Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 70 of 297
Found at i:24901530 original size:18 final size:18
Alignment explanation
Indices: 24901509--24901587 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
24901499 TATTTATTTA
* *
24901509 GTAACAGTCAGTTATTCG
1 GTAACAATCAATTATTCG
*
24901527 GTAACAATCAATTATTCA
1 GTAACAATCAATTATTCG
* * *
24901545 ATAATAAT-AAGTTATTCA
1 GTAACAATCAA-TTATTCG
* *
24901563 GTAACAATTAAATTATTCA
1 GTAACAA-TCAATTATTCG
24901582 GTAACA
1 GTAACA
24901588 GTCGATCTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
17 2 0.04
18 33 0.65
19 14 0.27
20 2 0.04
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (18 bp):
GTAACAATCAATTATTCG
Found at i:24901542 original size:36 final size:37
Alignment explanation
Indices: 24901502--24901590 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 37
24901492 GAACGATTAT
* * *
24901502 TTATTTAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * * *
24901538 TTATTCAATAATAATAAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
24901575 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
24901591 GATCTTTCCA
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
36 26 0.63
37 15 0.37
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:24901580 original size:19 final size:18
Alignment explanation
Indices: 24901520--24901587 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
24901510 TAACAGTCAG
* *
24901520 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATAAA
* * *
24901538 TTATTCAATAATAATAAG
1 TTATTCAGTAACAATAAA
24901556 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TAAA
24901575 TTATTCAGTAACA
1 TTATTCAGTAACA
24901588 GTCGATCTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 25 0.61
19 16 0.39
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATAAA
Found at i:24901766 original size:47 final size:47
Alignment explanation
Indices: 24901715--24901827 Score: 163
Period size: 47 Copynumber: 2.4 Consensus size: 47
24901705 CAGTAACAGT
* * * *
24901715 AACAGTAGCAATATGGTACACAGAGTACCTCATCGGAATAAATCCGG
1 AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
*
24901762 AACAGTAACAATACGGTACACAGAGTACCTCATTGGAACAAATCCGA
1 AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
*
24901809 AACAGTAACAGTAACGGTA
1 AACAGTAACAAT-ACGGTA
24901828 ACAATATCCG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 53 0.90
48 6 0.10
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (47 bp):
AACAGTAACAATACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:24904553 original size:10 final size:10
Alignment explanation
Indices: 24904540--24904574 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
24904530 ATATATGTAT
24904540 ATATCATGGC
1 ATATCATGGC
24904550 ATATCATGTGC
1 ATATCATG-GC
24904561 ATATCATGGC
1 ATATCATGGC
24904571 ATAT
1 ATAT
24904575 TATGTACCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:24904564 original size:21 final size:21
Alignment explanation
Indices: 24904540--24904579 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24904530 ATATATGTAT
24904540 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
24904561 ATATCATGGCATATTATGT
1 ATATCATGGCATATCATGT
24904580 ACCTCAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:24920983 original size:71 final size:71
Alignment explanation
Indices: 24920901--24921718 Score: 1593
Period size: 71 Copynumber: 11.5 Consensus size: 71
24920891 CTAATTAACT
*
24920901 AAACTCAATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24920966 TTTGGA
66 TTTGGA
**
24920972 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATC-CACCTAAAGAAATTTGAGGAAAATACT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACA-GAAAAGAAATTTGAGGAAAATACT
24921036 TTTTGGA
65 TTTTGGA
24921043 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921108 TTTGGA
66 TTTGGA
24921114 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921179 TTTGGA
66 TTTGGA
24921185 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921250 TTTGGA
66 TTTGGA
24921256 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921321 TTTGGA
66 TTTGGA
24921327 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921392 TTTGGA
66 TTTGGA
24921398 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921463 TTTGGA
66 TTTGGA
24921469 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921534 TTTGGA
66 TTTGGA
24921540 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921605 TTTGGA
66 TTTGGA
24921611 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
24921676 TTTGGA
66 TTTGGA
24921682 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATC
1 AAACTCGATTGATTAAGACAATACCTAAGGAAAAATC
24921719 CACCTAGACT
Statistics
Matches: 740, Mismatches: 5, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
70 2 0.00
71 736 0.99
72 2 0.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (71 bp):
AAACTCGATTGATTAAGACAATACCTAAGGAAAAATCACAGAAAAGAAATTTGAGGAAAATACTT
TTTGGA
Found at i:24924027 original size:19 final size:19
Alignment explanation
Indices: 24923990--24924027 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24923980 ACCTGTCAGA
*
24923990 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
24924009 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
24924028 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:24943459 original size:40 final size:40
Alignment explanation
Indices: 24943398--24943480 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 40
24943388 AGTGTCGTAC
* * * * *
24943398 ATAGCCGAAGCTATCTTAAATCGCACATTAATTGCCATAT
1 ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCACAT
* *
24943438 ATAGCTGAAGCTATGTCAAATCACACACTAAGTGCCACAT
1 ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCACAT
24943478 ATA
1 ATA
24943481 TCTAATTTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCAAATCACACACTAAGTGCCACAT
Found at i:24944287 original size:27 final size:26
Alignment explanation
Indices: 24944260--24944321 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 26
24944250 TTTAAATTTA
24944260 ATTAACCATTAATAATCAATTTAC--
1 ATTAACCATTAATAATCAATTTACTT
24944284 -TTAACCATTAATAATCAATTTACTT
1 ATTAACCATTAATAATCAATTTACTT
*
24944309 ATTTAACCTTTAA
1 A-TTAACCATTAA
24944322 AACATTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 23 0.70
27 10 0.30
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTAACCATTAATAATCAATTTACTT
Found at i:24944306 original size:23 final size:23
Alignment explanation
Indices: 24944254--24944309 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
24944244 GTTTTTTTTA
*
24944254 AATTTAATTAACCATTAATAATC
1 AATTTACTTAACCATTAATAATC
24944277 AATTTACTTAACCATTAATAATC
1 AATTTACTTAACCATTAATAATC
24944300 AATTTACTTA
1 AATTTACTTA
24944310 TTTAACCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTTACTTAACCATTAATAATC
Found at i:24946588 original size:43 final size:43
Alignment explanation
Indices: 24946540--24946631 Score: 118
Period size: 43 Copynumber: 2.1 Consensus size: 43
24946530 AGTAATACCA
* *
24946540 TGGCATCGATATGTGATTCCGA-GTAAGACC-CTGTCTGGGACAG-
1 TGGCATCGATATGTGACTAC-ATGTAAGACCAC-GTCTGGGAC-GT
24946583 TGGCATCGATATGTGACTACATGTAAGACCACGTCTGGGACGT
1 TGGCATCGATATGTGACTACATGTAAGACCACGTCTGGGACGT
24946626 TGGCAT
1 TGGCAT
24946632 TGTACGATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
42 2 0.05
43 41 0.93
44 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
TGGCATCGATATGTGACTACATGTAAGACCACGTCTGGGACGT
Found at i:24948348 original size:19 final size:20
Alignment explanation
Indices: 24948324--24948361 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
24948314 GGTACCACCA
24948324 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
24948343 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
24948362 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:24948701 original size:93 final size:93
Alignment explanation
Indices: 24948591--24948761 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
24948581 GCCCCTAAGT
* *
24948591 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24948656 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
24948684 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24948749 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24948762 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24948758 original size:46 final size:46
Alignment explanation
Indices: 24948586--24948758 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
24948576 AACCCGCCCC
* * * *
24948586 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
24948632 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
24948680 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
24948725 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
24948759 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:24949215 original size:30 final size:30
Alignment explanation
Indices: 24949181--24949240 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24949171 ATTTAATACG
24949181 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
24949211 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
24949241 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:24953794 original size:30 final size:30
Alignment explanation
Indices: 24953744--24953803 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24953734 AATCTCGAGT
*
24953744 TCCCCACACTAGCTGTAGAAGTAGTCTGAG
1 TCCCCACACTAGCTGCAGAAGTAGTCTGAG
* * *
24953774 TCCCTACACTGGCTGCAGAAGTATTCTGAG
1 TCCCCACACTAGCTGCAGAAGTAGTCTGAG
24953804 ATTTAGGACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (30 bp):
TCCCCACACTAGCTGCAGAAGTAGTCTGAG
Found at i:24955967 original size:19 final size:20
Alignment explanation
Indices: 24955943--24955980 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
24955933 GGTACCACCA
24955943 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
24955962 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
24955981 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:24956321 original size:93 final size:93
Alignment explanation
Indices: 24956210--24956380 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
24956200 GCCCCTAAGT
* * * *
24956210 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24956275 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
