Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 111 of 182
Found at i:33710824 original size:19 final size:18
Alignment explanation
Indices: 33710796--33710869 Score: 73
Period size: 18 Copynumber: 4.1 Consensus size: 18
33710786 GCGAAAATAC
33710796 AAAAGAAAAGAAAAATGAAA
1 AAAAG-AAAG-AAAATGAAA
**
33710816 AAAAGAAAGAAAAT-TCA
1 AAAAGAAAGAAAATGAAA
33710833 AAAA-AAAGAAAATGAAA
1 AAAAGAAAGAAAATGAAA
*
33710850 AGAAAGCAAGAAAA-GAAA
1 A-AAAGAAAGAAAATGAAA
33710868 AA
1 AA
33710870 GATGAAAAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 9 0.20
17 8 0.17
18 13 0.28
19 11 0.24
20 5 0.11
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAGAAAGAAAATGAAA
Found at i:33710855 original size:15 final size:15
Alignment explanation
Indices: 33710816--33710882 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
33710806 AAAAATGAAA
*
33710816 AAAAGAAAGAAAATTC
1 AAAAGAAAGAAAA-TG
*
33710832 AAAAAAAAGAAAATG
1 AAAAGAAAGAAAATG
*
33710847 AAAAGAAAG-CAA-G
1 AAAAGAAAGAAAATG
*
33710860 AAAAGAAA-AAGATG
1 AAAAGAAAGAAAATG
33710874 AAAAAGAAA
1 -AAAAGAAA
33710883 AAGTGAGTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 10 0.24
14 3 0.07
15 17 0.40
16 12 0.29
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.06
Consensus pattern (15 bp):
AAAAGAAAGAAAATG
Found at i:33710861 original size:35 final size:36
Alignment explanation
Indices: 33710788--33710871 Score: 111
Period size: 35 Copynumber: 2.4 Consensus size: 36
33710778 AGAAAAGAGC
33710788 GAAAATACAAAAGAAAAGAAAAATGAAAAAAAGAAA
1 GAAAATACAAAAGAAAAGAAAAATGAAAAAAAGAAA
* *
33710824 GAAAATTCAAAA-AAAAG-AAAATGAAAAGAAAGCAA
1 GAAAATACAAAAGAAAAGAAAAATGAAAA-AAAGAAA
*
33710859 GAAAAGA-AAAAGA
1 GAAAATACAAAAGA
33710872 TGAAAAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
34 14 0.33
35 17 0.40
36 11 0.26
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.06
Consensus pattern (36 bp):
GAAAATACAAAAGAAAAGAAAAATGAAAAAAAGAAA
Found at i:33715015 original size:22 final size:23
Alignment explanation
Indices: 33714984--33715026 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
33714974 ACCTTTTTGA
33714984 ACCATTACCAATTCGTACCAAAT
1 ACCATTACCAATTCGTACCAAAT
*
33715007 ACCA-TACCATTTCGTACCAA
1 ACCATTACCAATTCGTACCAA
33715027 TTCCTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.33, G:0.05, T:0.26
Consensus pattern (23 bp):
ACCATTACCAATTCGTACCAAAT
Found at i:33716923 original size:8 final size:8
Alignment explanation
Indices: 33716910--33716955 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
33716900 ATCCAATTCA
33716910 CTCTCATT
1 CTCTCATT
33716918 CTCTCATT
1 CTCTCATT
**
33716926 CTCTCCCT
1 CTCTCATT
33716934 CTCTCACGTT
1 CTCTCA--TT
33716944 CTCTCATT
1 CTCTCATT
33716952 CTCT
1 CTCT
33716956 TTTTAAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 25 0.78
10 7 0.22
ACGTcount: A:0.09, C:0.43, G:0.02, T:0.46
Consensus pattern (8 bp):
CTCTCATT
Found at i:33722342 original size:136 final size:137
Alignment explanation
Indices: 33722098--33722365 Score: 360
Period size: 136 Copynumber: 2.0 Consensus size: 137
33722088 AAAATGGGCT
* * ** * *
33722098 TGCTCACATAAGCTGTCGGTCGGAACGTAGCTATGCGGTGCTGCTCCACAAGTTATCGAGTATCC
1 TGCTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTACTGCTCCACAAGCTATCGAGTATCC
* * *
33722163 GCAAAAAATGTTGAAACTCAGCCACTAGTAGGACATTCAAGACCAACACCCAAAACATGGTA-AC
66 ACAAAAAATGTTGAAACTCAGCCACTAGTAGGACATTCAAGACCAACACCAAAAACATAGTATAC
33722227 CTGGGTC
131 CTGGGTC
* * * * *
33722234 TGCTCACACGAGCTGTCGGTCGAAATGTAGCTACATGGTACTGCTCCACAAGCTGTCGAGTATCT
1 TGCTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTACTGCTCCACAAGCTATCGAGTATCC
* * *
33722299 ACAAAAAATGTTGGAACTCAGCCACCT-GTGGGACATTCAAGACCAGCACCAAAAACATAGTATA
66 ACAAAAAATGTTGAAACTCAGCCA-CTAGTAGGACATTCAAGACCAACACCAAAAACATAGTATA
33722363 CCT
130 CCT
33722366 AATGACATGT
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
136 107 0.95
137 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (137 bp):
TGCTCACACAAGCTGTCGGTCGAAACGTAGCTACACGGTACTGCTCCACAAGCTATCGAGTATCC
ACAAAAAATGTTGAAACTCAGCCACTAGTAGGACATTCAAGACCAACACCAAAAACATAGTATAC
CTGGGTC
Found at i:33726954 original size:43 final size:43
Alignment explanation
Indices: 33726906--33727008 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
33726896 TTGGTTTTCA
*
33726906 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
33726949 GCACTAAGTGTGTGGTCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
33726992 GCACTAAGTGTGTGGGC
1 GCACTAAGTGTGTGGGC
33727009 TTGAAATGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (43 bp):
GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:33727025 original size:29 final size:29
Alignment explanation
Indices: 33726990--33727063 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
33726980 GTTGTGAGAT
* * *
33726990 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
33727019 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
33727048 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33727064 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:33727476 original size:40 final size:41
Alignment explanation
Indices: 33727379--33727483 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 41
33727369 TCGAATGATG
* * *
33727379 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAATCCCGAAGGCATTGGTGCTAAGTGACCAAA
* * * *
33727419 TCCGGACTAAGAT-CCGAAGGCATTGGTGC-GAGTTACTAAA
1 TCCGGGCTAA-ATCCCGAAGGCATTGGTGCTAAGTGACCAAA
*
33727459 TCCGGGCTAACTCCCGAAGAGCATT
1 TCCGGGCTAAATCCCGAAG-GCATT
33727484 CATTCTAGCG
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
39 1 0.02
40 39 0.75
41 12 0.23
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (41 bp):
TCCGGGCTAAATCCCGAAGGCATTGGTGCTAAGTGACCAAA
Found at i:33727502 original size:40 final size:40
Alignment explanation
Indices: 33727458--33727614 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
33727448 GAGTTACTAA
* * *
33727458 ATCCGGGCTAACTCCCGAAGAGCATTCATTCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
33727498 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
33727538 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
33727578 ATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
33727615 CGTGTATTCG
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:33727516 original size:80 final size:80
Alignment explanation
Indices: 33727416--33727608 Score: 210
Period size: 80 Copynumber: 2.4 Consensus size: 80
33727406 CTAAGTGACC
* ** *
33727416 ATATCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAATCCGGGCTAACTCCCGAAGA
1 ATATCCGGGCTAAG-TCCCGAAGAGCATTCATGCGAGTGA-TAAATCCGGGCTAACTCCCGAAGA
*
33727479 GCATTCATTCTAGCGAT
64 GCATTCATGCTAGCGAT
* * ** * *
33727496 GTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGC
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAACTCCCGAAGAGC
* *
33727561 ATTCGTGCTAGTGAT
66 ATTCATGCTAGCGAT
* * *
33727576 ATATCCGTGCTAAATCCCGAAGAGCAATCATGC
1 ATATCCGGGCTAAGTCCCGAAGAGCATTCATGC
33727609 TGGTGACGTG
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.01
80 81 0.86
81 12 0.13
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGAGCATTCATGCGAGTGATAAATCCGGGCTAACTCCCGAAGAGC
ATTCATGCTAGCGAT
Found at i:33727594 original size:120 final size:120
Alignment explanation
Indices: 33727379--33727606 Score: 291
Period size: 120 Copynumber: 1.9 Consensus size: 120
33727369 TCGAATGATG
** *
33727379 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
* * *
33727444 GTGCGAGTTACTAAATCCGGGCTAACTCCCGAAGAGCATTCATTCTAGCGATGTA
66 GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATTCTAGCGATGTA
** * *
33727499 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAG-GC-TTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
* * *
33727562 TTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGCAATCAT
63 TTCGTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCAT
33727607 GCTGGTGACG
Statistics
Matches: 92, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
120 66 0.72
121 20 0.22
122 6 0.07
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTCATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTGACTAAATCCGGGCTAAATCCCGAAGAGCAATCATTCTAGCGATGTA
Found at i:33728340 original size:37 final size:37
Alignment explanation
Indices: 33728290--33728368 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33728280 TTATTACGAA
* * *
33728290 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
33728327 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
33728364 GTCTT
1 GTCTT
33728369 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:33728649 original size:47 final size:47
Alignment explanation
Indices: 33728486--33728850 Score: 631
Period size: 47 Copynumber: 7.7 Consensus size: 47
33728476 GCCCTTCGGG
**
33728486 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCATTATCAC--ATATATAC
**
33728536 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCAC--ATATATAC
* *
33728585 ACTTTGACATTCTTCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
33728632 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
33728679 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
33728726 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
33728773 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
33728820 ACTTTCACATTCATCACATCGGCCATTAGGC
1 ACTTTCACATTCATCACATCGGCCATTAGGC
33728851 CTTACTATCA
Statistics
Matches: 309, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 225 0.73
49 80 0.26
50 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
Found at i:33733576 original size:47 final size:47
Alignment explanation
Indices: 33733524--33733788 Score: 377
Period size: 47 Copynumber: 5.6 Consensus size: 47
33733514 GATAATTGTG
* *
33733524 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33733571 ATGTGAAAGTGTATATATGTGATATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTG--ATAAGGCCTAATGGCCGATGTGATGA
* * *
33733620 ATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33733667 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
