Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 153 of 378
Found at i:44087433 original size:43 final size:43
Alignment explanation
Indices: 44087380--44087577 Score: 306
Period size: 43 Copynumber: 4.6 Consensus size: 43
44087370 CCGGCATTAC
**
44087380 GCCTGCTAGGCACGAAGGCTTGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
44087423 GCCTGTTAGGCACGAAGGCCTGAATACACATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
44087466 GCCTGCTAGGCATGAAGGCCCAAATACACATCACTGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
44087509 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACCAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
44087552 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
44087578 TAATACCAGC
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:44087642 original size:38 final size:38
Alignment explanation
Indices: 44087570--44087653 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
44087560 GGCACGAAGG
* * *
44087570 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACAGGATTTAT
* * * *
44087608 CCCGGATATAATACTAGCACGAAGCCTACGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACAGGATTTAT
*
44087646 CCTGAATA
1 CCCGAATA
44087654 CACATCAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACAGGATTTAT
Found at i:44089661 original size:3 final size:3
Alignment explanation
Indices: 44089649--44089706 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
44089639 GTACATATAT
44089649 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44089696 ATA ATA ATA AT
1 ATA ATA ATA AT
44089707 GCCGAATGCC
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44094048 original size:14 final size:14
Alignment explanation
Indices: 44094024--44094057 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44094014 TTAGAAATTG
*
44094024 AATATAACTAAGTTA
1 AATA-AACTAAGTAA
44094039 AATAAACTAAGTAA
1 AATAAACTAAGTAA
44094053 AATAA
1 AATAA
44094058 CAAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (14 bp):
AATAAACTAAGTAA
Found at i:44095979 original size:46 final size:46
Alignment explanation
Indices: 44095909--44096171 Score: 287
Period size: 46 Copynumber: 5.7 Consensus size: 46
44095899 TGTAACCCGC
* * * *
44095909 CCATAAGTGAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
*
44095955 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAGCAT
* *** * * *
44096001 ACATCTCTCGAACTCGGACTCAACTCAACGTGTTCGGACGCTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
* *
44096048 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAGCAT
* *** * *
44096094 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
*
44096141 CTATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
44096172 TTTGGATGCC
Statistics
Matches: 176, Mismatches: 35, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
46 104 0.59
47 72 0.41
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
Found at i:44096025 original size:47 final size:47
Alignment explanation
Indices: 44095963--44096134 Score: 231
Period size: 47 Copynumber: 3.7 Consensus size: 47
44095953 ATCCATAAGT
44095963 GAACTCGGACTCAACTCAACGAGCTCGGACGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCCTAGTTACATCTCTC
* * * * * ***
44096010 GAACTCGGACTCAACTCAACGTGTTCGGACG-CTTGCATCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCCTAG-TTACATCTCTC
*
44096056 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCCTAGTTACATCTCTC
*
44096103 GAACTCGGACTCAACTCAACGAGTTCGGACGC
1 GAACTCGGACTCAACTCAACGAGCTCGGACGC
44096135 TCGCATCTAT
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 36 0.35
47 67 0.65
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCCTAGTTACATCTCTC
Found at i:44096179 original size:93 final size:93
Alignment explanation
Indices: 44095917--44096181 Score: 440
Period size: 93 Copynumber: 2.8 Consensus size: 93
44095907 GCCCATAAGT
* * * *
44095917 GAACTCGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
44095982 CGAGCTCGGACGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
44096010 GAACTCGGACTCAACTCAACGTGTTCGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44096075 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
44096103 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
44096168 CGAGTTTGGATGCC
66 CGAGCTCGGATGCC
44096182 CAAATATCCC
Statistics
Matches: 160, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:44096196 original size:46 final size:45
Alignment explanation
Indices: 44095960--44096196 Score: 153
Period size: 46 Copynumber: 5.1 Consensus size: 45
44095950 CGCATCCATA
* * * *
44095960 AGTGAACTCGGACTCAACTCAACGAGCTCGGACGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATC-C
* * * ** *
44096008 --TCGAACTCGGACTCAACTCAACGTGTTCGGACGCTTGCATCCAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGC--CCATATATCC
* * *
44096053 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATC-C
* * *
44096101 --TCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCTAT-A
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGC-C-CATATATCC
* *
44096146 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATAT-CC
44096192 AGTGA
1 AGTGA
44096197 CATGTCACTT
Statistics
Matches: 149, Mismatches: 24, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
44 6 0.04
45 1 0.01
46 70 0.47
47 69 0.46
48 1 0.01
49 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCC
Found at i:44098601 original size:30 final size:30
Alignment explanation
Indices: 44098557--44098645 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
44098547 CAAAGATAAC
44098557 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
44098586 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
44098616 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
44098646 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:44098605 original size:15 final size:15
Alignment explanation
Indices: 44098557--44098636 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
44098547 CAAAGATAAC
*
44098557 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44098571 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
44098586 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
44098601 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
44098616 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
44098631 AAGAAA
1 AAGAAA
44098637 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44098645 original size:15 final size:15
Alignment explanation
Indices: 44098568--44098645 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
44098558 AGAAAACCGA
44098568 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
44098583 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
44098597 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44098612 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44098628 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44098643 ATA
1 ATA
44098646 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44101665 original size:93 final size:93
Alignment explanation
Indices: 44101553--44101767 Score: 387
Period size: 93 Copynumber: 2.3 Consensus size: 93
44101543 GCCCATAAGT
* *
44101553 GAACTCGGACTCAACTCAACGAGCTCGGGCG-TTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTT-GCATCCATAAGTGAACTCGGACTCAACTCA
44101617 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
44101646 GAACTCGGACTCAACTCAACGTGTTCGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
44101711 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
44101739 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
44101768 TGCCCAGATA
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 115 0.98
