTTTTGGTGTAAAAATACTGCTCAA
66 ATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAA
*
16107854 TTTGTTGTATAT
131 TTTGTTGTATTT
* * *
16107866 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAAATGCTG-TCTAGTTTGG
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGATGTAAAAATGCTGCTC-AATTTGG
* * * *
16107930 TATATAAATGCTGTCCAAATTGATGTATA
65 TATATATATGCTGCCCAATTTGTTGTATA
16107959 AGAGCAGTCC
Statistics
Matches: 352, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 273 0.78
142 79 0.22
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (142 bp):
ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGATGTAAAAATGCTGCTCAATTTGGT
ATATATATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAA
TTTGTTGTATTT
Found at i:16107959 original size:23 final size:23
Alignment explanation
Indices: 16107442--16107958 Score: 330
Period size: 23 Copynumber: 22.0 Consensus size: 23
16107432 TAATGCTTAA
* * * *
16107442 ATGCTGCCCAAATTGTTATATAT
1 ATGCTGTCCAATTTGGTGTATAT
* *
16107465 ATGCTGTCCAAATTTTGGTGTAAAA
1 ATGCTGTCC-AA-TTTGGTGTATAT
* *
16107490 ATGTTG-CTCAATTTGGTATATAT
1 ATGCTGTC-CAATTTGGTGTATAT
* *
16107513 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGTCCAATTTGGTGTATAT
* *
16107536 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGTCCAA--TTTGGTGTATAT
* *
16107561 ATGCTG-CTCAATTTGTTGTATTT
1 ATGCTGTC-CAATTTGGTGTATAT
* * *
16107584 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGGTGTATAT
* * *
16107607 ATGCTGTCCAATTTTGATGTAAAA
1 ATGCTGTCCAA-TTTGGTGTATAT
*
16107631 ATGCTG-CTCAATTTGGTATATAT
1 ATGCTGTC-CAATTTGGTGTATAT
* *
16107654 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGTCCAATTTGGTGTATAT
* * *
16107677 ATGCTGTCTAATTTTTGGTGTAAAA
1 ATGCTGTCCAA--TTTGGTGTATAT
* *
16107702 ATGCTG-CTCAATTTGTTGTATTT
1 ATGCTGTC-CAATTTGGTGTATAT
* * *
16107725 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGGTGTATAT
* * * * *
16107748 ATGCTGGCCAGTTTTGATGTAAAA
1 ATGCTGTCCA-ATTTGGTGTATAT
*
16107772 ATGCTG-CTCAATTTGGTATATAT
1 ATGCTGTC-CAATTTGGTGTATAT
*
16107795 ATGCTG-CCTAATTTGCTGTATAT
1 ATGCTGTCC-AATTTGGTGTATAT
* *
16107818 ATGCTGTCCAATTTTTGGTGTAAAA
1 ATGCTGTCCAA--TTTGGTGTATAT
* *
16107843 ATACTG-CTCAATTTGTTGTATAT
1 ATGCTGTC-CAATTTGGTGTATAT
* * *
16107866 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGTCCAATTTGGTGTATAT
*
16107889 ATGCTGTCCAAATTTTGGTGTGA-AA
1 ATGCTGTCC-AA-TTTGGTGT-ATAT
* * * *
16107914 ATGCTGTCTAGTTTGGTATATAA
1 ATGCTGTCCAATTTGGTGTATAT
* *
16107937 ATGCTGTCCAAATTGATGTATA
1 ATGCTGTCCAATTTGGTGTATA
16107959 AGAGCAGTCC
Statistics
Matches: 387, Mismatches: 80, Indels: 54
0.74 0.15 0.10
Matches are distributed among these distances:
22 2 0.01
23 253 0.65
24 51 0.13
25 80 0.21
26 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (23 bp):
ATGCTGTCCAATTTGGTGTATAT
Found at i:16107971 original size:71 final size:71
Alignment explanation
Indices: 16107442--16107958 Score: 743
Period size: 71 Copynumber: 7.3 Consensus size: 71
16107432 TAATGCTTAA
* *
16107442 ATGCTGCCCAAATTGTTATATATATGCTGTCCAAATTTTGGTGTAAAAATGTTGCTCAATTTGGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
16107507 ATATAT
66 ATATAT
* * *
16107513 ATGCTGCCCAATTTGTTGTATATATGCTGTCCAATTTTTGGTGTAAAAATGCTGCTCAATTTGTT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
* *
16107578 GTATTT
66 ATATAT
*
16107584 ATGCTGCCCAAATTGTTGTATATATGCTGTCC-AATTTTGATGTAAAAATGCTGCTCAATTTGGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
16107648 ATATAT
66 ATATAT
* * * *
16107654 ATGCTGCCCAATTTGTTGTATATATGCTGTCTAATTTTTGGTGTAAAAATGCTGCTCAATTTGTT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
* *
16107719 GTATTT
66 ATATAT
* * *
16107725 ATGCTGCCCAAATTGTTGTATATATGCTGGCC-AGTTTTGATGTAAAAATGCTGCTCAATTTGGT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
16107789 ATATAT
66 ATATAT
* * * * * *
16107795 ATGCTGCCTAATTTGCTGTATATATGCTGTCCAATTTTTGGTGTAAAAATACTGCTCAATTTGTT
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
*
16107860 GTATAT
66 ATATAT
* *
16107866 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTGAAAATGCTG-TCTAGTTTGG
1 ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTC-AATTTGG
*
16107930 TATATAA
65 TATATAT
* *
16107937 ATGCTGTCCAAATTGATGTATA
1 ATGCTGCCCAAATTGTTGTATA
16107959 AGAGCAGTCC
Statistics
Matches: 394, Mismatches: 49, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
70 126 0.32
71 268 0.68
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (71 bp):
ATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTTGGTGTAAAAATGCTGCTCAATTTGGT
ATATAT
Found at i:16108499 original size:40 final size:40
Alignment explanation
Indices: 16108454--16108548 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
16108444 GCCCGCTATG
* **
16108454 TCTCGTGCACGGCCACACCTACAACAGTCACACGGTCGTA
1 TCTCGTACACGGCCACACCTACAACAGTCACACGACCGTA
* * * *
16108494 TCTCGTACACGGCCACATCTACGACAGTCACATGACCGTG
1 TCTCGTACACGGCCACACCTACAACAGTCACACGACCGTA
16108534 TCTCGTACACGGCCA
1 TCTCGTACACGGCCA
16108549 TGCACACGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.24, C:0.37, G:0.20, T:0.19
Consensus pattern (40 bp):
TCTCGTACACGGCCACACCTACAACAGTCACACGACCGTA
Found at i:16110660 original size:30 final size:30
Alignment explanation
Indices: 16110618--16110709 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
