Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 137 of 144
Found at i:42453622 original size:14 final size:15
Alignment explanation
Indices: 42453593--42453625 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
42453583 AAATTAATAA
*
42453593 TTTAATTCAAATATT
1 TTTAATACAAATATT
42453608 TTTAATACAAA-ATT
1 TTTAATACAAATATT
42453622 TTTA
1 TTTA
42453626 GTTTTGTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAATACAAATATT
Found at i:42454245 original size:29 final size:30
Alignment explanation
Indices: 42454181--42454246 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
42454171 ATTTGAACTT
* *
42454181 ATTTGATTCTTTTTAATAGTATAAGGACTA
1 ATTTGATTCTATTTAATAATATAAGGACTA
* *
42454211 AATTGATTC-ATTTAATAATATAAGGACTC
1 ATTTGATTCTATTTAATAATATAAGGACTA
42454240 ATTTGAT
1 ATTTGAT
42454247 CCAAACCTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 23 0.74
30 8 0.26
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (30 bp):
ATTTGATTCTATTTAATAATATAAGGACTA
Found at i:42455198 original size:17 final size:18
Alignment explanation
Indices: 42455178--42455254 Score: 77
Period size: 18 Copynumber: 4.4 Consensus size: 18
42455168 CGCAGTGTTT
*
42455178 GTGAGCTCGT-GATCTTG
1 GTGAGCTCGTACATCTTG
*
42455195 GTGAGCTCGCACAT-TTG
1 GTGAGCTCGTACATCTTG
* *
42455212 GTGAGTTCGTACATTTTG
1 GTGAGCTCGTACATCTTG
* **
42455230 GTGAGCTCATAGTTCTTG
1 GTGAGCTCGTACATCTTG
42455248 GTGAGCT
1 GTGAGCT
42455255 GTTCTGGTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
17 24 0.49
18 25 0.51
ACGTcount: A:0.16, C:0.17, G:0.31, T:0.36
Consensus pattern (18 bp):
GTGAGCTCGTACATCTTG
Found at i:42455216 original size:34 final size:34
Alignment explanation
Indices: 42455144--42455237 Score: 84
Period size: 34 Copynumber: 2.7 Consensus size: 34
42455134 GACAGGTCTA
* * * *
42455144 GTGAGCTC-TTATGCTTGGTGAGTTCGCAGTGTTT
1 GTGAGCTCGTCAT-CTTGGTGAGCTCGCAATGTTG
*
42455178 GTGAGCTCGTGATCTTGGTGAGCTCGCACAT-TTG
1 GTGAGCTCGTCATCTTGGTGAGCTCGCA-ATGTTG
* *
42455212 GTGAGTTCGTACATTTTGGTGAGCTC
1 GTGAGCTCGT-CATCTTGGTGAGCTC
42455238 ATAGTTCTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
34 33 0.66
35 17 0.34
ACGTcount: A:0.14, C:0.17, G:0.32, T:0.37
Consensus pattern (34 bp):
GTGAGCTCGTCATCTTGGTGAGCTCGCAATGTTG
Found at i:42455231 original size:18 final size:17
Alignment explanation
Indices: 42455192--42455237 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
42455182 GCTCGTGATC
42455192 TTGGTGAGCTCGCACAT
1 TTGGTGAGCTCGCACAT
* *
42455209 TTGGTGAGTTCGTACATT
1 TTGGTGAGCTCGCACA-T
42455227 TTGGTGAGCTC
1 TTGGTGAGCTC
42455238 ATAGTTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.37
Consensus pattern (17 bp):
TTGGTGAGCTCGCACAT
Found at i:42457777 original size:27 final size:27
Alignment explanation
Indices: 42457738--42457890 Score: 168
Period size: 27 Copynumber: 5.7 Consensus size: 27
42457728 GCACCGAGAC
* *
42457738 CCCCATAGGGTAAAATGACCGAAATTT
1 CCCCATAAGGTAAAATGACCGAAATAT
* * *
42457765 TCCTATAAGGTAAAATGACCGAAATAC
1 CCCCATAAGGTAAAATGACCGAAATAT
* *
42457792 CCCCATAAGGTAAAACGACCAAAATAT
1 CCCCATAAGGTAAAATGACCGAAATAT
42457819 CCCCAT-AGGATAAAATGACCGAAATA-
1 CCCCATAAGG-TAAAATGACCGAAATAT
* * *
42457845 CCCTAATAGGGTAAAATGACCGAAATAC
1 CCC-CATAAGGTAAAATGACCGAAATAT
*
42457873 CCCCA-AGGGTAAAATGAC
1 CCCCATAAGGTAAAATGAC
42457891 TGTTATACCC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
26 19 0.18
27 83 0.78
28 5 0.05
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
CCCCATAAGGTAAAATGACCGAAATAT
Found at i:42457833 original size:54 final size:53
Alignment explanation
Indices: 42457736--42457890 Score: 195
Period size: 54 Copynumber: 2.9 Consensus size: 53
42457726 CTGCACCGAG
* * *
42457736 ACCCCCATAGGGTAAAATGACCGAAATTTTCCTATAAGGTAAAATGACCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAATATCCCCAT-AGGTAAAATGACCGAAAT
* * *
42457790 ACCCCCATAAGGTAAAACGACCAAAATATCCCCATAGGATAAAATGACCGAAAT
1 ACCCCCATAGGGTAAAATGACCGAAATATCCCCATAGG-TAAAATGACCGAAAT
** *
42457844 ACCCTAATAGGGTAAAATGACCGAAATACCCCCA-AGGGTAAAATGAC
1 ACCCCCATAGGGTAAAATGACCGAAATATCCCCATA-GGTAAAATGAC
42457891 TGTTATACCC
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
53 13 0.15
54 74 0.85
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.17
Consensus pattern (53 bp):
ACCCCCATAGGGTAAAATGACCGAAATATCCCCATAGGTAAAATGACCGAAAT
Found at i:42457873 original size:81 final size:80
Alignment explanation
Indices: 42457738--42457886 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 80
42457728 GCACCGAGAC
* **
42457738 CCCCATAGGGTAAAATGACCGAAATTTTCCTATAAGGTAAAATGACCGAAATACCCCCATAAGGT
1 CCCCATAGGATAAAATGACCGAAATTACCCTATAAGGTAAAATGACCGAAATACCCCCA-AAGGT
42457803 AAAACGACCAAAATAT
65 AAAACGACCAAAATAT
* *
42457819 CCCCATAGGATAAAATGACCGAAA-TACCCTAATAGGGTAAAATGACCGAAATACCCCCAAGGGT
1 CCCCATAGGATAAAATGACCGAAATTACCCT-ATAAGGTAAAATGACCGAAATACCCCCAAAGGT
42457883 AAAA
65 AAAA
42457887 TGACTGTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 12 0.19
81 50 0.81
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.17
Consensus pattern (80 bp):
CCCCATAGGATAAAATGACCGAAATTACCCTATAAGGTAAAATGACCGAAATACCCCCAAAGGTA
AAACGACCAAAATAT
Found at i:42457898 original size:26 final size:26
Alignment explanation
Indices: 42457852--42457927 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
42457842 ATACCCTAAT
* **
42457852 AGGGTAAAATGACCGAAATACCCCCA
1 AGGGTAAAATGACTGTTATACCCCCA
*
42457878 AGGGTAAAATGACTGTTATA-CCCCT
1 AGGGTAAAATGACTGTTATACCCCCA
*
42457903 AGGAGATAAAATGATTGTTATACCC
1 AGG-G-TAAAATGACTGTTATACCC
42457928 TTAGGAGATG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 7 0.17
26 18 0.43
27 15 0.36
28 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (26 bp):
AGGGTAAAATGACTGTTATACCCCCA
Found at i:42457957 original size:27 final size:27
Alignment explanation
Indices: 42457882--42457950 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
42457872 CCCCCAAGGG
*
42457882 TAAAATGACTGTTATACCCCTAGGAGA
1 TAAAATGACTGTTATACCCTTAGGAGA
*
42457909 TAAAATGATTGTTATACCCTTAGGAGA
1 TAAAATGACTGTTATACCCTTAGGAGA
*
42457936 TGAAATGACTGTTAT
1 TAAAATGACTGTTAT
42457951 GGCCTTATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (27 bp):
TAAAATGACTGTTATACCCTTAGGAGA
Found at i:42463304 original size:17 final size:16
Alignment explanation
Indices: 42463284--42463329 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
42463274 GTTAGCGATC
42463284 TTGGTGAGCTCACATAT
1 TTGGTGAGCTCACAT-T
*
42463301 TTGGTGAGCTTGTACATT
1 TTGGTGAGC-T-CACATT
42463319 TTGGTGAGCTC
1 TTGGTGAGCTC
42463330 GTAGTTCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 10 0.40
18 11 0.44
19 4 0.16
ACGTcount: A:0.17, C:0.15, G:0.28, T:0.39
Consensus pattern (16 bp):
TTGGTGAGCTCACATT
Found at i:42470214 original size:18 final size:18
Alignment explanation
Indices: 42470176--42470211 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
42470166 TTATTATTTT
*
42470176 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
42470194 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
42470212 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:42480065 original size:43 final size:42
Alignment explanation
Indices: 42480004--42480168 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 42
42479994 GTTTTTGATA
* * *
42480004 TGTGTTTTCGTGTAAGACCACGTTTAGGACGTTGGCATCGACT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
* *
42480047 TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-AT
42480090 T-TGATTT--GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 TGTG-TTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* *
42480130 ATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
42480169 TGTACGAGTC
Statistics
Matches: 103, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
40 2 0.02
41 30 0.29
42 5 0.05
43 64 0.62
44 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (42 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:42480358 original size:16 final size:17
Alignment explanation
Indices: 42480329--42480360 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
42480319 TGAATTGATG
42480329 ATATGAAGTTATGTGAA
1 ATATGAAGTTATGTGAA
42480346 ATATGAA-TTATGTGA
1 ATATGAAGTTATGTGA
42480361 TTGCATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.38
Consensus pattern (17 bp):
ATATGAAGTTATGTGAA
Found at i:42483404 original size:15 final size:15
Alignment explanation
Indices: 42483384--42483423 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
42483374 TATAAAAGTA
42483384 TGTTATGTATATTAC
1 TGTTATGTATATTAC
*
42483399 TGTTATGTTTATTAC
1 TGTTATGTATATTAC
*
42483414 TATTATGTAT
1 TGTTATGTAT
42483424 GTTGTTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.57
Consensus pattern (15 bp):
TGTTATGTATATTAC
Found at i:42483552 original size:41 final size:41
Alignment explanation
Indices: 42483476--42483553 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
42483466 GAAATATGCT
*
42483476 TGTTATGTATGTCTATTGTTATTATGTTTGTTATGTAGGTA
1 TGTTATGTATGTCTATTGTTATTATATTTGTTATGTAGGTA
42483517 TGTTATGTATGTC-A-TGTTTATTACTATTATG-TATGTA
1 TGTTATGTATGTCTATTG-TTATTA-TATT-TGTTATGTA
42483554 ACTGTTATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
39 2 0.06
40 7 0.21
41 22 0.67
42 2 0.06
ACGTcount: A:0.22, C:0.04, G:0.19, T:0.55
Consensus pattern (41 bp):
TGTTATGTATGTCTATTGTTATTATATTTGTTATGTAGGTA
Found at i:42483613 original size:33 final size:33
Alignment explanation
Indices: 42483535--42483604 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
42483525 ATGTCATGTT
*
42483535 TATTACTATTATGTATGTAACTGTTATATGGTA
1 TATTACTTTTATGTATGTAACTGTTATATGGTA
* * *
42483568 TATTACTTTTATGTATGTGATTGTTATGTGGTA
1 TATTACTTTTATGTATGTAACTGTTATATGGTA
42483601 TATT
1 TATT
42483605 GTTGTTATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.04, G:0.17, T:0.53
Consensus pattern (33 bp):
TATTACTTTTATGTATGTAACTGTTATATGGTA
Found at i:42483626 original size:33 final size:34
Alignment explanation
Indices: 42483555--42483629 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 34
42483545 ATGTATGTAA
* * *
42483555 CTGTTATATGGTATATTACTTTTATGTATGTGAT
1 CTGTTATGTGGTATATTACTTTTATGAATATGAT
*
42483589 -TGTTATGTGGTATATT-GTTGTTATGAATATG-T
1 CTGTTATGTGGTATATTACTT-TTATGAATATGAT
42483621 CTGTTATGT
1 CTGTTATGT
42483630 ATGTTATGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 3 0.09
33 32 0.91
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.53
Consensus pattern (34 bp):
CTGTTATGTGGTATATTACTTTTATGAATATGAT
Found at i:42483664 original size:16 final size:15
Alignment explanation
Indices: 42483624--42483685 Score: 67
Period size: 16 Copynumber: 4.2 Consensus size: 15
42483614 AATATGTCTG
42483624 TTATGTATGTTATG-
1 TTATGTATGTTATGT
*
42483638 -TA-GTATTTTATTGT