24956303 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
24956368 CGAGTTCGGATGC
66 CGAGTTCGGATGC
24956381 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:24956370 original size:46 final size:46
Alignment explanation
Indices: 24956205--24956374 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
24956195 AACCCGCCCC
* * * * * *
24956205 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
* * * *
24956251 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GAC-ATTTGCATCCA
* *
24956299 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
24956344 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
24956375 GGATGCTCAA
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 3 0.03
46 54 0.53
47 26 0.26
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
Found at i:24956834 original size:30 final size:30
Alignment explanation
Indices: 24956800--24956859 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
24956790 ATTTAATACG
24956800 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
24956830 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
24956860 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:24958956 original size:15 final size:16
Alignment explanation
Indices: 24958929--24958965 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
24958919 ATTATTTTGT
24958929 TATA-TGTTCTATATA
1 TATATTGTTCTATATA
24958944 TATATTGTT-TATATA
1 TATATTGTTCTATATA
24958959 TATATTG
1 TATATTG
24958966 GATTAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (16 bp):
TATATTGTTCTATATA
Found at i:24965256 original size:43 final size:43
Alignment explanation
Indices: 24965208--24965299 Score: 118
Period size: 43 Copynumber: 2.1 Consensus size: 43
24965198 AGTAATACCA
* *
24965208 TGGCATCGATATGTGATTCCGA-GTAAGACC-CTGTCTGGGACAG-
1 TGGCATCGATATGTGACTAC-ATGTAAGACCAC-GTCTGGGAC-GT
24965251 TGGCATCGATATGTGACTACATGTAAGACCACGTCTGGGACGT
1 TGGCATCGATATGTGACTACATGTAAGACCACGTCTGGGACGT
24965294 TGGCAT
1 TGGCAT
24965300 TGTACGATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
42 2 0.05
43 41 0.93
44 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (43 bp):
TGGCATCGATATGTGACTACATGTAAGACCACGTCTGGGACGT
Found at i:24966937 original size:43 final size:43
Alignment explanation
Indices: 24966857--24966948 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 43
24966847 AGTAAGGCCA
* * *
24966857 TGGCATCGATATGTGATTCCGAGTAAGACCCTGTCTGGGACAG-
1 TGGCATCGATATGTGACTACGAGTAAGACCCTATCTGGGAC-GT
24966900 TGGCATCGATATGTGACTAC-ATGTAAGACCAC-ATCTGGGACGT
1 TGGCATCGATATGTGACTACGA-GTAAGACC-CTATCTGGGACGT
24966943 TGGCAT
1 TGGCAT
24966949 TGTACGATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
42 2 0.05
43 40 0.93
44 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (43 bp):
TGGCATCGATATGTGACTACGAGTAAGACCCTATCTGGGACGT
Found at i:24968704 original size:42 final size:46
Alignment explanation
Indices: 24968641--24968805 Score: 144
Period size: 49 Copynumber: 3.6 Consensus size: 46
24968631 CTTTGTTTAC
** * * *
24968641 TCGATGTCATAGTTCAACTATGGTCTTATAC-AT-C-T-TCATATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
24968683 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
* * *
24968732 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATAACATATCTCA-C
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATCACATA
* * *
24968779 T-GATGCCATATCCCAGATATGGTCTTA
1 TCGATGTCATAGCCCAGCTATGGTCTTA
24968806 TACAGTAGCA
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
42 27 0.26
45 2 0.02
46 24 0.23
47 2 0.02
48 13 0.12
49 36 0.35
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (46 bp):
TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:24968744 original size:49 final size:48
Alignment explanation
Indices: 24968682--24968852 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 48
24968672 ATCTTCATAT
* *
24968682 ATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * *
24968730 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATAACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * *
24968778 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* * *
24968824 ACCAATGCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
24968853 TACGGAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 26 0.25
47 35 0.33
48 12 0.11
49 32 0.30
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:24969022 original size:31 final size:31
Alignment explanation
Indices: 24968878--24969010 Score: 194
Period size: 31 Copynumber: 4.3 Consensus size: 31
24968868 TCACTTGTAA
* *
24968878 CCGAAGTTACCACTATTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* *
24968909 CCGGAGCTACCATTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
* * *
24968940 TCGGAGCTACCATTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
*
24968971 CAGAAGCTACCACTTTTCACTGATCAGGTAG
1 CCGAAGCTACCACTTTTCACTGATCAGGTAG
24969002 CCGAAGCTA
1 CCGAAGCTA
24969011 TTACTTATCA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 92 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (31 bp):
CCGAAGCTACCACTTTTCACTGATCAGGTAG
Found at i:24973046 original size:17 final size:17
Alignment explanation
Indices: 24973024--24973056 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24973014 CGAATGAGTT
24973024 CAAAATTTCTTGGTACG
1 CAAAATTTCTTGGTACG
24973041 CAAAATTTCTTGGTAC
1 CAAAATTTCTTGGTAC
24973057 ACATATTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (17 bp):
CAAAATTTCTTGGTACG
Found at i:24977998 original size:40 final size:40
Alignment explanation
Indices: 24977954--24978036 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
24977944 AGTTCTGTAC
* *
24977954 ATAGCCGAAGCTATCTTAAAT-AGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATATTAAATCA-CACACTAAGTGCCACAT
*
24977994 ATAGCCGAAGCTATATTGAATCACACACTAAGTGCCACAT
1 ATAGCCGAAGCTATATTAAATCACACACTAAGTGCCACAT
24978034 ATA
1 ATA
24978037 TCTAATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (40 bp):
ATAGCCGAAGCTATATTAAATCACACACTAAGTGCCACAT
Found at i:24980683 original size:42 final size:42
Alignment explanation
Indices: 24980636--24980797 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
24980626 TGTGATTTCG
24980636 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
* *
24980678 TGTAAGACCATGTCTGGGACATTAGCATCGATATGAGATTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
* * *
24980720 TATAAGACCATAGT-TGGG-CTATTGGCATCGATAT-ACTATAACA
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATATGA-GAT-TCA
* * *
24980763 TGTAAGACCATATCTGGGATA-TGGCATTG-TATGAG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAG
24980798 TTATACGAGA
Statistics
Matches: 101, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 5 0.05
42 78 0.77
43 18 0.18
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCA
Found at i:24991837 original size:46 final size:45
Alignment explanation
Indices: 24991787--24991962 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
24991777 TGGTTGAGCA
24991787 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
24991833 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
24991880 TCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
24991926 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24991963 GCGAGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:24991943 original size:93 final size:93
Alignment explanation
Indices: 24991784--24991954 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
24991774 GGATGGTTGA
* *
24991784 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24991849 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
24991877 GCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24991942 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24991955 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:24995261 original size:24 final size:23
Alignment explanation
Indices: 24995228--24995273 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
24995218 AATGAATCGA
24995228 CAAAAGCCAAAATGCCGAAAAGT
1 CAAAAGCCAAAATGCCGAAAAGT
24995251 CAAAACGCCAAAATGCCGAAAAG
1 CAAAA-GCCAAAATGCCGAAAAG
24995274 CCTAAAGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.52, C:0.24, G:0.17, T:0.07
Consensus pattern (23 bp):
CAAAAGCCAAAATGCCGAAAAGT
Found at i:24995545 original size:29 final size:29
Alignment explanation
Indices: 24995503--24995608 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
24995493 ATAATATGAT
* *
24995503 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAGTGGGCCATATAAATGTGAA
* *
24995532 TTGGGCCTAGTGGGCCATAAAAATATGAA
1 TTGGGCCTAGTGGGCCATATAAATGTGAA
* * *
24995561 CTGGGCC-AGATGGGCCATATAAATGAG-T
1 TTGGGCCTAG-TGGGCCATATAAATGTGAA
* *
24995589 TTGGGCCCAGTGGGTCATAT
1 TTGGGCCTAGTGGGCCATAT
24995609 GCATGTATGT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 17 0.27
29 47 0.73
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGTGGGCCATATAAATGTGAA
Found at i:24995903 original size:26 final size:26
Alignment explanation
Indices: 24995870--24995920 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
24995860 GCCATAATTA
* *
24995870 AGGG-AAAATTACCGAAATACCCCTG
1 AGGGAAAAATGACCAAAATACCCCTG
24995895 AGGGTAAAAATGACCAAAATACCCCT
1 AGGG-AAAAATGACCAAAATACCCCT
24995921 AGGTGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
27 18 0.82
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (26 bp):
AGGGAAAAATGACCAAAATACCCCTG
Found at i:24996688 original size:16 final size:17
Alignment explanation
Indices: 24996657--24996689 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24996647 TTTAAGAAGA
24996657 GTTTTCAATGAAAACAC
1 GTTTTCAATGAAAACAC
*
24996674 GTTTTCACT-AAAACAC
1 GTTTTCAATGAAAACAC
24996690 TTCAATGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (17 bp):
GTTTTCAATGAAAACAC
Found at i:25005431 original size:39 final size:39
Alignment explanation
Indices: 25005344--25005432 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
25005334 AGCTTATGGG
* * *
25005344 TAAGTTGTGTATCAGCAAAGCTCCTTTGTGAGCTAAGAA
1 TAAGTTGTGTACCAGCAAAGCTCCCTTGTAAGCTAAGAA
*
25005383 TAAGATGTGTACCAGCAAAGCTCCCTTGTAAGCTAAGAA
1 TAAGTTGTGTACCAGCAAAGCTCCCTTGTAAGCTAAGAA
*
25005422 TAATTTGTGTA
1 TAAGTTGTGTA
25005433 TTAGTGAAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (39 bp):