94 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGCTTGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:44101674 original size:47 final size:47
Alignment explanation
Indices: 44101599--44101771 Score: 233
Period size: 47 Copynumber: 3.7 Consensus size: 47
44101589 ATCCATAAGT
44101599 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
* * * * * * ***
44101646 GAACTCGGACTCAACTCAACGTGTTCGGACG-CTTGCATCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TTACATCTCTC
44101692 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
44101739 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCC
44101772 CAGATATCCC
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
46 36 0.35
47 68 0.65
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:44101720 original size:46 final size:46
Alignment explanation
Indices: 44101545--44101720 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
44101535 TGTAACCCGC
*
44101545 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCG-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTT-GCAT
* * *
44101591 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTTGCAT
* *** * *
44101637 ACATCTCTCGAACTCGGACTCAACTCAACGTGTTCGGACGCTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCAT
44101684 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44101721 TGCCTAGTTA
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 72 0.67
47 34 0.32
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTTGCAT
Found at i:44105354 original size:40 final size:39
Alignment explanation
Indices: 44105189--44105372 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44105179 AAATTGAATG
* * *
44105189 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44105229 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44105269 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44105309 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44105348 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44105373 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44105397 original size:80 final size:81
Alignment explanation
Indices: 44105229--44105417 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44105219 GCTGGAAATT
* * * *
44105229 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44105294 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44105310 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44105373 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44105389 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44105418 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44113473 original size:40 final size:39
Alignment explanation
Indices: 44113308--44113491 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44113298 AAATTGAATG
* * *
44113308 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44113348 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44113388 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44113428 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44113467 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44113492 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44113516 original size:80 final size:81
Alignment explanation
Indices: 44113348--44113536 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44113338 GCTGGAAATT
* * * *
44113348 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44113413 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44113429 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44113492 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44113508 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44113537 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44117937 original size:40 final size:39
Alignment explanation
Indices: 44117773--44117955 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
44117763 AAATTGATTG
* * *
44117773 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44117813 ATAACCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44117852 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44117892 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44117931 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44117956 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
36 4 0.04
37 2 0.02
38 2 0.02
39 21 0.19
40 82 0.74
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44124661 original size:39 final size:40
Alignment explanation
Indices: 44124500--44124676 Score: 184
Period size: 40 Copynumber: 4.5 Consensus size: 40
44124490 TGAATGATAC
* * * *
44124500 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
44124540 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * *
44124580 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
44124620 CCGGGTTAAG-CCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
44124659 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
44124677 TACGTGACTC
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
38 6 0.05
39 36 0.31
40 69 0.59
41 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:44127625 original size:71 final size:70
Alignment explanation
Indices: 44127488--44127626 Score: 224
Period size: 70 Copynumber: 2.0 Consensus size: 70
44127478 ACATGGGTGT
* **
44127488 TAGATTGTAAAGGCCGCCATGAGTATTCTCAAGGGTTGGTCTGAAATAGGCTGAAATGGGCCGTG
1 TAGACTGTAAAGGCCGCCATGAGTATTCTCAAGGGTTGGTCTGAAATAGGCCAAAATGGGCCGTG
44127553 TGGAG
66 TGGAG
* *
44127558 TAGACTGTAAAGGCCGTCATGAGTATTCTCATGGGTTTGGTCTGAAATAGGCCAAAATGGGCCGT
1 TAGACTGTAAAGGCCGCCATGAGTATTCTCAAGGG-TTGGTCTGAAATAGGCCAAAATGGGCCGT
44127623 GTGG
65 GTGG
44127627 CCCAATAGGC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 32 0.51
71 31 0.49
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (70 bp):
TAGACTGTAAAGGCCGCCATGAGTATTCTCAAGGGTTGGTCTGAAATAGGCCAAAATGGGCCGTG
TGGAG
Found at i:44132415 original size:46 final size:46
Alignment explanation
Indices: 44132365--44132537 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
44132355 TGGTTGAGCA
* * * *
44132365 TCCGAACTCATTGAGTTTAGTCCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
44132411 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
44132458 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
44132504 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44132538 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 58 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:44132521 original size:93 final size:93
Alignment explanation
Indices: 44132362--44132532 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
44132352 GGATGGTTGA
* * *
44132362 GCATCCGAACTCATTGAGTTTAGTCCAAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44132427 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
44132455 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
44132520 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
44132533 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:44132799 original size:19 final size:20
Alignment explanation
Indices: 44132762--44132799 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44132752 ATAAGGTGGT
44132762 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44132782 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44132800 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44138514 original size:26 final size:25
Alignment explanation
Indices: 44138485--44138565 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 25
44138475 TTGGCCACAT
*
44138485 ATACTGATACTGGCAGCTTTCCTGCG
1 ATACTGATACT-GCAGCTTTGCTGCG
* *
44138511 ATACTGCTACTCGCAGCTTTGTTGC-
1 ATACTGATACT-GCAGCTTTGCTGCG
