Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 200 of 427
Found at i:55748704 original size:24 final size:24
Alignment explanation
Indices: 55748660--55748705 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
55748650 GCTCAAAATG
*
55748660 TTGGTCAAAATGTGTTCTTATGAC
1 TTGGTCAAAATGTGGTCTTATGAC
55748684 TTGGTCAAAATGTTGGT-TTATG
1 TTGGTCAAAATG-TGGTCTTATG
55748706 TTGGCTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (24 bp):
TTGGTCAAAATGTGGTCTTATGAC
Found at i:55748709 original size:22 final size:22
Alignment explanation
Indices: 55748657--55748709 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 22
55748647 TTGGCTCAAA
*
55748657 ATGTTGGTCAAAATGTGTTCTT
1 ATGTTGGTCAAAATGTGGTCTT
55748679 ATGACTTGGTCAAAATGTTGGT-TT
1 ATG--TTGGTCAAAATG-TGGTCTT
55748703 ATGTTGG
1 ATGTTGG
55748710 CTCATTGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 7 0.26
24 17 0.63
25 3 0.11
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.43
Consensus pattern (22 bp):
ATGTTGGTCAAAATGTGGTCTT
Found at i:55754402 original size:27 final size:26
Alignment explanation
Indices: 55754358--55754408 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
55754348 CTCGCTGCAA
*
55754358 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
55754385 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
55754409 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:55754474 original size:33 final size:32
Alignment explanation
Indices: 55754425--55754488 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
55754415 CTCGCTGCAA
* *
55754425 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
*
55754458 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
55754489 GTGACTTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:55760847 original size:27 final size:26
Alignment explanation
Indices: 55760809--55760868 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
55760799 ATATATATAT
* *
55760809 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
55760835 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
55760862 ATATCTG
1 ATATCTG
55760869 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:55762884 original size:43 final size:43
Alignment explanation
Indices: 55762806--55762889 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
55762796 AGCTCATACA
* * *
55762806 ATGCCAACGTCCTAGACGTGGTCTTACATGTAAACAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAAATATCG
*
55762849 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAAATAT
55762890 AGGATCCTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACAAATATCG
Found at i:55764104 original size:23 final size:22
Alignment explanation
Indices: 55764061--55764105 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
55764051 TTGTCGCCGA
*
55764061 TTTCAAATTTAATATCTTTTCT
1 TTTCAAATTTAATATCATTTCT
* *
55764083 TTTCAAATCTTCATATGATTTCT
1 TTTCAAAT-TTAATATCATTTCT
55764106 GACGATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTCAAATTTAATATCATTTCT
Found at i:55769690 original size:43 final size:43
Alignment explanation
Indices: 55769618--55769747 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
55769608 CAAAAAGCTC
* * * ** *
55769618 ATACAATGCCAACGTCCCAGATGTGGTCTTACATGTAAA-CAT
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
* * * * *
55769660 ATATCGATGCCACTGTCCCAGACA-GTGTCTTATACGAAAATCAA
1 ATA-CGATGCCAATGTCCCAAACATG-GTCTTACACGTAAATCAT
55769704 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
1 ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
55769747 A
1 A
55769748 AGTCAATGTC
Statistics
Matches: 70, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
42 4 0.06
43 60 0.86
44 6 0.09
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ATACGATGCCAATGTCCCAAACATGGTCTTACACGTAAATCAT
Found at i:55773971 original size:40 final size:40
Alignment explanation
Indices: 55773891--55774150 Score: 409
Period size: 40 Copynumber: 6.5 Consensus size: 40
55773881 ACCCAAGTTT
* * * *
55773891 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
55773930 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55773970 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55774010 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
55774050 CTTCGGGTCTTAGCCCGGATATAACAACTCACACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55774090 CTTCGGGTCTTA-CCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
*
55774129 CTTCGGGGCTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
55774151 CATTCAAATG
Statistics
Matches: 205, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.00
39 47 0.23
40 157 0.77
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:55782026 original size:40 final size:40
Alignment explanation
Indices: 55781946--55782165 Score: 347
Period size: 40 Copynumber: 5.5 Consensus size: 40
55781936 ACCCAAGTTT
* * * *
55781946 CTTCGGGAT-TTAG-CCGGATATAACCACACGCCCAATTGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* * *
55781985 CTTCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55782025 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55782065 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55782105 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
55782145 CTTCGGG-CTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
55782166 CATTCAAATG
Statistics
Matches: 169, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
38 1 0.01
39 24 0.14
40 144 0.85
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:55784916 original size:40 final size:40
Alignment explanation
Indices: 55784860--55785103 Score: 332
Period size: 40 Copynumber: 6.1 Consensus size: 40
55784850 TGGATGATAA
* *
55784860 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAG-TGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAT-ACTA-TAT
* *
55784900 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
*
55784940 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
*
55784980 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
*
55785020 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
* * * * *
55785060 CCGGGCTATGTCTCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATAT
55785100 CCGG
1 CCGG
55785104 TTCAATCCCG
Statistics
Matches: 186, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 182 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
Found at i:55788753 original size:29 final size:29
Alignment explanation
Indices: 55788719--55788823 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
55788709 TAGTCGATTT
* * *
55788719 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
55788748 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
55788777 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
55788806 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
55788824 TATTTCCAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:55788824 original size:29 final size:29
Alignment explanation
Indices: 55788778--55788848 Score: 142
Period size: 29 Copynumber: 2.4 Consensus size: 29
55788768 CTTCGAGCTC
55788778 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55788807 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
55788836 GCACACTTAGTGC
1 GCACACTTAGTGC
55788849 TAATCTCGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:55795455 original size:40 final size:39
Alignment explanation
Indices: 55795398--55795640 Score: 344
Period size: 40 Copynumber: 6.1 Consensus size: 39
55795388 GGATGATAAT
* *
55795398 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTA-TATC
*
55795438 CGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC
*
55795478 CGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC
55795518 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC
55795558 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATC
* * * *
55795598 CGGGCTATGTCCCGAAGGTATTCGAGCGAGTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATC
55795638 CGG
1 CGG
55795641 TTCAATCCCG
Statistics
Matches: 188, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.02
40 184 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATC
Found at i:55797570 original size:23 final size:23
Alignment explanation
Indices: 55797534--55797606 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
55797524 TAAAACCTAA
55797534 AAATGAAATAGTATTAAAGGAAAAT
1 AAAT-AAA-AGTATTAAAGGAAAAT
* *
55797559 AAATAAAAGTATTTTAA-GAAGAT
1 AAATAAAAGTA-TTAAAGGAAAAT
*
55797582 AAAT-AAAG-ATAAAAGTGAAAAT
1 AAATAAAAGTATTAAAG-GAAAAT
55797604 AAA
1 AAA
55797607 AATAATAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 12 0.30
23 13 0.32
24 7 0.17
25 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.14, T:0.23
Consensus pattern (23 bp):
AAATAAAAGTATTAAAGGAAAAT
Found at i:55803796 original size:48 final size:48
Alignment explanation
Indices: 55803731--55803838 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
55803721 CGAAAAAATT
*
55803731 ATGTCACCCTATCTCTAGGCGTGCAATCAACTCCACTTAATTATGTTAG
1 ATGT-ACCTTATCTCTAGGCGTGCAATCAACTCCACTTAATTATGTTAG
** *
55803780 ATGTACCTTATCTCTAGGCGTGCAATCAACTCTGCTTAATTCTGTTAG
1 ATGTACCTTATCTCTAGGCGTGCAATCAACTCCACTTAATTATGTTAG
*
55803828 ATCTACTCTTA
1 ATGTAC-CTTA
55803839 GACAGGGACT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
48 45 0.85
49 8 0.15
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (48 bp):
ATGTACCTTATCTCTAGGCGTGCAATCAACTCCACTTAATTATGTTAG
Found at i:55806357 original size:43 final size:43
Alignment explanation
Indices: 55806309--55806395 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
55806299 AACTTACATG
55806309 TGTCACAAACATCATAAACTTAGACCAACTCAATGAGCTCAGA
1 TGTCACAAACATCATAAACTTAGACCAACTCAATGAGCTCAGA
* * * * *
55806352 TGTCACATATATGATGAACTTAGACCAACTCAATGAGTTCAGA
1 TGTCACAAACATCATAAACTTAGACCAACTCAATGAGCTCAGA
55806395 T
1 T
55806396 CATATAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (43 bp):
TGTCACAAACATCATAAACTTAGACCAACTCAATGAGCTCAGA
Found at i:55810944 original size:11 final size:11
Alignment explanation
Indices: 55810928--55810957 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
55810918 ACTAACACTC
*
55810928 TTAAGTCTTCA
1 TTAAGTCCTCA
55810939 TTAAGTCCTCA
1 TTAAGTCCTCA
55810950 TTAAGTCC
1 TTAAGTCC
55810958 GTCTTCAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (11 bp):
TTAAGTCCTCA
Found at i:55812742 original size:27 final size:27
Alignment explanation
Indices: 55812712--55812767 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
55812702 TTCTTTTCAC
55812712 ATGGCTATTACAAAATGAATCATCAAT
1 ATGGCTATTACAAAATGAATCATCAAT
55812739 ATGGCTATTACAAAATGAATCATCAAT
1 ATGGCTATTACAAAATGAATCATCAAT
55812766 AT
1 AT
55812768 AGACCTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (27 bp):
ATGGCTATTACAAAATGAATCATCAAT