1 TTATGTATGTTA-TGT
42483652 TTATGTATGTTATGT
1 TTATGTATGTTATGT
*
42483667 TTAATGAATGTTATGT
1 TT-ATGTATGTTATGT
42483683 TTA
1 TTA
42483686 GCACTGCTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 7 0.17
13 4 0.10
15 8 0.20
16 21 0.52
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (15 bp):
TTATGTATGTTATGT
Found at i:42483718 original size:13 final size:13
Alignment explanation
Indices: 42483700--42483724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42483690 TGCTTAAAAT
42483700 ATGTATGTATATC
1 ATGTATGTATATC
42483713 ATGTATGTATAT
1 ATGTATGTATAT
42483725 TACAGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
ATGTATGTATATC
Found at i:42490304 original size:27 final size:27
Alignment explanation
Indices: 42490274--42490350 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 27
42490264 CATATGACAA
*
42490274 ATGGTTTTATTTTGTTGGATCATTTTG
1 ATGGTTTTATTTTGTTGGATCATTCTG
*
42490301 ATGGATGATTTAATTTTGTTGAATCATTCTG
1 ATGG-T--TTT-ATTTTGTTGGATCATTCTG
* *
42490332 ATGGTTGTATTTTGATGGA
1 ATGGTTTTATTTTGTTGGA
42490351 AAATTTATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
27 13 0.32
28 3 0.07
30 4 0.10
31 21 0.51
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.52
Consensus pattern (27 bp):
ATGGTTTTATTTTGTTGGATCATTCTG
Found at i:42499990 original size:27 final size:26
Alignment explanation
Indices: 42499940--42500006 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
42499930 TTGCGTGGTT
* *
42499940 TCCATGATTGCTATCTTGGAGGACTA
1 TCCATGTTTACTATCTTGGAGGACTA
* * *
42499966 CTCTATTTTTACTATCTTGGTGGACTA
1 -TCCATGTTTACTATCTTGGAGGACTA
42499993 TCCATGTTTACTAT
1 TCCATGTTTACTAT
42500007 ACTAGCGGAC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.43
Consensus pattern (26 bp):
TCCATGTTTACTATCTTGGAGGACTA
Found at i:42500266 original size:67 final size:67
Alignment explanation
Indices: 42500154--42500779 Score: 679
Period size: 67 Copynumber: 9.4 Consensus size: 67
42500144 TTAAGTCTAC
* * * * *
42500154 ATGTTCCCATAGCCAAACTATGGCCTTACACATCATAACCC-ATGTTTAATGACCTGGCAAACTC
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCAT-ACCCTATGTTTAATGTCCTGGCAAACTC
42500218 TCT
65 TCT
* ***
42500221 ATGTTGCCATAACCGAGCTATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGCGGGCTCT
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGCAAACTCT
*
42500286 TT
66 CT
* * *
42500288 ATGTTGCCATAGCCGAGCTATGGTCTTAAACATCATACCCTATGTTTAAAGTCTTGGCAAACTCT
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGCAAACTCT
*
42500353 CA
66 CT
* * * *
42500355 ATGTTGGCGTAGCCGAGCTATGGTCTTACACATCATACCCCATGATTAATGTCCTGGCAAACTCT
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGCAAACTCT
*
42500420 CC
66 CT
* * * *
42500422 ATGTTGCCATAGCTGAGTTATGGTCTTACACATCATACCATATGTTTAATGTCCTGGCGAACTCT
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGCAAACTCT
42500487 CT
66 CT
** * * * * * *
42500489 ATACTGCCATAGTCGAACTATAGTCTTACACATCATACACC-ATGTCTAATGTCCTAGCGAACTC
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATAC-CCTATGTTTAATGTCCTGGCAAACTC
42500553 TCT
65 TCT
* * * ** * *
42500556 ATGTTGCCATAGACGAGATCTGGTCTTACACGCCATACCCCATGTTTAATGTCCTGACAAACTCT
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGCAAACTCT
42500621 CT
66 CT
** * * * ***
42500623 ATACT-CCATAGTCGAGCTATGATCTTACACATCATA-CCTCATGTTTAATGTCCTAGCGGGCTC
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCT-ATGTTTAATGTCCTGGCAAACTC
42500686 TCT
65 TCT
* * * ** * *
42500689 ATGCTGTCATAGCCAAGCTAT-GTCTTACACATCATA-CCTCATGTTTAATGTCCCAGTAGACTC
1 ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCT-ATGTTTAATGTCCTGGCAAACTC
42500752 TCT
65 TCT
* *
42500755 ATGCTGCCATAGCCAAGCTATGGTC
1 ATGTTGCCATAGCCGAGCTATGGTC
42500780 CCCTATGTTT
Statistics
Matches: 470, Mismatches: 83, Indels: 12
0.83 0.15 0.02
Matches are distributed among these distances:
65 2 0.00
66 116 0.25
67 351 0.75
68 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (67 bp):
ATGTTGCCATAGCCGAGCTATGGTCTTACACATCATACCCTATGTTTAATGTCCTGGCAAACTCT
CT
Found at i:42504906 original size:16 final size:16
Alignment explanation
Indices: 42504885--42504928 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
42504875 CGAACTGCTT
42504885 TATTCATGCGAATTGA
1 TATTCATGCGAATTGA
* * *
42504901 TATTCATGTGAGTTGT
1 TATTCATGCGAATTGA
42504917 TATGTCATGCGA
1 TAT-TCATGCGA
42504929 GATATTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.25, C:0.11, G:0.23, T:0.41
Consensus pattern (16 bp):
TATTCATGCGAATTGA
Found at i:42513637 original size:27 final size:27
Alignment explanation
Indices: 42513596--42513648 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
42513586 TCAGAAATAG
*
42513596 GGGTTTTCAGAGTTGACTACGAGCTAA
1 GGGTTTACAGAGTTGACTACGAGCTAA
* *
42513623 GGGTTTACAGGGTTGACTGCGAGCTA
1 GGGTTTACAGAGTTGACTACGAGCTA
42513649 GCAAGGTGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.34, T:0.28
Consensus pattern (27 bp):
GGGTTTACAGAGTTGACTACGAGCTAA
Found at i:42527242 original size:43 final size:43
Alignment explanation
Indices: 42527194--42527333 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
42527184 GGAAAACTAT
* * * *
42527194 TAGGATATTATCTTTTAGCAATTTTATTTC-AATTGCGATATTG
1 TAGGATATTATCTCTTAGCAATTTGATTCCTAA-TGGGATATTG
42527237 TAGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTG
1 TAGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTG
*
42527280 TAGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTA
1 TAGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTG
42527323 TAGGATATTAT
1 TAGGATATTAT
42527334 TACAGGATAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 89 0.98
44 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.44
Consensus pattern (43 bp):
TAGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTG
Found at i:42527330 original size:10 final size:10
Alignment explanation
Indices: 42527315--42527356 Score: 57
Period size: 10 Copynumber: 3.9 Consensus size: 10
42527305 ATTCCTAATG
42527315 GGATATTATA
1 GGATATTATA
42527325 GGATATTATTACA
1 GGATATTA-T--A
42527338 GGATATTATA
1 GGATATTATA
42527348 GGATATTAT
1 GGATATTAT
42527357 TACAGAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 18 0.62
11 1 0.03
12 1 0.03
13 9 0.31
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.40
Consensus pattern (10 bp):
GGATATTATA
Found at i:42527340 original size:13 final size:13
Alignment explanation
Indices: 42527318--42527369 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
42527308 CCTAATGGGA
*
42527318 TATTATAGGATAT
1 TATTACAGGATAT
42527331 TATTACAGGATAT
1 TATTACAGGATAT
42527344 TA-T--AGGATAT
1 TATTACAGGATAT
*
42527354 TATTACAGAATAT
1 TATTACAGGATAT
42527367 TAT
1 TAT
42527370 CTTTTAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
12 1 0.03
13 23 0.68
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (13 bp):
TATTACAGGATAT
Found at i:42527345 original size:23 final size:23
Alignment explanation
Indices: 42527315--42527369 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
42527305 ATTCCTAATG
42527315 GGATATTATAGGATATTATTACA
1 GGATATTATAGGATATTATTACA
42527338 GGATATTATAGGATATTATTACA
1 GGATATTATAGGATATTATTACA
*
42527361 GAATATTAT
1 GGATATTAT
42527370 CTTTTAGCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (23 bp):
GGATATTATAGGATATTATTACA
Found at i:42528538 original size:21 final size:21
Alignment explanation
Indices: 42528512--42528554 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
42528502 CACCACTGAG
42528512 TATATATTACTCAGTGTATGA
1 TATATATTACTCAGTGTATGA
42528533 TATATATTACTCAGTGTATGA
1 TATATATTACTCAGTGTATGA
42528554 T
1 T
42528555 TTTGTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (21 bp):
TATATATTACTCAGTGTATGA
Found at i:42528925 original size:21 final size:21
Alignment explanation
Indices: 42528901--42528941 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
42528891 TTGACATTGA
*
42528901 GTCTCGAGACAATAAAAACAT
1 GTCTCAAGACAATAAAAACAT
* *
42528922 GTCTCAAGACCATAAGAACA
1 GTCTCAAGACAATAAAAACA
42528942 AAATTTACCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (21 bp):
GTCTCAAGACAATAAAAACAT
Found at i:42529311 original size:19 final size:19
Alignment explanation
Indices: 42529289--42529336 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
42529279 AAATTAAAAT
*
42529289 AATTCAAAATAATTTCT-AA
1 AATTCAAAAT-ATTTATAAA
42529308 AATTC-AAATATTTATAAA
1 AATTCAAAATATTTATAAA
42529326 AATTTCAAAAT
1 AA-TTCAAAAT
42529337 TTATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.20
18 8 0.32
19 8 0.32
20 4 0.16
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:42529311 original size:28 final size:26
Alignment explanation
Indices: 42529278--42529337 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
42529268 TTACAAAAAA
42529278 AAAATTAAAATAATTCA-AAATAATTTC
1 AAAATTAAAAT-ATTCATAAA-AATTTC
* *
42529305 TAAAATTCAAATATTTATAAAAATTTC
1 -AAAATTAAAATATTCATAAAAATTTC
42529332 AAAATT
1 AAAATT
42529338 TATATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 6 0.21
27 10 0.34
28 13 0.45
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATTAAAATATTCATAAAAATTTC
Found at i:42529338 original size:18 final size:18
Alignment explanation
Indices: 42529306--42529341 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
42529296 AATAATTTCT
42529306 AAAATTCAAATATTTATA
1 AAAATTCAAATATTTATA
42529324 AAAATTTCAAA-ATTTATA
1 AAAA-TTCAAATATTTATA
42529342 TTTTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTCAAATATTTATA
Found at i:42536683 original size:11 final size:11
Alignment explanation
Indices: 42536667--42536692 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42536657 ATCTAACTAT
42536667 TGTAATTCATA
1 TGTAATTCATA
42536678 TGTAATTCATA
1 TGTAATTCATA
42536689 TGTA
1 TGTA
42536693 TTTCCCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (11 bp):
TGTAATTCATA
Found at i:42540027 original size:20 final size:21
Alignment explanation
Indices: 42540002--42540041 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
42539992 AATACTATAT
42540002 TAATTATA-TATGTTAAATAA
1 TAATTATATTATGTTAAATAA
42540022 TAATTATATTTATGTTAAAT
1 TAATTATA-TTATGTTAAAT
42540042 CACTAACCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TAATTATATTATGTTAAATAA
Found at i:42540219 original size:39 final size:40
Alignment explanation
Indices: 42540133--42540219 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
42540123 ATTTTTAAAA
* *
42540133 AATATATTTAATACAATAAAATATTTATTATATTTATTTGT
1 AATATTTTTAATACAATAAAATATTTAATATATTTA-TTGT
*
42540174 -GT-TTTTTAATACAATAAAAT-TTTAATATATTTA-TGAT
1 AATATTTTTAATACAATAAAATATTTAATATATTTATTG-T
42540211 AATATTTTT
1 AATATTTTT
42540220 TTAATAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
36 2 0.05
37 1 0.03