16110608 CCGAACGAGT
*
16110618 AATCTCGA-TATAATGTCAGCTTATGTGAGC
1 AATC-CGATTATAATGTCAGCTTGTGTGAGC
*
16110648 AATCCGATTATAATGTCAACTTGTGTGAGC
1 AATCCGATTATAATGTCAGCTTGTGTGAGC
*
16110678 AATCCGGTTATAACT-TCAGCTTGTGTGAGC
1 AATCCGATTATAA-TGTCAGCTTGTGTGAGC
16110708 AA
1 AA
16110710 CTCTAAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.05
30 52 0.93
31 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (30 bp):
AATCCGATTATAATGTCAGCTTGTGTGAGC
Found at i:16119314 original size:16 final size:15
Alignment explanation
Indices: 16119293--16119332 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
16119283 GGTTGAATAT
16119293 TTTAAATTTTTTCAAA
1 TTTAAATTTTTT-AAA
16119309 TTTAAATATTTTTAAA
1 TTTAAAT-TTTTTAAA
*
16119325 TTCAAATT
1 TTTAAATT
16119333 GTTGACACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAAATTTTTTAAA
Found at i:16121809 original size:44 final size:44
Alignment explanation
Indices: 16121681--16122084 Score: 327
Period size: 44 Copynumber: 9.2 Consensus size: 44
16121671 CGCCATTGTC
** * *
16121681 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTACCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * * * **
16121726 GATCTGC-ATCGTCAATCCACTTC-CTACCAATATAGGAAGACCG
1 GATCTGCTACCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
16121769 GATCTGCTACCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTACCTTCGATCTACTTCACACCAATATAGGAAGACAA
** * * * *
16121813 GATCTGCTTTCTACGATCTGCTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTACCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * * *
16121858 GATCTGC-ATCTTCGATCCACTTTC-TACCAATATAGGAAGATAG
1 GATCTGCTACCTTCGATCTAC-TTCACACCAATATAGGAAGACAA
* * * *
16121901 GACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTACCTTCGATCTACTTCACACCAATATAGGAAGACAA
* ** * * * *
16121945 GATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTACCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* *
16121990 GATCTGCGT--CGTCGATCTACTTC-CTACCAATATAGGAAGATAA
1 GATCTGC-TACCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * *
16122033 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTACCTTCGATCTACTTCACACCAATATAGGAAGACAA
16122077 GATCTGCT
1 GATCTGCT
16122085 TTAATGACTT
Statistics
Matches: 279, Mismatches: 67, Indels: 27
0.75 0.18 0.07
Matches are distributed among these distances:
42 3 0.01
43 67 0.24
44 154 0.55
45 54 0.19
46 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
GATCTGCTACCTTCGATCTACTTCACACCAATATAGGAAGACAA
Found at i:16121919 original size:132 final size:132
Alignment explanation
Indices: 16121681--16122086 Score: 668
Period size: 132 Copynumber: 3.1 Consensus size: 132
16121671 CGCCATTGTC
* * *
16121681 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCAATCCAC
1 GATCTGCTTTCTACGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
** *
16121746 TTCCTACCAATATAGGAAGACCGGATCTGCTACCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
16121811 AA
131 AA
* * *
16121813 GATCTGCTTTCTACGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTACGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
* *
16121878 TTTCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
16121943 AA
131 AA
* * * *
16121945 GATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCGTCGTCGATCTAC
1 GATCTGCTTTCTACGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
*
16122010 TTCCTACCAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
16122075 AA
131 AA
16122077 GATCTGCTTT
1 GATCTGCTTT
16122087 AATGACTTCA
Statistics
Matches: 252, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 252 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
GATCTGCTTTCTACGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:16139032 original size:36 final size:36
Alignment explanation
Indices: 16138980--16139061 Score: 155
Period size: 36 Copynumber: 2.3 Consensus size: 36
16138970 GTAACTAAAT
*
16138980 TGTGTATATTTATATGTTTGAATTAAATGTTGTATA
1 TGTGAATATTTATATGTTTGAATTAAATGTTGTATA
16139016 TGTGAATATTTATATGTTTGAATTAAATGTTGTATA
1 TGTGAATATTTATATGTTTGAATTAAATGTTGTATA
16139052 TGTGAATATT
1 TGTGAATATT
16139062 GAATTATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (36 bp):
TGTGAATATTTATATGTTTGAATTAAATGTTGTATA
Found at i:16143758 original size:28 final size:28
Alignment explanation
Indices: 16143726--16143797 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
16143716 TAATGAGATT
* *
16143726 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGATTAATTATAA
* *
16143754 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGAGATTAATTATAA
16143782 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
16143798 ACTTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGATTAATTATAA
Found at i:16143803 original size:24 final size:24
Alignment explanation
Indices: 16143726--16143806 Score: 63
Period size: 28 Copynumber: 3.0 Consensus size: 24
16143716 TAATGAGATT
* *
16143726 AGCACTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGA----AATTATTA
16143754 AGCACTAAGTGTGCGAGATTGATTATTA
1 AGCACTAAGTGTGCGA-A---ATTATTA
*
16143782 AGCACTAAGTGTGCGAACTTATTA
1 AGCACTAAGTGTGCGAAATTATTA
16143806 A
1 A
16143807 ATATTTTCGA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
24 7 0.15
25 1 0.02
27 1 0.02