*
44138536 ATTTCTGATACTGCTAGCTTTGCTGCG
1 A-TACTGATACTGC-AGCTTTGCTGCG
44138563 ATA
1 ATA
44138566 TTGGTGTGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.07
26 40 0.91
27 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
ATACTGATACTGCAGCTTTGCTGCG
Found at i:44148287 original size:8 final size:8
Alignment explanation
Indices: 44148274--44148300 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
44148264 GAGTGTGACC
44148274 TTTGAAAA
1 TTTGAAAA
44148282 TTTGAAAA
1 TTTGAAAA
44148290 TTTGAAAA
1 TTTGAAAA
44148298 TTT
1 TTT
44148301 TTCTATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (8 bp):
TTTGAAAA
Found at i:44150052 original size:21 final size:21
Alignment explanation
Indices: 44150021--44150079 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
44150011 ACTTTGAAAC
44150021 AGGGC-ACACGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
44150041 AGGGCAACACGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
44150062 AGGGCAACACGCCCGTGT
1 AGGGCAACACGCCCGTGT
44150080 GGCCATTTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.25, C:0.31, G:0.34, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:44151303 original size:47 final size:48
Alignment explanation
Indices: 44151228--44151447 Score: 181
Period size: 47 Copynumber: 4.7 Consensus size: 48
44151218 GGGGTAAGGT
* *
44151228 GCCGATGCCATATCCCAGACATGATCTTACACTAGCTAAT-ATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAATCATCTCAA
* **
44151275 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTAATCATC-TCAA
* * ** *
44151323 GCCAATG-CATGTCCCAGACAT-GTTTTACACCGGCTTAA--GTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TAATCATCTCAA
* * * *
44151368 GGCCGATG-TATGTCCCAGACAT-GTCTTACACTAGC-ACTCGTCTCGAT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAATCATCTC-AA
* *
44151415 GCCGATGCCATGTCCTAGACATGGACTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
44151448 GGCTCTCATA
Statistics
Matches: 139, Mismatches: 22, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 55 0.40
47 64 0.46
48 17 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAATCATCTCAA
Found at i:44151427 original size:93 final size:93
Alignment explanation
Indices: 44151226--44151446 Score: 222
Period size: 93 Copynumber: 2.4 Consensus size: 93
44151216 ATGGGGTAAG
* * *
44151226 GTGCCGATGCCATATCCCAGACATGATCTTACACTAGCTAATATCTCAAGTCGATGCCATGTCCC
1 GTGCCGATGCCATGTCCCAGACATGATCTTACACCAGCTAATATCTCAAGCCGATGCCATGTCCC
*
44151291 AGACATGGTCTTACACTGACTATCATCTT
66 AGACATGGTCTTACACTGAC-ATCATCTC
* * * * *
44151320 GTAGCCAATG-CATGTCCCAGACATG-TTTTACACCGGCTTAA-GTCTCAAGGCCGATG-TATGT
1 GT-GCCGATGCCATGTCCCAGACATGATCTTACACCAGC-TAATATCTCAA-GCCGATGCCATGT
*
44151381 CCCAGACAT-GTCTTACACT-AGCACTCGTCTC
63 CCCAGACATGGTCTTACACTGA-CA-TCATCTC
*
44151412 GATGCCGATGCCATGTCCTAGACATGGA-CTTACAC
1 G-TGCCGATGCCATGTCCCAGACAT-GATCTTACAC
44151447 TGGCTCTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
91 2 0.02
92 23 0.22
93 42 0.40
94 32 0.30
95 6 0.06
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (93 bp):
GTGCCGATGCCATGTCCCAGACATGATCTTACACCAGCTAATATCTCAAGCCGATGCCATGTCCC
AGACATGGTCTTACACTGACATCATCTC
Found at i:44151492 original size:140 final size:140
Alignment explanation
Indices: 44151240--44151492 Score: 330
Period size: 140 Copynumber: 1.8 Consensus size: 140
44151230 CGATGCCATA
* *
44151240 TCCCAGACATGATCTTACACTAGCTAATATCTCAAGTCGATGCCATGTCCCAGACATGGTCTTAC
1 TCCCAGACATGATCTTACACTAGCTAATATCTCAAGCCGATGCCATGTCCCAGACATGGACTTAC
** * **
44151305 ACTGACTATCATCTTGTAGCCAATGCATGTCCCAGACATGTTTTACACCGGCTTAAGTCTCAAGG
66 ACTGACTATCATAATGTAGCCAATGCATGTACCAGACATGGCTTACACCGGCTTAAGTCTCAAGG
44151370 CCGATGTATG
131 CCGATGTATG
* * * *
44151380 TCCCAGACATG-TCTTACACTAGC-ACTCGTCTCGATGCCGATGCCATGTCCTAGACATGGACTT
1 TCCCAGACATGATCTTACACTAGCTAAT-ATCTC-AAGCCGATGCCATGTCCCAGACATGGACTT
* * * * *
44151443 ACACTGGCTCTCATAATGTGGCCGATGCATGTACCATACATGGCTTACAC
64 ACACTGACTATCATAATGTAGCCAATGCATGTACCAGACATGGCTTACAC
44151493 TAGCTCACAT
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
138 2 0.02
139 16 0.17
140 77 0.81
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (140 bp):
TCCCAGACATGATCTTACACTAGCTAATATCTCAAGCCGATGCCATGTCCCAGACATGGACTTAC
ACTGACTATCATAATGTAGCCAATGCATGTACCAGACATGGCTTACACCGGCTTAAGTCTCAAGG
CCGATGTATG
Found at i:44157385 original size:28 final size:28
Alignment explanation
Indices: 44157338--44157434 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
44157328 ATTTAAACCC
*
44157338 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
44157365 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
44157393 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
44157421 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
44157435 TGATCTACGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.14
28 56 0.86
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:44158085 original size:27 final size:27
Alignment explanation
Indices: 44158055--44158116 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
44158045 GGGCAAAATG
*
44158055 GTAATTTTACCCCACAATGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
44158082 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
44158109 GTAATTTT
1 GTAATTTT
44158117 TCAAACCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:44158129 original size:27 final size:27
Alignment explanation
Indices: 44158073--44158252 Score: 173
Period size: 27 Copynumber: 6.7 Consensus size: 27
44158063 ACCCCACAAT
* ** *
44158073 GGTATTTCAGTAATTTTACCCTA-CAGG
1 GGTATTTTAGTAATTTTA-CAAACCAAG
* *
44158100 GGTATTTTAGTAATTTTTCAAACCATG
1 GGTATTTTAGTAATTTTACAAACCAAG
* * *
44158127 GGTATTTTGGTAATTTTATAAACAAAG
1 GGTATTTTAGTAATTTTACAAACCAAG
*
44158154 GGTATTTTAGTAATTTTACAAACCAGG
1 GGTATTTTAGTAATTTTACAAACCAAG
* * ***
44158181 GGTATTTTGGTAGTTTTACAAATTGAG
1 GGTATTTTAGTAATTTTACAAACCAAG
*** *
44158208 GGTATTGCGGTAATTTCACAAACCAAG
1 GGTATTTTAGTAATTTTACAAACCAAG
44158235 GGTATTTTAGTAATTTTA
1 GGTATTTTAGTAATTTTA
44158253 TAAATCGAGG
Statistics
Matches: 121, Mismatches: 31, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
26 2 0.02
27 119 0.98
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAACCAAG
Found at i:44158188 original size:81 final size:81
Alignment explanation
Indices: 44158073--44158252 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
44158063 ACCCCACAAT
* ** * **
44158073 GGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTTTCAAA-CCATGGGTATTTTGG
1 GGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAATCCA-GGGTATTGCGG
* *
44158137 TAATTTTATAAACAAAG
65 TAATTTCACAAACAAAG
* * **
44158154 GGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAGTTTTACAAATTGAGGGTATTGCGG
1 GGTATTTTAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTACAAATCCAGGGTATTGCGG
*
44158218 TAATTTCACAAACCAAG
65 TAATTTCACAAACAAAG
44158235 GGTATTTTAGTAATTTTA
1 GGTATTTTAGTAATTTTA
44158253 TAAATCGAGG
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 2 0.02
81 81 0.96
82 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTTAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTACAAATCCAGGGTATTGCGGT
AATTTCACAAACAAAG
Found at i:44158263 original size:54 final size:54
Alignment explanation
Indices: 44158099--44158265 Score: 192
Period size: 54 Copynumber: 3.1 Consensus size: 54
44158089 TACCCTACAG
** * * *
44158099 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAA-CAAA
1 GGGTATTGCAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATC-GA
** * * * *
44158153 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTGCAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
* * *