33733716 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33733763 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
33733789 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
47 105 0.54
49 91 0.46
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:33733654 original size:96 final size:96
Alignment explanation
Indices: 33733524--33733786 Score: 402
Period size: 96 Copynumber: 2.7 Consensus size: 96
33733514 GATAATTGTG
* * * *
33733524 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
33733589 GTGATATAAGGCCTAATGGCCGATGTGATGA
66 GTGATATAAGGCCTAATGGCCGATGTGATGA
*
33733620 ATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
*
33733685 ATG-TGATAAGGCCTAATGGCCGATGTGATGA
66 GTGAT-ATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
33733716 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
33733781 GTGATA
66 GTGATA
33733787 AGTCCCGAAG
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 149 0.99
97 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
GTGATATAAGGCCTAATGGCCGATGTGATGA
Found at i:33735860 original size:40 final size:39
Alignment explanation
Indices: 33735815--33735899 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
33735805 AAGTGACCAT
*
33735815 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGATACTAA
1 ATCCGGACTAAG-CCCGAAGGCATTCGTGCGAGATACTAA
* * * *
33735855 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGACTAAGCCCGAAGGCATTCGTGCGAGATACTAA
33735894 ATCCGG
1 ATCCGG
33735900 GTTAAGTCCC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.74
40 10 0.26
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (39 bp):
ATCCGGACTAAGCCCGAAGGCATTCGTGCGAGATACTAA
Found at i:33735939 original size:40 final size:40
Alignment explanation
Indices: 33735776--33736450 Score: 995
Period size: 40 Copynumber: 16.9 Consensus size: 40
33735766 TCGAATGATG
* * **
33735776 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * *
33735816 TCCGGACTAAGATCCGAAG-GCATTCGTGCGAGAT-ACT-AA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG-TGA-TGTA
* * * * **
33735855 TTCCGGGCTAAG-CCCGAAG-GCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA-TGTA
* * * *
33735895 TCCGGGTTAAGTCCCAAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
33735935 TCCGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33735975 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736015 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736055 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736095 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736135 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736175 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736215 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736255 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736295 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
33736335 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
33736375 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* * * *
33736415 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGTGA
1 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGA
33736451 CGTGTATTCG
Statistics
Matches: 597, Mismatches: 31, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
38 1 0.00
39 32 0.05
40 545 0.91
41 19 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:33739154 original size:27 final size:28
Alignment explanation
Indices: 33739070--33739167 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
33739060 CGTGAGATTG
* * * *
33739070 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
33739099 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
33739127 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33739154 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33739168 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33739178 original size:27 final size:27
Alignment explanation
Indices: 33739098--33739180 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
33739088 TAAATTGTAC
* *
33739098 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
33739126 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
33739153 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
33739180 A
1 A
33739181 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:33739181 original size:29 final size:27
Alignment explanation
Indices: 33739070--33739181 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
33739060 CGTGAGATTG
** * *
33739070 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
33739099 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
33739127 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
33739154 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
33739182 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:33743717 original size:27 final size:28
Alignment explanation
Indices: 33743633--33743730 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
33743623 CGTGAGATTG
* * * *
33743633 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
33743662 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
33743690 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33743717 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33743731 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33743741 original size:27 final size:27
Alignment explanation
Indices: 33743661--33743743 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
33743651 TAAATTGTAC
* *
33743661 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
33743689 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
33743716 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
33743743 A
1 A
33743744 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:33743744 original size:29 final size:27
Alignment explanation
Indices: 33743633--33743744 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
33743623 CGTGAGATTG
** * *
33743633 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
33743662 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
33743690 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
33743717 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
33743745 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:33758236 original size:13 final size:13
Alignment explanation
Indices: 33758203--33758242 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
33758193 TATCTTTGTC
33758203 TTTAATTTTAAT-
1 TTTAATTTTAATA
33758215 TTTAATTTTAATA
1 TTTAATTTTAATA
*
33758228 TTTATTTTTAATA
1 TTTAATTTTAATA
33758241 TT
1 TT
33758243 AATGTTAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTAATTTTAATA
Found at i:33758244 original size:6 final size:6
Alignment explanation
Indices: 33758203--33758266 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
33758193 TATCTTTGTC
* * * *
33758203 TTTAAT TTTAAT TTTAAT TTTAAT ATTTATT TTTAAT ATTAAT GTTAGT
1 TTTAAT TTTAAT TTTAAT TTTAAT -TTTAAT TTTAAT TTTAAT TTTAAT
33758252 TTT-A- TTT-AT TTTAAT
1 TTTAAT TTTAAT TTTAAT
33758267 AAAGGGGGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
4 4 0.08
5 3 0.06
6 36 0.75
7 5 0.10
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:33758254 original size:19 final size:19
Alignment explanation
Indices: 33758214--33758255 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
33758204 TTAATTTTAA
* *
33758214 TTTTAATTTTAATATTTAT
1 TTTTAATATTAATAGTTAT
*
33758233 TTTTAATATTAAT-GTTAG
1 TTTTAATATTAATAGTTAT
33758251 TTTTA
1 TTTTA
33758256 TTTATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTAATATTAATAGTTAT
Found at i:33763195 original size:42 final size:42
Alignment explanation
Indices: 33763141--33763261 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
33763131 TATGATTACT
* * *
33763141 GAGATTACGTGTAAGACAATATCTAGGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTAGGATATGGCATCAATAA
* * *
33763183 GAGGCTT-CGTGTAAGACCATAACTAGGTTATTGGCATCAATAA
1 GA-GATTACGTGTAAGACCATATCTAGGATA-TGGCATCAATAA
* **
33763226 GAGATTACATGTAAGACCATATCCGGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTAGGATATGGCAT
33763262 TGGTACGGTA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTAGGATATGGCATCAATAA
Found at i:33768564 original size:40 final size:40
Alignment explanation
Indices: 33768490--33768711 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
33768480 AACCCAAGTA
* *
33768490 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
33768529 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
33768569 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
33768609 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
33768649 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
33768689 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
33768712 CATTCGAATA
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 155 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:33779157 original size:43 final size:43
Alignment explanation
Indices: 33779101--33779304 Score: 196
Period size: 43 Copynumber: 4.8 Consensus size: 43
33779091 TATGTGATAT
* * *
33779101 TTACATGTAAGACCATGTTTGGGACGCTGGCATCGATATGTGA
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGA
** * * * *
33779144 TTTTGTGTAAGACCACGTCTAGGATGTTGGCATTGATATGTGA
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGA
* * * *
33779187 TTACGTGTAAGACCACGTCTGGGA-ATTTGCATCGATATGTGT
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGA
* * * * * *
33779229 TTATGAGTAAGACCCTATCTGGGACAG-TGGCATCGATATGAGG
1 TTACGTGTAAGACCATGTCTGGGAC-GTTGGCATCGATATGTGA
* *
33779272 TTACATGTAAGACCATGTCTAGGACGTTGGCAT
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCAT
33779305 TGTACGATAT
Statistics
Matches: 127, Mismatches: 31, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
42 34 0.27
43 93 0.73
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATATGTGA
Found at i:33784662 original size:27 final size:27
Alignment explanation
Indices: 33784634--33784777 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
33784624 TACTGAAATG
* * *