28 37 0.80
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (24 bp):
AGCACTAAGTGTGCGAAATTATTA
Found at i:16144603 original size:70 final size:69
Alignment explanation
Indices: 16144519--16144879 Score: 463
Period size: 70 Copynumber: 5.1 Consensus size: 69
16144509 TTTGATGCTG
* * * *
16144519 AAATGCTGCCCAATTCTTTGTATTTATGCTGCCTAAATTGTTGTATATATGTTGTCCAATTTTGA
1 AAATGTTGCTCAATT-TTTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
16144584 TGTAA
65 TGTAA
* * *
16144589 AAATGTTGCTCAATTTGGTATATATATGCCGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
1 AAATGTTGCTCAATTT-TTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
16144654 TGTAA
65 TGTAA
* * *
16144659 AAGTGTTGCTCAATTTGTTATATATATGCTGCCTAAATTGTTGTATATATTCTGTCCAATTTTGA
1 AAATGTTGCTCAATTT-TTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGA
16144724 TGTAA
65 TGTAA
* * * *
16144729 AAATGTTGCTCAA-TTTGGTATAAATATGCTGCCCAATTTGTTGTATATATGCTGTTCAATTTTT
1 AAATGTTGCTCAATTTTTGTAT--ATATGCTGCCTAAATTGTTGTATATATGCTGTCCAA-TTTT
*
16144793 GGTGTAA
63 GATGTAA
* *
16144800 AAATGCTGCTCAATTTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTT
1 AAATGTTGCTCAA-TTT-TTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCC-AATTTT
* *
16144865 GGTGTGA
63 GATGTAA
16144872 AAATGTTG
1 AAATGTTG
16144880 TCTAGCTTGG
Statistics
Matches: 258, Mismatches: 25, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
68 4 0.02
69 3 0.01
70 171 0.66
71 22 0.09
72 49 0.19
73 4 0.02
74 5 0.02
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.43
Consensus pattern (69 bp):
AAATGTTGCTCAATTTTTGTATATATGCTGCCTAAATTGTTGTATATATGCTGTCCAATTTTGAT
GTAA
Found at i:16144695 original size:140 final size:142
Alignment explanation
Indices: 16144519--16144879 Score: 523
Period size: 140 Copynumber: 2.6 Consensus size: 142
16144509 TTTGATGCTG
* * * *
16144519 AAATGCTGCCCAATTCT-TTGTATTTATGCTGCCTAAATTGTTGTATATATGTTGTCCAATTTTG
1 AAATGCTGCTCAATTTTGTTATATATATGCTGCCTAAATTGTTGTATATATGTTGTCCAATTTTG
* *
16144583 ATGTAAAAATGTTGCTCAATTTGGTATATATATGCCGCCTAAATTGTTGTATATATGCTGTCCAA
66 ATGTAAAAATGTTGCTCAATTTGGTATAAATATGCCGCCCAAATTGTTGTATATATGCTGTCCAA
16144648 -TTTTGATGTAA
131 TTTTTGATGTAA
* *
16144659 AAGTGTTGCTCAA-TTTGTTATATATATGCTGCCTAAATTGTTGTATATAT-TCTGTCCAATTTT
1 AAATGCTGCTCAATTTTGTTATATATATGCTGCCTAAATTGTTGTATATATGT-TGTCCAATTTT
* * *
16144722 GATGTAAAAATGTTGCTCAATTTGGTATAAATATGCTGCCCAATTTGTTGTATATATGCTGTTCA
65 GATGTAAAAATGTTGCTCAATTTGGTATAAATATGCCGCCCAAATTGTTGTATATATGCTGTCCA
*
16144787 ATTTTTGGTGTAA
130 ATTTTTGATGTAA
* * *
16144800 AAATGCTGCTCAATTTTGTTGTATATATGCTGCCCAAATTGTTGTATATATGCTGTCCAAATTTT
1 AAATGCTGCTCAATTTTGTTATATATATGCTGCCTAAATTGTTGTATATATGTTGTCC-AATTTT
* *
16144865 GGTGTGAAAATGTTG
65 GATGTAAAAATGTTG
16144880 TCTAGCTTGG
Statistics
Matches: 196, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
139 3 0.02
140 113 0.58
141 21 0.11
142 40 0.20
143 19 0.10
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.43
Consensus pattern (142 bp):
AAATGCTGCTCAATTTTGTTATATATATGCTGCCTAAATTGTTGTATATATGTTGTCCAATTTTG
ATGTAAAAATGTTGCTCAATTTGGTATAAATATGCCGCCCAAATTGTTGTATATATGCTGTCCAA
TTTTTGATGTAA
Found at i:16144841 original size:23 final size:23
Alignment explanation
Indices: 16144521--16144859 Score: 223
Period size: 23 Copynumber: 14.5 Consensus size: 23
16144511 TGATGCTGAA
*
16144521 ATGCTGCCCAATTCT-TTGTATTT
1 ATGCTGCCCAATT-TGTTGTATAT
* *
16144544 ATGCTGCCTAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * * *
16144567 ATGTTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * *
16144591 ATGTTGCTCAATTTGGTATATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
16144614 ATGCCGCCTAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * *
16144637 ATGCTGTCCAATTTTGATGTA-AA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * *
16144660 AGTGTTGCTCAATTTGTTATATAT
1 A-TGCTGCCCAATTTGTTGTATAT
* *
16144684 ATGCTGCCTAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
* * * * *
16144707 ATTCTGTCCAATTTTGATGTAAAA
1 ATGCTGCCCAA-TTTGTTGTATAT
* * * * *
16144731 ATGTTGCTCAATTTGGTATAAAT
1 ATGCTGCCCAATTTGTTGTATAT
16144754 ATGCTGCCCAATTTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
** * * *
16144777 ATGCTGTTCAATTTTTGGTGTAAAA
1 ATGCTGCCCAA--TTTGTTGTATAT
*
16144802 ATGCTGCTCAATTTTGTTGTATAT
1 ATGCTGCCCAA-TTTGTTGTATAT
*
16144826 ATGCTGCCCAAATTGTTGTATAT
1 ATGCTGCCCAATTTGTTGTATAT
*
16144849 ATGCTGTCCAA
1 ATGCTGCCCAA
16144860 ATTTTGGTGT
Statistics
Matches: 237, Mismatches: 71, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
22 1 0.00
23 149 0.63
24 68 0.29
25 19 0.08
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
ATGCTGCCCAATTTGTTGTATAT
Found at i:16147539 original size:16 final size:16
Alignment explanation
Indices: 16147502--16147544 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16147492 TAATTTATTA
*
16147502 AATAAAA-ATAATCTT
1 AATAAAATATTATCTT
*
16147517 AATTAAAATATTATTTT
1 AA-TAAAATATTATCTT
16147534 AATAAAATATT
1 AATAAAATATT
16147545 TAAATTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 14 0.58
17 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
AATAAAATATTATCTT
Found at i:16152393 original size:10 final size:10
Alignment explanation
Indices: 16152378--16152404 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16152368 TATATTTATT