Found at i:55818589 original size:29 final size:29
Alignment explanation
Indices: 55818546--55818605 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
55818536 AAAACACACA
*
55818546 ACCGAGTTTAACAACCTGACTCTGATACC
1 ACCGAGTTTAACAACCTGACTCTAATACC
**
55818575 ACCGAGTTTTGCAACCTGACTCTAATACC
1 ACCGAGTTTAACAACCTGACTCTAATACC
55818604 AC
1 AC
55818606 TACGTGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.13, T:0.25
Consensus pattern (29 bp):
ACCGAGTTTAACAACCTGACTCTAATACC
Found at i:55820887 original size:21 final size:22
Alignment explanation
Indices: 55820863--55820907 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
55820853 TATTTAACCC
55820863 AAAATAAATTGA-ATTA-AAATT
1 AAAATAAATT-ATATTATAAATT
*
55820884 AAAATTAATTATATTATAAATT
1 AAAATAAATTATATTATAAATT
55820906 AA
1 AA
55820908 TATTCATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 13 0.62
22 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATAAATTATATTATAAATT
Found at i:55820893 original size:16 final size:16
Alignment explanation
Indices: 55820866--55820908 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
55820856 TTAACCCAAA
55820866 ATAAATTGAATTAAAATT
1 ATAAATT-AATT-AAATT
*
55820884 A-AAATTAATTATATT
1 ATAAATTAATTAAATT
55820899 ATAAATTAAT
1 ATAAATTAAT
55820909 ATTCATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 5 0.22
18 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (16 bp):
ATAAATTAATTAAATT
Found at i:55821564 original size:337 final size:336
Alignment explanation
Indices: 55821081--55821757 Score: 1327
Period size: 337 Copynumber: 2.0 Consensus size: 336
55821071 ATTAAACATG
55821081 TTAAAAATTTAGGTACAATTTATTTATTTATAATTATTATATATTTTTCGACAAGAATTACACTG
1 TTAAAAATTTAGGTACAATTTATTTATTTATAATTATTATATATTTTTCGACAAGAATTACACTG
55821146 GAACTGCATGAATTTGGGTTAAAAAAGGGCATTAAAAACAGTCCATATATTTTCGTGTTTCCAAT
66 GAACTGCATGAATTTGGGTTAAAAAAGGGCATTAAAAACAGTCCATATATTTTCGTGTTTCCAAT
*
55821211 ACTTCACTCTAATAACCATAGCTAAGCTGCCATACATATACTTTAGCGGACTTGCTGCCATACTC
131 ACTTCACTCAAATAACCATAGCTAAGCTGCCATACATATACTTTAGCGGACTTGCTGCCATACTC
55821276 GGAGTTAATACTTCCATAAACACTTCCTCCGTCATCACATTTCCCACCTCAAACATATACATATC
196 GGAGTTAATACTTCCATAAACACTTCCTCCGTCATCACATTTCCCACCTCAAACATATACATATC
*
55821341 ATAATCATACATAGATGACATAAATACATATGGCTTATATTACATAACATGCTTATATGCATAAT
261 ATAATCATACATAGATGACATAAATACATATGGCTCATATTACATAACATGCTTATATGCATAAT
55821406 TTGTATTACAC
326 TTGTATTACAC
55821417 TTAAAAATTTAGGTACAATTTATTTATTTTATAATTATTATATATTTTTCGACAAGAATTACACT
1 TTAAAAATTTAGGTACAATTTATTTA-TTTATAATTATTATATATTTTTCGACAAGAATTACACT
55821482 GGAACTGCATGAATTTGGGTTAAAAAAGGGCATTAAAAACAGTCCATATATTTTCGTGTTTCCAA
65 GGAACTGCATGAATTTGGGTTAAAAAAGGGCATTAAAAACAGTCCATATATTTTCGTGTTTCCAA
55821547 TACTTCACTCAAATAACCATAGCTAAGCTGCCATACATATACTTTAGCGGACTTGCTGCCATACT
130 TACTTCACTCAAATAACCATAGCTAAGCTGCCATACATATACTTTAGCGGACTTGCTGCCATACT
55821612 CGGAGTTAATACTTCCATAAACACTTCCTCCGTCATCACATTTCCCACCTCAAACATATACATAT
195 CGGAGTTAATACTTCCATAAACACTTCCTCCGTCATCACATTTCCCACCTCAAACATATACATAT
55821677 CATAATCATACATAGATGACATAAATACATATGGCTCATATTACATAACATGCTTATATGCATAA
260 CATAATCATACATAGATGACATAAATACATATGGCTCATATTACATAACATGCTTATATGCATAA
55821742 TTTGTATTACAC
325 TTTGTATTACAC
55821754 TTAA
1 TTAA
55821758 TTGGGAGTTA
Statistics
Matches: 338, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
336 26 0.08
337 312 0.92
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (336 bp):
TTAAAAATTTAGGTACAATTTATTTATTTATAATTATTATATATTTTTCGACAAGAATTACACTG
GAACTGCATGAATTTGGGTTAAAAAAGGGCATTAAAAACAGTCCATATATTTTCGTGTTTCCAAT
ACTTCACTCAAATAACCATAGCTAAGCTGCCATACATATACTTTAGCGGACTTGCTGCCATACTC
GGAGTTAATACTTCCATAAACACTTCCTCCGTCATCACATTTCCCACCTCAAACATATACATATC
ATAATCATACATAGATGACATAAATACATATGGCTCATATTACATAACATGCTTATATGCATAAT
TTGTATTACAC
Found at i:55825498 original size:31 final size:31
Alignment explanation
Indices: 55825462--55825520 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
55825452 AATAACTCAG
55825462 TGACTTAAATAAAAACTTTTAAATAGTTTAA
1 TGACTTAAATAAAAACTTTTAAATAGTTTAA
* *
55825493 TGACTTGAATGAAAACTTTTAAATAGTT
1 TGACTTAAATAAAAACTTTTAAATAGTT
55825521 CAAAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTAAATAGTTTAA
Found at i:55826378 original size:24 final size:25
Alignment explanation
Indices: 55826349--55826401 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
55826339 AAAAAAAATG
* *
55826349 TAATTTTATTA-TTTTAATAGATTA
1 TAATTTTATAATTTTTAAAAGATTA
55826373 TAATTTTATAATTTTTAAAAGATTA
1 TAATTTTATAATTTTTAAAAGATTA
55826398 -AATT
1 TAATT
55826402 AAATATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
TAATTTTATAATTTTTAAAAGATTA
Found at i:55826439 original size:29 final size:29
Alignment explanation
Indices: 55826371--55826444 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
55826361 TTTAATAGAT
* *
55826371 TATAATTTTATAATTTTTAAAAGATTAAAT
1 TATAATTTTAT-ATTTTTAAAAGATCAAAG
** *
55826401 TA-AATATTTATATTTTTAAGTGGTCAAAG
1 TATAAT-TTTATATTTTTAAAAGATCAAAG
55826430 TATAATTTTATATTT
1 TATAATTTTATATTT
55826445 ACTAATCTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (29 bp):
TATAATTTTATATTTTTAAAAGATCAAAG
Found at i:55831541 original size:26 final size:25
Alignment explanation
Indices: 55831503--55831636 Score: 77
Period size: 24 Copynumber: 5.5 Consensus size: 25
55831493 GACTCACCTT
*
55831503 AGCTCGTATGAGCTTACTGATATATC
1 AGCTCGTAAGAGCTTACTGAT-TATC
* *
55831529 AGCTTGTAAGAGCTTACT-ATTCTC
1 AGCTCGTAAGAGCTTACTGATTATC
* * *
55831553 AGCTCATTAGAGCTTACTG-TT-CC
1 AGCTCGTAAGAGCTTACTGATTATC
*
55831576 AGCTC--AATGAGCTTGCT-ATTCATC
1 AGCTCGTAA-GAGCTTACTGATT-ATC
* *
55831600 AACTCAG-AAGGAGCTTACTGATCAT-
1 AGCTC-GTAA-GAGCTTACTGATTATC
*
55831625 AGCTCGAAAGAG
1 AGCTCGTAAGAG
55831637 AAAATACGAT
Statistics
Matches: 84, Mismatches: 15, Indels: 20
0.71 0.13 0.17
Matches are distributed among these distances:
21 1 0.01
22 10 0.12
23 6 0.07
24 29 0.35
25 8 0.10
26 28 0.33
27 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCTCGTAAGAGCTTACTGATTATC
Found at i:55831564 original size:24 final size:24
Alignment explanation
Indices: 55831537--55831618 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
55831527 TCAGCTTGTA
*
55831537 AGAGCTTACTATTCTCAGCTCATT
1 AGAGCTTACTATTCTCAGCTCAAT
*
55831561 AGAGCTTACTGTTC-CAGCTCAAT
1 AGAGCTTACTATTCTCAGCTCAAT
* *
55831584 -GAGCTTGCTATTCATCAACTCAGA-
1 AGAGCTTACTATTC-TCAGCTCA-AT
55831608 AGGAGCTTACT
1 A-GAGCTTACT
55831619 GATCATAGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 11 0.23
23 8 0.17
24 19 0.40
25 1 0.02
26 8 0.17
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (24 bp):
AGAGCTTACTATTCTCAGCTCAAT
Found at i:55847981 original size:48 final size:48
Alignment explanation
Indices: 55847924--55848025 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
55847914 CATCGACATT
* *
55847924 GATATGTGATCCTATGTAAAACCTTGTTTGGGACATGGCATTGGCATC
1 GATATGTGATCCTATGTAAAACCATGTTTGGGACAAGGCATTGGCATC
* * *
55847972 GTTATGTGATCCTATGTAAGACCATGTTTGGGACAAGGCATTGGTATC
1 GATATGTGATCCTATGTAAAACCATGTTTGGGACAAGGCATTGGCATC
55848020 GATATG
1 GATATG
55848026 AGAACATCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.33
Consensus pattern (48 bp):
GATATGTGATCCTATGTAAAACCATGTTTGGGACAAGGCATTGGCATC
Found at i:55856623 original size:40 final size:39
Alignment explanation
Indices: 55856458--55856641 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
55856448 AAATTGAATG
* * *
55856458 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
55856498 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
55856538 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
55856578 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
55856617 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55856642 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:55856666 original size:80 final size:81
Alignment explanation
Indices: 55856498--55856686 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55856488 GCTGGAAATT
* * * *
55856498 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55856563 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55856579 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55856642 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55856658 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55856687 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55865637 original size:31 final size:31
Alignment explanation
Indices: 55865588--55865710 Score: 169
Period size: 31 Copynumber: 4.0 Consensus size: 31
55865578 TTAGTCTTGA
**
55865588 CATAT-ACTGGGGTGAAGCCTTTCTATAAAT
1 CATATCACTGGGCCGAAGCCTTTCTATAAAT
* *
55865618 CATATCACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCTATAAAT
55865649 CATATCACTGGGCCGAAGCCTTT-TCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCT-ATAAAT
*
55865680 CATATCACTAGGCCGAAGCCTTTACTATAAA
1 CATATCACTGGGCCGAAGCCTTT-CTATAAA
55865711 CGGTATGGCC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
30 5 0.06
31 71 0.87
32 5 0.06
33 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCTATAAAT
Found at i:55865785 original size:42 final size:42
Alignment explanation
Indices: 55865726--55865859 Score: 259
Period size: 42 Copynumber: 3.2 Consensus size: 42
55865716 TGGCCCTTAG
*
55865726 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
55865768 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
55865810 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
55865852 GCCCATTT
1 GCCCATTT
55865860 GGGGAGACTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:55866058 original size:25 final size:26
Alignment explanation
Indices: 55866007--55866076 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
55865997 CTCTTTTAAT
*
55866007 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCAGATA
55866032 AACTGGGGCAAAGCCCTTTTCAG-TA
1 AACTGGGGCAAAGCCCTTTTCAGATA
* * *
55866057 AACTAGGGTAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
55866077 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCAGATA
Found at i:55866900 original size:27 final size:27
Alignment explanation
Indices: 55866870--55866934 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
55866860 GGGCATATTC
55866870 GTCATTTTACCATACAAGG-G-TATTACG
1 GTCATTTTACCATAC-AGGAGCT-TTACG
* *
55866897 GTCACTTTACCCTACAGGAGCTTTACG
1 GTCATTTTACCATACAGGAGCTTTACG
*
55866924 GTCTTTTTACC
1 GTCATTTTACC
55866935 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.09
27 28 0.88
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGAGCTTTACG
Found at i:55867018 original size:27 final size:27
Alignment explanation
Indices: 55866988--55867073 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 27
55866978 GTAAATCTAC
55866988 AAACCAATGGTATTTTAGTAATTTTGT
1 AAACCAATGGTATTTTAGTAATTTTGT
55867015 AAACCAATGGTATTTTTA-TAATTTT-T