TAAGTTGTGTACCAGCAAAGCTCCCTTGTAAGCTAAGAA
Found at i:25012557 original size:27 final size:27
Alignment explanation
Indices: 25012527--25012704 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25012517 ATATTGAGTC
* * * *
25012527 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
25012554 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25012581 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
25012609 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
25012636 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
25012663 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
25012690 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25012705 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:25012666 original size:82 final size:81
Alignment explanation
Indices: 25012548--25012703 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25012538 TGCTATATAA
* *
25012548 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
25012613 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25012630 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
25012694 CACTTAGTGC
65 CACTTAGTGC
25012704 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25013205 original size:12 final size:12
Alignment explanation
Indices: 25013188--25013213 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25013178 ATGGCATACT
25013188 TATGTATATATA
1 TATGTATATATA
25013200 TATGTATATATA
1 TATGTATATATA
25013212 TA
1 TA
25013214 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:25014744 original size:49 final size:50
Alignment explanation
Indices: 25014555--25014749 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 50
25014545 CTATTGTGAT
* * *
25014555 GTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TTAG
* * * * * * **
25014606 ATCATGTGTGTAGTACTAAGTGAAGGCTACTACGTGCATCAGATGGTTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAG
* * *
25014656 GTCACGTGTGTAGTACTAAGTGGAGGCTACTACGTGTACCGGATAATT-G
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAG
* * * *
25014705 GTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGATA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
25014750 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 39 0.33
50 43 0.36
51 36 0.31
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTAG
Found at i:25016072 original size:47 final size:48
Alignment explanation
Indices: 25015986--25016110 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 48
25015976 GTGTTGCAGC
* ***
25015986 CAGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCTACGAGATGATTTT
1 CAGTGTAAGACCGTGTCTGGGACATGGCATCGAGCTACGAGAT-ATGAG
*
25016032 CAGTGTAAGACCGTGTCTGGGACATGGCATCGA-CT-TGAGATATGAG
1 CAGTGTAAGACCGTGTCTGGGACATGGCATCGAGCTACGAGATATGAG
* *
25016078 CTACTGTAAGACAGTGTCTGGGACATGGCATCG
1 C-AGTGTAAGACCGTGTCTGGGACATGGCATCG
25016111 GCACCTTACC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
46 13 0.19
47 47 0.69
48 7 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
CAGTGTAAGACCGTGTCTGGGACATGGCATCGAGCTACGAGATATGAG
Found at i:25023933 original size:95 final size:95
Alignment explanation
Indices: 25023831--25024735 Score: 771
Period size: 96 Copynumber: 9.3 Consensus size: 95
25023821 TATTTGAATA
25023831 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATTGATGAATGTGAAAGTGTATATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATTGATGAATGTGAAAGTGTATATAT
* *
25023896 ATGTGATAAGGCCTAATGG-CAGATATGATG
66 ATGTGATAAGGCCGAATGGCCA-ATGTGATG
25023926 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATTGATGAATGTGAAAGTGTATATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATTGATGAATGTGAAAGTGTATATAT
* *
25023991 ATGTGATAAGGCCTAATGGCCGATGTGATG
66 ATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25024021 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATCGATG--TGATGAATGTGAATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATTGATGAATG-TGAAAGTG--TATA
25024084 TATATGTGATAAGGCCGAATGGCCAATGTGATG
63 TATATGTGATAAGGCCGAATGGCCAATGTGATG
25024117 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAAT-TGATGAATGTGAAAGTGTATA
25024182 TATATGTGATAAGGCCGAATGGCCAATGTGATG
63 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * * * *
25024215 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTACA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAA-TTGATGAATGTGAAAGTGTATATA
* *
25024279 -ATGTGATAAGTCCCGAA-GGGC-AT-T--TG
65 TATGTGATAAG-GCCGAATGGCCAATGTGATG
* * ** * * ** ** *
25024305 --TGT--CAGTACTATATCCGGGTTAAAACCCCGCAGGCTTTATGCGAGAGTATTATCCTGATTA
1 AATGTGAAAGT-GTATAT--ATGTGATAAGGCCG-A------AT--G-G-CCA--AT--TGATGA
* * * * * * * **
25024366 ATGTCCGTAA-TGTGAAAGTGTATAT-ATATATG-TGATAAGGCCTAATG-GCCG
48 ATGT--GAAAGTGT-ATA-TATATGTGATA-AGGCCGA-ATGGCC-AATGTGATG
* *
25024417 ATGTGATGAATGTGAATGTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAG
1 A-ATG-TG-A----AA-GTGTATATATGTGATAAGGCCGAATGGCCAAT-TGATGAATGTGAAAG
25024482 TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
57 TGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
25024519 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATATGATGAATGTGAAAGTG--T
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA-AT-TGATGAATGTGAAAGTGTAT
* *
25024581 ATATATGTGATAAGGCCTAATGGCCGATGTGATG
62 ATATATGTGATAAGGCCGAATGGCCAATGTGATG
* **
25024615 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-AATTGATGAATGTGAAAGTGTATATA
* * * *
25024678 TATGTGACAGGGCCGAGTGGCCAACGTGATG
65 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25024709 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
25024736 CCCCGAAGGG
Statistics
Matches: 668, Mismatches: 78, Indels: 129
0.76 0.09 0.15
Matches are distributed among these distances:
86 3 0.00
87 5 0.01
88 3 0.00
89 7 0.01
90 3 0.00
92 1 0.00
93 4 0.01
94 118 0.18
95 147 0.22
96 180 0.27
98 79 0.12
99 6 0.01
100 10 0.01
101 8 0.01
102 16 0.02
103 14 0.02
104 3 0.00
105 8 0.01
106 4 0.01
107 13 0.02
108 9 0.01
110 3 0.00
111 1 0.00
112 2 0.00
114 2 0.00
115 2 0.00
116 1 0.00
120 1 0.00
121 8 0.01
123 5 0.01
124 2 0.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (95 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:25023944 original size:49 final size:49
Alignment explanation
Indices: 25023831--25024288 Score: 662
Period size: 49 Copynumber: 9.6 Consensus size: 49
25023821 TATTTGAATA
25023831 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAAT-TGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25023877 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATATGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCA-ATGTGATG
25023926 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAAT-TGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25023972 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
25024021 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCC-A---ATGTGATG
25024072 AATGTG-AA---TATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
25024117 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
25024166 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
25024215 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
25024262 GATGTGAAAGTGTACA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
25024289 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 14, Indels: 39
0.88 0.03 0.09
Matches are distributed among these distances:
45 14 0.04
46 31 0.08
47 102 0.27
48 56 0.15
49 159 0.42
50 2 0.01
51 14 0.04
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:25024445 original size:25 final size:25
Alignment explanation
Indices: 25024417--25024591 Score: 70
Period size: 25 Copynumber: 7.3 Consensus size: 25
25024407 CTAATGGCCG
*
25024417 ATGTGATGAATGTGAATGTGTGTAT
1 ATGTGATGAATGTGAATGTGTATAT
* * **
25024442 ATGTGAT-AAGGCCGAATG-G-CCA-
1 ATGTGATGAATG-TGAATGTGTATAT
*
25024464 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAATGTGTATAT
* * **
25024489 ATGTGAT-AAGGCCGAATG-G-CCA-
1 ATGTGATGAATG-TGAATGTGTATAT
*
25024511 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTG-AA-TGTGTATAT
* * *
25024538 ATGTGAT-AAGGCCT-AATG-GCAGAT
1 ATGTGATGAATG--TGAATGTGTATAT
*
25024562 A--TGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAATGTGTATAT
25024585 ATGTGAT
1 ATGTGAT
25024592 AAGGCCTAAT
Statistics
Matches: 104, Mismatches: 27, Indels: 38
0.62 0.16 0.22
Matches are distributed among these distances:
21 1 0.01
22 26 0.25
23 19 0.18
24 15 0.14
25 29 0.28
26 6 0.06
27 7 0.07
28 1 0.01
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (25 bp):
ATGTGATGAATGTGAATGTGTATAT
Found at i:25024461 original size:47 final size:47
Alignment explanation
Indices: 25024390--25024735 Score: 521
Period size: 47 Copynumber: 7.3 Consensus size: 47
25024380 AAAGTGTATA
*
25024390 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
25024437 TGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
25024484 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
25024531 TATATATATGTGATAAGGCCTAATGGCAGATATGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
25024580 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
25024627 TATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
25024674 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
25024721 TATAAATGTGATAAG
1 TATATATGTGATAAG
25024736 CCCCGAAGGG
Statistics
Matches: 276, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 233 0.84
49 43 0.16
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:25024470 original size:22 final size:22
Alignment explanation
Indices: 25024442--25024517 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
25024432 ATGTGTGTAT
25024442 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
25024464 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
25024488 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
25024511 ATGTGAT
1 ATGTGAT
25024518 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:25024650 original size:143 final size:143
Alignment explanation
Indices: 25024374--25024735 Score: 532
Period size: 143 Copynumber: 2.5 Consensus size: 143
25024364 TAATGTCCGT
* * *
25024374 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATGTGTG
1 AATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTA
25024439 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
64 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGA
*
25024504 ATGGCCAATGTGATG
129 ATGGCCAACGTGATG
*
25024519 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATATGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATA
* * *
25024584 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
25024649 GGCCGACGTGATG
131 GGCCAACGTGATG
* * * * * *
25024662 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCA-ACGTGATGGATGTGAAAGTGTAT
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGTGATGAATGTGAAAGTGTAT
*
25024724 AAATGTGATAAG
65 ATATGTGATAAG
25024736 CCCCGAAGGG
Statistics
Matches: 199, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
141 51 0.26
142 2 0.01
143 134 0.67
145 12 0.06
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
GGCCAACGTGATG
Found at i:25024955 original size:37 final size:37
Alignment explanation
Indices: 25024854--25024955 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
25024844 CCGAGCTCTA
*
25024854 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
25024891 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
25024928 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
25024956 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:25042291 original size:44 final size:42
Alignment explanation
Indices: 25042264--25042367 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 42
25042254 AATTGAAATG
*
25042264 GCACTAAGTGTGCAGAATCGTTCTAGCTTTGGCTAACCCTTAAA
1 GCACTAAGTGTGCAGAATCGTTCTAGCTTTAGCTAA--CTTAAA
* *
25042308 GCACTAAGTGTGCAGAATCGTTTTAGCTTTGGCTAACCCTTAAA
1 GCACTAAGTGTGCAGAATCGTTCTAGCTTTAGCTAA--CTTAAA
25042352 GCACTAAGTGTGCAGA
1 GCACTAAGTGTGCAGA
25042368 TGTTAAAGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (42 bp):
GCACTAAGTGTGCAGAATCGTTCTAGCTTTAGCTAACTTAAA
Found at i:25056082 original size:41 final size:41
Alignment explanation
Indices: 25056009--25056239 Score: 250
Period size: 41 Copynumber: 5.7 Consensus size: 41
25055999 AATACTTAAT
* * * * *
25056009 ATCTCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
* * *
25056050 ATCTTGCACACTGAGTGCCATATATAGTCGAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
* * *
25056091 ATCTCGCACACTAAGTGCTAGATGTAGTCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
* ** * *
25056132 ATCTTGCACACTAAGTGGTATATGTAGCCGAAGCTATCTCG
1 ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
*
25056173 ATCTCGCACACTAAGTGCCATATATA-TCTGAAGCTATGTC-
1 ATCTCGCACACTAAGTGCCATATATAGTC-GAAGCTATCTCG
** * *
25056213 AAATCACACACTAAGTGCCACATATAG
1 ATCTCGCACACTAAGTGCCATATATAG
25056240 CTGAATTGTC
Statistics
Matches: 160, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
40 23 0.14
41 137 0.86
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGTCGAAGCTATCTCG
Found at i:25067207 original size:11 final size:12
Alignment explanation
Indices: 25067175--25067216 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
25067165 ATTTCAACAT
25067175 ATAAATAAAGATA
1 ATAAATAAA-ATA
25067188 A-AAATAAAATA
1 ATAAATAAAATA
25067199 ATAAA-AAAATA
1 ATAAATAAAATA
25067210 A-AAATAA
1 ATAAATAA
25067217 TAGGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.11
11 13 0.48
12 10 0.37
13 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (12 bp):
ATAAATAAAATA
Found at i:25067213 original size:17 final size:16
Alignment explanation
Indices: 25067187--25067218 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
25067177 AAATAAAGAT
25067187 AAAAATAAAATAATAA
1 AAAAATAAAATAATAA
25067203 AAAAATAAAAATAATA
1 AAAAAT-AAAATAATA
25067219 GGTGTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAAATAAAATAATAA
Found at i:25068821 original size:46 final size:46
Alignment explanation
Indices: 25068771--25068899 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
25068761 TGATTGAGCA
*
25068771 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
25068817 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
25068863 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25068900 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:25069251 original size:22 final size:22
Alignment explanation
Indices: 25069225--25069268 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25069215 TACATATGAA
25069225 CTTACTAAGCATTTATGCTTAC
1 CTTACTAAGCATTTATGCTTAC
25069247 CTTACTAAGCATTTATGCTTAC
1 CTTACTAAGCATTTATGCTTAC
25069269 TCCCTCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (22 bp):
CTTACTAAGCATTTATGCTTAC
Found at i:25075413 original size:27 final size:27
Alignment explanation
Indices: 25075383--25075534 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
25075373 ATATTAAGTC
* *
25075383 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
25075410 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
25075438 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
25075465 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
25075492 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
*
25075520 CGAACACTTAGTGCT
1 CGCACACTTAGTGCT
25075535 GTACAATTTA
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 70 0.61
28 44 0.39
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:25075451 original size:55 final size:54
Alignment explanation
Indices: 25075383--25075534 Score: 223
Period size: 55 Copynumber: 2.8 Consensus size: 54
25075373 ATATTAAGTC
* *
25075383 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
25075438 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
*
25075492 CGCACACTTAGTGCTACATAGTCCAACTCGAACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
25075535 GTACAATTTA
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 25 0.29
55 62 0.71
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:25075520 original size:82 final size:82
Alignment explanation
Indices: 25075383--25075534 Score: 241
Period size: 82 Copynumber: 1.9 Consensus size: 82
25075373 ATATTAAGTC
* * *
25075383 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGAACACTTA
25075448 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
25075465 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGAACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGAACACTTA
25075530 GTGCT
66 GTGCT
25075535 GTACAATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGAACACTTA
GTGCTACATAGTCAATT
Found at i:25093358 original size:13 final size:13
Alignment explanation
Indices: 25093340--25093369 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
25093330 CCACTAACAC
25093340 ATTAGACTTACGA
1 ATTAGACTTACGA
25093353 ATTAGACTTACGA
1 ATTAGACTTACGA
25093366 ATTA
1 ATTA
25093370 ACGATAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATTAGACTTACGA
Found at i:25093391 original size:31 final size:31
Alignment explanation
Indices: 25093353--25093413 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
25093343 AGACTTACGA
25093353 ATTAGACTTACGAATTAACGATAACTAACAC
1 ATTAGACTTACGAATTAACGATAACTAACAC
*
25093384 ATTAGACTTACGAATTAATGATAACTAACA
1 ATTAGACTTACGAATTAACGATAACTAACA
25093414 TAAATCCACG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.28
Consensus pattern (31 bp):
ATTAGACTTACGAATTAACGATAACTAACAC
Found at i:25093542 original size:27 final size:27
Alignment explanation
Indices: 25093512--25093703 Score: 276
Period size: 27 Copynumber: 7.1 Consensus size: 27
25093502 ACGTTTATTT
* * *
25093512 TACCCTAGAAGGGTATCTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* *
25093539 TACCCTACAAGGGTATTTCAGTATTTC
1 TACCCTACAGGGGTATTTCAGTAATTC
* * *
25093566 TACCCTACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
25093593 TATCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
25093620 TACCCTACAGGGGGATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
25093647 TACCCTACAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
*
25093674 TACCTTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCAGTAATTC
25093701 TAC
1 TAC
25093704 AACTTATCCA
Statistics
Matches: 149, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCAGTAATTC
Found at i:25096051 original size:43 final size:42
Alignment explanation
Indices: 25096003--25096167 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
25095993 AGCTCGTATA
*
25096003 ATGCCAACGTCCCAGATATGGTCTCACATGTAATCAAATAAGG
1 ATGCCAACGTCCCAGATATGGTCTTACATGTAATCAAAT-AGG
* * * * *
25096046 ATGCC-ACTGTCTCAGATAGGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAGATATGGTCTTACATGTAATCAAATAGG
* * *
25096088 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAAAT-CG
1 ATGCCAACGTCCCAGATATGGTCTTACATGT-AA--TCAAATAGG
* ** *
25096132 ATGCCAATGTCCCAGACGTGGTCTTACATGAAATCA
1 ATGCCAACGTCCCAGATATGGTCTTACATGTAATCA
25096168 CATATCGAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 27 0.26
43 36 0.35
44 30 0.29
45 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGATATGGTCTTACATGTAATCAAATAGG
Found at i:25101830 original size:7 final size:7
Alignment explanation
Indices: 25101818--25101855 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
25101808 AAATTAAAGT
25101818 AAAATCC
1 AAAATCC
25101825 AAAATCC
1 AAAATCC
*
25101832 AAAGTCC
1 AAAATCC
25101839 ACAAA-CC
1 A-AAATCC
25101846 AAAATCC
1 AAAATCC
25101853 AAA
1 AAA
25101856 CAGTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.11
7 22 0.81
8 2 0.07
ACGTcount: A:0.58, C:0.29, G:0.03, T:0.11
Consensus pattern (7 bp):
AAAATCC
Found at i:25104628 original size:50 final size:49
Alignment explanation
Indices: 25104472--25104695 Score: 163
Period size: 46 Copynumber: 4.8 Consensus size: 49
25104462 TTCTTTGTGT
* *
25104472 GCCAGTGTAAGA-CATGTATGGGACAT-GCATCGGC-CTCGA-G-ATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGAATG--A
* ** * *
25104518 GCCAGTGAAAGA-CATGTCTGGGACA-CACATTGGCTAC--G-TG-ATGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACTTGATGAATGA
* *
25104562 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TGAT-ACGTGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGA-ATGA
** * *
25104610 GAACTTGTGTAAGACCATGTCTGGGAAATGGCATC--AACTTGATGAATGA
1 G--CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGAATGA
*
25104659 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
25104696 TTATACCCTA