33784634 CCCTCGATTTGTAGAATTACCATTTTG
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
33784661 CCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
33784688 CCCTCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
33784715 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
33784742 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCGTTTTA
33784769 CCCTCGATT
1 CCCTCGATT
33784778 GTGAAATTAC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 96 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:33784706 original size:54 final size:54
Alignment explanation
Indices: 33784634--33784777 Score: 191
Period size: 54 Copynumber: 2.7 Consensus size: 54
33784624 TACTGAAATG
** * * * * *
33784634 CCCTCGATTTGTAGAATTACCATTTTGCCCTCGATTTATAGAATTATCGTTTCA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTCA
* *
33784688 CCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTCA
33784742 CCCTC-AGTTTACAAAATTACCGTTTTACCCTCGATT
1 CCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATT
33784778 GTGAAATTAC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 78 0.99
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (54 bp):
CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTCA
Found at i:33784799 original size:27 final size:27
Alignment explanation
Indices: 33784769--33784934 Score: 140
Period size: 27 Copynumber: 6.1 Consensus size: 27
33784759 TACCGTTTTA
* **
33784769 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTCGATTGTAAAATTACCAAAATAC
* *
33784796 CCCT--ATAGGATAGAATTACCAAAATAC
1 CCCTCGAT-TG-TAAAATTACCAAAATAC
* *
33784823 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCTCGATTGTAAAATTACCAAAATAC
* * *
33784850 CCCTGGTTTGTAAAATTACCGAAATAC
1 CCCTCGATTGTAAAATTACCAAAATAC
* * * * *
33784877 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCTCGATTGTAAAATTACCAAAATAC
*
33784903 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTAAAATTACCAAAATAC
33784931 CCCT
1 CCCT
33784935 AATTTACAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.02
26 4 0.03
27 103 0.90
28 5 0.04
29 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.28
Consensus pattern (27 bp):
CCCTCGATTGTAAAATTACCAAAATAC
Found at i:33784850 original size:54 final size:53
Alignment explanation
Indices: 33784776--33784935 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 53
33784766 TTACCCTCGA
* ** *
33784776 TTGTGAAATTACTGAAATACCCCTATAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTATTTG-TAAAATTACCAAAATACCCCTAGT
* * * * * *
33784830 TTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCT-ATTTGTAAAATTACCAAAATACCCCTAGT
*
33784884 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTA
1 TTGTGAAATTACCGAAATACCC-CTATTTGTAAAATTACCAAAATACCCCTA
33784936 ATTTACAAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
54 84 0.97
55 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (53 bp):
TTGTGAAATTACCGAAATACCCCTATTTGTAAAATTACCAAAATACCCCTAGT
Found at i:33784948 original size:27 final size:27
Alignment explanation
Indices: 33784809--33784935 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
33784799 TATAGGATAG
33784809 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
33784836 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
33784863 AATTACCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
33784890 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
33784917 AATTACCAAAATACCCCTA
1 AATTACCAAAATACCCCTA
33784936 ATTTACAAAA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.03
27 82 0.92
28 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:33784954 original size:27 final size:27
Alignment explanation
Indices: 33784889--33784956 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
33784879 CTGGTTTGTG
** **
33784889 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACAAAAATACCCTCAATTTACA
*
33784916 AAATTACCAAAATACCC-CTAATTTACA
1 AAATTACAAAAATACCCTC-AATTTACA
*
33784943 AAATTATAAAAATA
1 AAATTACAAAAATA
33784957 TCCTTGACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (27 bp):
AAATTACAAAAATACCCTCAATTTACA
Found at i:33785010 original size:27 final size:27
Alignment explanation
Indices: 33784937--33785022 Score: 79
Period size: 27 Copynumber: 3.1 Consensus size: 27
33784927 ATACCCCTAA
* *
33784937 TTTACAAAATTATAAAAATATCC-TTGAC
1 TTTACAAAATTATAGAAATA-CCATTG-G
33784965 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
33784993 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
33785020 TTT
1 TTT
33785023 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 23 0.46
28 9 0.18
29 18 0.36
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:33785025 original size:110 final size:108
Alignment explanation
Indices: 33784809--33785016 Score: 254
Period size: 108 Copynumber: 1.9 Consensus size: 108
33784799 TATAGGATAG
* ** * * * *
33784809 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCCTGCTTTCTAAAATTACAGAAA
***
33784874 TACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
66 TACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTAA
* * * *
33784917 AATTACCAAAATACCCCTAATTTACAAAATTATAAAAATATCCTTGACTTTCTAAAAATTATAGA
1 AATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCCTG-CTTTCT-AAAATTACAGA
* *
33784982 AATACCATTGGTTTACAAAATTACTGAAATACCCT
64 AATACCACTGGTTTACAAAATTACCGAAATACCCT
33785017 TGGTTTGTAG
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
108 39 0.48
109 4 0.05
110 39 0.48
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
AATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCCTGCTTTCTAAAATTACAGAAA
TACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTGTAA
Found at i:33785033 original size:110 final size:108
Alignment explanation
Indices: 33784806--33785042 Score: 258
Period size: 110 Copynumber: 2.2 Consensus size: 108
33784796 CCCTATAGGA
* ** * * * *
33784806 TAGAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCG
1 TAGAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCCTGCTTTCTAAAATTACAG
***
33784871 AAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTG
66 AAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTG
* * * * *
33784914 TAAAATTACCAAAATACCCCTAATTTACAAAATTATAAAAATATCCTTGACTTTCTAAAAATTAT
1 TAGAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCCTG-CTTTCT-AAAATTAC
* * ***
33784979 AGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTG
64 AGAAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTG
* *
33785024 TAGATTTACCAAAACACCC
1 TAGAATTACCAAAATACCC
33785043 TTGTAGGATG
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
108 41 0.39
109 4 0.04
110 59 0.57
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (108 bp):
TAGAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCCTGCTTTCTAAAATTACAG
AAATACCACTGGTTTACAAAATTACCGAAATACCCTCAATTTG
Found at i:33785140 original size:27 final size:27
Alignment explanation
Indices: 33785076--33785140 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
33785066 ACCCCAAATA
*
33785076 GGTAAAAAGACCGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCTTGTAG
* * *
33785103 GGTAAAGTGACTGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCTTGTAG
33785130 GGTAAAATGAC
1 GGTAAAATGAC
33785141 GAATACGATC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCTTGTAG
Found at i:33786032 original size:24 final size:24
Alignment explanation
Indices: 33785949--33786032 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
33785939 GAGGAAATGC
* *
33785949 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
33785974 AAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
33785998 TAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
33786022 TAAAAGAGGCT
1 TAAAAG-GGCT
33786033 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.21
25 38 0.72
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:33786042 original size:25 final size:24
Alignment explanation
Indices: 33785976--33786046 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
33785966 AGTTTACCAA
**
33785976 AAAGGGCTTTGCCCCAGTTTATTAG
1 AAAGGGCTAGGCCCCAG-TTATTAG
**
33786001 AAAGGGCTTTGCCCCAGTTATTA-
1 AAAGGGCTAGGCCCCAGTTATTAG
33786024 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCC-CCAGTTAT
33786047 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.10
24 13 0.31
25 25 0.60
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (24 bp):
AAAGGGCTAGGCCCCAGTTATTAG
Found at i:33786232 original size:42 final size:42
Alignment explanation
Indices: 33786167--33786300 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
33786157 TAGTCTCCCC
*
33786167 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
* *
33786209 AAATGGGCTTGCACACATCCATTGACATTATATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
33786251 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
33786293 AAATGGGC
1 AAATGGGC
33786301 CTAAGGGCCA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:33786359 original size:31 final size:31
Alignment explanation
Indices: 33786324--33786407 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
33786314 CGTTTACAGT
33786324 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33786355 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33786386 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
33786408 TCAAGACTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33787471 original size:38 final size:37
Alignment explanation
Indices: 33787414--33787488 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 37
33787404 AGAAATTGAG
33787414 TTTGGTGGCAATGAATTCAACTAGGCTCAAGCTCTTT
1 TTTGGTGGCAATGAATTCAACTAGGCTCAAGCTCTTT
33787451 NTTTGGTGGCAAT-AAGTTCAACTAGGCTCAAGCTCTTT
1 -TTTGGTGGCAATGAA-TTCAACTAGGCTCAAGCTCTTT
33787489 CCCTTAGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (37 bp):
TTTGGTGGCAATGAATTCAACTAGGCTCAAGCTCTTT
Found at i:33788981 original size:44 final size:44
Alignment explanation
Indices: 33788916--33788999 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
33788906 TTGATATCTC
* *
33788916 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGATAGA
1 AAAGACCATGGTTGTAACATGGCAATTAAGGAAGAATTGATAGA
* *
33788960 AAAGACCAT-GTTGATAACATGGCATTTAAGGACGAATTGA
1 AAAGACCATGGTTG-TAACATGGCAATTAAGGAAGAATTGA
33789000 CAGTTATGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 4 0.11
44 31 0.89
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (44 bp):
AAAGACCATGGTTGTAACATGGCAATTAAGGAAGAATTGATAGA
Found at i:33789199 original size:47 final size:47
Alignment explanation
Indices: 33789140--33789259 Score: 195
Period size: 47 Copynumber: 2.6 Consensus size: 47
33789130 ATTGGCACTT
*
33789140 AGACAAGGATACCATGTAAGACCATGTTTGGAACATGGTATTTAGTA
1 AGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAGTA
* *
33789187 AGACAAGGATACCATGTAAGACTATGTTTGGAACATGGCATTTGGTA
1 AGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAGTA
* *
33789234 AGATAAGGATATCATGTAAGACCATG
1 AGACAAGGATACCATGTAAGACCATG
33789260 CCAAGGCATG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (47 bp):
AGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAGTA
Found at i:33789296 original size:54 final size:54
Alignment explanation
Indices: 33789232--33789444 Score: 178
Period size: 54 Copynumber: 3.9 Consensus size: 54
33789222 TGGCATTTGG
* * *
33789232 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTTA
* * * * ** *
33789286 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGTATTGACGAGTTACTA
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-TTA
* * * * * * *
33789341 TAAGGCAAAGG-TCCCATGTAAAACCATGCCAAGGCATGGCATTGGTGAG-TTCA
1 TAAGG-TAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTTA
* * ** * * *
33789394 TAAGGCAAGGCTACCACATAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT
33789445 CAAAAAGGAA
Statistics
Matches: 126, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
52 4 0.03
53 36 0.29
54 46 0.37
55 36 0.29
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (54 bp):
TAAGGTAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTTA
Found at i:33789367 original size:55 final size:53
Alignment explanation
Indices: 33789246--33789434 Score: 173
Period size: 55 Copynumber: 3.5 Consensus size: 53
33789236 ATAAGGATAT
* * ** * * ** *
33789246 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGTAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGACGAG-TTCATAAGGCAAGGCTAC
* *
33789300 CATGTAAGACCATGTCAAGACATGGTATTGACGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGTCAAGACATGGCATTGACGAGTT-C-ATAAGGC-AAGGCTAC
* * * **
33789355 CATGTAAAACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGCTAC
1 CATGTAAGACCATGTCAAGACATGGCATTGACGAGTTCATAAGGCAAGGCTAC
**
33789408 CACATAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGTCAAGACATGGCA
33789435 ATGGTAAGTT
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
52 4 0.04
53 33 0.30
54 31 0.28
55 37 0.34
56 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGTCAAGACATGGCATTGACGAGTTCATAAGGCAAGGCTAC
Found at i:33789432 original size:53 final size:52
Alignment explanation
Indices: 33789246--33789446 Score: 177
Period size: 53 Copynumber: 3.8 Consensus size: 52
33789236 ATAAGGATAT
* * * * *
33789246 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTTTATAAGGTAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAG-TTCATAAGGCAAGG-TAC
* * ** *
33789300 CATGTAAGACCATGTCAAGACATGGTATTGACGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-C-ATAAGGC-AAGGTAC
* * * *
33789355 CATGTAAAACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGCTAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAGG-TAC
** * * *
33789408 CACATAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCA
33789447 AAAAGGAAAA
Statistics
Matches: 119, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
52 4 0.03
53 43 0.36
54 31 0.26
55 37 0.31
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (52 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGCAAGGTAC
Found at i:33793190 original size:27 final size:28
Alignment explanation
Indices: 33793106--33793203 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
33793096 CATGAGATTG
* * * *
33793106 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
33793135 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
33793163 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33793190 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33793204 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33793214 original size:27 final size:27
Alignment explanation
Indices: 33793134--33793216 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
33793124 TAAATTGTAC
* *
33793134 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
33793162 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
33793189 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
33793216 A
1 A
33793217 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:33793217 original size:29 final size:27
Alignment explanation
Indices: 33793106--33793217 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
33793096 CATGAGATTG
** * *
33793106 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
33793135 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
33793163 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
33793190 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
33793218 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:33800748 original size:55 final size:53
Alignment explanation
Indices: 33800633--33800821 Score: 139
Period size: 55 Copynumber: 3.5 Consensus size: 53
33800623 ATAAGGATAT
* * * * * ***
33800633 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGG-TAAGGAAAT
1 CATGTAAGACCAAGCCAAGACATGGCATTGATGAGTTC-ATAAGGCAAAGG-TCC
* * * *
33800687 CATGTAAGCCCAAGTCTAGATATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
1 CATGTAAGACCAAGCCAAGACATGGCATTGATGAGTT-C-ATAAGGCAAAGGTCC
* * * *
33800742 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC-AAGGATAC
1 CATGTAAGACCAAGCCAAGACATGGCATTGATGAGTTCATAAGGCAAAGG-TCC
* * * *
33800795 CACGTAAGACCATGTCAAGAGATGGCA
1 CATGTAAGACCAAGCCAAGACATGGCA
33800822 ATGGTAAGTT
Statistics
Matches: 108, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 4 0.04
53 32 0.30
54 30 0.28
55 38 0.35
56 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCAAGCCAAGACATGGCATTGATGAGTTCATAAGGCAAAGGTCC
Found at i:33800833 original size:53 final size:54
Alignment explanation
Indices: 33800625--33800832 Score: 197
Period size: 53 Copynumber: 3.9 Consensus size: 54
33800615 TTGGTAAGAT
* * *
33800625 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTCCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * * * * ** *
33800679 AAGGAAATCATGTAAGCCCAAGTCTAGATATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTATAAGGC
* * *
33800734 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
* * * *
33800787 AAGGATACCACGTAAGACCATGTCAAGAG-ATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAG-GCATGGCATTGATAAGTTC
33800833 AAAAACGAAA
Statistics
Matches: 125, Mismatches: 25, Indels: 9
0.79 0.16 0.06
Matches are distributed among these distances:
52 4 0.03
53 41 0.33
54 38 0.30
55 38 0.30
56 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
Found at i:33804010 original size:26 final size:26
Alignment explanation
Indices: 33803981--33804062 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
33803971 TGGTACAAAT
33803981 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33804007 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33804033 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33804059 TGAT
1 TGAT
33804063 GGGCATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33805699 original size:27 final size:27
Alignment explanation
Indices: 33805659--33805799 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 27
33805649 AGGAAGCGTC
*
33805659 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
33805686 CTGGTGGCTCTGCCA-TATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
33805712 CCTGGTGGCTATGCCACAATTATTTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
33805740 CTGGTGGCTCTGCCAC-ATATATCT-ATT
1 CTGGTGGCTCTGCCACAAT-TATCTGA-T
33805767 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
33805794 CTGGTG
1 CTGGTG
33805800 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
26 11 0.11
27 82 0.84
28 5 0.05
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:33805740 original size:54 final size:54
Alignment explanation
Indices: 33805656--33805799 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
33805646 TGGAGGAAGC
*
33805656 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
33805710 GTCCTGGTGGCTATGCCACAATTATTTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
33805764 ATTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
33805800 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:33809664 original size:16 final size:17
Alignment explanation
Indices: 33809643--33809674 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33809633 TATCTTATGA
33809643 GTATAAAG-ATGGCATT
1 GTATAAAGTATGGCATT
33809659 GTATAAAGTATGGCAT
1 GTATAAAGTATGGCAT
33809675 GATTGCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (17 bp):
GTATAAAGTATGGCATT
Found at i:33814496 original size:47 final size:47
Alignment explanation
Indices: 33814278--33814503 Score: 169
Period size: 49 Copynumber: 4.7 Consensus size: 47
33814268 ATTGAGACGA
* *
33814278 GAGCTAGTGTAACA-CATGTCTGGGACAT-GCATCAGCCTCGA--GAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCA-ACTCGATGGAT
* * * *
33814322 GTAAGCCAGTGTAAGA-CATGTTTGGGACATGGCATCGAAATGGATATGTGA-
1 G--AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AACTCG--ATG-GAT
* *** *
33814373 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGTCTCGATTTTGAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGC-ATCAACTCGA--TGGAT
* * * *
33814423 -AGTTAGTGTAAGACCATGTTTAGGACATGGCATCAACTTGATGGAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATGGAT
*
33814469 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
33814504 GGCATTATAC