1 AAACCAATGGTA-TTTTAGTAATTTTGT
* *
55867041 CGAAAGTCAACGGTATTTCT-GTAATTTTGT
1 --AAA-CCAATGGTATTT-TAGTAATTTTGT
55867071 AAA
1 AAA
55867074 TTAGGGGTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
26 1 0.02
27 19 0.38
28 14 0.28
29 15 0.30
30 1 0.02
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (27 bp):
AAACCAATGGTATTTTAGTAATTTTGT
Found at i:55867091 original size:27 final size:27
Alignment explanation
Indices: 55867052--55867200 Score: 169
Period size: 27 Copynumber: 5.6 Consensus size: 27
55867042 GAAAGTCAAC
** *
55867052 GGTATTTCT-GTAATTTTGTAAATTAGG
1 GGTATTT-TGGTAATTTTACAAACTAGG
*
55867079 GGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
* * * *
55867106 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAGG
*
55867133 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
55867160 GGTATTTTGGTAATTTTACAAACTAGT
1 GGTATTTTGGTAATTTTACAAACTAGG
55867187 GGT-TTTTGGTAATT
1 GGTATTTTGGTAATT
55867201 CTATCCTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.13
27 91 0.86
28 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:55867137 original size:54 final size:54
Alignment explanation
Indices: 55867079--55867233 Score: 190
Period size: 54 Copynumber: 2.9 Consensus size: 54
55867069 GTAAATTAGG
*
55867079 GGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACCAGT
* * * *
55867133 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGT
1 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAGT
* ** *
55867187 GGT-TTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 GGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
55867234 TCGAGGTAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
53 33 0.38
54 52 0.60
55 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAGT
Found at i:55867278 original size:27 final size:27
Alignment explanation
Indices: 55867232--55867320 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
55867222 GTAATTTCAC
* * *
55867232 AATCGA-GGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
55867258 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
55867285 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
55867312 AATCAAGGG
1 AATCGAGGG
55867321 CATTTCAGTA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
26 6 0.11
27 48 0.89
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:55873262 original size:24 final size:24
Alignment explanation
Indices: 55873202--55873297 Score: 88
Period size: 24 Copynumber: 4.0 Consensus size: 24
55873192 TATCAGTTCA
* *
55873202 TAAGAGCTTACTATTTTCAGCTCG
1 TAAGAGCTTACTGTTCTCAGCTCG
* *
55873226 TAAGAGCTTACTGTTCTCAGTTTG
1 TAAGAGCTTACTGTTCTCAGCTCG
* *
55873250 TTAGAGCTTACTGTT-TCAAACTC-
1 TAAGAGCTTACTGTTCTC-AGCTCG
*
55873273 AACAGAGCTTACTGTTCATCAGCTC
1 TA-AGAGCTTACTGTTC-TCAGCTC
55873298 AAAAGGAGTT
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
23 2 0.04
24 49 0.86
25 4 0.07
26 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (24 bp):
TAAGAGCTTACTGTTCTCAGCTCG
Found at i:55878935 original size:46 final size:45
Alignment explanation
Indices: 55878786--55879001 Score: 211
Period size: 46 Copynumber: 4.6 Consensus size: 45
55878776 TCACTTGCGT
* * * * * *
55878786 AAGCTAGTGTAAGACATGCCTGGGACATGCATCGGCCAC-ATTATG
1 AAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGA-GACG
* * * *
55878831 AGAGCCAGTATATGACCATGTCTGGGACATGGCATTGGCATTGAGACG
1 A-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGACG
*
55878879 AGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACG
1 A-AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACG
* *
55878925 TAAGCCAGTGTAAGACATGTTTGGGACATGCATTGG-CTACGAGATG
1 -AAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCT-CGAGACG
*
55878971 AAAGTCAGTGTAAGACCATGTCTGGGACATG
1 -AAGCCAGTGTAAGA-CATGTCTGGGACATG
55879002 GCATCGACTT
Statistics
Matches: 143, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.02
46 76 0.53
47 42 0.29
48 21 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
AAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACG
Found at i:55879024 original size:93 final size:93
Alignment explanation
Indices: 55878786--55879056 Score: 243
Period size: 94 Copynumber: 2.9 Consensus size: 93
55878776 TCACTTGCGT
* * * * * *
55878786 AAGCTAGTGTAAGACATGCCTGGGACATGCA-TCGGC-C-ACATTATGAGAGCCAGTATATGACC
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATTCGACTCGAGA-CAT--GAGCCAGTGTAAGA-C
*
55878848 ATGTCTGGGACATGGCATTGGCATTGAGACGA
62 ATGTCTGGGACATGGCATTGGCATCGAGACGA
* * * * *
55878880 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGACGTAAGCCAGTGTAAGACATGT
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATTCGACTCGAGACATGAGCCAGTGTAAGACATGT
* *
55878945 TTGGGACAT-GCATTGGC-TACGAGATGA
66 CTGGGACATGGCATTGGCAT-CGAGACGA
* *
55878972 AAG-TCAGTGTAAGACCATGTCTGGGACATGGCA-TCGACTTGAGATATGAGCCAGTGTAAGACC
1 AAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATTCGACTCGAGACATGAGCCAGTGTAAGA-C
* *
55879035 GTGTCTAGGA-ATGGCATTGGCA
62 ATGTCTGGGACATGGCATTGGCA
55879057 CCTTACCCAC
Statistics
Matches: 144, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
91 2 0.01
92 25 0.17
93 51 0.35
94 59 0.41
95 3 0.02
96 2 0.01
97 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23
Consensus pattern (93 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGCATTCGACTCGAGACATGAGCCAGTGTAAGACATGT
CTGGGACATGGCATTGGCATCGAGACGA
Found at i:55879040 original size:140 final size:140
Alignment explanation
Indices: 55878783--55879055 Score: 338
Period size: 140 Copynumber: 1.9 Consensus size: 140
55878773 GGGTCACTTG
* * * *
55878783 CGTAAGCTAGTGTAAGACATGCCTGGGACATGCATCGGCCACATTATGAGAGCCAGTATATGACC
1 CGTAAGCCAGTGTAAGACATGCCTGGGACATGCATCGGCCACATGATGAAAGCCAGTATAAGACC
* * * *
55878848 ATGTCTGGGACATGGCATTGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCAT
66 ATGTCTGGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGA-ATGGCAT
55878912 TGGCCTCGAGA
130 TGGCCTCGAGA
** * * * *
55878923 CGTAAGCCAGTGTAAGACATGTTTGGGACATGCATTGGCTACGA-GATGAAAGTCAGTGTAAGAC
1 CGTAAGCCAGTGTAAGACATGCCTGGGACATGCATCGGCCAC-ATGATGAAAGCCAGTATAAGAC
* *
55878987 CATGTCTGGGACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAGACCGTGTCTAGGAATGGC
65 CATGTCTGGGACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGA-CATGTCTAGGAATGGC
55879050 ATTGGC
128 ATTGGC
55879056 ACCTTACCCA
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
138 1 0.01
139 21 0.19
140 90 0.80
141 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (140 bp):
CGTAAGCCAGTGTAAGACATGCCTGGGACATGCATCGGCCACATGATGAAAGCCAGTATAAGACC
ATGTCTGGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGAATGGCATT
GGCCTCGAGA
Found at i:55885007 original size:28 final size:28
Alignment explanation
Indices: 55884963--55885031 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
55884953 GGAAGTAGTT
* *
55884963 GGGCCTGATGGGACATATGAATGTGACA
1 GGGCCTGATGGGCCATATGAATATGACA
**
55884991 GGGCCTGATGGGCCATATGAATATGATT
1 GGGCCTGATGGGCCATATGAATATGACA
*
55885019 GGGCTTGATGGGC
1 GGGCCTGATGGGC
55885032 TATGTGAACG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.14, G:0.38, T:0.25
Consensus pattern (28 bp):
GGGCCTGATGGGCCATATGAATATGACA
Found at i:55885405 original size:27 final size:27
Alignment explanation
Indices: 55885369--55885827 Score: 414
Period size: 27 Copynumber: 17.2 Consensus size: 27
55885359 TAATAAAGAT
* *
55885369 AAATTACTGAAATACTCTTGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
55885396 AAATTGCTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55885423 AAATTACTGAAATACCC-CAATTTGTC
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
55885449 AAACTACTAAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
55885476 AAATTACCGAAACACCATCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
55885503 AAATTACCGAAATACCCTTGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
55885529 AAATTACTAAAATACCCTCAATTTTTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55885556 AAATTACTGAAACAACCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
55885583 AAATTACTAAAATACCCTC-AATTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55885609 AAATTATTGAAATACCCTCGAATTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
55885636 AAATTA-TCGAAATACCCTCGA-TTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
55885662 AAATTCCCGAAATACGCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
55885689 AAATTA-TCGAAATACCCCCGATTTGTG
1 AAATTACT-GAAATACCCTCGATTTGTA
* * * *
55885716 AAATTACTGAAACACCCTTGACTAGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
55885743 AAATTA-TCAAAATACTCC-CGATTTATG
1 AAATTACT-GAAATAC-CCTCGATTTGTA
* *
55885770 AAATTACCGAAATACCCTCGATTGGTA
1 AAATTACTGAAATACCCTCGATTTGTA
** * *
55885797 AAATTACCAAAACACCCCCGATTTG-A
1 AAATTACTGAAATACCCTCGATTTGTA
55885823 AAATT
1 AAATT
55885828 TATCGAAATA
Statistics
Matches: 350, Mismatches: 70, Indels: 25
0.79 0.16 0.06
Matches are distributed among these distances:
26 95 0.27
27 252 0.72
28 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:55885473 original size:53 final size:54
Alignment explanation
Indices: 55885369--55885803 Score: 400
Period size: 53 Copynumber: 8.1 Consensus size: 54
55885359 TAATAAAGAT
* ** * * *
55885369 AAATTACTGAAATACTCTTGATTTGTAAAATTGCTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
* * * *
55885423 AAATTACTGAAATACCC-CAATTTGTCAAACTACTAAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
* * * * * * * *
55885476 AAATTACCGAAACACCATCAATTTGTAAAATTACCGAAATACCCTTGA-TTGTG
1 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
* * * *
55885529 AAATTACTAAAATACCCTCAATTTTTAAAATTACTGAAACAACCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
* * * *
55885583 AAATTACTAAAATACCCTCAA-TTGTGAAATTATTGAAATACCCTCGAATTGTA
1 AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
* * * * *
55885636 AAATTA-TCGAAATACCCTCGA-TTGTGAAATTCCCGAAATACGCTCGATTTGTA
1 AAATTACT-GAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
* * * * *
55885689 AAATTA-TCGAAATACCCCCGATTTGTGAAATTACTGAAACACCCTTGACTAGTA
1 AAATTACT-GAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
* * * * * *
55885743 AAATTA-TCAAAATACTCC-CGATTTATGAAATTACCGAAATACCCTCGATTGGTA
1 AAATTACT-GAAATAC-CCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
55885797 AAATTAC
1 AAATTAC
55885804 CAAAACACCC
Statistics
Matches: 317, Mismatches: 58, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
52 1 0.00
53 175 0.55
54 139 0.44
55 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCAATTTGTGAAATTACTGAAACACCCTCGATTTGTA
Found at i:55885537 original size:80 final size:81
Alignment explanation
Indices: 55885369--55885868 Score: 424
Period size: 80 Copynumber: 6.2 Consensus size: 81
55885359 TAATAAAGAT
* * ** * * * *