Statistics
Matches: 139, Mismatches: 23, Indels: 29
0.73 0.12 0.15
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 41 0.29
47 29 0.21
48 6 0.04
49 9 0.06
50 29 0.21
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (49 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTTGATGAATGA
Found at i:25104688 original size:47 final size:48
Alignment explanation
Indices: 25104564--25104692 Score: 147
Period size: 50 Copynumber: 2.7 Consensus size: 48
25104554 CGTGATGTGT
* *
25104564 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATACGTGAGAAC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-GAACTGATACATGAG-AC
** *
25104614 TTGTGTAAGACCATGTCTGGGAAATGGCATC-AACTTGATGA-ATGAG-C
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGAAC-TGAT-ACATGAGAC
*
25104661 CAGTGTAAGACCATGTTTGGGACATGGCATCG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG
25104693 GCATTATACC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
47 28 0.42
48 2 0.03
49 8 0.12
50 29 0.43
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGAACTGATACATGAGAC
Found at i:25109973 original size:6 final size:6
Alignment explanation
Indices: 25109962--25109994 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
25109952 AAATTTTGAA
*
25109962 AAAAAT AAAAAT AAAAAT AAAAGT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
25109995 TTCTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:25112211 original size:22 final size:23
Alignment explanation
Indices: 25112178--25112220 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
25112168 TTGCCGAAAT
25112178 TTATCAAAATTAATCAAAATTTA
1 TTATCAAAATTAATCAAAATTTA
*
25112201 TTAT-AAAATTAATTAAAATT
1 TTATCAAAATTAATCAAAATT
25112221 AAAAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
TTATCAAAATTAATCAAAATTTA
Found at i:25113551 original size:34 final size:35
Alignment explanation
Indices: 25113513--25113590 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 35
25113503 AGTAACAGTC
* *
25113513 CAGTAACAGTTATG-GCCTTAGCCCAATACAGTAT
1 CAGTAACAGATATGAGCCTTAGCCCAATACAGTAG
* * *
25113547 CAGTAGCA-ATGTGAGCCTTAGCCCATTACAGTAG
1 CAGTAACAGATATGAGCCTTAGCCCAATACAGTAG
*
25113581 CTGTAACAGA
1 CAGTAACAGA
25113591 AATGCAATCA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
33 3 0.09
34 31 0.89
35 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (35 bp):
CAGTAACAGATATGAGCCTTAGCCCAATACAGTAG
Found at i:25115782 original size:13 final size:13
Alignment explanation
Indices: 25115764--25115789 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25115754 GCTCGACAGG
25115764 GACACGCCCGTGT
1 GACACGCCCGTGT
25115777 GACACGCCCGTGT
1 GACACGCCCGTGT
25115790 ACGATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:25128446 original size:28 final size:29
Alignment explanation
Indices: 25128415--25128475 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
25128405 GGGAGCATGA
* *
25128415 ATAT-AAGGTGATTTGGGCCTAACGGGTC
1 ATATAAAGATGATTTGGGCCTAACGGGCC
*
25128443 ATATAAAGATGATTTGGGCCTAATGGGCC
1 ATATAAAGATGATTTGGGCCTAACGGGCC
25128472 ATAT
1 ATAT
25128476 GAATATGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 4 0.14
29 25 0.86
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATAAAGATGATTTGGGCCTAACGGGCC
Found at i:25128483 original size:29 final size:29
Alignment explanation
Indices: 25128423--25128533 Score: 98
Period size: 29 Copynumber: 3.8 Consensus size: 29
25128413 GAATATAAGG
* * * * *
25128423 TGATTTGGGCCTAACGGGTCATATAAAGA
1 TGATTTGAGCCTAATGGGCCATATGAATA
*
25128452 TGATTTGGGCCTAATGGGCCATATGAATA
1 TGATTTGAGCCTAATGGGCCATATGAATA
* * * * *
25128481 TGAATTCAGCCTGATGGTCCATATGAATG
1 TGATTTGAGCCTAATGGGCCATATGAATA
*
25128510 TGAATTT-AGCCTGATGGGCCATAT
1 TG-ATTTGAGCCTAATGGGCCATAT
25128534 AAATGAAACT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
29 66 0.96
30 3 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (29 bp):
TGATTTGAGCCTAATGGGCCATATGAATA
Found at i:25128538 original size:29 final size:29
Alignment explanation
Indices: 25128460--25128538 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
25128450 GATGATTTGG
* *
25128460 GCCTAATGGGCCATATGAATATGAATTCA
1 GCCTGATGGGCCATATGAATGTGAATTCA
* *
25128489 GCCTGATGGTCCATATGAATGTGAATTTA
1 GCCTGATGGGCCATATGAATGTGAATTCA
*
25128518 GCCTGATGGGCCATATAAATG
1 GCCTGATGGGCCATATGAATG
25128539 AAACTGGGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
GCCTGATGGGCCATATGAATGTGAATTCA
Found at i:25130885 original size:28 final size:28
Alignment explanation
Indices: 25130845--25130912 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
25130835 ATATTAAGTC
* *
25130845 CGCACACTCAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25130873 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
25130901 CGCCACACTTAG
1 CG-CACACTTAG
25130913 CGCCAATCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 28 0.76
29 9 0.24
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25131061 original size:92 final size:92
Alignment explanation
Indices: 25130904--25131071 Score: 336
Period size: 92 Copynumber: 1.8 Consensus size: 92
25130894 TCAAACTCGC
25130904 CACACTTAGCGCCAATCTCATGATCGTAAATGTTTATACCCGCACACTTAGTGCCGAGATCAACA
1 CACACTTAGCGCCAATCTCATGATCGTAAATGTTTATACCCGCACACTTAGTGCCGAGATCAACA
25130969 ACTCAATACATGTACAATTTAAACCCG
66 ACTCAATACATGTACAATTTAAACCCG
25130996 CACACTTAGCGCCAATCTCATGATCGTAAATGTTTATACCCGCACACTTAGTGCCGAGATCAACA
1 CACACTTAGCGCCAATCTCATGATCGTAAATGTTTATACCCGCACACTTAGTGCCGAGATCAACA
25131061 ACTCAATACAT
66 ACTCAATACAT
25131072 CTCACTTCTT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (92 bp):
CACACTTAGCGCCAATCTCATGATCGTAAATGTTTATACCCGCACACTTAGTGCCGAGATCAACA
ACTCAATACATGTACAATTTAAACCCG
Found at i:25134386 original size:18 final size:19
Alignment explanation
Indices: 25134353--25134401 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
25134343 CAGTAGTGGG
25134353 CCAAGGTGGTGCTCA-GCCA
1 CCAAGG-GGTGCTCACGCCA
*
25134372 CCAAGGGGTGGTCAGCTGCCA
1 CCAAGGGGTGCTCA-C-GCCA
25134393 CCAAGGGGT
1 CCAAGGGGT
25134402 CGTGGGTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 7 0.27
19 6 0.23
21 13 0.50
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (19 bp):
CCAAGGGGTGCTCACGCCA
Found at i:25137222 original size:40 final size:40
Alignment explanation
Indices: 25137033--25137215 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
25137023 GAATGATGTT
* * * *
25137033 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * * *
25137073 CAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
25137113 TGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
25137152 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
25137192 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
25137216 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.28
40 76 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:25137237 original size:79 final size:79
Alignment explanation
Indices: 25137084--25137248 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
25137074 AGACTAAGAT
* * **
25137084 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
25137149 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
25137163 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
25137226 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
25137242 CCGAAGG
1 CCGAAGG
25137249 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:25144561 original size:40 final size:40
Alignment explanation
Indices: 25144517--25144704 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
25144507 GCAAACACAT
* *
25144517 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25144557 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25144597 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25144637 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25144677 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
25144705 TCCAATGCTC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:25153054 original size:40 final size:40
Alignment explanation
Indices: 25153010--25153277 Score: 491
Period size: 40 Copynumber: 6.7 Consensus size: 40
25153000 GCAAACACAT
* *
25153010 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25153050 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25153090 TTGCCTTCGGGTCCTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25153130 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25153170 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
25153210 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
25153250 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
25153278 TCCAATGCTC
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:25153901 original size:74 final size:74
Alignment explanation
Indices: 25153818--25153969 Score: 295
Period size: 74 Copynumber: 2.1 Consensus size: 74
25153808 TAAATTACTT
*
25153818 ATAACTGGAGCTACTAAACTCCAAATCACTTGCCGTTAATTTTCCCTGAATATAGACTCGTATAT
1 ATAACTGGAGCTACAAAACTCCAAATCACTTGCCGTTAATTTTCCCTGAATATAGACTCGTATAT
25153883 CTTCCATCC
66 CTTCCATCC
25153892 ATAACTGGAGCTACAAAACTCCAAATCACTTGCCGTTAATTTTCCCTGAATATAGACTCGTATAT
1 ATAACTGGAGCTACAAAACTCCAAATCACTTGCCGTTAATTTTCCCTGAATATAGACTCGTATAT
25153957 CTTCCATCC
66 CTTCCATCC
25153966 ATAA
1 ATAA
25153970 AATTTTCAGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (74 bp):
ATAACTGGAGCTACAAAACTCCAAATCACTTGCCGTTAATTTTCCCTGAATATAGACTCGTATAT
CTTCCATCC
Found at i:25157022 original size:79 final size:79
Alignment explanation
Indices: 25156891--25157049 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
25156881 TTTTTGTACC
25156891 AATAAGACAGGAACGGCACAAGGACTTAGGCTCTCACGAATGTACCCTTTGTCTAGTAATTCCTC
1 AATAAGACAGGAACGGCACAAGGACTTAGGCTCTCACGAATGTACCCTTTGTCTAGTAATTCCTC
25156956 AACTTGCCTTTGCA
66 AACTTGCCTTTGCA
25156970 AATAAGACAGGAACGGCACAAGGACTTAGGCTCTCACGAATGTACCCTTTGTCTAGTAATTCCTC
1 AATAAGACAGGAACGGCACAAGGACTTAGGCTCTCACGAATGTACCCTTTGTCTAGTAATTCCTC
25157035 AACTTGCCTTTGCA
66 AACTTGCCTTTGCA
25157049 A
1 A
25157050 TTCCTTTGTC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (79 bp):
AATAAGACAGGAACGGCACAAGGACTTAGGCTCTCACGAATGTACCCTTTGTCTAGTAATTCCTC
AACTTGCCTTTGCA
Found at i:25159239 original size:65 final size:65
Alignment explanation
Indices: 25159130--25159258 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 65