44158207 GGGTATTGCGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTATAAATCGA
1 GGGTATTGCAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
44158261 GGGTA
1 GGGTA
44158266 AAACAGTAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (54 bp):
GGGTATTGCAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAATCGA
Found at i:44158273 original size:27 final size:27
Alignment explanation
Indices: 44158243--44158475 Score: 222
Period size: 27 Copynumber: 8.6 Consensus size: 27
44158233 AGGGTATTTT
* *
44158243 AGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
44158270 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
44158297 AATAATTCTGTAAA-CTAAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
44158324 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
44158351 GGTAATTATGTAAAT-TAGAGGTAAAAC
1 AGTAATTCTGTAAATCGAG-GGTAAAAC
*
44158378 AGTAATTCTGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
44158405 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
44158432 AGTAATTCTATAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
44158459 GGTAATTTTGTAAATCG
1 AGTAATTCTGTAAATCG
44158476 GGAGTACTTT
Statistics
Matches: 170, Mismatches: 28, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
26 3 0.02
27 163 0.96
28 4 0.02
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:44158317 original size:81 final size:79
Alignment explanation
Indices: 44158232--44158506 Score: 207
Period size: 81 Copynumber: 3.4 Consensus size: 79
44158222 TTCACAAACC
* *
44158232 AAGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
1 AAGGGTA-TATAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAAC
*
44158297 AATAATTCTGTAAACT
65 AGTAATTCTGTAAA-T
* * ** * ** * *
44158313 AAGGGTA-AAACGATAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAAT-TAGAGGTAAA
1 AAGGGTATATA-G-TAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAG-GGTAAA
44158376 ACAGTAATTCTGTAAAT
63 ACAGTAATTCTGTAAAT
** * * *
44158393 CGGGGGTA-AAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAA
1 -AAGGGTATATA--GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGGTAA
** *
44158456 AATGGTAATTTTGTAAAT
62 AACAGTAATTCTGTAAAT
** * *
44158474 CGGGAGTACTTTAGTAATTTTACAAGTCGAGGG
1 AAGG-GTA-TATAGTAATTTTACAAATCGAGGG
44158507 CATTTCAATA
Statistics
Matches: 155, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
79 1 0.01
80 7 0.05
81 143 0.92
82 3 0.02
83 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (79 bp):
AAGGGTATATAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
GTAATTCTGTAAAT
Found at i:44161383 original size:80 final size:80
Alignment explanation
Indices: 44161299--44161447 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44161289 TATGGTAACC
* * * *
44161299 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44161363 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44161379 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44161444 CCGG
66 CCGG
44161448 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44161389 original size:40 final size:38
Alignment explanation
Indices: 44161340--44161447 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44161330 ATCACGATTT
*
44161340 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44161380 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44161420 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44161448 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44169561 original size:106 final size:106
Alignment explanation
Indices: 44169373--44169572 Score: 253
Period size: 106 Copynumber: 1.9 Consensus size: 106
44169363 CAATATAAAC
* * * * * *
44169373 TACATGCTTTAACATTTCATGCAACTATAATATAGAAAATGACGAATAACAACATTAATTATATA
1 TACATGCATTAACATTTCATGCAAATATAACATAGAAAATAACGAATAACAACATAAATTACATA
* *
44169438 ATATACATTAACCTTTCATGCAGATATAAATAACATAAATA
66 ATATACATTAACATTTCATGCAAATATAAATAACATAAATA
* *
44169479 TACATGCATTAATATTTCATGCAAAATATAACATAGAAAATAATGAATATAACAACATAAATTAC
1 TACATGCATTAACATTTCATGC-AAATATAACATAGAAAATAACG-A-ATAACAACATAAATTAC
*
44169544 AT-ATATA-A-TAATATTTCATGCAAATATAA
63 ATAATATACATTAACATTTCATGCAAATATAA
44169573 CTTAAATCAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
106 38 0.47
107 19 0.24
108 6 0.08
109 17 0.21
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.32
Consensus pattern (106 bp):
TACATGCATTAACATTTCATGCAAATATAACATAGAAAATAACGAATAACAACATAAATTACATA
ATATACATTAACATTTCATGCAAATATAAATAACATAAATA
Found at i:44169634 original size:18 final size:18
Alignment explanation
Indices: 44169611--44169645 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44169601 ATGCGAATAT
*
44169611 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
44169629 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
44169646 TATATGAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:44169834 original size:20 final size:18
Alignment explanation
Indices: 44169792--44169854 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
44169782 AACGATTAAT
44169792 ATATATATATAAAACATA
1 ATATATATATAAAACATA
* *
44169810 CTATATGATATAATAACTTA
1 ATATAT-ATATAA-AACATA
*
44169830 ATATATTTATAAAA-ATA
1 ATATATATATAAAACATA
44169847 ATA-ATATA
1 ATATATATA
44169855 GGAACAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.11
17 5 0.14
18 7 0.19
19 11 0.30
20 10 0.27
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATATATATAAAACATA
Found at i:44170059 original size:13 final size:13
Alignment explanation
Indices: 44170034--44170067 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
44170024 AATAAAATAT
44170034 AATATAT-AAGAA
1 AATATATAAAGAA
44170046 AATATATAAAGAA
1 AATATATAAAGAA
44170059 AATATATAA
1 AATATATAA
44170068 TAAATACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
AATATATAAAGAA
Found at i:44170162 original size:18 final size:18
Alignment explanation
Indices: 44170135--44170177 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
44170125 AAATAATGTT
*
44170135 TATA-AAAATAATTAATA
1 TATATAAAATAATTAAAA
*
44170152 TATATAAAATATTTAAAA
1 TATATAAAATAATTAAAA
*
44170170 TAAATAAA
1 TATATAAA
44170178 TTGTCTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATATAAAATAATTAAAA
Found at i:44182627 original size:28 final size:29
Alignment explanation
Indices: 44182592--44182663 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
44182582 AAAATTGTTC
*
44182592 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
44182620 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
44182649 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44182664 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:44189235 original size:40 final size:39
Alignment explanation
Indices: 44189186--44189272 Score: 133
Period size: 40 Copynumber: 2.2 Consensus size: 39
44189176 CCTTAGGGGT
*
44189186 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGG-C
44189225 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGC
44189264 TTAGCCCGG
1 TTAGCCCGG
44189273 TTATCAATCC
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
39 15 0.33
40 30 0.67
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGC
Found at i:44197227 original size:40 final size:40
Alignment explanation
Indices: 44197158--44197377 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
44197148 AAACCAAGTA
* * *
44197158 CCTTCGGG-TTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
44197196 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44197236 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44197276 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
44197316 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
44197356 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