Statistics
Matches: 139, Mismatches: 28, Indels: 27
0.72 0.14 0.14
Matches are distributed among these distances:
44 1 0.01
46 28 0.20
47 37 0.27
48 7 0.05
49 43 0.31
50 19 0.14
51 2 0.01
52 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATGGAT
Found at i:33815475 original size:15 final size:15
Alignment explanation
Indices: 33815455--33815485 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33815445 GCTGGCATCA
*
33815455 GAAACAGAATGTCAT
1 GAAACAAAATGTCAT
33815470 GAAACAAAATGTCAT
1 GAAACAAAATGTCAT
33815485 G
1 G
33815486 GTTTTTAGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (15 bp):
GAAACAAAATGTCAT
Found at i:33815718 original size:21 final size:21
Alignment explanation
Indices: 33815692--33815739 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
33815682 TTATAATGAC
* *
33815692 CACACGGGTGTATTGTCCTTT
1 CACACGGGTGTAGTGCCCTTT
*
33815713 CACACGGGTGTGGTGCCCTTT
1 CACACGGGTGTAGTGCCCTTT
33815734 CACACG
1 CACACG
33815740 AGCGTGTGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.29, G:0.27, T:0.29
Consensus pattern (21 bp):
CACACGGGTGTAGTGCCCTTT
Found at i:33815750 original size:20 final size:21
Alignment explanation
Indices: 33815708--33815751 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
33815698 GGTGTATTGT
* *
33815708 CCTTTCACACGGGTGTGGTGC
1 CCTTTCACACGAGCGTGGTGC
33815729 CCTTTCACACGAGCGT-GTGC
1 CCTTTCACACGAGCGTGGTGC
33815749 CCT
1 CCT
33815752 GTTTTCAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.11, C:0.34, G:0.27, T:0.27
Consensus pattern (21 bp):
CCTTTCACACGAGCGTGGTGC
Found at i:33818859 original size:55 final size:54
Alignment explanation
Indices: 33818723--33819122 Score: 278
Period size: 55 Copynumber: 7.5 Consensus size: 54
33818713 TTCCTTTTTG
* * * *
33818723 AACTTACCATTGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGT
* *
33818776 AACTCACCAATGCCATGCCTT-AGCATGGTCTTACATGGGACCTTTGCCTTATAGT
1 AACTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTACC-TTGCCTTATAGT
* * * * *
33818831 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTAATA-T
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGT
* ** * * **
33818885 AACTTATCAATTACATGCCTTGGCATGGTTTTACAT-G-A-AAT-CC-T-TA-T
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGT
** * *
33818932 --CTTACCAAATGCCATGTTCC-AAACATGGTCTTACATGGTATGCTTGTCTTAT-G-
1 AACTTACC-AATGCCATG--CCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGT
* * * *
33818985 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAGT
* * * * *
33819040 AACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTCCCGTT-CCTTATAG-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACC-TTGCCTTATAGT
* *
33819094 AACTTATCAATGCCATGCCTTGGCATGGT
1 AACTTACCAATGCCATGCCTTGACATGGT
33819123 GTAACACCCC
Statistics
Matches: 272, Mismatches: 51, Indels: 47
0.74 0.14 0.13
Matches are distributed among these distances:
45 5 0.02
46 7 0.03
47 15 0.06
48 3 0.01
49 3 0.01
50 1 0.00
51 1 0.00
52 7 0.03
53 65 0.24
54 70 0.26
55 88 0.32
56 7 0.03
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGT
Found at i:33819113 original size:209 final size:209
Alignment explanation
Indices: 33818745--33819122 Score: 632
Period size: 209 Copynumber: 1.8 Consensus size: 209
33818735 CCATGTCTTG
*
33818745 ACATAGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTAGCATGGTCTTAC
1 ACATAGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTAGCATGGTCTTAC
* *
33818810 ATGGGACCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTCCCT
* *
33818875 TGCCTAATATAACTTATCAATTACATGCCTTGGCATGGTTTTACATGAAATCCTTATCTTACCAA
131 TGCCTAATAGAACTTATCAATGACATGCCTTGGCATGGTTTTACATGAAATCCTTATCTTACCAA
33818940 ATGCCATGTTCCAA
196 ATGCCATGTTCCAA
* * * *
33818954 ACATGGTCTTACATGGTATGCTTGTCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATAGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTAGCATGGTCTTAC
*
33819019 ATGGGACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTCCCG
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTCCC-
* *
33819084 TT-CCTTATAGAACTTATCAATGCCATGCCTTGGCATGGT
130 TTGCCTAATAGAACTTATCAATGACATGCCTTGGCATGGT
33819123 GTAACACCCC
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
209 154 0.99
210 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (209 bp):
ACATAGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTAGCATGGTCTTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTCCCT
TGCCTAATAGAACTTATCAATGACATGCCTTGGCATGGTTTTACATGAAATCCTTATCTTACCAA
ATGCCATGTTCCAA
Found at i:33822813 original size:80 final size:79
Alignment explanation
Indices: 33822730--33823676 Score: 1608
Period size: 80 Copynumber: 11.8 Consensus size: 79
33822720 TAACCACAAG
* * * * * * *
33822730 CACAATTGCCTTCGGGTCTTAACCCGGGTATAGAA-ACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CACAAATGCCTTCGGCTCTTAGCCC-GG-ATAAAACACTAGCACAATTGCCTTCGGGTCTTAACC
* * *
33822794 CGGATATATCAACTCG
64 CGGGTATAGCAACTCA
*
33822810 CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33822875 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
* * *
33822890 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33822955 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33822970 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823035 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33823050 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823115 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33823130 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823195 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33823210 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823275 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33823290 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823355 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33823370 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823435 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33823450 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823515 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
33823530 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823595 GGGTATAGCAACTCA
65 GGGTATAGCAACTCA
* * * *
33823610 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCC
1 CACAAATGCCTTCGGCTCTTAGCCCGGATAAAA-CACTAGCACAATTGCCTTCGGGTCTTAACCC
33823675 GG
65 GG
33823677 ATATCATTCA
Statistics
Matches: 845, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
78 5 0.01
79 2 0.00
80 838 0.99
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (79 bp):
CACAAATGCCTTCGGCTCTTAGCCCGGATAAAACACTAGCACAATTGCCTTCGGGTCTTAACCCG
GGTATAGCAACTCA
Found at i:33825337 original size:47 final size:47
Alignment explanation
Indices: 33825286--33825455 Score: 295
Period size: 47 Copynumber: 3.6 Consensus size: 47
33825276 GGGTTGTCAC
* *
33825286 ACATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAA
33825333 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAA
* * *
33825380 ACATGTTCTTACATGGTATCCTTGTATTACCAAATTTCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAA
33825427 ACATGGTCTTACATGGTATCCTTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
33825456 GTTCCAATGC
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 116 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAA
Found at i:33831877 original size:46 final size:46
Alignment explanation
Indices: 33831819--33831985 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
33831809 TTATTTGTGT
33831819 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
*
33831865 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTTAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-TT--ATGAGA
* * * * * *
33831913 GCTAGTGTAAGATATGTCTGGAATATGCATCGGCCTCGA-GATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATG-AGA
*
33831959 GCCAGTGTAAGACAAGTCTGGGACATG
1 GCCAGTGTAAGACATGTCTGGGACATG
33831986 GTATCGGCAC
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
45 3 0.03
46 44 0.45
47 28 0.29
48 21 0.21
49 1 0.01
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
Found at i:33831890 original size:47 final size:48
Alignment explanation
Indices: 33831819--33832139 Score: 188
Period size: 47 Copynumber: 6.8 Consensus size: 48
33831809 TTATTTGTGT
33831819 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
*
33831865 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTTAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-TT--ATGAGA
* * * * * *
33831913 GCTAGTGTAAGA-TATGTCTGGAATAT-GCATCGGCCTCGA-GATGTA-A
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATG-AGA
* * *
33831959 GCCAGTGTAAGA-CAAGTCTGGGACATGGTATCGG-CACGGATATGTGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC--AT-TATGAGA
** * * * * ** *
33832008 GGTAGTGTAAGACCATGTTTGGCACATGGCGTCTGCCTTGATT-TCGAAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC-ACATTAT-GAGA
* * * *
33832057 GTCAGTGTAAGACCATGTTTAGGAAATGGCATC-G--AC-TTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GA
* *
33832104 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
33832140 ATTATACCCA
Statistics
Matches: 209, Mismatches: 42, Indels: 45
0.71 0.14 0.15
Matches are distributed among these distances:
44 2 0.01
45 3 0.01
46 48 0.23
47 66 0.32
48 25 0.12
49 45 0.22
50 19 0.09
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:33840339 original size:68 final size:64
Alignment explanation
Indices: 33840229--33840446 Score: 156
Period size: 68 Copynumber: 3.3 Consensus size: 64
33840219 ATACAGATAG
* * * * * *
33840229 TATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTACAAGAGAGCTACAAGACA
1 TATGTAGCTAGGTCACATGGATGATACTAGGTGCACACCATGTAG-ACAAGAAAGCTAC--GACA
33840293 TTA
63 -TA
* * * **
33840296 TTATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAAAGCTACGGGATA
1 -TATGTAGCTAGGTCACATGGATGATACTAGGTGCACACCATGTAGACAAGAAAGCTACGACATA
* * * *
33840361 TATGTAGCTAGGTCACATGCG-TGGT-TTCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGA
1 TATGTAGCTAGGTCACATG-GATGATACT-AGGT---GCACACCATGTAGACAAGAAAGCTACGA
*
33840424 GATA