25159120 AATTAAGTAT
* *
25159130 GGCTAAAATTTTGTTCGGGTCAACTCGAATACCCGATGCGGATACTACATGACCCAAGAAGCTAG
1 GGCTAAAATTTTGCTCGGGTCAACTCGAATACCCGATGCGGATACCACATGACCCAAGAAGCTAG
* *
25159195 GGCTGAAATTTTGCTCGGGTCAGCTCGAATACCCGATGCGGATACCACATGACCCAAGAAGCTA
1 GGCTAAAATTTTGCTCGGGTCAACTCGAATACCCGATGCGGATACCACATGACCCAAGAAGCTA
25159259 ACCTCTCTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (65 bp):
GGCTAAAATTTTGCTCGGGTCAACTCGAATACCCGATGCGGATACCACATGACCCAAGAAGCTAG
Found at i:25161353 original size:323 final size:323
Alignment explanation
Indices: 25160765--25161410 Score: 1157
Period size: 323 Copynumber: 2.0 Consensus size: 323
25160755 CTGGCAACCG
*
25160765 AAGTGCCTCGTGTACCCACAGGGGGTCGATCACGATCTCGTCTAAAAAGGTCCGAAGTGCCTCTA
1 AAGTGCCTCGTGTACCCACAGGGGGTCGATCACGATCTCGTCTAAAAAGGCCCGAAGTGCCTCTA
* * * *
25160830 AACTGGGCCGCATCATCTCGAAATTTCTTCGATGCCTGTTGAAGAGACTTTCCCGAAGATCTTTT
66 AACTGGCCCGCATCATCTCGAAATCTCTTCGATGCCTGTTGAAGAGACCTCCCCGAAGATCTTTT
* * * *
25160895 ATGAAACTCTCCAGTTCCCACATTAACTTTTTGTTTTTCTTTTCTAAGCTCTTCGGCTTTACAAG
131 ACGAAACTCTCCAGTTCCCACATCAACTCTTTGCTTTTCTTTTCTAAGCTCTTCGGCTTTACAAG
*
25160960 CTCGCTCGACAAGTACTACGAACTCTCGTATTTCAAGAACGCCAACGAACATTTTTATATCTTCA
196 CTCGCTCAACAAGTACTACGAACTCTCGTATTTCAAGAACGCCAACGAACATTTTTATATCTTCA
25161025 TTCAGCCCATCCTCGAAGCGTTTACACATAATAGCCTCGGACGAAACACATTCCCGAGCGTAT
261 TTCAGCCCATCCTCGAAGCGTTTACACATAATAGCCTCGGACGAAACACATTCCCGAGCGTAT
25161088 AAGTGCCTCGTGTACCCACAGGGGGTCGATCACGATCTCGTCTAAAAAGGCCCGAAGTGCCTCTA
1 AAGTGCCTCGTGTACCCACAGGGGGTCGATCACGATCTCGTCTAAAAAGGCCCGAAGTGCCTCTA
* *
25161153 AACTGGCCCGCATCATCTCGAAATCTCTTCGATGTCTGTTGAAGAGACCTCCCCGAGGATCTTTT
66 AACTGGCCCGCATCATCTCGAAATCTCTTCGATGCCTGTTGAAGAGACCTCCCCGAAGATCTTTT
* *
25161218 ACGAAACTCTCCAGTTCCCTCGTCAACTCTTTGCTTTTCTTTTCTAAGCTCTTCGGCTTTACAAG
131 ACGAAACTCTCCAGTTCCCACATCAACTCTTTGCTTTTCTTTTCTAAGCTCTTCGGCTTTACAAG
*
25161283 CTCGTTCAACAAGTACTACGAACTCTCGTATTTCAAGAACGCCAACGAACATTTTTATATCTTCA
196 CTCGCTCAACAAGTACTACGAACTCTCGTATTTCAAGAACGCCAACGAACATTTTTATATCTTCA
25161348 TTCAGCCCATCCTCGAAGCGTTTACACATAATAGCCTCGGACGAAACACATTCCCGAGCGTAT
261 TTCAGCCCATCCTCGAAGCGTTTACACATAATAGCCTCGGACGAAACACATTCCCGAGCGTAT
25161411 CTACTAAGTC
Statistics
Matches: 308, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
323 308 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (323 bp):
AAGTGCCTCGTGTACCCACAGGGGGTCGATCACGATCTCGTCTAAAAAGGCCCGAAGTGCCTCTA
AACTGGCCCGCATCATCTCGAAATCTCTTCGATGCCTGTTGAAGAGACCTCCCCGAAGATCTTTT
ACGAAACTCTCCAGTTCCCACATCAACTCTTTGCTTTTCTTTTCTAAGCTCTTCGGCTTTACAAG
CTCGCTCAACAAGTACTACGAACTCTCGTATTTCAAGAACGCCAACGAACATTTTTATATCTTCA
TTCAGCCCATCCTCGAAGCGTTTACACATAATAGCCTCGGACGAAACACATTCCCGAGCGTAT
Found at i:25163688 original size:39 final size:39
Alignment explanation
Indices: 25163567--25164520 Score: 1689
Period size: 39 Copynumber: 24.3 Consensus size: 39
25163557 GCTCCTCGTT
* *
25163567 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
25163607 CAAATGCCTTCGGGACTTAACCC-AAATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAA-TTAGTATCTCGCA
25163647 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
25163686 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCA
25163726 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
25163765 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCA
25163805 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
25163844 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGTATCTCGCA
25163884 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25163923 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25163962 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164001 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164040 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164079 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164118 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164157 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164196 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164235 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164274 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164313 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164352 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164391 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164430 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164469 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
25164508 CAAATGCCTTCGG
1 CAAATGCCTTCGG
25164521 ATCTTAGTCC
Statistics
Matches: 881, Mismatches: 26, Indels: 15
0.96 0.03 0.02
Matches are distributed among these distances:
39 726 0.82
40 154 0.17
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:25166053 original size:62 final size:62
Alignment explanation
Indices: 25165983--25166106 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
25165973 CGGCAATGGG
25165983 GAGGGGAAGAAACAATTACACACACCCTTTCCTTTTTCCATTTCTTTATTCCCCATACTTCT
1 GAGGGGAAGAAACAATTACACACACCCTTTCCTTTTTCCATTTCTTTATTCCCCATACTTCT
*
25166045 GAGGGGAAGAAACAATTACACACATCCTTTCCTTTTTCCATTTCTTTATTCCCCATACTTCT
1 GAGGGGAAGAAACAATTACACACACCCTTTCCTTTTTCCATTTCTTTATTCCCCATACTTCT
25166107 TATTATATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (62 bp):
GAGGGGAAGAAACAATTACACACACCCTTTCCTTTTTCCATTTCTTTATTCCCCATACTTCT
Found at i:25171083 original size:24 final size:24
Alignment explanation
Indices: 25171051--25171104 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
25171041 AGAGTCCGCC
25171051 GGCGCTGTCCCTTGTGCGGGAGCA
1 GGCGCTGTCCCTTGTGCGGGAGCA
25171075 GGCGCTGTCCCTTGTGCGGGAGCA
1 GGCGCTGTCCCTTGTGCGGGAGCA
25171099 GGCGCT
1 GGCGCT
25171105 ACACTCTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.07, C:0.30, G:0.43, T:0.20
Consensus pattern (24 bp):
GGCGCTGTCCCTTGTGCGGGAGCA
Found at i:25175363 original size:20 final size:20
Alignment explanation
Indices: 25175338--25175377 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
25175328 AAACCTTCAA
* *
25175338 TTTTCTATTTTTTTTCTTTC
1 TTTTCTACTTTCTTTCTTTC
*
25175358 TTTTCTCCTTTCTTTCTTTC
1 TTTTCTACTTTCTTTCTTTC
25175378 CTTCCCCTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTCTACTTTCTTTCTTTC
Found at i:25175532 original size:121 final size:121
Alignment explanation
Indices: 25175391--25175633 Score: 486
Period size: 121 Copynumber: 2.0 Consensus size: 121
25175381 CCCCTGCTTC
25175391 ACGTTTGCCTATTCTGTTTCTTTTCTTTCTTTTTGTTTTGTTTTATATCTATATATAATATAACA
1 ACGTTTGCCTATTCTGTTTCTTTTCTTTCTTTTTGTTTTGTTTTATATCTATATATAATATAACA
25175456 TTATTTATACTTAAATGATAAGTAATATTTATTTATTAATTACACATGTGTATATG
66 TTATTTATACTTAAATGATAAGTAATATTTATTTATTAATTACACATGTGTATATG
25175512 ACGTTTGCCTATTCTGTTTCTTTTCTTTCTTTTTGTTTTGTTTTATATCTATATATAATATAACA
1 ACGTTTGCCTATTCTGTTTCTTTTCTTTCTTTTTGTTTTGTTTTATATCTATATATAATATAACA
25175577 TTATTTATACTTAAATGATAAGTAATATTTATTTATTAATTACACATGTGTATATG
66 TTATTTATACTTAAATGATAAGTAATATTTATTTATTAATTACACATGTGTATATG
25175633 A
1 A
25175634 TTAGTACATA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.53
Consensus pattern (121 bp):
ACGTTTGCCTATTCTGTTTCTTTTCTTTCTTTTTGTTTTGTTTTATATCTATATATAATATAACA
TTATTTATACTTAAATGATAAGTAATATTTATTTATTAATTACACATGTGTATATG
Found at i:25180698 original size:23 final size:21
Alignment explanation
Indices: 25180647--25180698 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
25180637 AGTGACTAAA
*
25180647 ACGACACATGAGATGCCTGAT
1 ACGACACACGAGATGCCTGAT
* * *
25180668 TCGGCACACGAGGTGCCTGAAAT
1 ACGACACACGAGATGCCTG--AT
25180691 ACGACACA
1 ACGACACA
25180699 TAAAGTGCCT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 15 0.65
23 8 0.35
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.15
Consensus pattern (21 bp):
ACGACACACGAGATGCCTGAT
Found at i:25180917 original size:16 final size:17
Alignment explanation
Indices: 25180890--25180923 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25180880 ATACATACAC
*
25180890 ATTCTCCATTCAATTCA
1 ATTCTCCATTCAACTCA
25180907 ATTCT-CATTCAACTCA
1 ATTCTCCATTCAACTCA
25180923 A
1 A
25180924 ATATCAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCTCCATTCAACTCA
Found at i:25181551 original size:16 final size:16
Alignment explanation
Indices: 25181515--25181570 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
25181505 TTTATTTCAT
25181515 ATTATAAT-A-TAAT-
1 ATTATAATAATTAATA
25181528 ATTAATAATAATTAATA
1 ATT-ATAATAATTAATA
25181545 ATTATAATAATTTAATA
1 ATTATAATAA-TTAATA
*
25181562 TTTA-AATAA
1 ATTATAATAA
25181571 ATATCTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 3 0.08
14 5 0.14
15 1 0.03
16 16 0.43
17 12 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTATAATAATTAATA
Found at i:25181570 original size:19 final size:17
Alignment explanation
Indices: 25181518--25181563 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
25181508 ATTTCATATT
*
25181518 ATAATATAATATTAATA
1 ATAATTTAATATTAATA
25181535 ATAA-TTAATAATT-ATA
1 ATAATTTAAT-ATTAATA
25181551 ATAATTTAATATT
1 ATAATTTAATATT
25181564 TAAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTAATATTAATA
Found at i:25182862 original size:23 final size:21
Alignment explanation
Indices: 25182811--25182862 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
25182801 AGTGACTAAA
*
25182811 ACGACACATGAGATGCCTGAT
1 ACGACACACGAGATGCCTGAT
* * *
25182832 TCGGCACACGAGGTGCCTGAAAT
1 ACGACACACGAGATGCCTG--AT
25182855 ACGACACA
1 ACGACACA
25182863 TAAAGTGCCT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 15 0.65
23 8 0.35
ACGTcount: A:0.33, C:0.27, G:0.25, T:0.15
Consensus pattern (21 bp):
ACGACACACGAGATGCCTGAT
Found at i:25183081 original size:16 final size:17
Alignment explanation
Indices: 25183054--25183087 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
25183044 ATACATACAC
*
25183054 ATTCTCCATTCAATTCA
1 ATTCTCCATTCAACTCA
25183071 ATTCT-CATTCAACTCA
1 ATTCTCCATTCAACTCA
25183087 A
1 A
25183088 ATATCAATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCTCCATTCAACTCA
Found at i:25183715 original size:16 final size:16
Alignment explanation
Indices: 25183679--25183734 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
25183669 TTTATTTCAT
25183679 ATTATAAT-A-TAAT-
1 ATTATAATAATTAATA
25183692 ATTAATAATAATTAATA
1 ATT-ATAATAATTAATA
25183709 ATTATAATAATTTAATA