16152378 TTTTATAATA
1 TTTTATAATA
16152388 TTTTATAATA
1 TTTTATAATA
16152398 TTTTATA
1 TTTTATA
16152405 GGACACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTATAATA
Found at i:16161525 original size:31 final size:31
Alignment explanation
Indices: 16161489--16161549 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
16161479 TTGGTCACTA
** *
16161489 AACTATTTGAAAGTTTTCATTTAAGTCATTT
1 AACTATTCAAAAGTTTTCATTTAACTCATTT
*
16161520 AACTATTCAAAAGTTTTTATTTAACTCATT
1 AACTATTCAAAAGTTTTCATTTAACTCATT
16161550 GGGCTATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAACTCATTT
Found at i:16165102 original size:61 final size:67
Alignment explanation
Indices: 16165033--16165177 Score: 162
Period size: 69 Copynumber: 2.2 Consensus size: 67
16165023 GTTACCTTAC
* *
16165033 CCTTTTGTATTAG-TT-T-CT-TT-C-TTTTCATAATATGTAATAG-TTTCTTGTGTTGTTGAGT
1 CCTTTTGTATTAGCTTCTACTATTGCATTTTCATAATATGTAATAGATGT-TTGTGTTGTTAAGT
16165091 TGT
65 TGT
* *
16165094 CCTTTTGTATGAGCTTCTATTATTGGGCATTTTCATAATATGTAATAGATGTTTGTGTTGTTAAG
1 CCTTTTGTATTAGCTTCTACTATT--GCATTTTCATAATATGTAATAGATGTTTGTGTTGTTAAG
16165159 TTGT
64 TTGT
*
16165163 -CTTTCGTATTAGCTT
1 CCTTTTGTATTAGCTT
16165178 TGATTTATTG
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
61 12 0.17
62 2 0.03
63 1 0.01
64 1 0.01
65 2 0.03
68 14 0.20
69 35 0.51
70 2 0.03
ACGTcount: A:0.19, C:0.10, G:0.18, T:0.53
Consensus pattern (67 bp):
CCTTTTGTATTAGCTTCTACTATTGCATTTTCATAATATGTAATAGATGTTTGTGTTGTTAAGTT
GT
Found at i:16169424 original size:150 final size:151
Alignment explanation
Indices: 16169254--16169527 Score: 451
Period size: 151 Copynumber: 1.8 Consensus size: 151
16169244 ATTCATATTG
* * * * * *
16169254 TAATATATAAAGCAAGAAAGTAA-AAATAAATTTAAATTTTGCTGGCTGTGAGGTTCGAACTCAC
1 TAATATATAAAGAAAAAAAGTAATAAAAAAAATTAAAATATGCTGGCTGTGAGGTTCGAACTCAC
*
16169318 AAGCACTTATGTGCAGCAGATCTTAAGTCTGCCCCCTTAACCTCTCGTGCAAACCAGCTGTTCGT
66 AAGCACTTATGTGCAGCAGATCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGTTCGT
16169383 TTCACAGTTATCTTTTCATTA
131 TTCACAGTTATCTTTTCATTA
16169404 TAATATATAAAGAAAAAAAGTAATAAAAAAAATTAAAATATGCTGGCTGTGAGGTTCGAACTCAC
1 TAATATATAAAGAAAAAAAGTAATAAAAAAAATTAAAATATGCTGGCTGTGAGGTTCGAACTCAC
** *
16169469 GCGCACTTCTGTGCAGCAGATCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCT
66 AAGCACTTATGTGCAGCAGATCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCT
16169528 AACTGTTCAC
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
150 21 0.19
151 92 0.81
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (151 bp):
TAATATATAAAGAAAAAAAGTAATAAAAAAAATTAAAATATGCTGGCTGTGAGGTTCGAACTCAC
AAGCACTTATGTGCAGCAGATCTTAAGTCTGCCCCCTTAACCTCTCGGGCAAACCAGCTGTTCGT
TTCACAGTTATCTTTTCATTA
Found at i:16171282 original size:18 final size:17
Alignment explanation
Indices: 16171228--16171288 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 17
16171218 ACCTCTTCGT
16171228 CTTCATCCTCGGAATCA
1 CTTCATCCTCGGAATCA
* * *
16171245 TCTTCATCATCAGAACCA
1 -CTTCATCCTCGGAATCA
16171263 CTTCCATCCTCGGAATCA
1 CTT-CATCCTCGGAATCA
16171281 CTATCATC
1 CT-TCATC
16171289 ATCATCGTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 3 0.09
18 31 0.89
19 1 0.03
ACGTcount: A:0.26, C:0.36, G:0.08, T:0.30
Consensus pattern (17 bp):
CTTCATCCTCGGAATCA
Found at i:16176394 original size:19 final size:19
Alignment explanation
Indices: 16176369--16176417 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
16176359 TTAAATGCAT
16176369 TTTTTTATTTTTTA-TTTA
1 TTTTTTATTTTTTACTTTA
*
16176387 TCTTTTTATCTTTTACTTTA
1 T-TTTTTATTTTTTACTTTA
16176407 TTTCTTTATTT
1 TTT-TTTATTT
16176418 CCTTTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 14 0.54
20 11 0.42
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTATTTTTTACTTTA
Found at i:16186087 original size:41 final size:41
Alignment explanation
Indices: 16186029--16186219 Score: 355
Period size: 41 Copynumber: 4.6 Consensus size: 41
16186019 CTTAATTTAA
* *
16186029 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
16186071 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
16186112 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
16186153 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
16186194 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
16186220 ACGTATAGTC
Statistics
Matches: 147, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
41 143 0.97
42 4 0.03
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:16196437 original size:16 final size:15
Alignment explanation
Indices: 16196394--16196434 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
16196384 TCAATATTTT
*
16196394 AAAATTTACTATTCA
1 AAAATTTACAATTCA
* *
16196409 AAAAATTAGAATTCA
1 AAAATTTACAATTCA
16196424 AAAATTTACAA
1 AAAATTTACAA
16196435 ATTTTACAAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (15 bp):
AAAATTTACAATTCA
Found at i:16199329 original size:17 final size:16
Alignment explanation
Indices: 16199292--16199325 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16199282 GGGAATAATC
16199292 AATTTTTATATAAATT
1 AATTTTTATATAAATT
* *
16199308 AATTTTTTTGTAAATT
1 AATTTTTATATAAATT
16199324 AA
1 AA
16199326 ATTTATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
AATTTTTATATAAATT