55885369 AAATTACTGAAATACTCTTGATTTGTAAAATTGCTGAAATACCCTCGATTTGTAAAATTACTGAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
* *
55885434 ATACCC-CAATTTGTC
66 ATACCCTCGATTTGTG
* * * *
55885449 AAACTACTAAAACACCCTCAATTTGTAAAATTACCGAAACACCATCAATTTGTAAAATTACCGAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
*
55885514 ATACCCTTGA-TTGTG
66 ATACCCTCGATTTGTG
* * * **
55885529 AAATTACTAAAATACCCTCAATTTTTAAAATTACTGAAACAACCTCGATTTGTAAAATTACTAAA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
*
55885594 ATACCCTC-AATTGTG
66 ATACCCTCGATTTGTG
* * * * * *
55885609 AAATTATTGAAATACCCTCGAA-TTGTAAAATTATCGAAATACCCTCGA-TTGTGAAATTCCCGA
1 AAATTACTAAAATACCCTC-AATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGA
* *
55885672 AATACGCTCGATTTGTA
65 AATACCCTCGATTTGTG
* * * * * * * * * *
55885689 AAATTA-TCGAAATACCCCCGATTTGTGAAATTACTGAAACACCCTTGACTAGTAAAATTATCAA
1 AAATTACT-AAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGA
*
55885753 AATACTCC-CGATTTATG
65 AATAC-CCTCGATTTGTG
** * * * * *
55885770 AAATTACCGAAATACCCTCGATTGGTAAAATTACCAAAACACCCCCGATTTG-AAAATTTATCGA
1 AAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAA-TTACCGA
* * * *
55885834 AATAACCTTG-TAGTGTA
65 AATACCCTCGAT-TTGTG
*
55885851 AAATTTCTAAAATACCCT
1 AAATTACTAAAATACCCT
55885869 TGTAGTGTAA
Statistics
Matches: 335, Mismatches: 73, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
79 22 0.07
80 218 0.65
81 94 0.28
82 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACTAAAATACCCTCAATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCGAA
ATACCCTCGATTTGTG
Found at i:55885869 original size:27 final size:27
Alignment explanation
Indices: 55885833--55885911 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
55885823 AAATTTATCG
* ** *
55885833 AAATAACCTTGTAGTGTAAAATTTCTA
1 AAATACCCTTGTAGTGTAAAATGACCA
55885860 AAATACCCTTGTAGTGTAAAATGACCA
1 AAATACCCTTGTAGTGTAAAATGACCA
* * *
55885887 ACATACCCCTGTAGGGTAAAATGAC
1 AAATACCCTTGTAGTGTAAAATGAC
55885912 TATTTTGCCC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (27 bp):
AAATACCCTTGTAGTGTAAAATGACCA
Found at i:55886860 original size:20 final size:19
Alignment explanation
Indices: 55886841--55886897 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 19
55886831 CATGGTTTTC
55886841 CAAAACAACAAATGGATTT
1 CAAAACAACAAATGGATTT
*
55886860 C---A-AAC--ATGGTTTT
1 CAAAACAACAAATGGATTT
55886873 CCAAAACAACAAATGGATTT
1 -CAAAACAACAAATGGATTT
55886893 CAAAA
1 CAAAA
55886898 TATCTCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
13 7 0.24
14 1 0.03
15 3 0.10
16 1 0.03
17 1 0.03
18 3 0.10
19 6 0.21
20 7 0.24
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.23
Consensus pattern (19 bp):
CAAAACAACAAATGGATTT
Found at i:55886873 original size:33 final size:33
Alignment explanation
Indices: 55886831--55886896 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
55886821 AGAAGTAGGG
55886831 CATGGTTTTCCAAAACAACAAATGGATTTCAAA
1 CATGGTTTTCCAAAACAACAAATGGATTTCAAA
55886864 CATGGTTTTCCAAAACAACAAATGGATTTCAAA
1 CATGGTTTTCCAAAACAACAAATGGATTTCAAA
55886897 ATATCTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (33 bp):
CATGGTTTTCCAAAACAACAAATGGATTTCAAA
Found at i:55888863 original size:28 final size:28
Alignment explanation
Indices: 55888778--55888867 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
55888768 TGGGAAGTAC
55888778 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
55888806 TAGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
55888834 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
55888862 TTGGGC
1 TTGGGC
55888868 ATAAAAGAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.21, C:0.14, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:55889298 original size:54 final size:54
Alignment explanation
Indices: 55889186--55889644 Score: 457
Period size: 53 Copynumber: 8.6 Consensus size: 54
55889176 TAATAAAAAG
** * *
55889186 AAATTACTAAAATACCCTCAATTTGTAAAATTAGTGAAA-ACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * * *
55889239 AAATTACCGAAACACCCCCAATTTGTGAAATTACTAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * * *
55889293 AAATTACCGAAACACTCTTGATTTGTAAAATTACCGAAATACCCTTGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
** * * *
55889346 AAATTATTGAAATACCCTTGATTTGTAAAATTATTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
** * *
55889400 AAATTACTAAAATACCCTCGA-TTGTGAAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * ** ***
55889453 AAATTATCGAAATACCATCGATTATG--AAATTACCAAAATTTGCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATT-TGTAAAATTACTGAAATACCCTCGATTTGTA
* * *
55889506 AAATTACCGAAATACCCCCGATTTGTGAAATTACTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* * * * *
55889560 AAATTATCAAAATACTCC-CGATTTATAAAATTACCGAATTACCCTCGATTTGTA
1 AAATTACCGAAATAC-CCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
* *
55889614 AAATTACCAAAACACCC-CTGATTTG-AAAATT
1 AAATTACCGAAATACCCTC-GATTTGTAAAATT
55889645 TATCGAAATA
Statistics
Matches: 336, Mismatches: 62, Indels: 16
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.01
53 171 0.51
54 159 0.47
55 4 0.01
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTA
Found at i:55889345 original size:80 final size:81
Alignment explanation
Indices: 55889185--55889644 Score: 504
Period size: 80 Copynumber: 5.7 Consensus size: 81
55889175 GTAATAAAAA
* * ** *
55889185 GAAATTACTAAAATACCCTCAATTTGTAAAATTAGTGAAA-ACCCTCGATTTGTAAAATTACCGA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAA
* * *
55889249 AACACCCCCAATTTGT
66 AATACCCTCGATTTGT
* * * * *
55889265 GAAATTACTAAAACACCCTCGATTTGTAAAATTACCGAAACACTCTTGATTTGTAAAATTACCGA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAA
*
55889330 AATACCCTTGA-TTGT
66 AATACCCTCGATTTGT
* * ** *
55889345 GAAATTATTGAAATACCCTTGATTTGTAAAATTATTGAAACACCCTCGATTTGTAAAATTACTAA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAA
55889410 AATACCCTCGA-TTGT
66 AATACCCTCGATTTGT
* * * *
55889425 GAAATTACTGAAATACCCTTGATTTGTAAAATTATCGAAATACCATCGATTATG--AAATTACCA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATT-TGTAAAATTACCA
***
55889488 AAATTTGCTCGATTTGT
65 AAATACCCTCGATTTGT
* * * * * *
55889505 AAAATTACCGAAATACCCCCGATTTGTGAAATTACTGAAACACCCTCGATTTGTAAAATTATCAA
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAA
*
55889570 AATACTCC-CGATTTAT
66 AATAC-CCTCGATTTGT
* * * *
55889586 AAAATTACCGAATTACCCTCGATTTGTAAAATTACCAAAACACCC-CTGATTTG-AAAATT
1 GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTC-GATTTGTAAAATT
55889645 TATCGAAATA
Statistics
Matches: 325, Mismatches: 48, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
79 19 0.06
80 209 0.64
81 96 0.30
82 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (81 bp):
GAAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAACACCCTCGATTTGTAAAATTACCAA
AATACCCTCGATTTGT
Found at i:55889621 original size:27 final size:27
Alignment explanation
Indices: 55889186--55889711 Score: 442
Period size: 27 Copynumber: 19.6 Consensus size: 27
55889176 TAATAAAAAG
** *
55889186 AAATTACTAAAATACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
55889213 AAATTAGTGAAA-ACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
55889239 AAATTACCGAAACACCCCCAATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
55889266 AAATTACTAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
55889293 AAATTACCGAAACACTCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55889320 AAATTACCGAAATACCCTTGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
** *
55889346 AAATTATTGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
55889373 AAATTATTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
55889400 AAATTACTAAAATACCCTCGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55889426 AAATTACTGAAATACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55889453 AAATTATCGAAATACCATCGATTATG--
1 AAATTACCGAAATACCCTCGATT-TGTA
* ***
55889479 AAATTACCAAAATTTGCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55889506 AAATTACCGAAATACCCCCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55889533 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
55889560 AAATTATCAAAATACTCC-CGATTTATA
1 AAATTACCGAAATAC-CCTCGATTTGTA
*
55889587 AAATTACCGAATTACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
55889614 AAATTACCAAAACACCC-CTGATTTG-A
1 AAATTACCGAAATACCCTC-GATTTGTA
* * * *
55889640 AAATTTATCGAAATAACCTTG-TAGTGTA
1 AAA-TTACCGAAATACCCTCGAT-TTGTA
* * * *
55889668 AAATGACCCAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
* *
55889695 AAATGACCGACATACCC
1 AAATTACCGAAATACCC
55889712 CTATAGGGTA
Statistics
Matches: 410, Mismatches: 76, Indels: 26
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.00
26 94 0.23
27 306 0.75
28 8 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:55889722 original size:27 final size:27
Alignment explanation
Indices: 55889665--55889728 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
55889655 ACCTTGTAGT
* * *
55889665 GTAAAATGACCCAAATACCCTTGTAGT
1 GTAAAATGACCCAAATACCCCTATAGG
* *
55889692 GTAAAATGACCGACATACCCCTATAGG
1 GTAAAATGACCCAAATACCCCTATAGG
55889719 GTAAAATGAC
1 GTAAAATGAC
55889729 TGTTTTGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (27 bp):
GTAAAATGACCCAAATACCCCTATAGG
Found at i:55892911 original size:29 final size:29
Alignment explanation
Indices: 55892877--55892951 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
55892867 TACTCGATTT
*
55892877 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
55892906 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
55892935 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
55892952 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:55892968 original size:29 final size:29
Alignment explanation
Indices: 55892935--55893008 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55892925 CCTTCGAGCT
55892935 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55892964 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55892993 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55893009 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55900651 original size:40 final size:40
Alignment explanation
Indices: 55900606--55900773 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
55900596 CGGAATACAA
55900606 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
55900646 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
55900686 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
55900726 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
55900766 CCGGATAT
1 CCGGATAT
55900774 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:55908594 original size:40 final size:40
Alignment explanation
Indices: 55908549--55908678 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
55908539 CGGAATACAA