38 13 0.33
39 22 0.56
40 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (40 bp):
AATATTTTTAATACAATAAAATATTTAATATATTTATTGT
Found at i:42542076 original size:115 final size:115
Alignment explanation
Indices: 42541547--42542462 Score: 1254
Period size: 115 Copynumber: 8.0 Consensus size: 115
42541537 CGCAACCGAT
* * * * *
42541547 TGAGTATTAGCGGC-GTTTCTATAAAAACGCCGCAAAAACT-AAACCCAGACGACATCGTTTGGA
1 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACTTCGTTTGGA
* * *
42541610 GAAACTTCAGTGACATTAGTGGCGTTTTTCGAATAGAGCCGCTAATAATA
66 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * ** * * *
42541660 TGAGTATTAGCAGCGTTTCTG--TAAAAATGCCGTAAAAACTAAAACCCAGATGACATCGTTTGA
1 TGAGTATTAGCAGCATTT-TGTATAAAAACGCCACAAAAACTAAAACCCAGACGACTTCGTTTGG
*
42541723 AGACACTTCGGTGACATTAGTGGCGTTTTTTGAATAGCGCCGCTAATAATA
65 AGACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * * ** *
42541774 TGAGTATTAGCGGCGTTTT-TATAAAAATGCTGCAAAAACTAAACCCCAGACGA-TGTCGTTTGG
1 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACT-TCGTTTGG
* * * *
42541837 AGACACTTCGGTGACTTTACTGGCATTTTTCAAATAGCGCCGCTAATAATA
65 AGACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* * * * * *
42541888 TGAGTATTAGCGGC-GTTTCTACAAAAACACCGA-AAAAACTAAAACCCAAACGACTTCGTTTGG
1 TGAGTATTAGCAGCATTTTGTATAAAAACGCC-ACAAAAACTAAAACCCAGACGACTTCGTTTGG
* * *
42541951 AGACACTTCGGTAACATTAGTGGCGTTTTCCGAGTAGCGCCGCTAATAATA
65 AGACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
*
42542002 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAAACGACTTCGTTTGGA
1 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACTTCGTTTGGA
* * *
42542067 GACACTTCGGTAACATTAGTGGCGTTTTCCGAGTAGCGCCGCTAATAATA
66 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
*
42542117 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAAACGACTTCGTTTGGA
1 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACTTCGTTTGGA
* * *
42542182 GACACTTCGGTAACATTAGTGGCGTTTTCCGAGTAGCGCCGCTAATAATA
66 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* *
42542232 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACGTCATTTGGA
1 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACTTCGTTTGGA
* * *
42542297 GACACTTCGGTGACATTAGCGACGTTTTTTGAATAGCGCCGCTAATAATA
66 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
* *
42542347 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACGTCATTTGGA
1 TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACTTCGTTTGGA
* * * * *
42542412 GACACTTCGGTGACTTTAGTGGCGTTTTTAGATTAGCGTCGCGAATAATA
66 GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
42542462 T
1 T
42542463 AGGTTTTAAC
Statistics
Matches: 733, Mismatches: 59, Indels: 20
0.90 0.07 0.02
Matches are distributed among these distances:
113 34 0.05
114 273 0.37
115 426 0.58
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (115 bp):
TGAGTATTAGCAGCATTTTGTATAAAAACGCCACAAAAACTAAAACCCAGACGACTTCGTTTGGA
GACACTTCGGTGACATTAGTGGCGTTTTTCGAATAGCGCCGCTAATAATA
Found at i:42543358 original size:17 final size:18
Alignment explanation
Indices: 42543336--42543371 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
42543326 TGGTTAAGAG
42543336 TTAGGGATTTAAG-AGGT
1 TTAGGGATTTAAGAAGGT
*
42543353 TTAGGGTTTTAAGAAGGT
1 TTAGGGATTTAAGAAGGT
42543371 T
1 T
42543372 GGGTTAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (18 bp):
TTAGGGATTTAAGAAGGT
Found at i:42543650 original size:23 final size:21
Alignment explanation
Indices: 42543624--42543666 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
42543614 ATATTTAAAT
42543624 ATAACCTTAAAAAGAAATAATAA
1 ATAA-CTTAAAAA-AAATAATAA
* *
42543647 ATAAGTTAAAAAAAGTAATA
1 ATAACTTAAAAAAAATAATA
42543667 GCTTGCTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (21 bp):
ATAACTTAAAAAAAATAATAA
Found at i:42543716 original size:12 final size:12
Alignment explanation
Indices: 42543694--42543724 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
42543684 TAGATATTAC
42543694 TTAAGAAATAAAA
1 TTAA-AAATAAAA
42543707 TTAAAAATAAAA
1 TTAAAAATAAAA
42543719 TTAAAA
1 TTAAAA
42543725 TACAAAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (12 bp):
TTAAAAATAAAA
Found at i:42543738 original size:20 final size:20
Alignment explanation
Indices: 42543709--42543761 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
42543699 AAATAAAATT
42543709 AAAAAT-AAAATTAAA-ATA
1 AAAAATCAAAATTAAATATA
*
42543727 CAAAAATCAAAATGAAATATA
1 -AAAAATCAAAATTAAATATA
*
42543748 AAAACTCTAAAATT
1 AAAAATC-AAAATT
42543762 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 6 0.21
20 14 0.50
21 8 0.29
ACGTcount: A:0.68, C:0.08, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATCAAAATTAAATATA
Found at i:42543750 original size:19 final size:18
Alignment explanation
Indices: 42543699--42543751 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
42543689 ATTACTTAAG
42543699 AAATAAAAT-TAAAAATA
1 AAATAAAATATAAAAATA
*
42543716 AAATTAAAATACAAAAATCA
1 AAA-TAAAATATAAAAAT-A
*
42543736 AAATGAAATATAAAAA
1 AAATAAAATATAAAAA
42543752 CTCTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 6 0.20
19 17 0.57
20 4 0.13
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAAATATAAAAATA
Found at i:42544270 original size:83 final size:82
Alignment explanation
Indices: 42544067--42544331 Score: 302
Period size: 83 Copynumber: 3.2 Consensus size: 82
42544057 TTTGTAAACA
* * * * **
42544067 AAACGGTGTCGTTTTGCCTGGCATATTAACGGCATTAGTGGCATTACGCCAAAAACGCCGCAAA-
1 AAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCACTATG-GTAAAACGCCGCAAAG
*
42544131 TTGTCGGGGTTTTTTTAA-T
65 TTTTC-GGG-TTTTTTAACT
* * * *
42544150 GAAACAGTGTCGTTTTAACTAGCACATTAAGGGCATTAGTGGCACTATGGTAAAAGCGCCGCAAA
1 -AAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCACTATGGTAAAA-CGCCGCAAA
42544215 GTTTTCGGGTTTTTTAACT
64 GTTTTCGGGTTTTTTAACT
* * **
42544234 AAACGGTGTCGTTTTCCCTGGCACATTAACGACATTAGTGGTGCTATGGTGAAAACGCCGCAAAG
1 AAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCACTATGGT-AAAACGCCGCAAAG
42544299 -TTTCGGGTTTTTTAAACT
65 TTTTCGGGTTTTTT-AACT
*
42544317 AAACGGTGCCGTTTT
1 AAACGGTGTCGTTTT
42544332 GCCTTTACGG
Statistics
Matches: 156, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
82 13 0.08
83 82 0.53
84 57 0.37
85 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (82 bp):
AAACGGTGTCGTTTTACCTGGCACATTAACGGCATTAGTGGCACTATGGTAAAACGCCGCAAAGT
TTTCGGGTTTTTTAACT
Found at i:42544643 original size:16 final size:16
Alignment explanation
Indices: 42544595--42544645 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
42544585 CCGTTGATCG
* *
42544595 TCTACCATCGCATTCG
1 TCTACCATCGCACTCC
* * *
42544611 TCGACCGTCGCAGTCC
1 TCTACCATCGCACTCC
42544627 TCTACCATCGCACTCC
1 TCTACCATCGCACTCC
42544643 TCT
1 TCT
42544646 GCCGTCGAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.16, C:0.43, G:0.14, T:0.27
Consensus pattern (16 bp):
TCTACCATCGCACTCC
Found at i:42546962 original size:259 final size:259
Alignment explanation
Indices: 42546503--42546983 Score: 937
Period size: 259 Copynumber: 1.9 Consensus size: 259
42546493 TGAAATTAAA
42546503 AAATTTTAAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTAT
1 AAATTTTAAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTAT
*
42546568 AAACATTGAGAGTGCAAATTATGTCAAAAATTAAAATATAAATATAAAATCTCAAATTTAAGAAT
66 AAACATTGAGAGTCCAAATTATGTCAAAAATTAAAATATAAATATAAAATCTCAAATTTAAGAAT
42546633 AGTATAAGGACCAAAATTAAAATTTGACTAATTTTATATATCAAGACATTATAAAACTAAAAGAA
131 AGTATAAGGACCAAAATTAAAATTTGACTAATTTTATATATCAAGACATTATAAAACTAAAAGAA
42546698 CTATAGTAAGAATAAGAGAGAAGAGGATTTAACAAGAAATTTGGTTTAGTTTAGGAGAGTCCAG
196 CTATAGTAAGAATAAGAGAGAAGAGGATTTAACAAGAAATTTGGTTTAGTTTAGGAGAGTCCAG
42546762 AAATTTTAAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTAT
1 AAATTTTAAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTAT
42546827 AAACATTGAGA-TACCAAATTATGTCAAAAATTAAAATATAAATATAAAATCTCAAATTTAAGAA
66 AAACATTGAGAGT-CCAAATTATGTCAAAAATTAAAATATAAATATAAAATCTCAAATTTAAGAA
42546891 TAGTATAAGGACCAAAATTAAAATTTGACTAATTTTATATATCAAGACATTATAAAACTAAAAGA
130 TAGTATAAGGACCAAAATTAAAATTTGACTAATTTTATATATCAAGACATTATAAAACTAAAAGA
42546956 ACTATAGTAAGAATAAGAGAGAAGAGGA
195 ACTATAGTAAGAATAAGAGAGAAGAGGA
42546984 AACACAAAAG
Statistics
Matches: 220, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
258 1 0.00
259 219 1.00
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.31
Consensus pattern (259 bp):
AAATTTTAAAATTCTCATAAGCATTTTAATTAAAATAAGATATTTCATTTAACTAATAGCATTAT
AAACATTGAGAGTCCAAATTATGTCAAAAATTAAAATATAAATATAAAATCTCAAATTTAAGAAT
AGTATAAGGACCAAAATTAAAATTTGACTAATTTTATATATCAAGACATTATAAAACTAAAAGAA
CTATAGTAAGAATAAGAGAGAAGAGGATTTAACAAGAAATTTGGTTTAGTTTAGGAGAGTCCAG
Found at i:42547167 original size:16 final size:16
Alignment explanation
Indices: 42547146--42547221 Score: 68
Period size: 16 Copynumber: 4.6 Consensus size: 16
42547136 GCTTACAGTA
42547146 ATAACTTACAACTTAC
1 ATAACTTACAACTTAC
*
42547162 ATAACTTA-ATTAATTA-
1 ATAACTTACA--ACTTAC
*
42547178 AT-ATTATACATAACTTAC
1 ATAACT-TAC--AACTTAC
42547196 ATAACTTACAACTTAC
1 ATAACTTACAACTTAC
42547212 ATAACTTACA
1 ATAACTTACA
42547222 TTTTTATAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
15 3 0.06
16 29 0.60
17 8 0.17
18 5 0.10
19 3 0.06
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAACTTACAACTTAC
Found at i:42547169 original size:9 final size:9
Alignment explanation
Indices: 42547146--42547688 Score: 114
Period size: 9 Copynumber: 62.9 Consensus size: 9
42547136 GCTTACAGTA
42547146 ATAACTTAC
1 ATAACTTAC
42547155 --AACTTAC
1 ATAACTTAC
42547162 ATAACTTA-
1 ATAACTTAC
42547170 ATTAA-TTA-
1 A-TAACTTAC
*
42547178 AT-ATTATAC
1 ATAACT-TAC
42547187 ATAACTTAC
1 ATAACTTAC
42547196 ATAACTTAC
1 ATAACTTAC
42547205 --AACTTAC
1 ATAACTTAC
42547212 ATAACTTAC
1 ATAACTTAC
**
42547221 AT---TTTT
1 ATAACTTAC
42547227 ATAA-TTATTC
1 ATAACTTA--C
*
42547237 ATAAATTAC
1 ATAACTTAC
42547246 ATAACTTAC
1 ATAACTTAC
*
42547255 ATTAATATTATAC
1 A-T-A-ACT-TAC
*
42547268 ATAAATTAC
1 ATAACTTAC
42547277 ATAACTTA-
1 ATAACTTAC
42547285 ATTAA-TTA-
1 A-TAACTTAC
42547293 AT-A--TAC
1 ATAACTTAC
*
42547299 ATAAATTAC
1 ATAACTTAC
42547308 ATAAC-TA-
1 ATAACTTAC
*
42547315 ATTACATTA-
1 ATAAC-TTAC
*
42547324 AT-ATTATAC
1 ATAACT-TAC
*
42547333 ATAAATTAC
1 ATAACTTAC
**
42547342 ATAACTTTG
1 ATAACTTAC
* *
42547351 TTAATTATAC
1 ATAACT-TAC
* *
42547361 TTAAATTAC
1 ATAACTTAC
* *
42547370 ATAAGTTAG
1 ATAACTTAC
*
42547379 TTAA-TTA-
1 ATAACTTAC
*
42547386 AT-ATTATAC
1 ATAACT-TAC
42547395 ATAACTTAC
1 ATAACTTAC
*
42547404 ATTAATATTATAC
1 A-T-A-ACT-TAC
* *
42547417 TTAAATTAC
1 ATAACTTAC
* *
42547426 ATAAGTTAG
1 ATAACTTAC
*
42547435 TTAA-TTA-
1 ATAACTTAC
*
42547442 AT-ATTATAC
1 ATAACT-TAC
42547451 ATAACTTAC
1 ATAACTTAC
42547460 ATAACTTAC
1 ATAACTTAC