Found at i:16201855 original size:15 final size:15
Alignment explanation
Indices: 16201811--16201843 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16201801 TTTAATATAT
16201811 TATTAATT-TTATTA
1 TATTAATTATTATTA
16201825 TATTAATTATTATTA
1 TATTAATTATTATTA
16201840 TATT
1 TATT
16201844 GTATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTAATTATTATTA
Found at i:16201983 original size:38 final size:37
Alignment explanation
Indices: 16201940--16202027 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 37
16201930 ATGTAGTACG
16201940 TATATATTTTAT-TATCATATCATATTATTTT-T-ATAGTT
1 TATATATTTTATGTA-CAT-TCATATT-TTTTATGATA-TT
16201978 TATATATTTTATGTACATTCATATTTTTTATGATATT
1 TATATATTTTATGTACATTCATATTTTTTATGATATT
*
16202015 TATAT-TTTCATGT
1 TATATATTTTATGT
16202028 TTTATAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
36 11 0.24
37 15 0.33
38 18 0.39
39 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.60
Consensus pattern (37 bp):
TATATATTTTATGTACATTCATATTTTTTATGATATT
Found at i:16202019 original size:18 final size:18
Alignment explanation
Indices: 16201942--16202022 Score: 60
Period size: 18 Copynumber: 4.4 Consensus size: 18
16201932 GTAGTACGTA
*
16201942 TATATTTTATTATCATA-T
1 TATATTTT-TTATGATATT
*
16201960 CATATTATTTT-T-ATAGTT
1 TATATT-TTTTATGATA-TT
* *
16201978 TATATATTTTATGTACATT
1 TATATTTTTTATG-ATATT
*
16201997 CATATTTTTTATGATATT
1 TATATTTTTTATGATATT
16202015 TATATTTT
1 TATATTTT
16202023 CATGTTTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.06
17 5 0.10
18 24 0.49
19 15 0.31
20 2 0.04
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.62
Consensus pattern (18 bp):
TATATTTTTTATGATATT
Found at i:16205534 original size:24 final size:24
Alignment explanation
Indices: 16205507--16205556 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
16205497 CAAATGCATT
*
16205507 TTCAAGATAAAATCTTGATGACCC
1 TTCAAGATAAAATCTAGATGACCC
* *
16205531 TTCAAGATAAAGTCTAGGTGACCC
1 TTCAAGATAAAATCTAGATGACCC
16205555 TT
1 TT
16205557 AGATCGAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (24 bp):
TTCAAGATAAAATCTAGATGACCC
Found at i:16205688 original size:53 final size:53
Alignment explanation
Indices: 16205592--16205794 Score: 316
Period size: 53 Copynumber: 3.8 Consensus size: 53
16205582 CATCAAAGGG
* * * *
16205592 TTTCCTTGCATTCAACAAACTTCCAAAGATTGTAGCTAAAATTTATTAATAAGA
1 TTTCTTTGCATTCAACAAACTT-CAGAGATTGTAGCTCAAATTTATAAATAAGA
* *
16205646 TTTCTTTGCATTCAACAAACTTTAGAGATTGTAGCTTAAATTTATAAATAAGA
1 TTTCTTTGCATTCAACAAACTTCAGAGATTGTAGCTCAAATTTATAAATAAGA
*
16205699 TTTCTTTGCATTCAATAAACTTCAGAGATTGTAGCTCAAATTTATAAATAAGA
1 TTTCTTTGCATTCAACAAACTTCAGAGATTGTAGCTCAAATTTATAAATAAGA
* *
16205752 TTTCTTTGCACTCAACAAACTTTAGAGATTGTAGCTCAAATTT
1 TTTCTTTGCATTCAACAAACTTCAGAGATTGTAGCTCAAATTT
16205795 CTATCATTCC
Statistics
Matches: 138, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 117 0.85
54 21 0.15
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (53 bp):
TTTCTTTGCATTCAACAAACTTCAGAGATTGTAGCTCAAATTTATAAATAAGA
Found at i:16207096 original size:23 final size:23
Alignment explanation
Indices: 16207070--16207120 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16207060 CCCTTATACG
*
16207070 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
16207093 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
16207116 AGTAA
1 TGTAA
16207121 GAAAATAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:16208146 original size:33 final size:35
Alignment explanation
Indices: 16208080--16208153 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 35
16208070 TCATTGCATG
** *
16208080 ACTGATATCTATTATTGTTATAGGCCAAGGTCCC-
1 ACTGATATCTATTATTGAAATAGGCCAAAGTCCCT
* *
16208114 ACTGATA-CTATTATTGAAATTGGGCAAAGTCCCT
1 ACTGATATCTATTATTGAAATAGGCCAAAGTCCCT
16208148 ACTGAT
1 ACTGAT
16208154 TACTGGCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
33 21 0.62
34 13 0.38
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (35 bp):
ACTGATATCTATTATTGAAATAGGCCAAAGTCCCT
Found at i:16210287 original size:19 final size:19
Alignment explanation
Indices: 16210263--16210303 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
16210253 TTGCTTTATT
16210263 CATTAAATTTAAGTATTAG
1 CATTAAATTTAAGTATTAG
*
16210282 CATTAAATTTAAGTATTTG
1 CATTAAATTTAAGTATTAG
16210301 CAT
1 CAT
16210304 ATGCAACACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (19 bp):
CATTAAATTTAAGTATTAG
Found at i:16217162 original size:41 final size:41
Alignment explanation
Indices: 16217117--16217196 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
16217107 AAAATTGGAG
*
16217117 GCACACAGGCGTGTTTCAGGCCGTGTGGGACACATGGGCAC
1 GCACACAGGCGTGTGTCAGGCCGTGTGGGACACATGGGCAC
* * **
16217158 GCACACCGGTGTGTGTCAGGTTGTGTGGGACACATGGGC
1 GCACACAGGCGTGTGTCAGGCCGTGTGGGACACATGGGC
16217197 GTGTGCCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.17, C:0.24, G:0.39, T:0.20
Consensus pattern (41 bp):
GCACACAGGCGTGTGTCAGGCCGTGTGGGACACATGGGCAC
Found at i:16221288 original size:12 final size:13
Alignment explanation
Indices: 16221258--16221290 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
16221248 TTGCAATCGT
16221258 TTTTTTATATTTA
1 TTTTTTATATTTA
16221271 TATTTTTAT-TTTA
1 T-TTTTTATATTTA
16221284 TTTTTTA
1 TTTTTTA