44197378 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
38 8 0.05
39 18 0.11
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:44199471 original size:15 final size:15
Alignment explanation
Indices: 44199451--44199481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44199441 TAAGTTTCCG
44199451 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
*
44199466 TGTGCTTTGATTCAT
1 TGTGCTCTGATTCAT
44199481 T
1 T
44199482 ACACTATGAG
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:0.13, C:0.16, G:0.19, T:0.52
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:44205101 original size:46 final size:43
Alignment explanation
Indices: 44204992--44205120 Score: 156
Period size: 46 Copynumber: 3.0 Consensus size: 43
44204982 CTTTTATTCA
* * *
44204992 TTCACCGGCATTTCGCCTGCTAGGCTCG--AGGCCCGATATCAT
1 TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCCGA-ATAAT
*
44205034 TTCACCAGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
1 TTCACCGGCA-TATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
44205078 GTCTCACCGGCATAATAGCCTGCTAGGCTC-AAAGGCCCGAATA
1 -T-TCACCGGCAT-ATAGCCTGCTAGGCTCGAAAGGCCCGAATA
44205121 TAATACCAGC
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
42 9 0.12
43 16 0.21
44 4 0.05
45 23 0.30
46 24 0.32
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.22
Consensus pattern (43 bp):
TTCACCGGCATATAGCCTGCTAGGCTCGAAAGGCCCGAATAAT
Found at i:44205162 original size:38 final size:38
Alignment explanation
Indices: 44205119--44205271 Score: 225
Period size: 38 Copynumber: 4.0 Consensus size: 38
44205109 AAGGCCCGAA
* *
44205119 TATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGT
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGT
* *
44205157 TATAATACCAGCACGAAGCCTGCGGGATTTAACCTGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGT
* *
44205195 TATATTACCAGCACGAAGTCTGCGGGATTTAACCCGGT
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGT
*
44205233 TATATTACCAGCACGAAGCCTGCGGGATTTTAAGCCCGG
1 TATAATACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGG
44205272 ATATCATATT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 94 0.90
39 5 0.05
40 5 0.05
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (38 bp):
TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGT
Found at i:44210288 original size:77 final size:78
Alignment explanation
Indices: 44210192--44210370 Score: 263
Period size: 77 Copynumber: 2.3 Consensus size: 78
44210182 ATAATGGAGA
*
44210192 ATTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAG
44210256 GCATTCGTGCTGGT
66 GC-TTCGTGCTGGT
* * *
44210270 GTTATATCC-GGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCTGCAG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAG
*
44210334 GCTTTGTGCTGGT
66 GCTTCGTGCTGGT
*
44210347 ATTATATCTGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
44210371 CATGCTTTGT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
77 59 0.66
78 22 0.24
79 1 0.01
80 8 0.09
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (78 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAAGTCCCGAAG
GCTTCGTGCTGGT
Found at i:44210292 original size:38 final size:39
Alignment explanation
Indices: 44210193--44210370 Score: 261
Period size: 39 Copynumber: 4.5 Consensus size: 39
44210183 TAATGGAGAA
*
44210193 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
44210232 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
44210271 TTATATCC-GGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
44210309 TTATATCCGGGCTAAAGTCCTGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
44210348 TTATATCTGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
44210371 CATGCTTTGT
Statistics
Matches: 129, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
38 38 0.29
39 71 0.55
40 20 0.16
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:44214359 original size:16 final size:16
Alignment explanation
Indices: 44214338--44214374 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
44214328 TCAGATGACA
44214338 AGTTGCTATCTGTCAG
1 AGTTGCTATCTGTCAG
44214354 AGTTGCTATCTGTCAG
1 AGTTGCTATCTGTCAG
44214370 AGTTG
1 AGTTG
44214375 AAATTTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (16 bp):
AGTTGCTATCTGTCAG
Found at i:44216691 original size:39 final size:40
Alignment explanation
Indices: 44216637--44216775 Score: 187
Period size: 39 Copynumber: 3.5 Consensus size: 40
44216627 ATAATGGGAA
*
44216637 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
44216676 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
* * ** *
44216715 TTATATCTGGGCTAAAGTCCCGCAGGC-TTTATGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
44216754 TTATAT-CGGGCTTAAAGTCCCG
1 TTATATCCGGGC-TAAAGTCCCG
44216776 CATGCTTTGT
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 4 0.04
39 75 0.82
40 12 0.13
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.30
Consensus pattern (40 bp):
TTATATCCGGGCTAAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:44222337 original size:28 final size:28
Alignment explanation
Indices: 44222255--44222344 Score: 137
Period size: 29 Copynumber: 3.1 Consensus size: 28
44222245 TGAGCATGAC
44222255 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
*
44222284 TATAAATGTGATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
44222313 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
44222341 TATA
1 TATA
44222345 CAGGTATGTG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
28 21 0.37
29 36 0.63
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:44225202 original size:4 final size:4
Alignment explanation
Indices: 44225193--44225217 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
44225183 TGTAGGTGTA
44225193 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
44225218 AGTATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:44225992 original size:16 final size:16
Alignment explanation
Indices: 44225971--44226008 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44225961 GTAGATCGAC
*
44225971 AAAAGCCGAAATGCCA
1 AAAAGCCGAAATACCA
*
44225987 AAAAGCCGAAATACTA
1 AAAAGCCGAAATACCA
44226003 AAAAGC
1 AAAAGC
44226009 TGAATGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.55, C:0.21, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAAGCCGAAATACCA
Found at i:44226270 original size:29 final size:29
Alignment explanation
Indices: 44226226--44226287 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
44226216 TGAGCATGAC
44226226 TATAAATGTGAATTGGGCCT-GATGGGCCA
1 TATAAATGTGAATTGGGCCTAG-TGGGCCA
*
44226255 TATAAATGTGATTTGGGCCTAGTGGGCCA
1 TATAAATGTGAATTGGGCCTAGTGGGCCA
44226284 TATA
1 TATA
44226288 CAGGTATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 30 0.97
30 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (29 bp):
TATAAATGTGAATTGGGCCTAGTGGGCCA
Found at i:44229950 original size:21 final size:21
Alignment explanation
Indices: 44229924--44229965 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44229914 GGGCACATTG
*
44229924 ATCCAAAGTCAAGCAGCAACA
1 ATCCAAAGCCAAGCAGCAACA
*
44229945 ATCCAAAGCCAAGCAGTAACA
1 ATCCAAAGCCAAGCAGCAACA
44229966 TTGAAAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.29, G:0.14, T:0.10
Consensus pattern (21 bp):
ATCCAAAGCCAAGCAGCAACA
Found at i:44232632 original size:48 final size:48
Alignment explanation
Indices: 44232577--44232979 Score: 355
Period size: 48 Copynumber: 8.4 Consensus size: 48
44232567 CAACCCAACT
* * * * * *
44232577 ATGGTCTTACACGA-AGTCTTATAACGGTGTCGATGTCATGTCCTAGAC
1 ATGGTCTTACACGAGA-TCTCATAACGATGCCGATGCCATATCCCAGAC
* * * * * *