61 CATA
* *
33840428 AAT-TGGCTAGGTCACATGG
1 TATGTAGCTAGGTCACATGG
33840447 GTGGTACTGA
Statistics
Matches: 125, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
63 1 0.01
64 25 0.20
65 4 0.03
66 16 0.13
67 31 0.25
68 47 0.38
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGATGATACTAGGTGCACACCATGTAGACAAGAAAGCTACGACATA
Found at i:33842469 original size:25 final size:25
Alignment explanation
Indices: 33842441--33842506 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
33842431 TTCTATGGTG
**
33842441 AGTTATCTGTAAAGCCTTTGTGGCA
1 AGTTATCTGTAAAGCCTCCGTGGCA
*
33842466 AGTTATCTATAAAGCCTCCGTGGCA
1 AGTTATCTGTAAAGCCTCCGTGGCA
33842491 AGTTATCTGTAAAGCC
1 AGTTATCTGTAAAGCC
33842507 ATATTGTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (25 bp):
AGTTATCTGTAAAGCCTCCGTGGCA
Found at i:33842594 original size:25 final size:25
Alignment explanation
Indices: 33842557--33842626 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
33842547 AAACCACATC
* *
33842557 AAGCTTCTGTGGCGAGTTATCTACA
1 AAGCCTCTATGGCGAGTTATCTACA
* **
33842582 AAGCCTCTATGGCGAGTTCTCTGTA
1 AAGCCTCTATGGCGAGTTATCTACA
*
33842607 AAGCCTTTATGGCGAGTTAT
1 AAGCCTCTATGGCGAGTTAT
33842627 TTGTAATGCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (25 bp):
AAGCCTCTATGGCGAGTTATCTACA
Found at i:33842625 original size:130 final size:130
Alignment explanation
Indices: 33842395--33842632 Score: 307
Period size: 130 Copynumber: 1.8 Consensus size: 130
33842385 AAACACGATT
* * ** *
33842395 GTTGGTGTGGTGTATTGGTGGCAAACCACATCTAAATTCTATGGTGAGTTATCTGTAAAGCCTTT
1 GTTGGTGTGGTGCATTGGTGGCAAACCACATCTAAATTCTATGGCGAGTTATCTACAAAGCCTCT
* *
33842460 GTGGCAAGTTATCTATAAAGCCTCCGTGGCAAGTTATCTGTAAAGCCATATTGTCAAACATAATA
66 ATGGCAAGTTATCTATAAAGCCTCCATGGCAAGTTATCTGTAAAGCCATATTGTCAAACATAATA
* * *
33842525 GTTGGTGTGGTGCCTTGGTGGCAAACCACATC-AAGCTTCTGTGGCGAGTTATCTACAAAGCCTC
1 GTTGGTGTGGTGCATTGGTGGCAAACCACATCTAA-ATTCTATGGCGAGTTATCTACAAAGCCTC
* * * ** * *
33842589 TATGGCGAGTTCTCTGTAAAGCCTTTATGGCGAGTTATTTGTAA
65 TATGGCAAGTTATCTATAAAGCCTCCATGGCAAGTTATCTGTAA
33842633 TGCCCTTGTG
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
129 2 0.02
130 88 0.98
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (130 bp):
GTTGGTGTGGTGCATTGGTGGCAAACCACATCTAAATTCTATGGCGAGTTATCTACAAAGCCTCT
ATGGCAAGTTATCTATAAAGCCTCCATGGCAAGTTATCTGTAAAGCCATATTGTCAAACATAATA
Found at i:33842631 original size:25 final size:25
Alignment explanation
Indices: 33842566--33842679 Score: 86
Period size: 25 Copynumber: 4.6 Consensus size: 25
33842556 CAAGCTTCTG
* ** *
33842566 TGGCGAGTTATCTACAAAGCCTCTA
1 TGGCGAGTTATTTGTAAAGCCTTTA
* *
33842591 TGGCGAGTTCTCTGTAAAGCCTTTA
1 TGGCGAGTTATTTGTAAAGCCTTTA
* * *
33842616 TGGCGAGTTATTTGTAATGCCCTTG
1 TGGCGAGTTATTTGTAAAGCCTTTA
* * * * *
33842641 TGGCTAATTATTTGAAAAGCCTATG
1 TGGCGAGTTATTTGTAAAGCCTTTA
33842666 TGGCGTA-TTATTTG
1 TGGCG-AGTTATTTG
33842680 GGAAACCTTG
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
25 71 0.99
26 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (25 bp):
TGGCGAGTTATTTGTAAAGCCTTTA
Found at i:33846309 original size:23 final size:23
Alignment explanation
Indices: 33846277--33846328 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
33846267 CAATCTATTA
33846277 ATTTA-GATAGTAAAACAATGTG
1 ATTTATGATAGTAAAACAATGTG
33846299 ATTTATGATAGTAAAACAATGTG
1 ATTTATGATAGTAAAACAATGTG
33846322 ATTTATG
1 ATTTATG
33846329 CAATTTATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.37
Consensus pattern (23 bp):
ATTTATGATAGTAAAACAATGTG
Found at i:33859532 original size:28 final size:28
Alignment explanation
Indices: 33859501--33859563 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
33859491 TCCCATATTA
*
33859501 ATGGGGTATAGGAAA-AGTCTCATAATTT
1 ATGGGGTATA-GAAAGAGTCTCATAACTT
* *
33859529 ATGGGGTATAGAAAGAGTTTTATAACTT
1 ATGGGGTATAGAAAGAGTCTCATAACTT
33859557 ATGGGGT
1 ATGGGGT
33859564 TGATAATGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 4 0.13
28 27 0.87
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAGAAAGAGTCTCATAACTT
Found at i:33863022 original size:46 final size:46
Alignment explanation
Indices: 33862970--33863063 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
33862960 ATAGTGTGGC
*
33862970 GTTCATCATATACCAAGGTTCTTATCATCATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCATTGATAGTGGGTCGAG
*
33863016 GTTCATCATATACCAAGGTTCCTATCATTATTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCATTGATAGTGGGTCGAG
33863062 GT
1 GT
33863064 CTTTTCTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCATTGATAGTGGGTCGAG
Found at i:33868786 original size:67 final size:67
Alignment explanation
Indices: 33868715--33868862 Score: 224
Period size: 67 Copynumber: 2.2 Consensus size: 67
33868705 ACAAATTGTT
* * * * * *
33868715 AATATGTGCAAACAAGTTGCTAGTATTATGGACAAGCCACTAGTAATGGTAATGCAGATAAACTG
1 AATATATGCAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
33868780 CC
66 CC
**
33868782 AATATAAACAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
1 AATATATGCAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
33868847 CC
66 CC
33868849 AATATATGCAAACA
1 AATATATGCAAACA
33868863 GGCTACCAGT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 71 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.22
Consensus pattern (67 bp):
AATATATGCAAACAAGCTGCTAGTATTACGGACAAGCCACCAGTAACGGTAATGCAGATAAACTA
CC
Found at i:33871601 original size:48 final size:48
Alignment explanation
Indices: 33871547--33871644 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
33871537 ATATTTATAC
33871547 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
1 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
33871595 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
1 TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
33871643 TT
1 TT
33871645 TAGTAAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (48 bp):
TTAGGTTTGATTAGGCATGGGCGGCACACACTTAAAAAGAAGAAGGGA
Found at i:33873484 original size:17 final size:17
Alignment explanation
Indices: 33873464--33873501 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
33873454 TAGGTGCAAT
*
33873464 ATATATAAAATAATAGA
1 ATATATAAAATAATAAA
*
33873481 ATATGTAAAATAATAAA
1 ATATATAAAATAATAAA
33873498 ATAT
1 ATAT
33873502 TTACAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (17 bp):
ATATATAAAATAATAAA
Found at i:33890246 original size:24 final size:24
Alignment explanation
Indices: 33890218--33890266 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
33890208 AGACAAGTTG
33890218 CCATGTAGGTTATGGACGAAGCCA
1 CCATGTAGGTTATGGACGAAGCCA
* *
33890242 CCATGTAGGTTGTGGATGAAGCCA
1 CCATGTAGGTTATGGACGAAGCCA
33890266 C
1 C
33890267 TAATTCTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (24 bp):
CCATGTAGGTTATGGACGAAGCCA
Found at i:33892984 original size:82 final size:81
Alignment explanation
Indices: 33892871--33893026 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
33892861 AAATTGTACA
* * * *
33892871 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
33892935 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
33892952 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
33893017 TGCGAGTTGA
65 TGCGAATTGA
33893027 TTGTATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:33893028 original size:27 final size:27
Alignment explanation
Indices: 33892871--33893026 Score: 161
Period size: 27 Copynumber: 5.7 Consensus size: 27
33892861 AAATTGTACA
* * *
33892871 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
33892898 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
33892925 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* *
33892952 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
33892980 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
33893007 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
33893027 TTGTATAGCA
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
27 83 0.78
28 24 0.22
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:33893037 original size:27 final size:27
Alignment explanation
Indices: 33892870--33893047 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
33892860 TAAATTGTAC
* * *
33892870 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** *
33892897 TGCACTCAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* ** *
33892923 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* *
33892951 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
33892979 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
33893006 GGCACTAAGTGTGCGAGTTGATTGTAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
33893033 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33893048 GGCTCAATAT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:33893038 original size:82 final size:81
Alignment explanation
Indices: 33892863--33893047 Score: 201
Period size: 82 Copynumber: 2.3 Consensus size: 81
33892853 GCGGGATTAA
* * * * *
33892863 ATTGTACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
33892928 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
33892944 ACCATGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
33893008 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
33893026 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
33893048 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 21, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
81 18 0.22
82 63 0.78
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:33901004 original size:55 final size:54
Alignment explanation
Indices: 33900909--33901058 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
33900899 CTACTTTGTT
* ** * *
33900909 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
33900963 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
33901018 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
33901059 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:33901021 original size:27 final size:27
Alignment explanation
Indices: 33900881--33901058 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