16221291 AACAACGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.32
13 6 0.32
14 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTATATTTA
Found at i:16221923 original size:3 final size:3
Alignment explanation
Indices: 16221915--16221949 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
16221905 ACAAATTTCA
16221915 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16221950 CTTTTATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16221986 original size:17 final size:18
Alignment explanation
Indices: 16221951--16221989 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16221941 TTATTATTAC
*
16221951 TTTTATATATATACGTATT
1 TTTTACATATATAC-TATT
16221970 TTTTACATATATA-TATT
1 TTTTACATATATACTATT
16221987 TTT
1 TTT
16221990 ATTACTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTACATATATACTATT
Found at i:16225023 original size:87 final size:84
Alignment explanation
Indices: 16224878--16225344 Score: 360
Period size: 87 Copynumber: 5.5 Consensus size: 84
16224868 GACTTGATGC
* * * * *
16224878 GATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-C-TTTAATCCGCTCCACTGTAACTTCGGG
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAGG
*
16224941 GAGATAAGATAGTGTCTTT
66 GAGATAAGATACTGTCTTT
16224960 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC---TTTTAATCCGCTCCACTGTAACTTC
* * *
16225025 AGGGAGATAGGATAGTGTCTTC
63 AGGGAGATAAGATACTGTCTTT
* * ** * *
16225047 GATCTGCTCCGCTGTAATCTCATGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAA-T
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT----CT-TTTAATCCGCTCCACTGTAACT
* * *
16225111 CTCAGGGAGATAAGA-CCTG-ATGT
61 -TCAGGGAGATAAGATACTGTCTTT
* ** * *
16225134 GATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-C-TTTAATCCGCTCCATTGTAA-TCTCA
1 GATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACT-TCA
* * *
16225195 AGGAGATAGGATTACTATCTTT
64 GGGAGATAAGA-TACTGTCTTT
* * * *
16225217 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAACCTC
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT---TTTAATCCGCTCCACTGTAACTTC
* * *
16225282 AAGGAGATAAGAT-TTGAAATTTTTT
63 AGGGAGATAAGATACTG----TCTTT
* * * *
16225307 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTCT
1 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
16225345 ATAATAAACC
Statistics
Matches: 306, Mismatches: 53, Indels: 44
0.76 0.13 0.11
Matches are distributed among these distances:
80 29 0.09
82 33 0.11
83 32 0.10
84 2 0.01
86 2 0.01
87 108 0.35
88 33 0.11
89 29 0.09
90 38 0.12
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (84 bp):
GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAGG
GAGATAAGATACTGTCTTT
Found at i:16225027 original size:44 final size:43
Alignment explanation
Indices: 16224889--16225294 Score: 198
Period size: 44 Copynumber: 9.5 Consensus size: 43
16224879 ATCTACTCTG
* *
16224889 CTGTAACCTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* * * * *
16224928 CTGTAACTTCGGGGAGATAAGATAGTGTCTTTGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* *
16224971 CTGTAA-TCTCAGGGAGATAAGAT-CTCTTATTTTAATCCGCTCCA
1 CTGTAACT-TCAGGGAGATAAGATACT-GT-CTTTAATCCGCTCCA
* * ** * *
16225015 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* ** * *
16225058 CTGTAA-TCTCATGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAACT-TCAGGGAGATAAGATACTG----TCTTTAATCCGCTCCA
* * * * ** *
16225104 CTGTAA-TCTCAGGGAGATAAGA-CCTG-ATGTGATCTTCTCTA
1 CTGTAACT-TCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
*
16225145 CTGTAACTTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
* * * * * * *
16225184 TTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCG
1 CTGTAACT-TCAGGGAGATAAGA-TACTGTCTTTAATCCGCTCCA
* * * * *
16225228 CTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCG
1 CTGTAACT-TCAGGGAGATAAGAT-ACTGTCTTTAATCCGCTCCA
* *
16225272 CTGTAACCTCAAGGAGATAAGAT
1 CTGTAACTTCAGGGAGATAAGAT
16225295 TTGAAATTTT
Statistics
Matches: 282, Mismatches: 60, Indels: 45
0.73 0.16 0.12
Matches are distributed among these distances:
38 1 0.00
39 45 0.16
40 1 0.00
41 30 0.11
42 6 0.02
43 63 0.22
44 98 0.35
45 2 0.01
46 36 0.13
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
CTGTAACTTCAGGGAGATAAGATACTGTCTTTAATCCGCTCCA
Found at i:16225079 original size:169 final size:163
Alignment explanation
Indices: 16224877--16225293 Score: 358
Period size: 169 Copynumber: 2.4 Consensus size: 163
16224867 AGACTTGATG
* * * *
16224877 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTAATCCGCTCCACTGTAA-CTTCGG
1 CGATCTGCTCCGCTGTAATCTCAG-GAGATAAGATCACTTTAATCCGCTCCACTGTAATC-TCAG
* * * * *
16224940 GGAGATAAGATAGTGTCTTTGATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTTATTTT
64 GGAGATAAGA-ACTG-ATGTGATCTGCTCCACTGTAACT-TCAGAGAGATAAGATC-C----TTT
* * *
16225004 AATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTT
121 AATCCGCTCCACTGTAATC-TCAAGGAGATAGGATTACTATCTT
** * *
16225046 CGATCTGCTCCGCTGTAATCTCATGGAGATAAGATCTGAAATTCTTTGGTCTGTTCCACTGTAAT
1 CGATCTGCTCCGCTGTAATCTCA-GGAGATAAGATC----A--CTTTAATCCGCTCCACTGTAAT
* * *
16225111 CTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAAT
59 CTCAGGGAGATAAGAACTGATGTGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTTAAT
*
16225176 CCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTT
124 CCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTT
* * * * *
16225216 TGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAACCT
1 CGATCTGCTCCGCTGTAATCTCA-GGAGATAAGATCACT---TT-AATCCGCTCCACTGTAATCT
*
16225281 CAAGGAGATAAGA
61 CAGGGAGATAAGA
16225294 TTTGAAATTT
Statistics
Matches: 203, Mismatches: 29, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
164 2 0.01
167 2 0.01
168 27 0.13
169 63 0.31
170 43 0.21
173 1 0.00
174 31 0.15
175 3 0.01
176 30 0.15
177 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (163 bp):
CGATCTGCTCCGCTGTAATCTCAGGAGATAAGATCACTTTAATCCGCTCCACTGTAATCTCAGGG
AGATAAGAACTGATGTGATCTGCTCCACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCC
ACTGTAATCTCAAGGAGATAGGATTACTATCTT
Found at i:16247300 original size:2 final size:2
Alignment explanation
Indices: 16247293--16247321 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16247283 TCTGTCCTTT
16247293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16247322 CTTTTTACAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16248323 original size:16 final size:16
Alignment explanation
Indices: 16248304--16248337 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
16248294 ACTTTGGTTG
16248304 AATGTTATAAAA-TATA
1 AATGTTA-AAAATTATA
16248320 AATGTTAAAAATTATA
1 AATGTTAAAAATTATA
16248336 AA
1 AA
16248338 AGTTTGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
AATGTTAAAAATTATA
Found at i:16248441 original size:29 final size:30
Alignment explanation
Indices: 16248373--16248453 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
16248363 ATTTTAAAAC
* *
16248373 TATACATGAATTTTGGTTTAATGTATAATTG
1 TATACATGAATTTTGATTT-ATGTACAATTG
* *
16248404 TATACATGAATTTTGATTT-TGTGCAATTT
1 TATACATGAATTTTGATTTATGTACAATTG
*
16248433 TATACATGAAATTTCGATTTA
1 TATACATG-AATTTTGATTTA
16248454 ATCAAAATCT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 15 0.35
30 10 0.23
31 18 0.42
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (30 bp):
TATACATGAATTTTGATTTATGTACAATTG
Found at i:16259839 original size:2 final size:2
Alignment explanation
Indices: 16259832--16259856 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16259822 TGGTTGTTTT
16259832 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
16259857 TTGATGAAAA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:16263797 original size:13 final size:13
Alignment explanation
Indices: 16263779--16263803 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16263769 ATGAAATGTG
16263779 ATTTCAATTTTAA
1 ATTTCAATTTTAA
16263792 ATTTCAATTTTA
1 ATTTCAATTTTA
16263804 TAGGGATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTCAATTTTAA
Found at i:16263919 original size:20 final size:20
Alignment explanation
Indices: 16263890--16263930 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
16263880 AAGGACTCAC
16263890 TAAACTCAC-TGTAAGTTTT
1 TAAACTCACTTGTAAGTTTT
*
16263909 TAAAGCTCACTTGTATGTTTT
1 TAAA-CTCACTTGTAAGTTTT
16263930 T
1 T
16263931 TCTTACATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (20 bp):
TAAACTCACTTGTAAGTTTT
Found at i:16264495 original size:151 final size:148
Alignment explanation
Indices: 16264217--16264734 Score: 616
Period size: 151 Copynumber: 3.5 Consensus size: 148
16264207 TTGAACACTC
* * *
16264217 TTGGTATGAATTCGTAATCTTAAATGATCGTGTTTCGAAAGTTAATTTAGTTTGCATTTTGTGTT
1 TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGTT
* * * *
16264282 TGAAATTGAAGTTTGAGATCGAAGTTGGTAAGAATATGGTTCTGTATATTTGGGAGCT-GAGTGT
66 CGAAATCGAAGTTTGAGATCGAAGTTGTTAAGAATA-AGTTCTGT-TATTTGGGAG-TGGAGTGT
16264346 TGAGATGGGAAGTACTTCCCGA
128 TG-GATGGGAAGTACTTCCCGA
** * *
16264368 TTGGTATGAATTCGTAATCTTAAACCATCACGTTTCGAAAGTTAACTTGGTTTGCATTGTGTGTT
1 TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGTT
* *
16264433 CGAAATCAAAGTTTGAGATCAAAGTTGTTAAGAATACAGTTCTGTTTATTTGGGAGTGGAGTGTT
66 CGAAATCGAAGTTTGAGATCGAAGTTGTTAAGAATA-AGTTCTG-TTATTTGGGAGTGGAGTGTT
16264498 GGGATGGGAAGTACTTCCCGA
129 -GGATGGGAAGTACTTCCCGA
* * * *
16264519 TTGGTATGAATTCGTAAT-TATAAATGATCGTGTTTTGAATGTTAACTAGGTTTGCATTTTGTGT
1 TTGGTATGAATTCGTAATCT-TAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGT
* * *
16264583 TCGAAA-CTGAAGTTTGAGTTTGAAGTTGTTAAGAAT-A--TC--------GGGAGCGGAGTGTT
65 TCGAAATC-GAAGTTTGAGATCGAAGTTGTTAAGAATAAGTTCTGTTATTTGGGAGTGGAGTGTT
*
16264636 GGAATGGGAAGTACTTCCTGA
129 GG-ATGGGAAGTACTTCCCGA
* *
16264657 TTGGTATGAATTCGTAATCATAAATGATTATGTTTC-AAATGTTAACTTGGTTTGCATTTTGTGT
1 TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAA-GTTAACTTGGTTTGCATTTTGTGT
*
16264721 TTGAAATCGAAGTT
65 TCGAAATCGAAGTT
16264735 AAGAATCCGG
Statistics
Matches: 323, Mismatches: 35, Indels: 31
0.83 0.09 0.08
Matches are distributed among these distances:
137 4 0.01
138 95 0.29
139 1 0.00
147 2 0.01
149 1 0.00
150 3 0.01
151 215 0.67
152 2 0.01
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (148 bp):
TTGGTATGAATTCGTAATCTTAAATGATCATGTTTCGAAAGTTAACTTGGTTTGCATTTTGTGTT
CGAAATCGAAGTTTGAGATCGAAGTTGTTAAGAATAAGTTCTGTTATTTGGGAGTGGAGTGTTGG
ATGGGAAGTACTTCCCGA
Found at i:16264702 original size:138 final size:138
Alignment explanation
Indices: 16264484--16264734 Score: 396
Period size: 138 Copynumber: 1.8 Consensus size: 138
16264474 CTGTTTATTT
* * * *