***
42547469 ATTTTTTA-
1 ATAACTTAC
*
42547477 ATTA-TT-C
1 ATAACTTAC
*
42547484 ATAAATTAC
1 ATAACTTAC
42547493 ATAACTTAC
1 ATAACTTAC
*
42547502 ATTAATATTATAC
1 A-T-A-ACT-TAC
*
42547515 ATAAATTAC
1 ATAACTTAC
*
42547524 ATAACTTAG
1 ATAACTTAC
*
42547533 TTAACTTAC
1 ATAACTTAC
* * *
42547542 TTAATTTTC
1 ATAACTTAC
*
42547551 ATAA--TAA
1 ATAACTTAC
42547558 ATAACTTAC
1 ATAACTTAC
42547567 ATAACTTAC
1 ATAACTTAC
42547576 --AACTTAC
1 ATAACTTAC
*
42547583 ATAACTTAT
1 ATAACTTAC
*
42547592 ATGACTTAC
1 ATAACTTAC
42547601 ATAACTTAC
1 ATAACTTAC
*
42547610 AT-A---GC
1 ATAACTTAC
* *
42547615 ATAATTTTC
1 ATAACTTAC
42547624 ATAA--TAC
1 ATAACTTAC
*
42547631 ACAACTTAC
1 ATAACTTAC
**
42547640 ATAACTTGG
1 ATAACTTAC
* *
42547649 GTAA-TGA-
1 ATAACTTAC
42547656 ATAACTTAC
1 ATAACTTAC
42547665 ATAA--TAC
1 ATAACTTAC
42547672 ATAACTTAC
1 ATAACTTAC
*
42547681 ATAGCTTA
1 ATAACTTA
42547689 ACTATACTTA
Statistics
Matches: 401, Mismatches: 71, Indels: 124
0.67 0.12 0.21
Matches are distributed among these distances:
5 5 0.01
6 11 0.03
7 59 0.15
8 38 0.09
9 232 0.58
10 27 0.07
11 9 0.02
12 9 0.02
13 11 0.03
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (9 bp):
ATAACTTAC
Found at i:42547212 original size:25 final size:25
Alignment explanation
Indices: 42547146--42547222 Score: 97
Period size: 25 Copynumber: 3.1 Consensus size: 25
42547136 GCTTACAGTA
42547146 ATAACTTACAACTTACATAACTTA-
1 ATAACTTACAACTTACATAACTTAC
*
42547170 ATTAA-TTA-ATATTATACATAACTTAC
1 A-TAACTTACA-ACT-TACATAACTTAC
42547196 ATAACTTACAACTTACATAACTTAC
1 ATAACTTACAACTTACATAACTTAC
42547221 AT
1 AT
42547223 TTTTATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
23 1 0.02
24 6 0.13
25 31 0.69
26 6 0.13
27 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAACTTACAACTTACATAACTTAC
Found at i:42547342 original size:22 final size:22
Alignment explanation
Indices: 42547243--42547343 Score: 72
Period size: 22 Copynumber: 4.6 Consensus size: 22
42547233 ATTCATAAAT
*
42547243 TACATAACTTACATTAATATTA
1 TACATAAATTACATTAATATTA
*
42547265 TACATAAATTACA-TAACT-TAA
1 TACATAAATTACATTAA-TATTA
*
42547286 TTA-ATTAATATACA-TAA-A-T-
1 -TACATAAAT-TACATTAATATTA
42547305 TACATAACTAATTACATTAATATTA
1 TACAT-A--AATTACATTAATATTA
42547330 TACATAAATTACAT
1 TACATAAATTACAT
42547344 AACTTTGTTA
Statistics
Matches: 62, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
21 14 0.23
22 36 0.58
23 1 0.02
24 2 0.03
25 5 0.08
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.39
Consensus pattern (22 bp):
TACATAAATTACATTAATATTA
Found at i:42547407 original size:22 final size:22
Alignment explanation
Indices: 42547382--42547427 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
42547372 AAGTTAGTTA
*
42547382 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
*
42547404 ATTAATATTATACTTAAATTAC
1 ATTAATATTATACATAAATTAC
42547426 AT
1 AT
42547428 AAGTTAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:42547487 original size:33 final size:31
Alignment explanation
Indices: 42547048--42547531 Score: 314
Period size: 31 Copynumber: 15.0 Consensus size: 31
42547038 ATATCATTTA
* *
42547048 ATTAATTAATATACATAAATTACATAAGTTAC
1 ATTAA-TATTATACATAAATTACATAACTTAC
42547080 ATTAATATTATACATAAATTACATAACTTA-
1 ATTAATATTATACATAAATTACATAACTTAC
* **
42547110 ATTAATTATTACACATAAATTACATTGCTTAC
1 ATTAA-TATTATACATAAATTACATAACTTAC
* * * *
42547142 AGTAATAACT-TAC--AACTTACATAACTTAATTA
1 ATTAAT-ATTATACATAAATTACATAACTT-A--C
*
42547174 ATTAATATTATACATAACTTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAC
*
42547205 AACTTACATAACT-TACATTTTTATAATTATTCATAAATTACATAACTTAC
1 -A-TTA-AT-ATTATACA----TA-AATTA--CATA---------ACTTAC
42547255 ATTAATATTATACATAAATTACATAACTTA-
1 ATTAATATTATACATAAATTACATAACTTAC
*
42547285 ATTAATTAATATACATAAATTACATAACTAATTAC
1 ATTAA-TATTATACATAAATTACATAAC---TTAC
*
42547320 ATTAATATTATACATAAATTACATAACTT-T
1 ATTAATATTATACATAAATTACATAACTTAC
* * *
42547350 GTT-A-ATTATACTTAAATTACATAAGTTA-
1 ATTAATATTATACATAAATTACATAACTTAC
* * *
42547378 GTT-A-ATTA-ATAT-TA-TACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAC
* * *
42547404 ATTAATATTATACTTAAATTACATAAGTTAGTTA
1 ATTAATATTATACATAAATTACATAACTTA---C
*
42547438 ATTAATATTATACATAACTTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTAC
** *
42547469 ATTTTTTAATTATTCATAAATTACATAACTTAC
1 A-TTAAT-ATTATACATAAATTACATAACTTAC
42547502 ATTAATATTATACATAAATTACATAACTTA
1 ATTAATATTATACATAAATTACATAACTTA
42547532 GTTAACTTAC
Statistics
Matches: 360, Mismatches: 45, Indels: 95
0.72 0.09 0.19
Matches are distributed among these distances:
25 10 0.03
26 3 0.01
27 3 0.01
28 33 0.09
29 14 0.04
30 14 0.04
31 112 0.31
32 26 0.07
33 28 0.08
34 71 0.20
35 7 0.02
38 2 0.01
39 4 0.01
40 4 0.01
41 4 0.01
42 5 0.01
43 2 0.01
46 2 0.01
47 6 0.02
48 3 0.01
49 1 0.00
50 6 0.02
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.41
Consensus pattern (31 bp):
ATTAATATTATACATAAATTACATAACTTAC
Found at i:42547600 original size:18 final size:16
Alignment explanation
Indices: 42547560--42547610 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
42547550 CATAATAAAT
42547560 AACTTACATAACTTAC
1 AACTTACATAACTTAC
*
42547576 AACTTACATAACTTAT
1 AACTTACATAACTTAC
42547592 ATGACTTACATAACTTAC
1 A--ACTTACATAACTTAC
42547610 A
1 A
42547611 TAGCATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 16 0.52
18 15 0.48
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:42551782 original size:172 final size:172
Alignment explanation
Indices: 42551496--42551838 Score: 668
Period size: 172 Copynumber: 2.0 Consensus size: 172
42551486 AATGATGATA
42551496 TTTCAACTATTTTATATGTGATATTATTGTTGTAATTGTATACTAAGTTTTCAACTAATTTATTT
1 TTTCAACTATTTTATATGTGATATTATTGTTGTAATTGTATACTAAGTTTTCAACTAATTTATTT
*
42551561 GTATTGCAGATAAAATGCCTAGAAGAAAAGTGCGATCGCACCGCATTGTTCAAGGTACTTCAAAC
66 GTATTGCAGATAAAATGCCTAGAAGAAAAGTGCGATCGCACCGCATTGTTCAAGGTACTCCAAAC
*
42551626 TCGGCGGAAACAAATAGCACTGAACAATAGACTGCTATTGGT
131 TCGGCGGAAACAAATAGCACTGAACAACAGACTGCTATTGGT
42551668 TTTCAACTATTTTATATGTGATATTATTGTTGTAATTGTATACTAAGTTTTCAACTAATTTATTT
1 TTTCAACTATTTTATATGTGATATTATTGTTGTAATTGTATACTAAGTTTTCAACTAATTTATTT
42551733 GTATTGCAGATAAAATGCCTAGAAGAAAAGTGCGATCGCACCGCATTGTTCAAGGTACTCCAAAC
66 GTATTGCAGATAAAATGCCTAGAAGAAAAGTGCGATCGCACCGCATTGTTCAAGGTACTCCAAAC
42551798 TCGGCGGAAACAAATAGCACTGAACAACAGACTGCTATTGG
131 TCGGCGGAAACAAATAGCACTGAACAACAGACTGCTATTGG
42551839 ATCTTCGAAT
Statistics
Matches: 169, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 169 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (172 bp):
TTTCAACTATTTTATATGTGATATTATTGTTGTAATTGTATACTAAGTTTTCAACTAATTTATTT
GTATTGCAGATAAAATGCCTAGAAGAAAAGTGCGATCGCACCGCATTGTTCAAGGTACTCCAAAC
TCGGCGGAAACAAATAGCACTGAACAACAGACTGCTATTGGT
Found at i:42553715 original size:21 final size:21
Alignment explanation
Indices: 42553690--42553762 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
42553680 TAGCAGCTTA
* *
42553690 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCGGCAGCGAGAG
*
42553711 AAGCAGAGGCGACAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
* * *
42553732 AAGTACAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
42553753 AAGCAGAGGC
1 AAGCAGAGGC
42553763 TGTAAGGTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:42553844 original size:43 final size:43
Alignment explanation
Indices: 42553796--42553936 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 43
42553786 GTGGTCGAAG
* *
42553796 CGCCGCTATAGATCAGGGTCTATTGTGGCATTTAAGGGGAAAA
1 CGCCGCTATAGATCAGGGTCTATTGTGGCGTTTGAGGGGAAAA
* * * * * *
42553839 CGCCGCTAAAGATTAGGTTCT-TTCGTGGCGTTTGTGGTCG-AAG
1 CGCCGCTATAGATCAGGGTCTATT-GTGGCGTTTGAGG-GGAAAA
* * *
42553882 CGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAGAAAAA
1 CGCCGCTATAGATCAGGGTCTATTGTGGCGTTTGAGGGGAAAA
42553925 CGCCGCTATAGA
1 CGCCGCTATAGA
42553937 CCAACACCTT
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
42 2 0.03
43 72 0.94
44 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
CGCCGCTATAGATCAGGGTCTATTGTGGCGTTTGAGGGGAAAA
Found at i:42553875 original size:86 final size:86
Alignment explanation
Indices: 42553767--42553932 Score: 278
Period size: 86 Copynumber: 1.9 Consensus size: 86
42553757 AGAGGCTGTA
*
42553767 AGGTTCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGTGGCATTTAAG
1 AGGTTCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCATTTAAG
* *
42553832 GGGAAAACGCCGCTAAAGATT
66 AGAAAAACGCCGCTAAAGATT
* * *
42553853 AGGTTCTTTCGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAG
1 AGGTTCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCATTTAAG
42553918 AGAAAAACGCCGCTA
66 AGAAAAACGCCGCTA
42553933 TAGACCAACA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
86 74 1.00
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (86 bp):
AGGTTCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCATTTAAG
AGAAAAACGCCGCTAAAGATT
Found at i:42554045 original size:22 final size:22
Alignment explanation
Indices: 42554017--42554059 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
42554007 CTGCGGCGCT
* *
42554017 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
42554039 AAAAAGCACCGCTAAAAGCCT
1 AAAAAGCACCGCTAAAAGCCT
42554060 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:42556737 original size:30 final size:30
Alignment explanation
Indices: 42556702--42556766 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
42556692 TGGCAAAAAA
42556702 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
*
42556732 CTCTCAAATTTCTCCTTAAATTTCTCAAAG
1 CTCTCAAATTTCTCCCTAAATTTCTCAAAG
42556762 CTCTC
1 CTCTC
42556767 TTTAATGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (30 bp):
CTCTCAAATTTCTCCCTAAATTTCTCAAAG
Found at i:42558543 original size:18 final size:18
Alignment explanation
Indices: 42558520--42558562 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
42558510 TACCAAGTGC
* *
42558520 GTATCCTAGCTCTTATAT
1 GTATCCTAACCCTTATAT
42558538 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
42558556 GTTTCCT
1 GTATCCT
42558563 TTTTCCAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:42560588 original size:126 final size:126
Alignment explanation
Indices: 42560363--42560887 Score: 719
Period size: 126 Copynumber: 4.2 Consensus size: 126
42560353 AAGGCCAAAT
* * * *
42560363 AGGAACTACTTTAGAAAAAGAGCGCCCACGTGGGAGCTTTTTTCATCAATTTTGTTGACAATGCA
1 AGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGCA
** * *
42560428 TCCTGCTTGAAGTATTTTTGACACTATTTGTTCAGAATCGTCTTCTCAAAATCATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATCATTTTTTC
* * *
42560489 AGGAACTACTGTAGAAAAAAAGCGTCCACATGGGAGCTTTTTTCATCAATTTTGCTGATAGTGCA
1 AGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGCA
* * *