33900871 TAAATTGTAC
33900881 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
33900908 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
33900934 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
33900962 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
33900990 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
33901017 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
33901044 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33901059 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:33901022 original size:82 final size:81
Alignment explanation
Indices: 33900882--33901037 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
33900872 AAATTGTACA
* * * *
33900882 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
33900947 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
33900963 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
33901026 TGTGCGAGTTGA
63 TGTGCGAATTGA
33901038 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:33905718 original size:79 final size:79
Alignment explanation
Indices: 33904696--33905687 Score: 1753
Period size: 79 Copynumber: 12.6 Consensus size: 79
33904686 AACATGATTA
* * * * * * *
33904696 TATGTGTATTGTGACATATGCTTGAATTTTATGTGATTATATGAGTATT-ATGATATATGCTTGA
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCT-A
* *
33904760 -ATGTT-T-TGATTA
65 CATGTTATGTTATTG
33904772 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33904837 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33904851 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33904916 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33904930 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33904995 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33905009 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33905074 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33905088 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33905153 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33905167 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33905232 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33905246 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33905311 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33905325 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33905390 ATGTTATGTTATTG
66 ATGTTATGTTATTG
33905404 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
*
33905469 ATGTTATGTTATTA
66 ATGTTATGTTATTG
33905483 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
33905548 ATGTTATGTTATTG
66 ATGTTATGTTATTG
* * *
33905562 TATGAGTATTGTGATATATGCTTGAATGTTATGTGATTATATGTGTATTAGTGATATATGCCTAA
1 TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
* *
33905627 ATGTTATGTGATTC
66 ATGTTATGTTATTG
* * *
33905641 TATGTA-TATTGTGATATATGCTTAAATGTTCTA-CGATTATATGTGTA
1 TATG-AGTATTGTGATATATGCTTGAATGTT-AAGTGATTATATGTGTA
33905688 ATGCGATATA
Statistics
Matches: 890, Mismatches: 20, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
76 45 0.05
77 16 0.02
78 1 0.00
79 827 0.93
80 1 0.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.46
Consensus pattern (79 bp):
TATGAGTATTGTGATATATGCTTGAATGTTAAGTGATTATATGTGTATTGGTGATATATGCCTAC
ATGTTATGTTATTG
Found at i:33909111 original size:49 final size:49
Alignment explanation
Indices: 33908992--33909178 Score: 248
Period size: 49 Copynumber: 3.8 Consensus size: 49
33908982 CAAAACTCCA
* * * *
33908992 TTTGTGGACAAGCCACCACTGATTTGCAGAGAAACTACCACTGATAACAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGA-AACAC
* *
33909042 TTTGTGGACAAGCCACCACTGATATGCAAATATACTGCCACTGAAGCAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
** *
33909091 TTTAAGGACAAGCCACCACTGATATGCAGATCTACTGCCACTGAAACAC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
** * *
33909140 TTTGTGGGTAAGCCAGCACTGATATGCAGATCTACTGCC
1 TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCC
33909179 CACTTACTTC
Statistics
Matches: 121, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
49 82 0.68
50 39 0.32
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTGATATGCAGATATACTGCCACTGAAACAC
Found at i:33914717 original size:50 final size:50
Alignment explanation
Indices: 33914659--33914798 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 50
33914649 TATTGAGGTT
* * *
33914659 ATGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAG
** * *
33914709 ATGAGAGGTCCCCCGTATA-ACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCATGTA-AGACCATGTCTGGGACATGGCATGAGCACCGAG
** * * *
33914759 ATGAGAACTCCCATGTAAGACCATATTTGGGATATGGCAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT
33914799 TGGTAGTACA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
49 1 0.01
50 72 0.97
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGAGCACCGAG
Found at i:33923059 original size:6 final size:6
Alignment explanation
Indices: 33923048--33923074 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33923038 GTCAAAACCA
33923048 TTCCTT TTCCTT TTCCTT TTCCTT TTC
1 TTCCTT TTCCTT TTCCTT TTCCTT TTC
33923075 ATAGATGCTC
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCCTT
Found at i:33928538 original size:19 final size:18
Alignment explanation
Indices: 33928503--33928539 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
33928493 TGATATATAT
33928503 GTTAAATTAAATAAAAAG
1 GTTAAATTAAATAAAAAG
33928521 GTTAATATTACAATAAAAA
1 GTTAA-ATTA-AATAAAAA
33928540 CAAAAGAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (18 bp):
GTTAAATTAAATAAAAAG
Found at i:33932856 original size:20 final size:22
Alignment explanation
Indices: 33932818--33932857 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
33932808 AATACAAGTA
33932818 TTTTCATTATGTTTGAGTTAAG
1 TTTTCATTATGTTTGAGTTAAG
*
33932840 TTTTC-TTA-GTTTTAGTTA
1 TTTTCATTATGTTTGAGTTA
33932858 TATTCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 3 0.18
22 5 0.29
ACGTcount: A:0.20, C:0.05, G:0.15, T:0.60
Consensus pattern (22 bp):
TTTTCATTATGTTTGAGTTAAG
Found at i:33936561 original size:33 final size:33
Alignment explanation
Indices: 33936519--33936640 Score: 127
Period size: 33 Copynumber: 3.4 Consensus size: 33
33936509 ATCAGTGGAT
33936519 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* * *
33936552 TCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGA
1 TCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-GGAA
*
33936594 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
33936627 TCAGCACTTAGCAA
1 TCAGCACTTAGCAA
33936641 TCCCCTTCAC
Statistics
Matches: 73, Mismatches: 7, Indels: 18
0.74 0.07 0.18
Matches are distributed among these distances:
33 34 0.47
34 3 0.04
35 1 0.01
36 4 0.05
37 1 0.01
38 1 0.01
39 5 0.07
40 1 0.01
41 3 0.04
42 20 0.27
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
Found at i:33936650 original size:75 final size:75
Alignment explanation
Indices: 33936513--33936692 Score: 308
Period size: 75 Copynumber: 2.4 Consensus size: 75
33936503 TCCATTATCA
*
33936513 GTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
1 GTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
33936578 TTAAGATACG
66 TTAAGATACG
* *
33936588 GTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAATCCCC-TTCACA
1 GTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAA-CCCCTTTCACA
33936652 TTTAAGATACG
65 TTTAAGATACG
*
33936663 GTGGAATCAACACTTAGCAACCACCAATGA
1 GTGGAATCAGCACTTAGCAACCACCAATGA
33936693 CTTGATTAAG
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
75 95 0.96
76 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (75 bp):
GTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCACAT
TTAAGATACG
Found at i:33944753 original size:66 final size:66
Alignment explanation
Indices: 33944683--33944816 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
33944673 ATCTCTTATT
33944683 ATTATGTTTTACAACATGCTGAACACTTTTCCCTTCTATGGCAACATCAAATTCTCACTCTAAAA
1 ATTATGTTTTACAACATGCTGAACACTTTTCCCTTCTATGGCAACATCAAATTCTCACTCTAAAA
33944748 C
66 C
*
33944749 ATTATGTTTTACAACATGCTGAACACTTTTCCCTTCTATGGCAACATCAAATTCTCACTCTAACA
1 ATTATGTTTTACAACATGCTGAACACTTTTCCCTTCTATGGCAACATCAAATTCTCACTCTAAAA
33944814 C
66 C
33944815 AT
1 AT
33944817 ACTTTTGAAC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.35
Consensus pattern (66 bp):
ATTATGTTTTACAACATGCTGAACACTTTTCCCTTCTATGGCAACATCAAATTCTCACTCTAAAA
C
Found at i:33950850 original size:23 final size:23
Alignment explanation
Indices: 33950821--33950870 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
33950811 TACAGTAGTA
*
33950821 CAGATAAACTGCTAATAAATATG
1 CAGATAAACTGCCAATAAATATG
33950844 CAGATAAACTGCCAATAAATATG
1 CAGATAAACTGCCAATAAATATG
33950867 CAGA
1 CAGA
33950871 CAAGCAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (23 bp):
CAGATAAACTGCCAATAAATATG
Found at i:33950882 original size:23 final size:23
Alignment explanation
Indices: 33950834--33950882 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
33950824 ATAAACTGCT
* *
33950834 AATAAATATGCAGATAAACTGCC
1 AATAAATATGCAGACAAACAGCC
* *
33950857 AATAAATATGCAGACAAGCAGTC
1 AATAAATATGCAGACAAACAGCC
33950880 AAT
1 AAT
33950883 TTCGTGGACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.20
Consensus pattern (23 bp):
AATAAATATGCAGACAAACAGCC
Found at i:33951214 original size:41 final size:40
Alignment explanation
Indices: 33951168--33951265 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 40
33951158 GACATGTTTT
* **
33951168 ACATGCTTACGGTAACATATTCAATTCAATGGCATGGTTAA
1 ACATGCTTATGGTAACATATTCAATTCAATGGCATGCCT-A
* * * * *
33951209 ACATGCTCATAGTAACATATTCAGTTTAATGGCGTGCCTA
1 ACATGCTTATGGTAACATATTCAATTCAATGGCATGCCTA
33951249 ACATGCTTATGGTAACA
1 ACATGCTTATGGTAACA
33951266 GTTTTAGTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 16 0.34
41 31 0.66
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (40 bp):
ACATGCTTATGGTAACATATTCAATTCAATGGCATGCCTA
Found at i:33953697 original size:25 final size:24
Alignment explanation
Indices: 33953640--33953712 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