1 ATTATAATAA-TTAATA
*
25183726 TTTA-AATAA
1 ATTATAATAA
25183735 ATATCTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
13 3 0.08
14 5 0.14
15 1 0.03
16 16 0.43
17 12 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTATAATAATTAATA
Found at i:25183734 original size:19 final size:17
Alignment explanation
Indices: 25183682--25183727 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
25183672 ATTTCATATT
*
25183682 ATAATATAATATTAATA
1 ATAATTTAATATTAATA
25183699 ATAA-TTAATAATT-ATA
1 ATAATTTAAT-ATTAATA
25183715 ATAATTTAATATT
1 ATAATTTAATATT
25183728 TAAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTAATATTAATA
Found at i:25184676 original size:6 final size:6
Alignment explanation
Indices: 25184662--25184708 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
25184652 AATTTTTCAA
* *
25184662 AAATGG AAATAG AAATGG AAAT-G ATAATAG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG A-AATGG AAATGG AAATGG AAATG
25184709 ATCCATTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 2 0.06
6 32 0.89
7 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:25187088 original size:6 final size:6
Alignment explanation
Indices: 25187040--25187177 Score: 88
Period size: 6 Copynumber: 23.0 Consensus size: 6
25187030 TAGCCCATTA
* * * ** * * *
25187040 CAGAAT AAGAAA CATAAT CAGAAT TGGAAC CAAAAT GAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT
*
25187088 CAGAAT CAGTAA- CAGAAT CAGAAT CAGAAT CA-ATAT TAGTAA- CAGAAT
1 CAGAAT CAG-AAT CAGAAT CAGAAT CAGAAT CAGA-AT CAG-AAT CAGAAT
* * *
25187136 TAGAAT CAG-AT CAGAAT TACGTGA- CAGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
25187178 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
5 11 0.11
6 80 0.82
7 5 0.05
8 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
CAGAAT
Found at i:25187091 original size:30 final size:29
Alignment explanation
Indices: 25187039--25187177 Score: 129
Period size: 30 Copynumber: 4.7 Consensus size: 29
25187029 TTAGCCCATT
* * * *
25187039 ACAGAATAAGAAACATAATCAGAATTGGA
1 ACAGAATCAGAATCAGAATCAGAATTGTA
* * *
25187068 ACCAAAATGAGAATCAGAATCAGAATCAGTA
1 A-CAGAATCAGAATCAGAATCAGAAT-TGTA
25187099 ACAGAATCAGAATCAGAATCA-ATATTAGTA
1 ACAGAATCAGAATCAGAATCAGA-ATT-GTA
* *
25187129 ACAGAATTAGAATCAG-ATCAGAATTACGTG
1 ACAGAATCAGAATCAGAATCAGAATT--GTA
25187159 ACAGAATCAGAATCAGAAT
1 ACAGAATCAGAATCAGAAT
25187178 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
29 9 0.10
30 76 0.84
31 5 0.06
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (29 bp):
ACAGAATCAGAATCAGAATCAGAATTGTA
Found at i:25187639 original size:27 final size:27
Alignment explanation
Indices: 25187605--25187710 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
25187595 AGGCATCTCG
*
25187605 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * * *
25187632 GTATTTCTACCGTATAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
*
25187659 GTAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
25187686 GTAATTCTACCCTACAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
25187711 TGATATTATA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:25187665 original size:54 final size:54
Alignment explanation
Indices: 25187602--25187710 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
25187592 ACAAGGCATC
* * * *
25187602 TCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCGTATAAGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
* *
25187656 TCGGTAATTCTACCCTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
25187710 T
1 T
25187711 TGATATTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATT
Found at i:25187761 original size:27 final size:27
Alignment explanation
Indices: 25187700--25187854 Score: 151
Period size: 27 Copynumber: 5.8 Consensus size: 27
25187690 TTCTACCCTA
*
25187700 CAGGGGTATTTTGAT-ATTATACAAAT
1 CAGGGGTATTTTGATAATTTTACAAAT
* *
25187726 C-GAGAGTATTTTGATAATTTCACAAAT
1 CAG-GGGTATTTTGATAATTTTACAAAT
*
25187753 CAGGGGTATTTT-AGTAATTTTACAAAC
1 CAGGGGTATTTTGA-TAATTTTACAAAT
25187780 CAGGGGTATTTT-AGTAATTTTACAAA-
1 CAGGGGTATTTTGA-TAATTTTACAAAT
* **
25187806 CTAGGGGTATTTTGGTAATTTTACTGAT
1 C-AGGGGTATTTTGATAATTTTACAAAT
*
25187834 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTTGATAATTTT
25187855 GTAAACTAAG
Statistics
Matches: 112, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.01
26 15 0.13
27 94 0.84
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGATAATTTTACAAAT
Found at i:25187841 original size:54 final size:53
Alignment explanation
Indices: 25187675--25187871 Score: 168
Period size: 54 Copynumber: 3.7 Consensus size: 53
25187665 CTACCCTATA
* * ** * *
25187675 AGGGTATTTCAGTAATTCTACCCTAC-AGGGGTATTTTGAT-ATTATACAAATCG
1 AGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATTTTAC-AATCG
* * * * *
25187728 AGAGTATTTT-GATAATTTCACAAA-TCAGGGGTATTTTAGTAATTTTACAAACC
1 AGGGTATTTTAG-TAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAATCG
*
25187781 AGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACTGATCG
1 A-GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAC-AATCG
* ** *
25187836 AGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTT
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTT
25187872 CAATAATTTT
Statistics
Matches: 115, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
52 3 0.03
53 30 0.26
54 77 0.67
55 5 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAATCG
Found at i:25187866 original size:27 final size:27
Alignment explanation
Indices: 25187756--25187886 Score: 120
Period size: 27 Copynumber: 4.9 Consensus size: 27
25187746 CACAAATCAG
* * *
25187756 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTATAAACTAA
* *
25187783 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTAGTAATTTTATAAACTAA
* * * *
25187810 GGGTATTTTGGTAATTTTACTGATC-GA
1 GGGTATTTTAGTAATTTTA-TAAACTAA
* *
25187837 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTAGTAATTTTATAAACTAA
* * *
25187864 GGGTATTTCAATAATTTTGTAAA
1 GGGTATTTTAGTAATTTTATAAA
25187887 TCGAGGATAA
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.03
27 83 0.94
28 2 0.02
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTATAAACTAA
Found at i:25188055 original size:108 final size:108
Alignment explanation
Indices: 25187875--25188438 Score: 751
Period size: 108 Copynumber: 5.2 Consensus size: 108
25187865 GGTATTTCAA
* * ** * ** *
25187875 TAATTTTGTAAA-TCGAGGATAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
1 TAATTCTGTAAACT-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATA
* * * *
25187939 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG
65 AATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
* *
25187983 TAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTACAA
1 TAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAA
25188048 ATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
66 ATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
* *
25188091 TAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTACAA
1 TAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAA
25188156 ATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
66 ATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
* *
25188199 TAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAA
1 TAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAA
* ** * **
25188264 ACTGAGGGTAAAATGGTAATTCTGTAAA-CTGAGGGTAAAACGG
66 ATTGAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAAAATAG
* * * **
25188307 TAATTCGGTAAA-TCGAAGGTAAAATGGTAATTTTACAAATCGAGGGTAAAACT-GTAATTCTAT
1 TAATTCTGTAAACT-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCTAT
* * **
25188370 AAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGAGTAAAACGG
64 AAATTGAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAAAATAG
25188415 TAATTCTGTAAACTGAGGGTAAAA
1 TAATTCTGTAAACTGAGGGTAAAA
25188439 CGAGTAGTGA
Statistics
Matches: 413, Mismatches: 38, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
107 2 0.00
108 408 0.99
109 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (108 bp):
TAATTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATAA
ATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAG
Found at i:25188440 original size:27 final size:27
Alignment explanation
Indices: 25187875--25188438 Score: 649
Period size: 27 Copynumber: 20.9 Consensus size: 27
25187865 GGTATTTCAA
* * **
25187875 TAATTTTGTAAATCGAGGATAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
25187902 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
*
25187929 TAATTCTGTAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
25187956 TAATTTTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
25187983 TAATTCTGTAAA-CTGAGGGTAAAATGG
1 TAATTCTGTAAATC-GAGGGTAAAATGG
*
25188010 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* ** * **
25188037 TAATTTTACAAATTGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
25188064 TAATTCTATAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
25188091 TAATTCTGTAAA-CTGAGGGTAAAATGG
1 TAATTCTGTAAATC-GAGGGTAAAATGG
*
25188118 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* ** * **
25188145 TAATTTTACAAATTGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* *
25188172 TAATTCTATAAATCGAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
25188199 TAATTCTGTAAA-CTGAGGGTAAAATGG
1 TAATTCTGTAAATC-GAGGGTAAAATGG
25188226 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
25188253 TAATTCTGTAAA-CTGAGGGTAAAATGG
1 TAATTCTGTAAATC-GAGGGTAAAATGG
*
25188280 TAATTCTGTAAA-CTGAGGGTAAAACGG
1 TAATTCTGTAAATC-GAGGGTAAAATGG
* *
25188307 TAATTCGGTAAATCGAAGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* **
25188334 TAATTTTACAAATCGAGGGTAAAACT-G
1 TAATTCTGTAAATCGAGGGTAAAA-TGG
* **
25188361 TAATTCTATAAATCGAGGGTAAAACAG
1 TAATTCTGTAAATCGAGGGTAAAATGG
* * *
25188388 TAATTCTATAAA-CTGAGAGTAAAACGG
1 TAATTCTGTAAATC-GAGGGTAAAATGG
25188415 TAATTCTGTAAA-CTGAGGGTAAAA
1 TAATTCTGTAAATC-GAGGGTAAAA
25188439 CGAGTAGTGA
Statistics
Matches: 476, Mismatches: 50, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
26 5 0.01
27 466 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAATGG
Found at i:25199925 original size:43 final size:43
Alignment explanation