44232625 ATGGTCTTATACGAGACCTCATATCAATGCCAATGCCATATCCCAGAT
1 ATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGAC
* * * * *
44232673 ATGGTCTTACATGGGATCTCAT-ACTGATGTCGATGCTATATCCCAGAT
1 ATGGTCTTACACGAGATCTCATAAC-GATGCCGATGCCATATCCCAGAC
* *
44232721 ATGGTCTTACACGA-AGTCTCATAACGGTGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAGA-TCTCATAACGATGCCGATGCCATATCCCAGAC
* * * * * * * *
44232769 ATTGTCTTATACAAGACCTCATATCGATGCCAATACCATATCCCAGAT
1 ATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGAC
* * *
44232817 ATGGTCTTACATGGGATCTCAT-ACTGATGCCGATGCCATATCCCAGAT
1 ATGGTCTTACACGAGATCTCATAAC-GATGCCGATGCCATATCCCAGAC
* ** *
44232865 ATGGTCTTACACGGGATCTCATTTCGATGCCGATGCCATATCCCAGAT
1 ATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGAC
* * * ** * *
44232913 ATGGTTTTACATGGGATCTCATTTCAATGCCGATGCCATATCCCAGAT
1 ATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGAC
* *
44232961 ATGGTCTTATAAGAGATCT
1 ATGGTCTTACACGAGATCT
44232980 TAATACTCAC
Statistics
Matches: 292, Mismatches: 56, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
47 3 0.01
48 284 0.97
49 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGAC
Found at i:44232706 original size:96 final size:96
Alignment explanation
Indices: 44232576--44232969 Score: 409
Period size: 96 Copynumber: 4.1 Consensus size: 96
44232566 ACAACCCAAC
* * * * * * * * * *
44232576 TATGGTCTTACAC-GAAGTCTTATAACGGTGTCGATGTCATGTCCTAGACATGGTCTTATACGAG
1 TATGGTCTTACACGGGA-TCTCATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACGAG
* *
44232640 ACCTCATATCAATGCCAATGCCATATCCCAGA
65 ATCTCATATCAATGCCGATGCCATATCCCAGA
* * *
44232672 TATGGTCTTACATGGGATCTCATA-CTGATGTCGATGCTATATCCCAGATATGGTCTTACACGA-
1 TATGGTCTTACACGGGATCTCATATC-GATGCCGATGCCATATCCCAGATATGGTCTTACACGAG
* ** *
44232735 AGTCTCATAACGGTGCCGATGCCATGTCCCAGA
65 A-TCTCATATCAATGCCGATGCCATATCCCAGA
* * * ** * * * * *
44232768 CATTGTCTTATACAAGACCTCATATCGATGCCAATACCATATCCCAGATATGGTCTTACATGGGA
1 TATGGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACGAGA
*
44232833 TCTCATA-CTGATGCCGATGCCATATCCCAGA
66 TCTCATATC-AATGCCGATGCCATATCCCAGA
* * * *
44232864 TATGGTCTTACACGGGATCTCATTTCGATGCCGATGCCATATCCCAGATATGGTTTTACATGGGA
1 TATGGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACGAGA
*
44232929 TCTCATTTCAATGCCGATGCCATATCCCAGA
66 TCTCATATCAATGCCGATGCCATATCCCAGA
44232960 TATGGTCTTA
1 TATGGTCTTA
44232970 TAAGAGATCT
Statistics
Matches: 248, Mismatches: 43, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
95 3 0.01
96 240 0.97
97 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (96 bp):
TATGGTCTTACACGGGATCTCATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACGAGA
TCTCATATCAATGCCGATGCCATATCCCAGA
Found at i:44232776 original size:144 final size:144
Alignment explanation
Indices: 44232576--44232969 Score: 565
Period size: 144 Copynumber: 2.7 Consensus size: 144
44232566 ACAACCCAAC
* * * *
44232576 TATGGTCTTACACGAAGTCTTATAACGGTGTCGATGTCATGTCCTAGACATGGTCTTATACGAGA
1 TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGACATGGTCTTATACGAGA
*
44232641 CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATACTGATGTCGA
66 CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATACTGATGCCGA
*
44232706 TGCTATATCCCAGA
131 TGCCATATCCCAGA
* *
44232720 TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGACATTGTCTTATACAAGA
1 TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGACATGGTCTTATACGAGA
* *
44232785 CCTCATATCGATGCCAATACCATATCCCAGATATGGTCTTACATGGGATCTCATACTGATGCCGA
66 CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATACTGATGCCGA
44232850 TGCCATATCCCAGA
131 TGCCATATCCCAGA
* ** * * * * * * *
44232864 TATGGTCTTACACG-GGATCTCATTTCGATGCCGATGCCATATCCCAGATATGGTTTTACATGGG
1 TATGGTCTTACACGAAG-TCTCATAACGGTGCCGATGCCATGTCCCAGACATGGTCTTATACGAG
* * *
44232928 ATCTCATTTCAATGCCGATGCCATATCCCAGATATGGTCTTA
65 ACCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTA
44232970 TAAGAGATCT
Statistics
Matches: 222, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
143 1 0.00
144 221 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (144 bp):
TATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGACATGGTCTTATACGAGA
CCTCATATCAATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATACTGATGCCGA
TGCCATATCCCAGA
Found at i:44233110 original size:6 final size:6
Alignment explanation
Indices: 44233101--44233136 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
44233091 ATAAAGACAG
44233101 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT
44233137 TTCATGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:44233927 original size:9 final size:9
Alignment explanation
Indices: 44233913--44233940 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44233903 TTAAAAATAT
44233913 TCTATTTCA
1 TCTATTTCA
44233922 TCTATTTCA
1 TCTATTTCA
44233931 TCTATTTCA
1 TCTATTTCA
44233940 T
1 T
44233941 GTCCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (9 bp):
TCTATTTCA
Found at i:44235132 original size:30 final size:26
Alignment explanation
Indices: 44235100--44235151 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
44235090 AAAGGTAAGA
*
44235100 TTGATTGGTAAAGGAGACTTAACCTC
1 TTGATTGGCAAAGGAGACTTAACCTC
44235126 TTGATTGGCAAAGGAGACTTAACCTC
1 TTGATTGGCAAAGGAGACTTAACCTC
44235152 ATCGTGAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (26 bp):
TTGATTGGCAAAGGAGACTTAACCTC
Found at i:44239384 original size:16 final size:17
Alignment explanation
Indices: 44239344--44239384 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
44239334 TGGACATAGC
44239344 ATATAATGGTATATGGT
1 ATATAATGGTATATGGT
44239361 CATATAATGGTATATGGT
1 -ATATAATGGTATATGGT
44239379 -TATAAT
1 ATATAAT
44239385 ATGGCCTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.26
18 17 0.74
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (17 bp):
ATATAATGGTATATGGT
Found at i:44239388 original size:18 final size:18
Alignment explanation
Indices: 44239343--44239378 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44239333 GTGGACATAG
44239343 CATATAATGGTATATGGT
1 CATATAATGGTATATGGT
44239361 CATATAATGGTATATGGT
1 CATATAATGGTATATGGT
44239379 TATAATATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (18 bp):
CATATAATGGTATATGGT
Found at i:44242013 original size:40 final size:39
Alignment explanation
Indices: 44241848--44242031 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44241838 AAATTGAATG
* * *
44241848 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44241888 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44241928 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44241968 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44242007 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44242032 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44242056 original size:80 final size:81
Alignment explanation
Indices: 44241888--44242076 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44241878 GCTGGAAATT
* * * *
44241888 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44241953 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44241969 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44242032 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44242048 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44242077 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44247765 original size:30 final size:30
Alignment explanation
Indices: 44247729--44247859 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
44247719 GACAAGATTG
* * * * *
44247729 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
44247759 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