16264484 GGGAGTGGAGTGTTGGGATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATTATAAATGATCG
1 GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGATCA
**
16264549 TGTTTTGAATGTTAACTAGGTTTGCATTTTGTGTTCGAAA-CTGAAGTTTGAGTTTGAAGTTGTT
66 TGTTTCAAATGTTAACTAGGTTTGCATTTTGTGTTCGAAATC-GAAGTTTGAGTTTGAAGTTGTT
16264613 AAGAATATC
130 AAGAATATC
* *
16264622 GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCTGATTGGTATGAATTCGTAATCATAAATGATTA
1 GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGATCA
* *
16264687 TGTTTCAAATGTTAACTTGGTTTGCATTTTGTGTTTGAAATCGAAGTT
66 TGTTTCAAATGTTAACTAGGTTTGCATTTTGTGTTCGAAATCGAAGTT
16264735 AAGAATCCGG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
138 101 0.99
139 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.27, T:0.38
Consensus pattern (138 bp):
GGGAGCGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGATCA
TGTTTCAAATGTTAACTAGGTTTGCATTTTGTGTTCGAAATCGAAGTTTGAGTTTGAAGTTGTTA
AGAATATC
Found at i:16268309 original size:33 final size:33
Alignment explanation
Indices: 16268264--16268340 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
16268254 GTGATCCAGT
16268264 AAAACTGCTCTTTTGCCTGAGTTGATTTGTACG
1 AAAACTGCTCTTTTGCCTGAGTTGATTTGTACG
* * * *
16268297 AAAACTGTTCTTTTGCTTGAGTTGGTTTGTATG
1 AAAACTGCTCTTTTGCCTGAGTTGATTTGTACG
*
16268330 AAAACCGCTCT
1 AAAACTGCTCT
16268341 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (33 bp):
AAAACTGCTCTTTTGCCTGAGTTGATTTGTACG
Found at i:16269552 original size:30 final size:30
Alignment explanation
Indices: 16269516--16269618 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
16269506 TTTCTCATAG
*
16269516 AGGGTTCGCACGTATAGGGTTTGCCCATCT
1 AGGGTTCGCACGTATAGGGTTTGCACATCT
* * * **
16269546 AGGGTTCGCATGTTTAGGGGGTCTATACATCT
1 AGGGTTCGCACGTATA--GGGTTTGCACATCT
* * * *
16269578 AAGGTTCACATGTATAGGGTTTGCACGTCT
1 AGGGTTCGCACGTATAGGGTTTGCACATCT
*
16269608 AGGATTCGCAC
1 AGGGTTCGCAC
16269619 ATAAAGAGTT
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
30 31 0.57
32 23 0.43
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (30 bp):
AGGGTTCGCACGTATAGGGTTTGCACATCT
Found at i:16269687 original size:23 final size:23
Alignment explanation
Indices: 16269661--16269757 Score: 88
Period size: 23 Copynumber: 4.2 Consensus size: 23
16269651 TAAGCATACG
*
16269661 GGGTTCACATAGTAAACCAAGTA
1 GGGTTCACATAGTAAAACAAGTA
* * * *
16269684 GGGTTCGCAT-GTTTAGACATGTA
1 GGGTTCACATAG-TAAAACAAGTA
* *
16269707 AGGTTCACATATTAAAACAAGTA
1 GGGTTCACATAGTAAAACAAGTA
* * *
16269730 GGGTTCACATGGCAAAACAAATA
1 GGGTTCACATAGTAAAACAAGTA
16269753 GGGTT
1 GGGTT
16269758 AGCATGTTAA
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
22 1 0.02
23 55 0.98
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (23 bp):
GGGTTCACATAGTAAAACAAGTA
Found at i:16272707 original size:30 final size:30
Alignment explanation
Indices: 16272650--16272711 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
16272640 AATTATGGGT
*
16272650 AAGTTTTCATTTTAGTCACTAAACTATTCAA
1 AAGTTTTCATTTAAGTCACTAAACTATT-AA
* *
16272681 AAGTTTTCA-TTAAGTCACTGAGCTATTAA
1 AAGTTTTCATTTAAGTCACTAAACTATTAA
16272710 AA
1 AA
16272712 TCAATGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 4 0.14
30 15 0.54
31 9 0.32
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (30 bp):
AAGTTTTCATTTAAGTCACTAAACTATTAA
Found at i:16276666 original size:3 final size:3
Alignment explanation
Indices: 16276658--16276699 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
16276648 AGGAAAGGCA
* *
16276658 AAT AAT AAT GAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16276700 GAGAACAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16276797 original size:12 final size:11
Alignment explanation
Indices: 16276763--16276817 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
16276753 TTAAATATGT
16276763 ATAAA-AATAA
1 ATAAATAATAA
* *
16276773 AGAAGTAATAA
1 ATAAATAATAA
16276784 ATAAATAGATAA
1 ATAAATA-ATAA
*
16276796 ATAGATAATAA
1 ATAAATAATAA
16276807 A-AAAGTAATAA
1 ATAAA-TAATAA
16276818 TAATACAGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
10 5 0.14
11 21 0.58
12 10 0.28
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:16276944 original size:4 final size:4
Alignment explanation
Indices: 16276935--16277033 Score: 60
Period size: 4 Copynumber: 24.8 Consensus size: 4
16276925 ATTAAAATAA
* * * ** *
16276935 AAAT AAAT AAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT AAGC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* ** *
16276982 AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT ATGT AAAT AAAA AAAT
1 AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
16277031 AAA
1 AAA
16277034 AGGAAAGAGT
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
3 7 0.10
4 59 0.83
5 5 0.07
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:16276965 original size:23 final size:24
Alignment explanation
Indices: 16276909--16276967 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
16276899 GCAATAACAA
*
16276909 ATAAATGAATAAAGGAATTAAAAT
1 ATAAATAAATAAAGGAATTAAAAT
* * *
16276933 AAAAATAAATAAATGAA-TAATAT
1 ATAAATAAATAAAGGAATTAAAAT
16276956 ATAAATAAATAA
1 ATAAATAAATAA
16276968 GTAAATAAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (24 bp):
ATAAATAAATAAAGGAATTAAAAT
Done.