42560554 TCCTGCTTGAAGTGTTTTTGATATTATTTGTTCAGAACCATCTTCTCAAAATCATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATCATTTTTTC
* * * * * * * * *
42560615 AAGAACTACTGTAGAAAAAGAGCATCCACCTAGGAGC-TTTTACATCAATTTTGTTAACAGTGCA
1 AGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGCA
* * *
42560679 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAACCATTTTCTCAAAATTATTTTTTC
66 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATCATTTTTTC
* *
42560740 AAGAACTACTGTAGAAAAAAAAGCGTCCATGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGC
1 AGGAACTACTGTAG-AAAAAAAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGC
* * * * * *
42560805 ATCCTACTTGAAGCGTTTTTGACACTATTTATTCAGAACCGTTTTTTCAAAATTATTTTTTC
65 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATCATTTTTTC
*
42560867 AGGAACTACTATAGAAAAAAA
1 AGGAACTACTGTAGAAAAAAA
42560888 TCCTTATTGT
Statistics
Matches: 354, Mismatches: 43, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
125 92 0.26
126 171 0.48
127 91 0.26
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (126 bp):
AGGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGCTGACAATGCA
TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATCATTTTTTC
Found at i:42560991 original size:34 final size:33
Alignment explanation
Indices: 42560941--42561068 Score: 161
Period size: 34 Copynumber: 3.8 Consensus size: 33
42560931 ACAAAGTTAT
42560941 TTTTTTAAAAA-A-TAAACCCTAATTTAATTAA
1 TTTTTTAAAAACACTAAACCCTAATTTAATTAA
*
42560972 TTTTCTTAAAAACTCTAAACCCTAATTTAATTAA
1 TTTT-TTAAAAACACTAAACCCTAATTTAATTAA
* * *
42561006 TTTATTTAAAACCCCTAAAACCTAATTTAATTAA
1 TTT-TTTAAAAACACTAAACCCTAATTTAATTAA
* *
42561040 TTTTTAAAAAAACACCAAACCCTAATTTA
1 TTTTT-TAAAAACACTAAACCCTAATTTA
42561069 TTTTTTAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
31 4 0.05
32 7 0.08
33 2 0.02
34 69 0.83
35 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.38
Consensus pattern (33 bp):
TTTTTTAAAAACACTAAACCCTAATTTAATTAA
Found at i:42569197 original size:20 final size:21
Alignment explanation
Indices: 42569164--42569202 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
42569154 TGATAGATTT
*
42569164 TGTTTTTCCTTTTGTTTTTAC
1 TGTTTTTACTTTTGTTTTTAC
42569185 TGTTTTTAC-TTTGTTTTT
1 TGTTTTTACTTTTGTTTTT
42569203 GTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.05, C:0.10, G:0.10, T:0.74
Consensus pattern (21 bp):
TGTTTTTACTTTTGTTTTTAC
Found at i:42570410 original size:5 final size:6
Alignment explanation
Indices: 42570395--42570420 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42570385 TAAAATCATT
42570395 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
42570421 CAAAGGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:42571809 original size:22 final size:22
Alignment explanation
Indices: 42571779--42571821 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
42571769 ACACCAAAAC
*
42571779 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
42571801 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
42571822 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:42572059 original size:43 final size:43
Alignment explanation
Indices: 42572000--42572313 Score: 290
Period size: 43 Copynumber: 7.3 Consensus size: 43
42571990 GCTTTAGTGG
* ** *
42572000 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGTTTTTTTCTC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTCCCAC
* * ** *
42572043 AAACGCTGC-AATAGACCCTAATCTATAGCGGCGCTTTGACTAC
1 AAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTTCCCAC
* * * * *
42572086 AAACGCCACGAAAGAACCTAATCTTTAGCGGCACTTTTCCCTC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTCCCAC
* * * ***
42572129 AAACGCCGC-AATAAACCCTGATCTATAGCGGCGCTTCGACCAC
1 AAACGCCGCTAA-AGACCCTAATCTTTAGCGGCGCTTTTCCCAC
* * *
42572172 AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTCCCAC
* * * * *
42572215 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGTTTTTTCCAC
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTCCCAC
* * ** *
42572258 AAATGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAA
1 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTCCCAC
*
42572301 AAACGCCACTAAA
1 AAACGCCGCTAAA
42572314 TTTGGTAGAT
Statistics
Matches: 214, Mismatches: 53, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
42 4 0.02
43 206 0.96
44 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTCCCAC
Found at i:42572115 original size:86 final size:86
Alignment explanation
Indices: 42571983--42572294 Score: 331
Period size: 86 Copynumber: 3.6 Consensus size: 86
42571973 CTAAGACCTT
* ** * * * **
42571983 TAGCGGCGCTTT-AGTGGAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGTTTTTTTCTCAAAC
1 TAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTTCCCTCAAAC
* *
42572047 GCTGCAATAGACCCTAATCTA
66 GCCGCAATAAACCCTAATCTA
* *
42572068 TAGCGGCGCTTTGACTACAAACGCCACGAAAGAACCTAATCTTTAGCGGCACTTTTCCCTCAAAC
1 TAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTTCCCTCAAAC
*
42572133 GCCGCAATAAACCCTGATCTA
66 GCCGCAATAAACCCTAATCTA
* * * *
42572154 TAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAAC
1 TAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTTCCCTCAAAC
* * * *
42572219 GCCGCTAA-AGACCATGATCTT
66 GCCGC-AATAAACCCTAATCTA
* * ** * * * * *
42572240 TAGTGGCGTTTTTTCCACAAATGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTT
1 TAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTT
42572295 GACCAAAAAC
Statistics
Matches: 194, Mismatches: 31, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
85 12 0.06
86 180 0.93
87 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (86 bp):
TAGCGGCGCTTTGACTACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTTCCCTCAAAC
GCCGCAATAAACCCTAATCTA
Found at i:42572648 original size:21 final size:21
Alignment explanation
Indices: 42572622--42572734 Score: 136
Period size: 21 Copynumber: 5.4 Consensus size: 21
42572612 TTTGACGCTG
42572622 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
42572643 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
42572664 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
42572685 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
42572706 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
42572727 ATCTGCTT
1 CTCTGCTT
42572735 TAAGCTGCTG
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.04, C:0.43, G:0.18, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:42572782 original size:66 final size:66
Alignment explanation
Indices: 42572705--42572851 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
42572695 CTCGCTGCCG
* *
42572705 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
42572768 GAA
64 GAA
* * * *
42572771 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
42572836 A
66 A
42572837 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
42572852 ATGTTGCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:42572867 original size:66 final size:66
Alignment explanation
Indices: 42572705--42572874 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 66
42572695 CTCGCTGCCG
* * * * * *
42572705 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTG
42572769 AA
65 AA
* * * *
42572771 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTG
42572835 AA
65 AA
* *
42572837 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
42572875 GTAATTTGCT
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 1 0.01
66 86 0.95
67 4 0.04
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGA
A
Found at i:42584584 original size:18 final size:18
Alignment explanation
Indices: 42584543--42584581 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
42584533 ATAAAACTAA
42584543 TTAATCTGAGCTTAAACC
1 TTAATCTGAGCTTAAACC
*
42584561 TTAATCTGATC-TAAACC
1 TTAATCTGAGCTTAAACC
42584578 TTAA
1 TTAA
42584582 ATCACTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (18 bp):
TTAATCTGAGCTTAAACC
Found at i:42584627 original size:8 final size:7
Alignment explanation
Indices: 42584595--42584633 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
42584585 ACTAACTCTT
42584595 AACCCTA
1 AACCCTA
*
42584602 AACCCCA
1 AACCCTA
*
42584609 AACACTA
1 AACCCTA
42584616 AACCCTTA
1 AACCC-TA
42584624 AACCCTA
1 AACCCTA
42584631 AAC
1 AAC
42584634 ATTATTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.46, C:0.41, G:0.00, T:0.13
Consensus pattern (7 bp):
AACCCTA
Found at i:42584882 original size:89 final size:89
Alignment explanation
Indices: 42584603--42584957 Score: 604
Period size: 89 Copynumber: 4.0 Consensus size: 89
42584593 TTAACCCTAA
* * * *
42584603 ACCCC-AAACACTAAACCCTTAAACCCTAAACATTATTTAATATATAAATTAAAAACCACTAATT
1 ACCCCGAATCACT-AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATT
42584667 AATCTAAATCCTAAACCCTAACTCG
65 AATCTAAATCCTAAACCCTAACTCG
* *
42584692 ACCCCGAATCACTAACCCCAAACTCCTAAACATTATTTAATATATATAAATTAAAAAACACTAAT
1 ACCCCGAATCACTAACCCCTAACCCCTAAACATTATTT-A-ATATATAAATTAAAAAACACTAAT
42584757 TAATCTAAATCCTAAACCCTAACTCG
64 TAATCTAAATCCTAAACCCTAACTCG
*
42584783 ACCCCAAATCACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
1 ACCCCGAATCACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
42584848 ATCTAAATCCTAAACCCTAACTCG
66 ATCTAAATCCTAAACCCTAACTCG
42584872 ACCCCGAATCACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
1 ACCCCGAATCACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
42584937 ATCTAAATCATAAACCCTAAC
66 ATCTAAATCCTAAACCCTAAC
42584958 CCTAAATCCC
Statistics
Matches: 252, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
89 160 0.63
90 8 0.03
91 84 0.33
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (89 bp):
ACCCCGAATCACTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
ATCTAAATCCTAAACCCTAACTCG
Found at i:42584905 original size:180 final size:178
Alignment explanation
Indices: 42584603--42584957 Score: 622
Period size: 180 Copynumber: 2.0 Consensus size: 178
42584593 TTAACCCTAA
* *
42584603 ACCCCAAACACTAAACCCTTAAACCCTAAACATTATTTAATATATAAATTAAAAACCACTAATTA
1 ACCCCAAACACTAAACCCCTAAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
42584668 ATCTAAATCCTAAACCCTAACTCGACCCCGAATCACTAACCCCAAACTCCTAAACATTATTTAAT
66 ATCTAAATCCTAAACCCTAACTCGACCCCGAATCACTAACCCCAAACCCCTAAACATTATTT-A-
*
42584733 ATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTCG
129 ATATATAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACTCG
*
42584783 ACCCCAAATCACT-AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATT
1 ACCCCAAA-CACTAAACCCCTAAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATT
*
42584847 AATCTAAATCCTAAACCCTAACTCGACCCCGAATCACTAACCCCTAACCCCTAAACATTATTTAA
65 AATCTAAATCCTAAACCCTAACTCGACCCCGAATCACTAACCCCAAACCCCTAAACATTATTTAA