55908549 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
55908589 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
55908629 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
55908669 CCGGATATAA
1 CCGGATATAA
55908679 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:55911453 original size:42 final size:42
Alignment explanation
Indices: 55911394--55911497 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
55911384 AGCACATGGG
*
55911394 CCGAGACACAGGTGTGTGTCTCAGCCATGTGGATGACACGGC
1 CCGAGACACAGGCGTGTGTCTCAGCCATGTGGATGACACGGC
*
55911436 CCGAGACACATGCGTGTGTCTCAGCCATGTGGATGACACGGC
1 CCGAGACACAGGCGTGTGTCTCAGCCATGTGGATGACACGGC
*
55911478 CTC-AGGCACAGGCGTGTGTC
1 C-CGAGACACAGGCGTGTGTC
55911498 CTGGGCGTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.19
Consensus pattern (42 bp):
CCGAGACACAGGCGTGTGTCTCAGCCATGTGGATGACACGGC
Found at i:55915028 original size:31 final size:32
Alignment explanation
Indices: 55914970--55915038 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
55914960 TTTGGCTCCC
*
55914970 AAACTTAACACTTTTTTCCTAATTTGGTACCT
1 AAACTTAACACTTTTTTCCTAAGTTGGTACCT
* * *
55915002 AAACTTGACAC-TTTTTCTTAAGTTGGTACTT
1 AAACTTAACACTTTTTTCCTAAGTTGGTACCT
55915033 AAACTT
1 AAACTT
55915039 TTTGGGGGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 23 0.70
32 10 0.30
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (32 bp):
AAACTTAACACTTTTTTCCTAAGTTGGTACCT
Found at i:55915639 original size:59 final size:59
Alignment explanation
Indices: 55915501--55915654 Score: 159
Period size: 60 Copynumber: 2.6 Consensus size: 59
55915491 AATAGCTTAG
* * * * * *
55915501 GTACCAAATTAATAAAAAATG-CTAAGTTCAGATTCCAAATTGGGCTACAAAAAGGTTTAG
1 GTACCAAATTAAGAAAAAGTGTC-AAATTCAGGTACCAAATTGGGC-ACAAAAAGGTTTAA
* *
55915561 GTACCAAATTAGGATAAAGTGTCAAATTCAGGTACCAAATTGGGC-CAAAAAGAGTTTAA
1 GTACCAAATTAAGAAAAAGTGTCAAATTCAGGTACCAAATTGGGCACAAAAAG-GTTTAA
* * * *
55915620 TTACTAAATTAAGAAAAAGTGTCAAGTTTAGGTAC
1 GTACCAAATTAAGAAAAAGTGTCAAATTCAGGTAC
55915655 TGAATGTTAT
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
58 7 0.09
59 34 0.44
60 36 0.46
61 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (59 bp):
GTACCAAATTAAGAAAAAGTGTCAAATTCAGGTACCAAATTGGGCACAAAAAGGTTTAA
Found at i:55922445 original size:17 final size:19
Alignment explanation
Indices: 55922403--55922446 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
55922393 ATGAAATTTT
*
55922403 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
55922422 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
55922440 AA-TATTA
1 AATTATTA
55922447 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:55926623 original size:21 final size:21
Alignment explanation
Indices: 55926597--55926643 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
55926587 AAGGATCCTA
*
55926597 GTTCTTAGAGAACAGAGCCTT
1 GTTCTTAGAGAACAGAGCCTC
55926618 GTTCTTAGAGAACAGAGCCTC
1 GTTCTTAGAGAACAGAGCCTC
55926639 GTTCT
1 GTTCT
55926644 GTAAAACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (21 bp):
GTTCTTAGAGAACAGAGCCTC
Found at i:55927215 original size:17 final size:19
Alignment explanation
Indices: 55927173--55927216 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
55927163 ATGAAATTTT
*
55927173 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
55927192 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
55927210 AA-TATTA
1 AATTATTA
55927217 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:55934249 original size:46 final size:46
Alignment explanation
Indices: 55934196--55934371 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
55934186 TATTTGGGCA
55934196 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55934242 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55934289 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
55934335 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55934372 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55934351 original size:93 final size:93
Alignment explanation
Indices: 55934192--55934364 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
55934182 GGGATATTTG
* *
55934192 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55934257 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55934285 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55934350 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
55934365 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55940090 original size:28 final size:26
Alignment explanation
Indices: 55939998--55940094 Score: 92
Period size: 26 Copynumber: 3.7 Consensus size: 26
55939988 GCTACGTGAA
* *
55939998 CCCTTATGAGACAAAATGACTGCTTTG
1 CCCTTATGAGATAAAATGAC-GATTTG
* *
55940025 CCCTTAT-ATGGT-AAATGACTATTTG
1 CCCTTATGA-GATAAAATGACGATTTG
55940050 CCCTTATTG-GATAAAATGACGATTTTAG
1 CCCTTA-TGAGATAAAATGACGA-TTT-G
55940078 CCCTTATGAGATAAAAT
1 CCCTTATGAGATAAAAT
55940095 AACCAAAATA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
25 12 0.21
26 17 0.30
27 13 0.23
28 15 0.26
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (26 bp):
CCCTTATGAGATAAAATGACGATTTG
Found at i:55940150 original size:54 final size:54
Alignment explanation
Indices: 55940061--55940202 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 54
55940051 CCTTATTGGA
** * * *
55940061 TAAAATGACGATTTTAGCCCTTATGAGATAAAATAACCAAAATACCCCCATAGGG
1 TAAAATGACGATAATA-CCCCTATAAGGTAAAATAACCAAAATACCCCCATAGGG
* * ****
55940116 TAAAATGATCGA-AATACCCCTATAAGGTAAAATAACTATAATACCTTTGTAGGG
1 TAAAATGA-CGATAATACCCCTATAAGGTAAAATAACCAAAATACCCCCATAGGG
* * *
55940170 TAAAATGACTATAATACCCTTGTAAGGTAAAAT
1 TAAAATGACGATAATACCCCTATAAGGTAAAAT
55940203 GACTAATTTG
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
53 2 0.03
54 56 0.79
55 10 0.14
56 3 0.04
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (54 bp):
TAAAATGACGATAATACCCCTATAAGGTAAAATAACCAAAATACCCCCATAGGG
Found at i:55940158 original size:27 final size:27
Alignment explanation
Indices: 55940089--55940207 Score: 96
Period size: 27 Copynumber: 4.4 Consensus size: 27
55940079 CCTTATGAGA
* * * *
55940089 TAAAATAACCAAAATACCCCCATAGGG
1 TAAAATAACTATAATACCCCTATAAGG
* *
55940116 TAAAATGATCGA-AATACCCCTATAAGG
1 TAAAAT-AACTATAATACCCCTATAAGG
** * *
55940143 TAAAATAACTATAATACCTTTGTAGGG
1 TAAAATAACTATAATACCCCTATAAGG
* * *
55940170 TAAAATGACTATAATACCCTTGTAAGG
1 TAAAATAACTATAATACCCCTATAAGG
*
55940197 TAAAATGACTA
1 TAAAATAACTA
55940208 ATTTGGCCTA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.04
27 71 0.92
28 3 0.04
ACGTcount: A:0.45, C:0.17, G:0.13, T:0.25
Consensus pattern (27 bp):
TAAAATAACTATAATACCCCTATAAGG
Found at i:55943157 original size:34 final size:34
Alignment explanation
Indices: 55943104--55943171 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
55943094 GAAATCAAAC
* ** *
55943104 GGAAAAAAGGTTTTTGGGGTTTGGGGGAAGTAAA
1 GGAAAAAAAGTTTAGGGGGTTTGGGAGAAGTAAA
55943138 GGAAAAAAAGTTTAGGGGGTTTGGGAGAAGTAAA
1 GGAAAAAAAGTTTAGGGGGTTTGGGAGAAGTAAA
55943172 ATTTTTGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.24
Consensus pattern (34 bp):
GGAAAAAAAGTTTAGGGGGTTTGGGAGAAGTAAA
Found at i:55946350 original size:29 final size:30
Alignment explanation
Indices: 55946307--55946364 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
55946297 CTTCCTTTCC
* *
55946307 CTTTTTTAATAAATGACCCAGTATTTTTAA
1 CTTTTTTAATAAATGACCCAATATGTTTAA
* *
55946337 CTTTTTT-GTAAATGGCCCAATATGTTTA
1 CTTTTTTAATAAATGACCCAATATGTTTA
55946365 TGCTTTTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (30 bp):
CTTTTTTAATAAATGACCCAATATGTTTAA
Found at i:55952299 original size:257 final size:257
Alignment explanation
Indices: 55951843--55952359 Score: 1034
Period size: 257 Copynumber: 2.0 Consensus size: 257
55951833 AAATCAGTAG
55951843 CTGGATATGAAGCTGAATTTTTGCGATTAAGTCACTATGCGTGAGGGATGGTGGCGACTGAGTAC
1 CTGGATATGAAGCTGAATTTTTGCGATTAAGTCACTATGCGTGAGGGATGGTGGCGACTGAGTAC
55951908 AAGTTGTGTGTTCATTTCGAGGATAGCCTCAAGGATAGATTACGGGTTCTGATAACTCCACAGAG
66 AAGTTGTGTGTTCATTTCGAGGATAGCCTCAAGGATAGATTACGGGTTCTGATAACTCCACAGAG
55951973 GGAGTGAGATTTTGCTGTATTAGTTGATAAGGTGAAGATCACTGAGGAAGTGAAGTGCACTAAAT
131 GGAGTGAGATTTTGCTGTATTAGTTGATAAGGTGAAGATCACTGAGGAAGTGAAGTGCACTAAAT
55952038 GATAGGACCGTGAGAAATAGAGAGGTAAGAACAAGAGGGATTCGGAGCCCTCAAGTTCCTTT
196 GATAGGACCGTGAGAAATAGAGAGGTAAGAACAAGAGGGATTCGGAGCCCTCAAGTTCCTTT
55952100 CTGGATATGAAGCTGAATTTTTGCGATTAAGTCACTATGCGTGAGGGATGGTGGCGACTGAGTAC
1 CTGGATATGAAGCTGAATTTTTGCGATTAAGTCACTATGCGTGAGGGATGGTGGCGACTGAGTAC
55952165 AAGTTGTGTGTTCATTTCGAGGATAGCCTCAAGGATAGATTACGGGTTCTGATAACTCCACAGAG
66 AAGTTGTGTGTTCATTTCGAGGATAGCCTCAAGGATAGATTACGGGTTCTGATAACTCCACAGAG
55952230 GGAGTGAGATTTTGCTGTATTAGTTGATAAGGTGAAGATCACTGAGGAAGTGAAGTGCACTAAAT
131 GGAGTGAGATTTTGCTGTATTAGTTGATAAGGTGAAGATCACTGAGGAAGTGAAGTGCACTAAAT
55952295 GATAGGACCGTGAGAAATAGAGAGGTAAGAACAAGAGGGATTCGGAGCCCTCAAGTTCCTTT
196 GATAGGACCGTGAGAAATAGAGAGGTAAGAACAAGAGGGATTCGGAGCCCTCAAGTTCCTTT
55952357 CTG
1 CTG
55952360 AGGCCTAAGA
Statistics
Matches: 260, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
257 260 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (257 bp):
CTGGATATGAAGCTGAATTTTTGCGATTAAGTCACTATGCGTGAGGGATGGTGGCGACTGAGTAC
AAGTTGTGTGTTCATTTCGAGGATAGCCTCAAGGATAGATTACGGGTTCTGATAACTCCACAGAG
GGAGTGAGATTTTGCTGTATTAGTTGATAAGGTGAAGATCACTGAGGAAGTGAAGTGCACTAAAT
GATAGGACCGTGAGAAATAGAGAGGTAAGAACAAGAGGGATTCGGAGCCCTCAAGTTCCTTT
Found at i:55960671 original size:40 final size:40
Alignment explanation
Indices: 55960593--55960779 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
55960583 TGAATGATAC
* * * *
55960593 CCGGGCTAAG-CCCCAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
55960632 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
55960672 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTCGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
55960712 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
55960752 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
55960780 TTGTGGTTAT
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 10 0.08
40 121 0.91
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:55960740 original size:80 final size:79
Alignment explanation
Indices: 55960589--55960799 Score: 318
Period size: 80 Copynumber: 2.7 Consensus size: 79
55960579 CGTTTGAATG
* * *
55960589 ATACCCGGGCTAAG-CCCCAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTG-TTATATCCGGGCTAAGACCCGAAGGCA
55960653 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGCT
* *
55960668 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGT-GTTATATCCGGGCTAAGACCCGAAGGCA
55960733 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGCT
* *
55960748 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGT-GTTATATCCGGGCTAA
55960800 ATTCGAAGAA