Indices: 25199846--25199968 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 43
25199836 AATGCTATAT
*
25199846 CCCAGATATGGTCTTACATGAGATCACATATCGATGCCAATAG
1 CCCAGATATGGTCTTACACGAGATCACATATCGATGCCAATAG
* *
25199889 CCCAGCTATGGTCTTACACGATG-TCTCATAAT-GATGCC-AT-G
1 CCCAGATATGGTCTTACACGA-GATCACAT-ATCGATGCCAATAG
* * * *
25199930 TACCAGACATGGTCTTACACAAAATCACATATCGATGCC
1 -CCCAGATATGGTCTTACACGAGATCACATATCGATGCC
25199969 GATGCCATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 3 0.05
42 30 0.45
43 30 0.45
44 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
CCCAGATATGGTCTTACACGAGATCACATATCGATGCCAATAG
Found at i:25199992 original size:48 final size:48
Alignment explanation
Indices: 25199921--25200138 Score: 244
Period size: 48 Copynumber: 4.6 Consensus size: 48
25199911 GTCTCATAAT
* *
25199921 GATGCCATGTACCAGACATGGTCTTACACAAAATCACATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACAAGATCACATATCGATGCC
* * ** * *
25199969 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACACGTTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACAAGATCACATATCGATGCC
* * * **
25200017 GATGCCATGTCCAAGACATGGTCTTACACTAACA-CACATATCAACCCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-AAGATCACATATCGATGCC
* * * *
25200065 GATGCCATGTCCCAGACATGGTCTTATAC--GATCTCATCTCGATTCC
1 GATGCCATGTCCCAGACATGGTCTTACACAAGATCACATATCGATGCC
*
25200111 AATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
25200139 TGGGATCTCA
Statistics
Matches: 140, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
45 1 0.01
46 35 0.25
48 103 0.74
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACAAGATCACATATCGATGCC
Found at i:25207316 original size:22 final size:23
Alignment explanation
Indices: 25207274--25207376 Score: 79
Period size: 22 Copynumber: 4.6 Consensus size: 23
25207264 CTGAGCCGAT
** *
25207274 AAACAGTAAGCTCAATTGAGCTG
1 AAACAGTAAGCTCCGTAGAGCTG
25207297 -AACAGTAAGCTCCGTAGAGCTG
1 AAACAGTAAGCTCCGTAGAGCTG
* *
25207319 AAATAGTAAGC-CCTTA-AGGACTG
1 AAACAGTAAGCTCCGTAGA-G-CTG
* * *
25207342 AAACGGTAAGCTCTGAAGAGCTG
1 AAACAGTAAGCTCCGTAGAGCTG
*
25207365 -AACGGTAAGCTC
1 AAACAGTAAGCTC
25207377 ATAAGAGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
21 1 0.02
22 36 0.55
23 24 0.37
24 3 0.05
25 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (23 bp):
AAACAGTAAGCTCCGTAGAGCTG
Found at i:25207350 original size:23 final size:22
Alignment explanation
Indices: 25207291--25207374 Score: 64
Period size: 23 Copynumber: 3.7 Consensus size: 22
25207281 AAGCTCAATT
* *
25207291 GAGCTGAACAGTAAGCTCC-GTA
1 GAGCTGAACGGTAAGC-CCTGAA
** *
25207313 GAGCTGAAATAGTAAGCCCTTAA
1 GAGCTG-AACGGTAAGCCCTGAA
*
25207336 G-GACTGAAACGGTAAGCTCTGAA
1 GAG-CTG-AACGGTAAGCCCTGAA
25207359 GAGCTGAACGGTAAGC
1 GAGCTGAACGGTAAGC
25207375 TCATAAGAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 19 0.37
23 31 0.61
24 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.18
Consensus pattern (22 bp):
GAGCTGAACGGTAAGCCCTGAA
Found at i:25207382 original size:22 final size:21
Alignment explanation
Indices: 25207275--25207388 Score: 72
Period size: 22 Copynumber: 5.1 Consensus size: 21
25207265 TGAGCCGATA
25207275 AACAGTAAGCTC-AATTGAGCTG
1 AACAGTAAGCTCTAA--GAGCTG
25207297 AACAGTAAGCTCCGT-AGAGCTG
1 AACAGTAAGCT-C-TAAGAGCTG
* *
25207319 AAATAGTAAGCCCTTAAG-GACTG
1 -AACAGTAAGCTC-TAAGAG-CTG
*
25207342 AAACGGTAAGCTCTGAAGAGCTG
1 -AACAGTAAGCTCT-AAGAGCTG
* *
25207365 AACGGTAAGCTCATAAGAGTTG
1 AACAGTAAGCTC-TAAGAGCTG
25207387 AA
1 AA
25207389 ACGATCAGCC
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
22 42 0.55
23 32 0.42
24 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (21 bp):
AACAGTAAGCTCTAAGAGCTG
Found at i:25208980 original size:35 final size:35
Alignment explanation
Indices: 25208884--25208988 Score: 102
Period size: 35 Copynumber: 3.0 Consensus size: 35
25208874 TTTCGGTAGG
* * * * * *
25208884 CATGCTTTACATGCAATTTAGAATCAGCATAGTGG
1 CATGCTTAACATGCAAATTAGAATTAGTATAATGA
* ** *
25208919 CATACTTAACATGCGTATTAGGATTAGTATAATGA
1 CATGCTTAACATGCAAATTAGAATTAGTATAATGA
*
25208954 CATGCTTAACATGCAAATCAGAATTAGTAATAATG
1 CATGCTTAACATGCAAATTAGAATTAGT-ATAATG
25208989 GTATATTTAA
Statistics
Matches: 54, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
35 48 0.89
36 6 0.11
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (35 bp):
CATGCTTAACATGCAAATTAGAATTAGTATAATGA
Found at i:25218449 original size:48 final size:42
Alignment explanation
Indices: 25218353--25218469 Score: 108
Period size: 48 Copynumber: 2.6 Consensus size: 42
25218343 AGTGATTTCG
***
25218353 TGTAAGACTATGTCTGGGACATGGCATCGATAGGAGATCTTG
1 TGTAAGACTATGTCTGGGACATGGCATCGATAGGAGATCCCA
* *
25218395 TATAAGACTATGTTTGGGACATGGCATCGGCATCAGCATGAGATCCCA
1 TGTAAGACTATGTCTGGGACATGGCATC-G-AT-AG---GAGATCCCA
* * *
25218443 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACTATGTCTGGGACATGGCAT
25218470 TAGCATCGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 26 0.44
43 1 0.02
44 2 0.03
45 2 0.03
48 28 0.47
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (42 bp):
TGTAAGACTATGTCTGGGACATGGCATCGATAGGAGATCCCA
Found at i:25221546 original size:24 final size:22
Alignment explanation
Indices: 25221505--25221548 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
25221495 AATTTATCAA
*
25221505 ATTTCATATACATGTATCATCC
1 ATTTCATATACATATATCATCC
25221527 ATTTCATATATCTATATATCAT
1 ATTTCATATA-C-ATATATCAT
25221549 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.34, C:0.18, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCATATACATATATCATCC
Found at i:25221800 original size:25 final size:25
Alignment explanation
Indices: 25221772--25221869 Score: 115
Period size: 25 Copynumber: 3.9 Consensus size: 25
25221762 GCTGAAGATC
* * *
25221772 GGTATACTTTTATGAGATATAAATT
1 GGTATACTCTTACGAGCTATAAATT
*
25221797 GGTATGCTCTTACGAGCTATAAATT
1 GGTATACTCTTACGAGCTATAAATT
* *
25221822 GATATACTCTCACGAGCTATAAATT
1 GGTATACTCTTACGAGCTATAAATT
* * *
25221847 GGTATGCTCTCACGAGCCATAAA
1 GGTATACTCTTACGAGCTATAAA
25221870 CCGGTAACCC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (25 bp):
GGTATACTCTTACGAGCTATAAATT
Found at i:25221875 original size:25 final size:25
Alignment explanation
Indices: 25221789--25221869 Score: 126
Period size: 25 Copynumber: 3.2 Consensus size: 25
25221779 TTTTATGAGA
*
25221789 TATAAATTGGTATGCTCTTACGAGC
1 TATAAATTGGTATGCTCTCACGAGC
* *
25221814 TATAAATTGATATACTCTCACGAGC
1 TATAAATTGGTATGCTCTCACGAGC
25221839 TATAAATTGGTATGCTCTCACGAGC
1 TATAAATTGGTATGCTCTCACGAGC
*
25221864 CATAAA
1 TATAAA
25221870 CCGGTAACCC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (25 bp):
TATAAATTGGTATGCTCTCACGAGC
Found at i:25232344 original size:40 final size:40
Alignment explanation
Indices: 25232261--25232523 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
25232251 TTGAATGCTG
* * * * * *
25232261 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
25232301 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
25232341 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
25232381 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
25232421 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25232461 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
25232500 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25232524 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 36 0.18
40 157 0.78
41 8 0.04
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:25236207 original size:59 final size:60
Alignment explanation
Indices: 25236136--25236258 Score: 196
Period size: 60 Copynumber: 2.1 Consensus size: 60
25236126 TTTTTTCTAG
*
25236136 TAGTTTTTACCACCTTTTTACTT-AAAATAATATTAATCCCG-TGTATTTGTTAATTAATT
1 TAGTTTTTACCACCTTTTTACTTAAAAATAATACTAATCCCGAT-TATTTGTTAATTAATT
* *
25236195 TAGTTTTTACCACCTTTTTACTTAAAAATAATGCTAATCTCGATTATTTGTTAATTAATT
1 TAGTTTTTACCACCTTTTTACTTAAAAATAATACTAATCCCGATTATTTGTTAATTAATT
25236255 TAGT
1 TAGT
25236259 GAAATTTGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
59 23 0.39
60 35 0.59
61 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (60 bp):
TAGTTTTTACCACCTTTTTACTTAAAAATAATACTAATCCCGATTATTTGTTAATTAATT
Found at i:25238107 original size:27 final size:27
Alignment explanation
Indices: 25238077--25238328 Score: 317
Period size: 27 Copynumber: 9.3 Consensus size: 27
25238067 TACTGAAATG
* *
25238077 CCCTCAATTTTTAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
25238104 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
25238131 CCTTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
25238158 CCCTCGATTTATAGAATTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
**
25238185 CCCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
25238212 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
25238239 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
25238266 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
25238293 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
25238320 CCCTCGATT
1 CCCTCGATT
25238329 GTGAAATTAC
Statistics
Matches: 200, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.00
27 198 0.99
28 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:25238192 original size:81 final size:80
Alignment explanation
Indices: 25238077--25238328 Score: 362
Period size: 81 Copynumber: 3.1 Consensus size: 80
25238067 TACTGAAATG
* * * *
25238077 CCCTCAATTTTTAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTCACCTTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTA-CGTTTTACCCTCGATTTA
25238142 CAAAATTACCGTTTTA
65 CAAAATTACCGTTTTA
*
25238158 CCCTCGATTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTAC-GTTTTACCCTCGATTTA
* *
25238223 TAAAATTACCATTTTA
65 CAAAATTACCGTTTTA
* * * *
25238239 CCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTC-AGTTT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTA-CGTTTTACCCTCGA-TTT
25238303 ACAAAATTACCGTTTTA
64 ACAAAATTACCGTTTTA
25238320 CCCTCGATT
1 CCCTCGATT
25238329 GTGAAATTAC
Statistics
Matches: 154, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
80 2 0.01
81 151 0.98
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.40
Consensus pattern (80 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACGTTTTACCCTCGATTTAC
AAAATTACCGTTTTA
Done.