42584912 TATATAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAAC
130 TATATAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAAC
42584958 CCTAAATCCC
Statistics
Matches: 168, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
178 46 0.27
179 1 0.01
180 117 0.70
181 4 0.02
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (178 bp):
ACCCCAAACACTAAACCCCTAAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
ATCTAAATCCTAAACCCTAACTCGACCCCGAATCACTAACCCCAAACCCCTAAACATTATTTAAT
ATATAAATTAAAAAACACTAATTAATCTAAATCATAAACCCTAACTCG
Found at i:42584968 original size:14 final size:15
Alignment explanation
Indices: 42584947--42584979 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
42584937 ATCTAAATCA
42584947 TAAA-CCCTAA-CCC
1 TAAATCCCTAACCCC
42584960 TAAATCCCTAACCCC
1 TAAATCCCTAACCCC
42584975 TAAAT
1 TAAAT
42584980 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 6 0.33
15 8 0.44
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAATCCCTAACCCC
Found at i:42585731 original size:113 final size:111
Alignment explanation
Indices: 42585520--42586004 Score: 756
Period size: 113 Copynumber: 4.3 Consensus size: 111
42585510 AGATAAAATG
* *
42585520 TTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGTGCTTATTCAGAAAC
1 TTTTTGCGGCGC-TTTTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTA--CAGAAAC
* *
42585585 GCCGCTAAAGATCCCAAAAACTCAGAAAACGGTGCCGTCGGGCTTAGGC
63 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
42585634 TTTTTGCGGCGCTTTTAGAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCATTACAGAAACG
1 TTTTTGCGGCGCTTTTA-AAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGC-TTACAGAAACG
42585699 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
64 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
42585747 TTTTTGCGGCGCTTTTAAAAAAACGCTGCTAAACACCTGAGCATTAGCGGCGCTTTACAGAAACG
1 TTTTTGCGGCGCTTTT-AAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGC-TTACAGAAACG
*
42585812 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGTCGTTGGGCTTAGGC
64 CCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
*
42585860 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTGTATAGAAACG
1 TTTTTGCGGCGCTTTT-AAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCT-TACAGAAACG
*
42585925 CCGCTAAAGAGCCCCAAAAACTCAG-AAACGGTGCCGTTTGGCTTAGGC
64 CCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
42585973 TTTTTGCGGTGCTTTCAAATAAACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAA-AAACGCCGCTAA
42586005 TGCTTATTTT
Statistics
Matches: 348, Mismatches: 17, Indels: 13
0.92 0.04 0.03
Matches are distributed among these distances:
112 4 0.01
113 281 0.81
114 60 0.17
115 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (111 bp):
TTTTTGCGGCGCTTTTAAAAAACGCCGCTAAAGACCTGAGAATTAGCGGCGCTTACAGAAACGCC
GCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:42586133 original size:12 final size:12
Alignment explanation
Indices: 42586116--42586140 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42586106 TTTGTCTAAA
42586116 CGCCGCTAAAAG
1 CGCCGCTAAAAG
42586128 CGCCGCTAAAAG
1 CGCCGCTAAAAG
42586140 C
1 C
42586141 CTGCTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.36, G:0.24, T:0.08
Consensus pattern (12 bp):
CGCCGCTAAAAG
Found at i:42591687 original size:26 final size:27
Alignment explanation
Indices: 42591607--42591688 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 27
42591597 TTTTAAATTC
* *
42591607 TTCTCCTCTTTTTTTTTTCTTTTACACTAT
1 TTCT-CTCTTTTTTTATTCTTTTATA--AT
*
42591637 TTCTCTCTTTATTTATT-TTTATATAAT
1 TTCTCTCTTTTTTTATTCTTT-TATAAT
* *
42591664 TTTTC-CTTTTTTTCTTCTTTTATAA
1 TTCTCTCTTTTTTTATTCTTTTATAA
42591689 AGTCTGGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
26 14 0.32
27 9 0.20
28 3 0.07
29 14 0.32
30 4 0.09
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (27 bp):
TTCTCTCTTTTTTTATTCTTTTATAAT
Found at i:42600314 original size:26 final size:27
Alignment explanation
Indices: 42600281--42600345 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
42600271 GTGAATATTG
*
42600281 TATA-TATTTATATATAATATTATTTT
1 TATATTATTTATATATAATATTATTAT
*
42600307 TA-ATTATTGTAT-TTTAATATTATTAT
1 TATATTATT-TATATATAATATTATTAT
*
42600333 TATATTATATATA
1 TATATTATTTATA
42600346 CTTCTTCGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
25 1 0.03
26 23 0.72
27 8 0.25
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (27 bp):
TATATTATTTATATATAATATTATTAT
Found at i:42600332 original size:3 final size:3
Alignment explanation
Indices: 42600298--42600389 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
42600288 TTATATATAA
* * *
42600298 TAT TAT TTT TAAT TAT T-G TAT T-T TAA TAT TAT TAT TA- TAT TA-
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
42600340 TAT ATACT TCT TCG TAT T-T TAT TAT TAT TAT TAG TAT TAT TAT CAT
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
42600386 TAT T
1 TAT T
42600390 CATATTAGCA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
2 9 0.13
3 52 0.78
4 5 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:42600489 original size:33 final size:34
Alignment explanation
Indices: 42600436--42600501 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
42600426 TTTCATATAG
* *
42600436 TATTATCTTTTTTTTACTATTA-TATTTATTATTA
1 TATTATCTTATTTTCACTATTATTA-TTATTATTA
42600470 TATTAT-TTATTTTCACTATTATTATTATTATT
1 TATTATCTTATTTTCACTATTATTATTATTATT
42600502 TTCATCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 21 0.72
34 8 0.28
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (34 bp):
TATTATCTTATTTTCACTATTATTATTATTATTA
Found at i:42600500 original size:21 final size:21
Alignment explanation
Indices: 42600465--42600515 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
42600455 TTATATTTAT
42600465 TATTA-TATTATTTATTTTCA
1 TATTATTATTATTTATTTTCA
42600485 CTATTATTATTA-TTATTTTCA
1 -TATTATTATTATTTATTTTCA
42600506 TCATTATTAT
1 T-ATTATTAT
42600516 ACATATATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.79
22 5 0.18
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTATTATTATTTATTTTCA
Found at i:42600513 original size:33 final size:33
Alignment explanation
Indices: 42600439--42600510 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
42600429 CATATAGTAT
*
42600439 TATC-TTT-TTTTTACTATTATATTTATTATTA
1 TATCATTTATTTTCACTATTATATTTATTATTA
* *
42600470 TATTATTTATTTTCACTATTAT-TATTATTATTT
1 TATCATTTATTTTCACTATTATAT-TTATTATTA
42600503 TCATCATT
1 T-ATCATT
42600511 ATTATACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
31 3 0.09
32 4 0.12
33 21 0.64
34 5 0.15
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.65
Consensus pattern (33 bp):
TATCATTTATTTTCACTATTATATTTATTATTA
Found at i:42603953 original size:14 final size:14
Alignment explanation
Indices: 42603911--42603954 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
42603901 ATTTTATTTT
*
42603911 AATAACAAAAAAAA
1 AATAACAAAAAGAA
42603925 AATAA-AAGAAAGAA
1 AATAACAA-AAAGAA
*
42603939 AATAACAAAACGAA
1 AATAACAAAAAGAA
42603953 AA
1 AA
42603955 AAAAACCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (14 bp):
AATAACAAAAAGAA
Found at i:42604673 original size:52 final size:52
Alignment explanation
Indices: 42604595--42604703 Score: 200
Period size: 52 Copynumber: 2.1 Consensus size: 52
42604585 GGTCATAATT
*
42604595 GAATAAGTTGATATGAGTTATCACACTTACTTGTTTATTATAAGTCTACTAA
1 GAATAAGTTGATATGAGATATCACACTTACTTGTTTATTATAAGTCTACTAA
*
42604647 GAATAAGTTGATATTAGATATCACACTTACTTGTTTATTATAAGTCTACTAA
1 GAATAAGTTGATATGAGATATCACACTTACTTGTTTATTATAAGTCTACTAA
42604699 GAATA
1 GAATA
42604704 TCAAGAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (52 bp):
GAATAAGTTGATATGAGATATCACACTTACTTGTTTATTATAAGTCTACTAA
Found at i:42609711 original size:35 final size:36
Alignment explanation
Indices: 42609648--42609715 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
42609638 AAATGTGACG
* *
42609648 TTAAAAAGGTTGGGATAGACAGGTTCTAAGGCAACC
1 TTAAAAAGGTTGGGATAAACACGTTCTAAGGCAACC
* *
42609684 TTAAAAGGGTTGGGATAAACCCG-TCTAAGGCA
1 TTAAAAAGGTTGGGATAAACACGTTCTAAGGCA
42609716 TGGGATAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 9 0.32
36 19 0.68
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (36 bp):
TTAAAAAGGTTGGGATAAACACGTTCTAAGGCAACC
Found at i:42609713 original size:22 final size:22
Alignment explanation
Indices: 42609694--42609735 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
42609684 TTAAAAGGGT
*
42609694 TGGGATAAACCCGTCTAAGGCA
1 TGGGATAAACCCGTCGAAGGCA
42609716 TGGGATAAACCCGTCGAAGG
1 TGGGATAAACCCGTCGAAGG
42609736 TAACCTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (22 bp):
TGGGATAAACCCGTCGAAGGCA
Found at i:42615383 original size:29 final size:29
Alignment explanation
Indices: 42615350--42615440 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
42615340 ACTATTAAAG
* *
42615350 ACAATTAACAACTTAA-TGACTAAAATGTT
1 ACAATTAA-AACATAAGTGACTAAAATGTA
*
42615379 ACAA-TACGATAACGTAAGTGACTAAAATGTA
1 ACAATTA--A-AACATAAGTGACTAAAATGTA
* *
42615410 ACATTTCAAACATAAGTGACTAAAATGTA
1 ACAATTAAAACATAAGTGACTAAAATGTA
42615439 AC
1 AC
42615441 CTGATGTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 2 0.04
29 26 0.50
30 8 0.15
31 15 0.29
32 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.26
Consensus pattern (29 bp):
ACAATTAAAACATAAGTGACTAAAATGTA
Found at i:42615401 original size:31 final size:29
Alignment explanation
Indices: 42615366--42615440 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 29
42615356 AACAACTTAA
* *
42615366 TGACTAAAATGTTACAATACGATAACGTAAG
1 TGACTAAAATGTAACAATAC-A-AACATAAG
* *
42615397 TGACTAAAATGTAACATTTCAAACATAAG
1 TGACTAAAATGTAACAATACAAACATAAG
42615426 TGACTAAAATGTAAC
1 TGACTAAAATGTAAC
42615441 CTGATGTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (29 bp):
TGACTAAAATGTAACAATACAAACATAAG
Found at i:42615458 original size:31 final size:29
Alignment explanation
Indices: 42615394--42615462 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
42615384 ACGATAACGT
* *
42615394 AAGTGACTAAAATGTAACATTTCAAACAT
1 AAGTGACTAAAATGTAACATGTCAAACAA
42615423 AAGTGACTAAAATGTAACCTGATGT-AAACAA
1 AAGTGACTAAAATGTAA-C--ATGTCAAACAA
42615454 AAGTGACTA
1 AAGTGACTA
42615463 TTTTAGTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 17 0.49
30 1 0.03
31 14 0.40
32 3 0.09
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAATGTAACATGTCAAACAA
Found at i:42623007 original size:29 final size:27
Alignment explanation
Indices: 42622973--42623028 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
42622963 TTTTAATTCA
42622973 AAAAGTAAAGGA-ATTAAACTCTTAAAAAT
1 AAAAGT-AAGGAGATTAAA-T-TTAAAAAT
*
42623002 AAAAGTATGGAGATTAAATTTAAAAAT
1 AAAAGTAAGGAGATTAAATTTAAAAAT