33953630 CTTCATTCAA
* *
33953640 ACGTCCCATAAAGGACTTTC--AT
1 ACGTCCCATAAAGGGCTCTCATAT
* *
33953662 ACATCCGATAAAGGGGCTCTCATAT
1 ACGTCCCATAAA-GGGCTCTCATAT
*
33953687 ACGTCCCATAAAGGGCACTCATAT
1 ACGTCCCATAAAGGGCTCTCATAT
33953711 AC
1 AC
33953713 TGGCACCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 13 0.32
25 12 0.29
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.23
Consensus pattern (24 bp):
ACGTCCCATAAAGGGCTCTCATAT
Found at i:33966009 original size:19 final size:20
Alignment explanation
Indices: 33965962--33966022 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
33965952 GAAAATCATT
*
33965962 TTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTAACTTGA
* *
33965982 TTGAAATCATTTTGACTTG-
1 TTAAAATCATTTTAACTTGA
**
33966001 TTAAAATCATTTGCACTTGA
1 TTAAAATCATTTTAACTTGA
33966021 TT
1 TT
33966023 TTAAAATTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTAACTTGA
Found at i:33967973 original size:52 final size:51
Alignment explanation
Indices: 33967912--33968015 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 51
33967902 TTTGCATGGC
33967912 CTCTATGACAGACACAGTTGATGGTTGTAAAATTTTCCAAAGAGCTTCAAT
1 CTCTATGACAGACACAGTTGATGGTTGTAAAATTTTCCAAAGAGCTTCAAT
33967963 NCTCTATGACAGACACAGTTGATGGTTGTAAAATTTTCCAAAGAGCTTCAAT
1 -CTCTATGACAGACACAGTTGATGGTTGTAAAATTTTCCAAAGAGCTTCAAT
33968015 C
1 C
33968016 AATGATGGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 1 0.02
52 51 0.98
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (51 bp):
CTCTATGACAGACACAGTTGATGGTTGTAAAATTTTCCAAAGAGCTTCAAT
Found at i:33969128 original size:22 final size:22
Alignment explanation
Indices: 33969103--33969163 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
33969093 TGATAATGAA
**
33969103 ATTTTAATATAATTGTA-AAAAT
1 ATTTTAAT-TAATCATATAAAAT
*
33969125 ATTTTAATTAATCATATTAAAT
1 ATTTTAATTAATCATATAAAAT
33969147 ATTTTAATTAATCATAT
1 ATTTTAATTAATCATAT
33969164 TTTAAAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 6 0.17
22 29 0.83
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTTAATTAATCATATAAAAT
Found at i:33969164 original size:22 final size:22
Alignment explanation
Indices: 33969121--33969164 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33969111 ATAATTGTAA
33969121 AAATATTTTAATTAATCATATT
1 AAATATTTTAATTAATCATATT
33969143 AAATATTTTAATTAATCATATT
1 AAATATTTTAATTAATCATATT
33969165 TTAAAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATATTTTAATTAATCATATT
Found at i:33970888 original size:4 final size:4
Alignment explanation
Indices: 33970879--33970922 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
33970869 GGATCCCTTA
33970879 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
33970923 CATGCATGTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:33986478 original size:27 final size:27
Alignment explanation
Indices: 33986394--33986478 Score: 71
Period size: 27 Copynumber: 3.1 Consensus size: 27
33986384 ATTTTCAATG
* * * * *
33986394 GACTATCCCATGTTTATTGTCCCAACA
1 GACTACCCCGTGTTTACTGTCCCGATA
** ** * *
33986421 GACTACGTCGTGTTTACTGTCTTGGTG
1 GACTACCCCGTGTTTACTGTCCCGATA
33986448 GACTACCCCGTGTTTACTGTCCCGATA
1 GACTACCCCGTGTTTACTGTCCCGATA
33986475 GACT
1 GACT
33986479 TTATTGGTCT
Statistics
Matches: 41, Mismatches: 17, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (27 bp):
GACTACCCCGTGTTTACTGTCCCGATA
Found at i:33988014 original size:25 final size:27
Alignment explanation
Indices: 33987986--33988035 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
33987976 ATTAAGTATT
*
33987986 AAACAATA-ACTTAA-AACACTCATAA
1 AAACAACATACTTAATAACACTCATAA
*
33988011 AAACAACATATTTAATAACACTCAT
1 AAACAACATACTTAATAACACTCAT
33988036 GCACACAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (27 bp):
AAACAACATACTTAATAACACTCATAA
Found at i:33988400 original size:30 final size:30
Alignment explanation
Indices: 33988366--33988427 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
33988356 CTTAACAAGA
33988366 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
*
33988396 AAATGCCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
33988426 AA
1 AA
33988428 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:33990132 original size:20 final size:20
Alignment explanation
Indices: 33990109--33990150 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
33990099 TACAAACTAG
33990109 TTAAACCAACTAAAAACCGA
1 TTAAACCAACTAAAAACCGA
*
33990129 TTAAACCGACTAAAAACCGA
1 TTAAACCAACTAAAAACCGA
33990149 TT
1 TT
33990151 GAATTGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.24, G:0.07, T:0.19
Consensus pattern (20 bp):
TTAAACCAACTAAAAACCGA
Found at i:33990666 original size:24 final size:25
Alignment explanation
Indices: 33990639--33990708 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
33990629 ATTTTAAAAT
*
33990639 TTTAAAATATAATAATA-AATGATA
1 TTTAAAATATAATAATATAATAATA
*
33990663 TTT-AAATA-ATTTAATATAATAATA
1 TTTAAAATATA-ATAATATAATAATA
* *
33990687 TCTAAAATATAAATAATCTAAT
1 TTTAAAATAT-AATAATATAAT
33990709 TTTTATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
22 1 0.03
23 10 0.28
24 11 0.31
25 5 0.14
26 8 0.22
27 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (25 bp):
TTTAAAATATAATAATATAATAATA
Found at i:33993023 original size:41 final size:41
Alignment explanation
Indices: 33992973--33993053 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
33992963 ATATTTTATT
*
33992973 TTATGTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
*
33993014 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
33993054 TCAATTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:33996908 original size:41 final size:41
Alignment explanation
Indices: 33996833--33996915 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
33996823 ATATTTTATT
**
33996833 TTATCTTTTAGTAGTTTACTAAAAAAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAAAAAAAGAAAATTATTTTCC
* ** *
33996874 TTATCTTTTAGTAGTTTATTTGAATAAGAAAATTATTTTCC
1 TTATCTTTTAGTAGTTTACTAAAAAAAGAAAATTATTTTCC
33996915 T
1 T
33996916 AATTAGGTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTACTAAAAAAAGAAAATTATTTTCC
Found at i:34006470 original size:39 final size:39
Alignment explanation
Indices: 34006416--34006492 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
34006406 TTTAGCAATA
34006416 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTTG
1 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTTG
34006455 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTT
1 TGATAATTTTCTAATTTCCATTAACAATGTTTACATTT
34006493 TTAGGCTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.13, G:0.06, T:0.49
Consensus pattern (39 bp):
TGATAATTTTCTAATTTCCATTAACAATGTTTACATTTG
Found at i:34006492 original size:21 final size:21
Alignment explanation
Indices: 34006429--34006492 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
34006419 TAATTTTCTA
34006429 ATTTCCATTAACAATGTTTAC
1 ATTTCCATTAACAATGTTTAC
* * * *
34006450 ATTT---GTGATAATTTTCTA-
1 ATTTCCATTAACAATGTT-TAC
34006468 ATTTCCATTAACAATGTTTAC
1 ATTTCCATTAACAATGTTTAC
34006489 ATTT
1 ATTT
34006493 TTAGGCTAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 11 0.37
19 2 0.07
20 2 0.07
21 15 0.50
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.48
Consensus pattern (21 bp):
ATTTCCATTAACAATGTTTAC
Found at i:34012572 original size:33 final size:33
Alignment explanation
Indices: 34012530--34012595 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
34012520 AGGAGTTTGT
34012530 TTTCCTATTGGAATAGACTTCTACAATTTAACG
1 TTTCCTATTGGAATAGACTTCTACAATTTAACG
34012563 TTTCCTATTGGAATAGACTTCTACAATTTAACG
1 TTTCCTATTGGAATAGACTTCTACAATTTAACG
34012596 AGGGTTTCAT
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:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (33 bp):
TTTCCTATTGGAATAGACTTCTACAATTTAACG
Found at i:34015491 original size:23 final size:24
Alignment explanation
Indices: 34015441--34015495 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
34015431 TACATTATTG
*
34015441 AAAAATATTTATATTAATATTTTAAT
1 AAAAATA--TATATTAATAATTTAAT
34015467 AATAAATATATATT-ATAATTT-AT
1 AA-AAATATATATTAATAATTTAAT
34015490 AAAAAT
1 AAAAAT
34015496 TTAATAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.15
23 4 0.15
24 6 0.22
25 6 0.22
26 2 0.07
27 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAAATATATATTAATAATTTAAT
Found at i:34015671 original size:18 final size:17
Alignment explanation
Indices: 34015642--34015679 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
34015632 TTTATATATG
34015642 ATATTAATTATTATAAA
1 ATATTAATTATTATAAA
34015659 ATATTATATTATTATAAA
1 ATATTA-ATTATTATAAA
34015677 ATA
1 ATA
34015680 AATTTCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAATTATTATAAA
Found at i:34019685 original size:50 final size:51
Alignment explanation
Indices: 34019612--34019749 Score: 172
Period size: 51 Copynumber: 2.7 Consensus size: 51
34019602 ACATATGAAT
* * *
34019612 AGAGTTTGCCTTAGGTCGCAAGACTGGTT-TGTTAAATAGAA-ACAATAGAC
1 AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAATAGAAGACAAGA-AC
* * *
34019662 AGGGTCTGCCTTAGGTCGTAAGACTGGTTCGGTTAAATAGAAGACACGAAC
1 AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAATAGAAGACAAGAAC
* * *
34019713 AGAGTCTACCTTAGGTCACAAGACCGGTTCGGTTAAA
1 AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAA
34019750 CAAGAGTCTC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
50 26 0.35
51 45 0.60
52 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (51 bp):
AGAGTCTGCCTTAGGTCGCAAGACTGGTTCGGTTAAATAGAAGACAAGAAC
Found at i:34020646 original size:26 final size:26
Alignment explanation
Indices: 34020583--34020651 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
34020573 GACTATATTA
* **
34020583 TTGACTAGCGAACCC-AGTTTGCAAC
1 TTGACTGGCGAACCCTAGTTCACAAC
*
34020608 TTGACTGGTGAACCCTAGTTCACAAC
1 TTGACTGGCGAACCCTAGTTCACAAC
*
34020634 TT-ACTTGGCGAACACTAG
1 TTGAC-TGGCGAACCCTAG
34020652 CTTCCCAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (26 bp):
TTGACTGGCGAACCCTAGTTCACAAC
Done.