44247787 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44247817 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44247846 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44247860 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:44247820 original size:58 final size:58
Alignment explanation
Indices: 44247729--44247859 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
44247719 GACAAGATTG
* * * * * *
44247729 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
44247787 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
44247846 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44247860 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:44251582 original size:30 final size:30
Alignment explanation
Indices: 44251546--44251675 Score: 160
Period size: 28 Copynumber: 4.5 Consensus size: 30
44251536 GACAAGATTG
* * *
44251546 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
*
44251576 GCACTAAGTGTGCGAGTTT--GATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44251604 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44251634 GCACTAAGTGTGCGAG-CTGAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
44251662 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44251676 GATTCACTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
28 43 0.49
29 3 0.03
30 42 0.48
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:44251637 original size:58 final size:58
Alignment explanation
Indices: 44251546--44251675 Score: 181
Period size: 58 Copynumber: 2.2 Consensus size: 58
44251536 GACAAGATTG
* * * * * *
44251546 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
44251604 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
44251662 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44251676 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 2 0.03
58 62 0.97
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:44259532 original size:30 final size:30
Alignment explanation
Indices: 44259496--44259626 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
44259486 GACAAGATTG
* * * * *
44259496 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
44259526 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
44259554 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44259584 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
44259613 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44259627 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:44259587 original size:58 final size:58
Alignment explanation
Indices: 44259496--44259626 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
44259486 GACAAGATTG
* * * * * *
44259496 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
44259554 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
44259613 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44259627 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:44265052 original size:40 final size:39
Alignment explanation
Indices: 44264887--44265070 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44264877 AAATTGAATG
* * *
44264887 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44264927 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44264967 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44265007 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44265046 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44265071 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44265095 original size:80 final size:81
Alignment explanation
Indices: 44264927--44265115 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44264917 GCTGGAAATT
* * * *
44264927 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44264992 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44265008 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44265071 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44265087 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44265116 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44267470 original size:25 final size:24
Alignment explanation
Indices: 44267406--44267470 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 24
44267396 TTAATTCTAA
*
44267406 TTAATTTTGAAATTTTTATTTTTAGT
1 TTAATTTT--AATTTTTATTTTTACT
* * *
44267432 TTTATTCTTCATTTTTATCTTTTTCT
1 TTAATT-TTAATTTTTAT-TTTTACT
44267458 TTAATTTTAATTT
1 TTAATTTTAATTT
44267471 AATTTATTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
25 14 0.45
26 15 0.48
27 2 0.06
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (24 bp):
TTAATTTTAATTTTTATTTTTACT
Found at i:44269248 original size:39 final size:40
Alignment explanation
Indices: 44269184--44269259 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 40
44269174 ACTATGTTTG
44269184 GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATAAA
*
44269224 GCACTTA-TGTGCGAATTGGA-ATAGCTTCGGCTATAT
1 GCACTTAGTGTGC-AATTCGAGATAGCTTCGGCTATAT
44269260 GTGGCATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
39 21 0.62
40 13 0.38
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCAATTCGAGATAGCTTCGGCTATATAAA
Found at i:44270831 original size:41 final size:41
Alignment explanation
Indices: 44270786--44270870 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
44270776 TACATATATG
44270786 TATGTGAATGAGGTGTGTTA-CTCGGTAATGCCTCATAACCC
1 TATGTGAATGAGGTGTGTTATC-CGGTAATGCCTCATAACCC
* *
44270827 TATGTGAATGAGGTGTGTTATCCGGTAATGCCTCGTAACTC
1 TATGTGAATGAGGTGTGTTATCCGGTAATGCCTCATAACCC
44270868 TAT
1 TAT
44270871 TCCAGCATTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
41 40 0.98
42 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
TATGTGAATGAGGTGTGTTATCCGGTAATGCCTCATAACCC
Found at i:44280136 original size:59 final size:58
Alignment explanation
Indices: 44280040--44280171 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
44280030 AAAATTGTAC
44280040 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
44280098 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
44280157 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44280172 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44280160 original size:88 final size:89
Alignment explanation
Indices: 44280010--44280171 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
44280000 GACAAGATTG
* * *
44280010 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
44280075 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
44280099 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
44280163 AAGTGTGCG
66 AAGTGTGCG
44280172 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:44280183 original size:29 final size:29
Alignment explanation
Indices: 44280040--44280171 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
44280030 AAAATTGTAC
*
44280040 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44280069 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44280098 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
44280128 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44280157 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44280172 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44287643 original size:29 final size:29
Alignment explanation
Indices: 44287601--44287732 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
44287591 AAAATTGTAC
*
44287601 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44287630 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
44287659 AGCACTAAGTGTGTGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
44287689 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