42623029 TTACAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 8 0.32
28 5 0.20
29 12 0.48
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (27 bp):
AAAAGTAAGGAGATTAAATTTAAAAAT
Found at i:42624893 original size:21 final size:21
Alignment explanation
Indices: 42624864--42624907 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
42624854 ACGAAAAGAA
42624864 TTATCATTTA-TTTAATCTCAT
1 TTATCATTTATTTTAATC-CAT
*
42624885 TTATTATTTATTTTAATCCAT
1 TTATCATTTATTTTAATCCAT
42624906 TT
1 TT
42624908 CTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATCATTTATTTTAATCCAT
Found at i:42630997 original size:112 final size:112
Alignment explanation
Indices: 42630761--42631079 Score: 484
Period size: 112 Copynumber: 2.9 Consensus size: 112
42630751 GAAATTCGAG
* * * * * * *
42630761 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGTACG-TTCCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGTATGTTTTCTC
* * *
42630823 AAATTTTCAAACGCAAAACATTACCTTATTTTGAAATTTTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTTTAAA
*
42630870 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGTATGTTTTCTC
42630935 GAATTTCCCAAACGCAAAACATTGCCTTATTTTG-AATTTTTTTTAAA
66 GAATTT-CCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTTTAAA
*
42630982 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAAGGTATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGTATGTTTTCTC
42631047 GAATTTTCCAAACGCAAAACATTGCCTTATTTT
66 GAA-TTTCCAAACGCAAAACATTGCCTTATTTT
42631080 AAAAAATTTT
Statistics
Matches: 192, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
109 24 0.12
111 25 0.13
112 115 0.60
113 28 0.15
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (112 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGTATGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTTTTAAA
Found at i:42631458 original size:15 final size:16
Alignment explanation
Indices: 42631425--42631463 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
42631415 TTTATGCAAG
*
42631425 TATGTATATACACGTT
1 TATGTATATACAAGTT
42631441 TATGTATATA-AAGTT
1 TATGTATATACAAGTT
*
42631456 TATATATA
1 TATGTATA
42631464 AAAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (16 bp):
TATGTATATACAAGTT
Found at i:42632319 original size:20 final size:20
Alignment explanation
Indices: 42632296--42632335 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
42632286 GCGCCGGCCG
42632296 CCGATCACCGGTGACGGCGC
1 CCGATCACCGGTGACGGCGC
42632316 CCGATCACCGGTGACGGCGC
1 CCGATCACCGGTGACGGCGC
42632336 TGCCGTCCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.40, G:0.35, T:0.10
Consensus pattern (20 bp):
CCGATCACCGGTGACGGCGC
Found at i:42632484 original size:14 final size:14
Alignment explanation
Indices: 42632447--42632477 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42632437 AAATAGTTCG
42632447 AAAGAAAAAAATAA
1 AAAGAAAAAAATAA
*
42632461 AGAGAAAAAAATAA
1 AAAGAAAAAAATAA
42632475 AAA
1 AAA
42632478 TAGAAAAGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (14 bp):
AAAGAAAAAAATAA
Found at i:42632484 original size:16 final size:14
Alignment explanation
Indices: 42632449--42632475 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42632439 ATAGTTCGAA
42632449 AGAAAAAAATAAAG
1 AGAAAAAAATAAAG
42632463 AGAAAAAAATAAA
1 AGAAAAAAATAAA
42632476 AATAGAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (14 bp):
AGAAAAAAATAAAG
Found at i:42633422 original size:50 final size:50
Alignment explanation
Indices: 42633358--42634721 Score: 733
Period size: 50 Copynumber: 27.3 Consensus size: 50
42633348 CTGTCATCTC
* * **
42633358 CAATCTGTTTAACTGCAATGTCGAGGAAGTAAGATTCACCGTCATAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * * *
42633408 CAATCTGTTCAACTGCACTGCCTGGGAAATAAGATTCGCTGTTGTGGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * *** *
42633458 CGATCTTTTAAACTGCAATGTTGGGGAAGTGAGATTCGGTGTCGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
*** ** * *
42633508 CAATCTGTTCCGTTGC-ATCGTCAAGGAGGTAAGATTCACCGTCGTAGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * ** * * * * ** *
42633558 CGATCTATTCTGCTGC-ATCTCTAGGGAGGTGAGATTTGCTGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTC-GGGGAAGTAAGATTCACCGTTGTAGCTT
** * * * * * *
42633608 TGATCTTTTAAATTGCAATATCGGGGAAGTGAGATTCACCGTCGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* ** ** * ** * *
42633658 CAATCTATTCCGCTGCACCGTC-TGGAAGTAAGATTTGCTGTTGTGGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * ** *
42633707 CGATATTTTAAATTGCAATGTCGGGGAAGTAAGATTTGCTGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
** * * ** * *
42633757 CAATCTGTTCCGCTACATTG-CCTGGAAGTAAGATTCGCCGTTGTGGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * * *
42633806 CGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTATAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* ** * * * *
42633856 CAATCTGCTCCGCTAC-ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * *
42633906 CAATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* ** * * *
42633956 CAATCTGCTCTGCTGC-ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * * * *
42634006 CAACCTTTTGAATTGCAATGTAGGGGAAGTGAGATTTACTGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* ** ** * * ** *
42634056 CAATCTGCTCCGCTGCACCGTC-TGGAAGCAAGATTTGCCGTTGTGGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * * *
42634105 CGATCTTTTGAATTACAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
** ** * *
42634155 CAATCTGTTCCGCTGC-ATCG-CCTGGAAGTAAGATTCGCCGTTGTGGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * *
42634204 CGATCTTTTGAATTGTAATGTTGGGGAAGTAAGATTCACCGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* *** * * *
42634254 CAATCTGCTCTGTTGC-ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * *
42634304 CAATCTTTTGAATTGCAATGTAGGGGAAGTGAGATTCACCGTTGTCGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* ** * * *
42634354 CAATCTGCTCCCCTGC-ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * *
42634404 CAATCTTTTGAATTGCAATGTAGGGGAAGTGAGATTCACCGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* ** * * *
42634454 CAATCTGCTCCGCTGC-ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * * * * * * *
42634504 CAATCTTTTGAATTGCAATGTAGAGGAAGTGAGATTCGCTGTTGTAGCTT
1 CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * ** * ** *
42634554 CAATTTGCTCCGCTGC-ATCGCCTAGGAAGTAAGATTCACCGTTGTGGCTGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGT---AGCTT
* * * * * *
42634607 CAATCTTTTGAATTGCAACT-TCGGGGAAGTGAGATTCGCCGTCGTAGCTT
1 CAATCTGTTCAACTGCAA-TGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* ** * * * *
42634657 CAATCTATTCTGCTGC-ATCGCCTGGGAAATAAGATTCACCGTTGTGGCTT
1 CAATCTGTTCAACTGCAAT-GTCGGGGAAGTAAGATTCACCGTTGTAGCTT
* * *
42634707 CGATCTTTTAAACTG
1 CAATCTGTTCAACTG
42634722 TAATCTATAG
Statistics
Matches: 953, Mismatches: 334, Indels: 54
0.71 0.25 0.04
Matches are distributed among these distances:
48 1 0.00
49 156 0.16
50 748 0.78
51 14 0.01
53 32 0.03
54 1 0.00
55 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (50 bp):
CAATCTGTTCAACTGCAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTT
Found at i:42634126 original size:398 final size:398
Alignment explanation
Indices: 42633612--42634715 Score: 1724
Period size: 398 Copynumber: 2.8 Consensus size: 398
42633602 TAGCTTTGAT
* * * * **
42633612 CTTTTAAATTGCAATATCGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCACC
1 CTTTTGAATTGCAATGTAGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTGCACC
* * *
42633677 GTCTGGAAGTAAGATTTGCTGTTGTGGCTTCGATATTTTAAATTGCAATGTCGGGGAAGTAAGAT
66 GTCTGGAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTAAGAT
* * *
42633742 TTGCTGTTGTAGCTTCAATCTGTTCCGCTACATTGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
131 TCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
* * *
42633807 GATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTATAGCTTCAATCTGCTCCGCTAC
196 GATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGC
*
42633872 ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGTG
261 ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTAGGGGAAGTG
* **
42633937 AGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTG
326 AGATTCACCGTTGTAGCTTCAATCTGCTCCCCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTG
42634002 GCTTCAAC
391 GCTTCAAC
* *
42634010 CTTTTGAATTGCAATGTAGGGGAAGTGAGATTTACTGTTGTAGCTTCAATCTGCTCCGCTGCACC
1 CTTTTGAATTGCAATGTAGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTGCACC
* *
42634075 GTCTGGAAGCAAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTACAATGTCGGGGAAGTAAGAT
66 GTCTGGAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTAAGAT
42634140 TCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
131 TCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
* * * * *
42634205 GATCTTTTGAATTGTAATGTTGGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGCTCTGTTGC
196 GATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGC
42634270 ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTAGGGGAAGTG
261 ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTAGGGGAAGTG
*
42634335 AGATTCACCGTTGTCGCTTCAATCTGCTCCCCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTG
326 AGATTCACCGTTGTAGCTTCAATCTGCTCCCCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTG
*
42634400 GCTTCAAT
391 GCTTCAAC
*
42634408 CTTTTGAATTGCAATGTAGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTGCATC
1 CTTTTGAATTGCAATGTAGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTGCACC
* ** * * * *
42634473 GCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTAGAGGAAGTGAGA
66 GTCT-GGAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTAAGA
* * *
42634538 TTCGCTGTTGTAGCTTCAATTTGCTCCGCTGCATCGCCTAGGAAGTAAGATTCACCGTTGTGGCT
130 TTCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT-GGAAGTAAGATTCGCCGTTGT-G--
* * **
42634603 GCTTCAATCTTTTGAATTGCAACT-TCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTATTC
191 GCTTCGATCTTTTGAATTGCAA-TGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTC
* *
42634667 TGCTGCATCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGATCTTTT
255 TGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
42634716 AAACTGTAAT
Statistics
Matches: 644, Mismatches: 56, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
398 433 0.67
399 89 0.14
400 20 0.03
401 1 0.00
403 100 0.16
404 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (398 bp):
CTTTTGAATTGCAATGTAGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGCTCCGCTGCACC
GTCTGGAAGTAAGATTTGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTAAGAT
TCGCTGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTC
GATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCTGCTGC
ATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAATGTAGGGGAAGTG
AGATTCACCGTTGTAGCTTCAATCTGCTCCCCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTG
GCTTCAAC
Found at i:42635913 original size:44 final size:44
Alignment explanation
Indices: 42635863--42635961 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 44
42635853 CCGATCTAAT
42635863 CAAAATTTGAGCT-GCTCTGATCACCATCATGCCCCAATTTGATC
1 CAAAATTTGAGCTCGCTCTGATCA-CATCATGCCCCAATTTGATC
* * * * *
42635907 CAAAATTTAAG-TCGCTCTGATCACTTCGTGCCCCATTTTGTTC
1 CAAAATTTGAGCTCGCTCTGATCACATCATGCCCCAATTTGATC
42635950 CAAAATTTGAGC
1 CAAAATTTGAGC
42635962 CGCCCTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 27 0.57
44 20 0.43
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (44 bp):
CAAAATTTGAGCTCGCTCTGATCACATCATGCCCCAATTTGATC
Found at i:42636057 original size:21 final size:22
Alignment explanation
Indices: 42636033--42636084 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
42636023 TACCTTGGCC
*
42636033 TCTCTTTTTTTCCTT-TTCTTT
1 TCTCTTTTTTTCCTTCTTCTCT
* *
42636054 TCTCTTCTTCTCCTTCTTCTCT
1 TCTCTTTTTTTCCTTCTTCTCT
42636076 T-TCTTTTTT
1 TCTCTTTTTT
42636085 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
TCTCTTTTTTTCCTTCTTCTCT
Found at i:42640514 original size:113 final size:113
Alignment explanation
Indices: 42640310--42640629 Score: 513
Period size: 113 Copynumber: 2.9 Consensus size: 113
42640300 GAAATTCGAG
* * * * * * * * *
42640310 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGTACCTTAGGGTACG-TTCCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAAGGTATGTTTTCTC
*
42640372 AAATTTT-CAAACGCAAAACATTACCTTATTTTGAAATTTTTTTAAAA
66 GAATTTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTTTAAAA
42640419 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAAGGTATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAAGGTATGTTTTCTC
42640484 GAATTTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTTTAAAA
66 GAATTTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTTTAAAA
42640532 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAAGGTATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAAGGTATGTTTTCTC
*
42640597 GAATTTTCCAAACGCAAAACATTGCCTTATTTT
66 GAATTTTCCAAACGCAAAACATTACCTTATTTT
42640630 AAAAAATTTT
Statistics
Matches: 196, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
109 24 0.12
111 24 0.12
112 11 0.06
113 137 0.70
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (113 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAAGGTATGTTTTCTC
GAATTTTCCAAACGCAAAACATTACCTTATTTTGAAATTTTTTTAAAA
Found at i:42640706 original size:15 final size:15
Alignment explanation
Indices: 42640686--42640715 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42640676 TAATAAATAT
*
42640686 GATAATGTGAACAAA
1 GATAATATGAACAAA
42640701 GATAATATGAACAAA
1 GATAATATGAACAAA
42640716 AACGAATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
GATAATATGAACAAA
Found at i:42641015 original size:15 final size:16
Alignment explanation
Indices: 42640983--42641020 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
42640973 TTATGCAAGG
*
42640983 ATGTATATACACGTTT
1 ATGTATATACAAGTTT
42640999 ATGTATATA-AAGTTT
1 ATGTATATACAAGTTT
*
42641014 ATATATA
1 ATGTATA
42641021 AAAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (16 bp):
ATGTATATACAAGTTT
Found at i:42641555 original size:24 final size:24
Alignment explanation
Indices: 42641523--42641573 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
42641513 GTGAGTTTTA
42641523 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
42641547 AATTCTGACCTAAATTAATCTGCC
1 AATTCTGACCTAAATTAATCTGCC
42641571 AAT
1 AAT
42641574 GTTTTTCCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTCTGACCTAAATTAATCTGCC
Found at i:42643042 original size:12 final size:12
Alignment explanation
Indices: 42643025--42643052 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
42643015 TTGGTTATTG
42643025 CTGTAGCAGCTT
1 CTGTAGCAGCTT
42643037 CTGTAGCAGCTT
1 CTGTAGCAGCTT
42643049 CTGT
1 CTGT
42643053 TTTTTGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (12 bp):
CTGTAGCAGCTT
Found at i:42645593 original size:92 final size:92
Alignment explanation
Indices: 42645457--42645650 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
42645447 TTGATTTTAG
* *
42645457 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
42645521 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
42645548 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
42645613 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
42645641 CAAATTCATA
1 TAAATTCATA
42645651 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:42645698 original size:48 final size:52
Alignment explanation
Indices: 42645628--42645726 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
42645618 AATAATTATT
42645628 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
42645676 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
42645727 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:42645708 original size:17 final size:17
Alignment explanation
Indices: 42645683--42645716 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42645673 ATAATTTTAA
*
42645683 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
42645700 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
42645717 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:42645733 original size:17 final size:16
Alignment explanation
Indices: 42645688--42645735 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
42645678 TTTAAATTTT
42645688 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
42645705 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
42645719 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
42645736 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:42645810 original size:16 final size:16
Alignment explanation
Indices: 42645789--42645830 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
42645779 TTATTAAATT
*
42645789 ATATATTTTAATTATA
1 ATATATTTTAATAATA
42645805 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
42645820 AT-TATGTTTAA
1 ATATAT-TTTAA
42645831 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:42645815 original size:15 final size:15
Alignment explanation
Indices: 42645780--42645821 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
42645770 TTAAGAATTT
*
42645780 TATTAAATTAT-ATA
1 TATTTAATTATAATA
42645794 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
42645808 TATTTAATAATAAT
1 TATTTAATTATAAT
42645822 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:42645933 original size:154 final size:156
Alignment explanation
Indices: 42645764--42646077 Score: 578
Period size: 154 Copynumber: 2.0 Consensus size: 156
42645754 ATAAGAATAT
*
42645764 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
42645829 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
42645892 AATAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
42645918 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
42645983 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
42646048 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
42646075 TAA
1 TAA
42646078 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 92 0.60
155 2 0.01
157 60 0.39
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:42645958 original size:18 final size:17
Alignment explanation
Indices: 42645930--42645964 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42645920 ATTATTAAGA
*
42645930 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
42645947 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
42645965 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:42645998 original size:75 final size:75
Alignment explanation
Indices: 42645765--42646000 Score: 212
Period size: 75 Copynumber: 3.1 Consensus size: 75
42645755 TAAGAATATT
*
42645765 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
42645830 AATATGATTA
66 AATATGATTA
* ** * * * * * * *
42645840 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
42645901 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
42645915 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
42645980 TTTAAATATGATTA
62 TTTAAATATGATTA
42645994 AATTATT
1 AATTATT
42646001 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 28
0.66 0.18 0.16
Matches are distributed among these distances:
74 1 0.01
75 30 0.26
76 28 0.24
77 6 0.05
78 27 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:42646229 original size:16 final size:16
Alignment explanation
Indices: 42646210--42646250 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
42646200 ACACAGCTTT
* *
42646210 TCCATTACATCTCTAA
1 TCCAATACACCTCTAA
42646226 TCCAATACACCTCTAA
1 TCCAATACACCTCTAA
42646242 TCCAATACA
1 TCCAATACA
42646251 GCGAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (16 bp):
TCCAATACACCTCTAA
Found at i:42646324 original size:14 final size:14
Alignment explanation
Indices: 42646296--42646340 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
42646286 TAAAAATGTT
42646296 TATAAATAT--ATA
1 TATAAATATAGATA
42646308 TATAAATATAGATA
1 TATAAATATAGATA
**
42646322 TATACGTATAGAT-
1 TATAAATATAGATA
42646335 TATAAA
1 TATAAA
42646341 GTGTATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 9 0.33
13 4 0.15
14 14 0.52
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (14 bp):
TATAAATATAGATA
Found at i:42646429 original size:21 final size:21
Alignment explanation
Indices: 42646388--42646431 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
42646378 AAAAAAAACG
*
42646388 TGTACATATATATTATGAAAA
1 TGTACATATATAATATGAAAA
* *
42646409 TGTATATATATAGATATAAAAA
1 TGTACATATATA-ATATGAAAA
42646431 T
1 T
42646432 AAAGCTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (21 bp):
TGTACATATATAATATGAAAA
Found at i:42648087 original size:13 final size:13
Alignment explanation
Indices: 42648069--42648095 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42648059 TTATATTGTT
42648069 ACCAAAAAAATTA
1 ACCAAAAAAATTA
42648082 ACCAAAAAAATTA
1 ACCAAAAAAATTA
42648095 A
1 A
42648096 TCGTGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
ACCAAAAAAATTA
Found at i:42671469 original size:25 final size:25
Alignment explanation
Indices: 42671435--42671503 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
42671425 TACTGATTCT
*
42671435 AGCTCTTATGAGCTTATCGATACTC
1 AGCTCGTATGAGCTTATCGATACTC
* ** *
42671460 AGCTCGTATGAGCTTACCGATTTTT
1 AGCTCGTATGAGCTTATCGATACTC
* *
42671485 AGCTCGGAGGAGCTTATCG
1 AGCTCGTATGAGCTTATCG
42671504 TTTATCGCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (25 bp):
AGCTCGTATGAGCTTATCGATACTC
Done.