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 18 0.15
80 101 0.84
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:55968595 original size:46 final size:46
Alignment explanation
Indices: 55968542--55968670 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
55968532 TGGTTGAGCA
*
55968542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
55968588 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
55968634 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55968671 GTGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:55971515 original size:40 final size:40
Alignment explanation
Indices: 55971456--55971658 Score: 255
Period size: 40 Copynumber: 5.1 Consensus size: 40
55971446 TGAATGATAC
* * *
55971456 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
55971496 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
55971536 CCGGGTTAAGACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
55971576 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * ** *
55971616 CCGGGTTAAGACTCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
55971656 CCG
1 CCG
55971659 ACTAAATTCC
Statistics
Matches: 141, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 139 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:55971589 original size:80 final size:80
Alignment explanation
Indices: 55971452--55971658 Score: 308
Period size: 80 Copynumber: 2.6 Consensus size: 80
55971442 CATTTGAATG
* * *
55971452 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCAAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCAAAGGC
55971516 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* * *
55971532 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCAAAGGCA
55971597 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
55971612 ATACCCGGGTTAAGACTCGAAGGCAATTGTGCTTGTGGTTATATCCG
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCG
55971659 ACTAAATTCC
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 112 0.98
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCAAAGGCA
TTTGTGCGAGTTGCT
Found at i:55974124 original size:16 final size:18
Alignment explanation
Indices: 55974093--55974125 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
55974083 CCCCTATGTG
55974093 ATGTATAGATCTATATTC
1 ATGTATAGATCTATATTC
55974111 ATGTAT-GA-CTATATT
1 ATGTATAGATCTATATT
55974126 TTAGCATGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.45
Consensus pattern (18 bp):
ATGTATAGATCTATATTC
Found at i:55991756 original size:61 final size:61
Alignment explanation
Indices: 55991681--55991804 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
55991671 ACTGAGAAAA
55991681 AACTTTCCAAACCCGAAAGTGTTGAGAGGGAAAGAGAGAGAGTTCAGCCAAAGAGGGAAGC
1 AACTTTCCAAACCCGAAAGTGTTGAGAGGGAAAGAGAGAGAGTTCAGCCAAAGAGGGAAGC
55991742 AACTTTCCAAACCCGAAAGTGTTGAGAGGGAAAGAGAGAGAGTTCAGCCAAAGAGGGAAGC
1 AACTTTCCAAACCCGAAAGTGTTGAGAGGGAAAGAGAGAGAGTTCAGCCAAAGAGGGAAGC
55991803 AA
1 AA
55991805 ATCAATAACA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.40, C:0.16, G:0.31, T:0.13
Consensus pattern (61 bp):
AACTTTCCAAACCCGAAAGTGTTGAGAGGGAAAGAGAGAGAGTTCAGCCAAAGAGGGAAGC
Found at i:56006267 original size:2 final size:2
Alignment explanation
Indices: 56006254--56006284 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
56006244 ACATGCATGC
*
56006254 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
56006285 AGCTTACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:56011354 original size:45 final size:45
Alignment explanation
Indices: 56011304--56011389 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
56011294 CAAAACATGT
*
56011304 GTCACATATATCACGAACTCAGACCACAATTCAATGAGTTCGGAC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGAC
*
56011349 GTCACATATATCATGAACTCAGACCACAACTCAATGAGTTC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTC
56011390 AAATTTCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (45 bp):
GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGAC
Found at i:56035388 original size:33 final size:33
Alignment explanation
Indices: 56035346--56035413 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
56035336 CCAAATTGAG
56035346 TAAGTTTTCTTGTCTCGTTTTTAGTAATTTTAA
1 TAAGTTTTCTTGTCTCGTTTTTAGTAATTTTAA
56035379 TAAGTTTTCTTGTCTCGTTTTTAGTAATTTTAA
1 TAAGTTTTCTTGTCTCGTTTTTAGTAATTTTAA
56035412 TA
1 TA
56035414 TTTTTAAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.22, C:0.09, G:0.12, T:0.57
Consensus pattern (33 bp):
TAAGTTTTCTTGTCTCGTTTTTAGTAATTTTAA
Found at i:56037341 original size:48 final size:49
Alignment explanation
Indices: 56037270--56037393 Score: 162
Period size: 48 Copynumber: 2.6 Consensus size: 49
56037260 GATCGTGCCA
*
56037270 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACAT-ATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAG-ATCACATCATCAACGCCG
* * * ** *
56037318 ATGCCATGTCCCAGACATGGTCTTGCACGAGATCTCATCTTGGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACATCATCAACGCCG
56037367 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
56037394 TGGGATCTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.02
48 33 0.50
49 32 0.48
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACATCATCAACGCCG
Found at i:56037386 original size:49 final size:48
Alignment explanation
Indices: 56037265--56037404 Score: 165
Period size: 49 Copynumber: 2.9 Consensus size: 48
56037255 TACGGGATCG
* * *
56037265 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACGAG-ATCTCATATCAA
* * * **
56037313 CGCCGATGCCATGTCCCAGACATGGTCTTGCACGAGATCTCATCTTGGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACGAGATCTCAT-ATCAA
* *
56037362 TGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCTCAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACGAGATCTCAT
56037405 TAACCATGGT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 36 0.46
49 41 0.53
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACGAGATCTCATATCAA
Found at i:56040056 original size:6 final size:6
Alignment explanation
Indices: 56040045--56040071 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56040035 CCATATTGGC
56040045 ATGTAA ATGTAA ATGTAA ATGTAA ATG
1 ATGTAA ATGTAA ATGTAA ATGTAA ATG
56040072 ATGCTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (6 bp):
ATGTAA
Found at i:56044669 original size:21 final size:21
Alignment explanation
Indices: 56044643--56044684 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
56044633 ATTCATGAAT
56044643 CATTAATGAGTTCTCTAACTC
1 CATTAATGAGTTCTCTAACTC
56044664 CATTAATGAGTTCTCTAACTC
1 CATTAATGAGTTCTCTAACTC
56044685 ATCAATGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (21 bp):
CATTAATGAGTTCTCTAACTC
Found at i:56046751 original size:46 final size:46
Alignment explanation
Indices: 56046551--56046822 Score: 227
Period size: 46 Copynumber: 5.8 Consensus size: 46
56046541 AGGGTATAAT
* * *
56046551 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGC-TCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCAT-C-TCGA
* * * *
56046598 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGTTCTCACATATCTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG--CT-TCATCTC-G-A
* *
56046649 -CTGATGCCATGTCCCAGACATGGTCTTACACT-G-TCACATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TCATCTCG-A
*
56046694 GCCGCTG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTT-CATCTCGA
* * * * *
56046739 GGCCGATG-CATGTCCTAGACAT-TTCTTACATTAGCTCTCGTCTCAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TCATCTCGA
*
56046785 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
56046823 CTTATAATGT
Statistics
Matches: 188, Mismatches: 23, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
44 10 0.05
45 19 0.10
46 63 0.34
47 47 0.25
48 12 0.06
49 4 0.02
50 29 0.15
51 4 0.02
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCATCTCGA
Found at i:56046841 original size:94 final size:92
Alignment explanation
Indices: 56046554--56046870 Score: 286
Period size: 94 Copynumber: 3.4 Consensus size: 92
56046544 GTATAATGCC
* * * *
56046554 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAA-GTCGATGCCATGTCCCAAAC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGTCACAT-C-TCAATGTCGATGCCATGTCCCAGAC
* * *
56046618 ATGGTCTTACACTAGTTCTCACATATCTGTACT
62 ATGGTCTTACACTAG-TCTTACATATGTGGA-T
* * *
56046651 GATGCCATGTCCCAGACATGGTCTTACACTGTCACATCTC-GTAGCCGCTG-CATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGTCACATCTCAAT-GTCGATGCCATGTCCCAGACA
* * **
56046714 T-GTCTTACACTAG-CTTACATCTCGAGGCC
63 TGGTCTTACACTAGTCTTACATAT-GTGGAT
* * * * *
56046743 GATGCATGTCCTAGACATTTCTTACATTAGCTCTCGTCTCAATGTCGATGCCATGTCCCAGACAT
1 GATGCATGTCCCAGACATGTCTTACACT-G-TCACATCTCAATGTCGATGCCATGTCCCAGACAT
*
56046808 GGTCTTACACTAGCTCTTATA-ATGTGGAT
64 GGTCTTACACTAG-TCTTACATATGTGGAT
*
56046837 GATGCATGTCCCAGACATGTCTTACACTGGCACA
1 GATGCATGTCCCAGACATGTCTTACACTGTCACA
56046871 CAAATAACCA
Statistics
Matches: 177, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
90 8 0.05
91 14 0.08
92 25 0.14
93 17 0.10
94 52 0.29
95 16 0.09
96 11 0.06
97 34 0.19
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTGTCACATCTCAATGTCGATGCCATGTCCCAGACATGG
TCTTACACTAGTCTTACATATGTGGAT
Found at i:56046845 original size:47 final size:47
Alignment explanation
Indices: 56046554--56046864 Score: 180
Period size: 47 Copynumber: 6.6 Consensus size: 47
56046544 GTATAATGCC
* * *
56046554 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAA-GTCGAT
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTC-T-CAT-AATGTGGAT
* * * * * *
56046604 G--CCATGTCCCAAACATGGTCTTACACTAGTTCTCACATATCTGTACT
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATGTGGA-T
* * * **
56046651 GATGCCATGTCCCAGACATGGTCTTACACT-G-TCACAT-CTCGTAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGAT
* * * **
56046697 GCTGCATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGAT
* * * * *
56046743 GATGCATGTCCTAGACAT-TTCTTACATTAGCTCTCGTCTCAATGTCGAT
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTCTC--AT-AATGTGGAT
* *
56046792 G--CCATGTCCCAGACATGGTCTTACACTAGCTCTTATAATGTGGAT
1 GATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGAT
56046837 GATGCATGTCCCAGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
56046865 GGCACACAAA
Statistics
Matches: 204, Mismatches: 39, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
44 11 0.05
45 27 0.13
46 58 0.28
47 59 0.29
48 19 0.09
49 4 0.02
50 26 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGAT
Found at i:56047240 original size:30 final size:30
Alignment explanation
Indices: 56047204--56047281 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
56047194 ATAAGTGGGA
*
56047204 AAAATGACCATTTTGCCCTTAGGCTTTCAC
1 AAAATGACCATTTTACCCTTAGGCTTTCAC
56047234 AAAATGACCATTTTACCCTTAGGCTTTCAC
1 AAAATGACCATTTTACCCTTAGGCTTTCAC
56047264 AAAATGACCATTTTACCC
1 AAAATGACCATTTTACCC
56047282 CTAGACCCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (30 bp):
AAAATGACCATTTTACCCTTAGGCTTTCAC
Found at i:56050452 original size:18 final size:18
Alignment explanation
Indices: 56050431--56050466 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56050421 TATGCATATG
*
56050431 CATATGCAGATACGTATA
1 CATATACAGATACGTATA
*
56050449 CATATACATATACGTATA
1 CATATACAGATACGTATA
56050467 AGTATACGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (18 bp):
CATATACAGATACGTATA
Found at i:56065901 original size:40 final size:40
Alignment explanation
Indices: 56065860--56066114 Score: 230
Period size: 40 Copynumber: 6.4 Consensus size: 40
56065850 TAACGTTTTT
* *
56065860 AGAGGTACCGAAGTACAAATAGGGGCACATATGTGCATTT
1 AGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC
* ** * ** * *
56065900 AGGGGTATTGAAGTACAAACAAAGGCATGTATGTACATTC
1 AGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC
* * * * *
56065940 AGGGGCACTGAAGTACAAATAGGGGCACGCATATGCATTC
1 AGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC
*
56065980 AG-GG-ACATCGAAGTACAAATAGGGGCACATATGTGCATTC
1 AGAGGTAC--CGAAGTACAAATAGGGGCACGTATGTGCATTC
* * *
56066020 A-AGGGTATCGAAGTACAAACAGGGGCATGTATGTGCATTC
1 AGA-GGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC
* ** *
56066060 AAGGGGTAATGAAGTACAAATAGGAGCACGTATGTGCATTC
1 -AGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC
*
56066101 A-AAGTACCGAAGTA
1 AGAGGTACCGAAGTA
56066115 AATTCACACA
Statistics
Matches: 171, Mismatches: 37, Indels: 15
0.77 0.17 0.07
Matches are distributed among these distances:
38 2 0.01
39 11 0.06
40 122 0.71
41 35 0.20
42 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (40 bp):
AGAGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC
Found at i:56066112 original size:80 final size:79
Alignment explanation
Indices: 56065862--56066114 Score: 269
Period size: 80 Copynumber: 3.2 Consensus size: 79
56065852 ACGTTTTTAG
* * * * *
56065862 AGGTACCGAAGTACAAATAGGGGCACATATGTGCATTTAGGGGTATTGAAGTACAAACA-AAGGC
1 AGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTAATGAAGTACAAATAGGA-GC
* *
56065926 ATGTATGTACATTCA
65 ACGTATGTGCATTCA
* * * * * *
56065941 GGGGCACTGAAGTACAAATAGGGGCACGCATATGCATTCA-GGG-ACATCGAAGTACAAATAGGG
1 -AGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTA-AT-GAAGTACAAATAGGA
*
56066004 GCACATATGTGCATTCA
63 GCACGTATGTGCATTCA
* * *
56066021 AGGGTATCGAAGTACAAACAGGGGCATGTATGTGCATTCAAGGGGTAATGAAGTACAAATAGGAG
1 A-GGTACCGAAGTACAAATAGGGGCACGTATGTGCATTC-AGGGGTAATGAAGTACAAATAGGAG
56066086 CACGTATGTGCATTCA
64 CACGTATGTGCATTCA
*
56066102 AAGTACCGAAGTA
1 AGGTACCGAAGTA
56066115 AATTCACACA
Statistics
Matches: 140, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
78 1 0.01
79 4 0.03
80 97 0.69
81 32 0.23
82 5 0.04
83 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (79 bp):
AGGTACCGAAGTACAAATAGGGGCACGTATGTGCATTCAGGGGTAATGAAGTACAAATAGGAGCA
CGTATGTGCATTCA
Found at i:56066112 original size:120 final size:118
Alignment explanation
Indices: 56065864--56066114 Score: 349
Period size: 120 Copynumber: 2.1 Consensus size: 118
56065854 GTTTTTAGAG
* * *
56065864 GTACCGAAGTACAAATAGGGGCACATATGTGCATTTAGGGGTATTGAAGTACAAACAAAGGCATG
1 GTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTATCGAAGTACAAACAAAGGCATG
* * *
56065929 TATGTACATTCAGGGGCACTGAAGTACAAATAGGGGCACGCATATGCATTCAG
66 TATGTACATTCAGGGGCAATGAAGTACAAATAGGAGCACGCATATGCATTCAA
* **
56065982 GGACATCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTATCGAAGTACAAACAGGGGCA
1 GTAC--CGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTATCGAAGTACAAACAAAGGCA
* * * *
56066047 TGTATGTGCATTCAAGGGGTAATGAAGTACAAATAGGAGCACGTATGTGCATTCAAA
64 TGTATGTACATTC-AGGGGCAATGAAGTACAAATAGGAGCACGCATATGCATTC-AA
56066104 GTACCGAAGTA
1 GTACCGAAGTA
56066115 AATTCACACA
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
118 3 0.03
120 73 0.63
121 35 0.30
122 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (118 bp):
GTACCGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTATCGAAGTACAAACAAAGGCATG
TATGTACATTCAGGGGCAATGAAGTACAAATAGGAGCACGCATATGCATTCAA
Found at i:56066137 original size:2 final size:2
Alignment explanation
Indices: 56066132--56066169 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
56066122 ACACACACAC
56066132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56066170 GAATGAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56068778 original size:43 final size:43
Alignment explanation
Indices: 56068697--56068778 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
56068687 GTGATTACAT
* *
56068697 GTAAGACCATGTCTGGAACATTGACATTGTATTGTGATTGCGC
1 GTAAGACCATGTCTGGAACATTGACATCGTATTATGATTGCGC
* * *
56068740 GTAAGACCATGTTTGGGACATTGGCATCGT-TATATGATT
1 GTAAGACCATGTCTGGAACATTGACATCGTAT-TATGATT
56068779 TCGTGCAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 32 0.97
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
GTAAGACCATGTCTGGAACATTGACATCGTATTATGATTGCGC
Found at i:56073730 original size:24 final size:24
Alignment explanation
Indices: 56073659--56073821 Score: 155
Period size: 24 Copynumber: 6.7 Consensus size: 24
56073649 GGAATGACAT
*
56073659 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
* * *
56073684 TGGCACTATATGTGTGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
56073708 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * **
56073732 TGTCAATACGAGTGTGTGGATTTCTA
1 TGGCACTA--TGTGTGCGGATTTGAA
* *
56073758 TGGCACTATGTGTGCGGGTTAGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
56073782 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
56073806 TAGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
56073822 AAATTGATTG
Statistics
Matches: 106, Mismatches: 30, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
24 74 0.70
25 15 0.14
26 17 0.16
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:56073813 original size:48 final size:49
Alignment explanation
Indices: 56073661--56073821 Score: 182
Period size: 48 Copynumber: 3.3 Consensus size: 49
56073651 AATGACATTG
* * *
56073661 GCACTAAGTGTGCGGATTTTGAATGGCACTATA-TGTGTGGAATTGAATA
1 GCACTATGTGTGCGGA-TTTGAATGGCACTACAGTGTGTGGATTTGAATA
* * * ** *
56073710 GCACTATGTGTGCTGATTTGAATGTCAATACGAGTGTGTGGATTTCTATG
1 GCACTATGTGTGCGGATTTGAATGGCACTAC-AGTGTGTGGATTTGAATA
* * *
56073760 GCACTATGTGTGCGGGTTAGAATGGCACTA-AGTGTGCGGATTTGAATA
1 GCACTATGTGTGCGGATTTGAATGGCACTACAGTGTGTGGATTTGAATA
56073808 GCACTATGTGTGCG
1 GCACTATGTGTGCG
56073822 AAATTGATTG
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
48 40 0.43
49 15 0.16
50 37 0.40
ACGTcount: A:0.24, C:0.12, G:0.30, T:0.33
Consensus pattern (49 bp):
GCACTATGTGTGCGGATTTGAATGGCACTACAGTGTGTGGATTTGAATA
Found at i:56075528 original size:31 final size:31
Alignment explanation
Indices: 56075485--56075548 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56075475 CCTTTTCATA
56075485 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
56075516 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
56075547 TT
1 TT
56075549 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:56075821 original size:23 final size:24
Alignment explanation
Indices: 56075741--56075884 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
56075731 GCTTTATCAT
*
56075741 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
56075766 ATAACTGGGGC-CAAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
*
56075791 ATAGCTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56075814 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56075838 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56075862 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
56075885 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
23 23 0.21
24 58 0.53
25 23 0.21
26 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56075958 original size:20 final size:20
Alignment explanation
Indices: 56075933--56075999 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
56075923 TCATAAATAC
* *
56075933 ATCATGTGCATGTCATTCAT
1 ATCATGTGCATATCATACAT
*
56075953 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56075973 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56075993 ACCATGT
1 ATCATGT
56076000 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56076064 original size:25 final size:25
Alignment explanation
Indices: 56076036--56076083 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56076026 ATGTATAAAC
* * *
56076036 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56076061 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56076084 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56077306 original size:27 final size:27
Alignment explanation
Indices: 56077244--56077321 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
56077234 GGGCATATTC
56077244 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
56077271 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
56077298 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
56077322 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:56077465 original size:27 final size:27
Alignment explanation
Indices: 56077449--56077577 Score: 179
Period size: 27 Copynumber: 4.8 Consensus size: 27
56077439 CTTTGTAAAT
56077449 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
56077475 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
56077503 TAAGGGTATTTTGATAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
56077530 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
56077557 TAAGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTGGTAATTTT
56077578 GTAAATCGAG
Statistics
Matches: 89, Mismatches: 12, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 86 0.97
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:56077542 original size:81 final size:81
Alignment explanation
Indices: 56077423--56077576 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
56077413 TTAGAAAGTC
** * * *
56077423 AAGGGTATTTCTGTAACTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
1 AAGGGTATTTCTGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTC
*
56077488 GGTAATTTCACAAACT
66 AGTAATTTCACAAACT
*
56077504 AAGGGTATTT-TGATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
1 AAGGGTATTTCTG-TAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTT
*
56077568 TAGTAATTT
65 CAGTAATTT
56077577 TGTAAATCGA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 62 0.97
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (81 bp):
AAGGGTATTTCTGTAACTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTC
AGTAATTTCACAAACT
Found at i:56077589 original size:27 final size:27
Alignment explanation
Indices: 56077339--56077645 Score: 140
Period size: 27 Copynumber: 11.3 Consensus size: 27
56077329 TTTCATCCTA
* * * * * *
56077339 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
56077366 CAAGGGTATTTCAGTAATTTTGTTAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
56077393 CAATGGTATTTCTA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
56077422 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * * *
56077449 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** ** * *
56077476 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
56077502 CTAAGGGTATTTT-GATAATTTTACAAA-
1 C-AAGGGTATTTTAG-TAATTTTATAAAT
* * *
56077529 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AAGGGTATTTTAGTAATTTTATAAAT
*
56077556 CTAAGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
* *** * *
56077584 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
56077611 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
56077638 CGAGGGTA
1 CAAGGGTA
56077646 AAACTGTAAT
Statistics
Matches: 227, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 195 0.86
28 15 0.07
29 15 0.07
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:56077618 original size:81 final size:80
Alignment explanation
Indices: 56077541--56077834 Score: 218
Period size: 81 Copynumber: 3.6 Consensus size: 80
56077531 AGGGGTATTT
** *
56077541 TGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTG
1 TGGTAATTTTACAAACTAAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAA-AGTAATTCTG
*
56077606 TAAATCAAGGGTAAAA
65 TAAATCGAGGGTAAAA
* * * * * * * *
56077622 TAGTAATTCTATAAA-TCGAGGGTAAAACTGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCT
1 TGGTAATTTTACAAACT-AAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAA-AGTAATTCT
*
56077686 GTAAGTCGAGGGTAAAA
64 GTAAATCGAGGGTAAAA
* * * * * * * *
56077703 CGATAATTATGTA-AATC-AAGGGTAAAACGGTAATTATGTAAATCGGGGGTAAAACGATAATTC
1 TGGTAATT-T-TACAAACTAAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAAAG-TAATTC
* ***
56077766 TGTAAATCGGGGGTACTT
63 TGTAAATCGAGGGTAAAA
* * ** **
56077784 TGGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTACAAATCGAGGGTA
1 TGGTAATTTTACAA-ACTAAGGGTAAATCAGTAATTTTGTAAATCGAGGGTA
56077835 TTTCAGTATT
Statistics
Matches: 166, Mismatches: 39, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
79 2 0.01
80 5 0.03
81 153 0.92
82 4 0.02
83 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.31
Consensus pattern (80 bp):
TGGTAATTTTACAAACTAAGGGTAAATCAGTAATTTTGTAAATCGAGGGTAAAAAGTAATTCTGT
AAATCGAGGGTAAAA
Found at i:56077646 original size:27 final size:27
Alignment explanation
Indices: 56077568--56077780 Score: 243
Period size: 27 Copynumber: 7.9 Consensus size: 27
56077558 AAGGGTATTT
*
56077568 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
56077595 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
56077622 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
56077649 CT-GTAATTCTGTAAATCGAGGGTAAAA
1 -TAGTAATTCTGTAAATCGAGGGTAAAA
** *
56077676 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
56077703 -CGATAATTATGTAAATCAAGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
** * *
56077730 CGGTAATTATGTAAATCGGGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
56077757 -CGATAATTCTGTAAATCGGGGGTA
1 TAG-TAATTCTGTAAATCGAGGGTA
56077781 CTTTGGTAAT
Statistics
Matches: 165, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.01
27 161 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:56077780 original size:54 final size:54
Alignment explanation
Indices: 56077570--56077773 Score: 286
Period size: 54 Copynumber: 3.8 Consensus size: 54
56077560 GGGTATTTTA
* * **
56077570 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAAATCAAGGGTAAAACG
* *
56077624 GTAATTCTATAAATCGAGGGTAAAACTG-TAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTCTGTAAATCAAGGGTAAAACG
* *
56077678 GTAATTCTGTAAGTCGAGGGTAAAACGATAATTATGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
* *
56077732 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATC
1 GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATC
56077774 GGGGGTACTT
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 132 0.99
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGGTAAAACG
Found at i:56077807 original size:27 final size:27
Alignment explanation
Indices: 56077786--56077875 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
56077776 GGGTACTTTG
*
56077786 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
56077813 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
56077840 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
56077867 GTAATTTTA
1 GTAATTTTA
56077876 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:56077827 original size:54 final size:54
Alignment explanation
Indices: 56077769--56077875 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
56077759 ATAATTCTGT
* * *
56077769 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
56077823 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
56077876 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:56077889 original size:27 final size:27
Alignment explanation
Indices: 56077786--56077890 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
56077776 GGGTACTTTG
* *
56077786 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
56077813 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
56077840 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
56077867 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
56077891 CTAAACATGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:56084491 original size:24 final size:24
Alignment explanation
Indices: 56084420--56084581 Score: 146
Period size: 24 Copynumber: 6.6 Consensus size: 24
56084410 GGAATGACAT
*
56084420 TGGCACTAAGTGTGCGGATTTTGAA
1 TGGCACTATGTGTGCGGA-TTTGAA
* *
56084445 TGGCACTATGTGTACGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
56084469 TAGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * * *
56084493 TGTCAATACGAGTGTGTGGATTTCTAA
1 TGGCACTA--TGTGTGCGGATTT-GAA
* * *
56084520 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
*
56084543 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
56084567 TAGCACTATGTGTGC
1 TGGCACTATGTGTGC
56084582 AAAATCGATT
Statistics
Matches: 105, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
23 1 0.01
24 71 0.68
25 16 0.15
26 15 0.14
27 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:56084531 original size:74 final size:75
Alignment explanation
Indices: 56084428--56084567 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 75
56084418 ATTGGCACTA
* *
56084428 AGTGTGCGGATTTTGAATGGCACTATGTGTACGGAATT-GAATAGCACTATGTGTGCTGATTTGA
1 AGTGTGCGGATTTTGAATGGCACTATGTGTACGG-ATTAGAATAGCACTAAGTGTGCGGATTTGA
56084492 ATGTCAATACG
65 ATGTCAATACG
* * * * *
56084503 AGTGTGTGGATTTCT-AA-GGCACTATGTGTGCGGGTTAGCATGGCACTAAGTGTGCGGATTTGA
1 AGTGTGCGGATTT-TGAATGGCACTATGTGTACGGATTAGAATAGCACTAAGTGTGCGGATTTGA
56084566 AT
65 AT
56084568 AGCACTATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
73 2 0.04
74 39 0.70
75 14 0.25
76 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.31, T:0.33
Consensus pattern (75 bp):
AGTGTGCGGATTTTGAATGGCACTATGTGTACGGATTAGAATAGCACTAAGTGTGCGGATTTGAA
TGTCAATACG
Found at i:56087708 original size:21 final size:21
Alignment explanation
Indices: 56087682--56087722 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
56087672 CCAAATTAAG
*
56087682 TTCCACTACTTTTACCTAAAT
1 TTCCACTAATTTTACCTAAAT
56087703 TTCCACTAATTTTACCTAAA
1 TTCCACTAATTTTACCTAAA
56087723 AATAGACTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (21 bp):
TTCCACTAATTTTACCTAAAT
Found at i:56093031 original size:48 final size:48
Alignment explanation
Indices: 56092957--56093200 Score: 420
Period size: 48 Copynumber: 5.1 Consensus size: 48
56092947 CAAGATAAAT
* * * *
56092957 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
56093005 ATATGTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
56093053 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
56093101 ATATGTATATGTGGTAAAGCCGAATGACTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
56093149 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA-G-G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
56093195 ATATGT
1 ATATGT
56093201 GTGTATATTG
Statistics
Matches: 188, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 7 0.04
47 1 0.01
48 180 0.96
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:56093392 original size:37 final size:37
Alignment explanation
Indices: 56093342--56093441 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
56093332 AATATATTCT
56093342 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
56093379 GGGTAAGACCCGATGACTACGTGCGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
56093416 GGGTAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
56093442 GGACTATTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.23
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:56106685 original size:50 final size:49
Alignment explanation
Indices: 56106622--56106796 Score: 200
Period size: 48 Copynumber: 3.6 Consensus size: 49
56106612 AAATCGAGGT
** *
56106622 CGATGCCATGTCCCAGACATACTCTTACACTAGCTCTCACATATCTGTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATATGT-C
*
56106672 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTC-TCA-ATGT-
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACAT-ATATGTC
* * * *
56106720 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATATGTC
*
56106768 CGATG-CATGTCCCAGTCAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
56106797 GGAACACAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
46 11 0.10
47 15 0.14
48 42 0.38
50 40 0.36
51 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATATGTC
Found at i:56106741 original size:48 final size:48
Alignment explanation
Indices: 56106575--56106796 Score: 195
Period size: 48 Copynumber: 4.6 Consensus size: 48
56106565 CATCAAGTTT
* * * * ** *
56106575 ATGCCATGTCCCAAACATGGTCTTACA-TTGACTATCTAAATCGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACATATATGTCG
** *
56106624 ATGCCATGTCCCAGACATACTCTTACACTAGCTCTCACATATCTGTACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATATGT--CG
*
56106674 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTC-TCA-ATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ACAT-ATATGTCG
* * * *
56106722 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATAT-GTCG
*
56106770 ATG-CATGTCCCAGTCAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
56106797 GGAACACAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
46 11 0.08
47 14 0.10
48 48 0.33
49 28 0.19
50 42 0.29
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATATGTCG
Done.