44287718 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44287733 GATTCACTAT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
29 71 0.72
30 28 0.28
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44287697 original size:59 final size:58
Alignment explanation
Indices: 44287601--44287732 Score: 237
Period size: 59 Copynumber: 2.3 Consensus size: 58
44287591 AAAATTGTAC
44287601 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
* *
44287659 AGCACTAAGTGTGTGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
44287718 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
44287733 GATTCACTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
58 22 0.31
59 48 0.69
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:44289161 original size:8 final size:8
Alignment explanation
Indices: 44289144--44289186 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
44289134 CAAGATCGGC
44289144 AAAAGCCG
1 AAAAGCCG
*
44289152 AAATGCCG
1 AAAAGCCG
*
44289160 AAAAGCTG
1 AAAAGCCG
44289168 AAAAGCCG
1 AAAAGCCG
44289176 AAAAGCCG
1 AAAAGCCG
44289184 AAA
1 AAA
44289187 GTTTGACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.51, C:0.21, G:0.23, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:44289440 original size:29 final size:29
Alignment explanation
Indices: 44289397--44289551 Score: 224
Period size: 29 Copynumber: 5.4 Consensus size: 29
44289387 GACAGCATGA
* *
44289397 ATATGAATGTGATTTGGGTCTAATGGGCC
1 ATATGAATGTAATTTGGGCCTAATGGGCC
44289426 ATATGAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTAATTTGGGCCTAATGGGCC
*
44289455 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTAATTTGGGCCTAATGGGCC
* *
44289484 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTAATTTGGGCCTAATGGGCC
*
44289513 ATATGAATG-AGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTA-ATTTGGGCCTAATGGGCC
*
44289541 ATATGCATGTA
1 ATATGAATGTA
44289552 TGTAGACTTG
Statistics
Matches: 116, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
28 23 0.20
29 93 0.80
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTAATTTGGGCCTAATGGGCC
Found at i:44289487 original size:58 final size:58
Alignment explanation
Indices: 44289397--44289551 Score: 249
Period size: 58 Copynumber: 2.7 Consensus size: 58
44289387 GACAGCATGA
*
44289397 ATATGAATGTGATTTGGGTCTAATGGGCCATATGAATGTAATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCCATATGAATGTAATTTGGGCCTAATGGGCC
* *
44289455 ATATGAATGTGATTTGGGCCTAATGGGCCATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCCATATGAATGTAATTTGGGCCTAATGGGCC
* * *
44289513 ATATGAATGAGA-TTGGGCCTAGTGGGCCATATGCATGTA
1 ATATGAATGTGATTTGGGCCTAATGGGCCATATGAATGTA
44289552 TGTAGACTTG
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 23 0.26
58 66 0.74
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (58 bp):
ATATGAATGTGATTTGGGCCTAATGGGCCATATGAATGTAATTTGGGCCTAATGGGCC
Found at i:44291772 original size:48 final size:48
Alignment explanation
Indices: 44291647--44291777 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 48
44291637 TTGGGTAAGG
* * * *
44291647 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGA
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCTACGTCTCAA
* * *
44291695 GGCCGATG-CATGTCCTAGAA-AT-GTCTTACACTAGCACT-CGTTTCAA
1 TGCCGATGCCATGTCCCA-AACATGGTCTTACACTAGC-CTACGTCTCAA
44291741 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC
44291778 TCACAATAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
46 27 0.39
47 21 0.30
48 21 0.30
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCTACGTCTCAA
Found at i:44295195 original size:40 final size:40
Alignment explanation
Indices: 44295130--44295206 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
44295120 ATTATGTTTG
44295130 GCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATATAAA
1 GCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATATAAA
* *
44295170 GCACTTAGTGTGCGAATTGGA-ATAGCTTCGGCTATAT
1 GCACTTAGTGTGCG-ATTCGAGATAGCTTCAGCTATAT
44295207 GTGGCACTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 29 0.85
41 5 0.15
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATATAAA
Found at i:44295214 original size:40 final size:40
Alignment explanation
Indices: 44295128--44295220 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
44295118 CGATTATGTT
44295128 TGGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATATA
** * * *
44295168 AAGCACTTAGTGTGCGAATTGGA-ATAGCTTCGGCTATATG
1 TGGCACTTAGTGTGCG-ATTCGAGATAGCTTCAGCTATATA
*
44295208 TGGCACTAAGTGT
1 TGGCACTTAGTGT
44295221 ATGATACCGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 39 0.89
41 5 0.11
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGAGATAGCTTCAGCTATATA
Found at i:44295494 original size:21 final size:21
Alignment explanation
Indices: 44295470--44295509 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
44295460 ATATATGATA
44295470 AATGGTAATGGATTAGAATTG
1 AATGGTAATGGATTAGAATTG
44295491 AATGGTAATGGATTAGAAT
1 AATGGTAATGGATTAGAAT
44295510 CGAGTGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (21 bp):
AATGGTAATGGATTAGAATTG
Found at i:44296430 original size:30 final size:30
Alignment explanation
Indices: 44296394--44296453 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44296384 GACACAGCCT
* *
44296394 AGACACATGGGCATGTCTACTGGACGTATG
1 AGACACACGGGCATGTCTACCGGACGTATG
* *
44296424 AGACACACGGGCGTGTCTACCGGATGTATG
1 AGACACACGGGCATGTCTACCGGACGTATG
44296454 GCCAGCTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.22
Consensus pattern (30 bp):
AGACACACGGGCATGTCTACCGGACGTATG
Found at i:44300167 original size:13 final size:13
Alignment explanation
Indices: 44300149--44300173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44300139 CTTAGAAGTC
44300149 TGTTAGAAATACT
1 TGTTAGAAATACT
44300162 TGTTAGAAATAC
1 TGTTAGAAATAC
44300174 CAGGAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTTAGAAATACT
Found at i:44300249 original size:6 final size:5
Alignment explanation
Indices: 44300220--44300311 Score: 59
Period size: 5 Copynumber: 17.8 Consensus size: 5
44300210 TATGTCTTTC
* *
44300220 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAGT CAAAAG AAAACT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAA-T -AAAAT AAAA-T
44300268 AAAAAT AAAAT -AAAT AAAAT -AAAT AAAAAT AAGAAT -AAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
44300312 AAAGGAGGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
3 3 0.04
4 11 0.16
5 31 0.44
6 17 0.24
7 8 0.11
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:44300306 original size:16 final size:15
Alignment explanation
Indices: 44300269--44300312 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
44300259 AAGAAAACTA
*
44300269 AAAATAAA-ATAAAT
1 AAAATAAATAAAAAT
44300283 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
44300298 AAGAATAAATAAAAA
1 AA-AATAAATAAAAA
44300313 AAGGAGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 8 0.30
15 7 0.26
16 12 0.44
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:44300307 original size:10 final size:9
Alignment explanation
Indices: 44300270--44300311 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
44300260 AGAAAACTAA
44300270 AAATAAAAT
1 AAATAAAAT
44300279 AAATAAAAT
1 AAATAAAAT
44300288 AAAT--AA-
1 AAATAAAAT
44300294 AAATAAGAAT
1 AAATAA-AAT
44300304 AAATAAAA
1 AAATAAAA
44300312 AAAGGAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 4 0.14
7 2 0.07
9 17 0.59
10 6 0.21
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:44309883 original size:19 final size:19
Alignment explanation
Indices: 44309859--44309896 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44309849 TGTGACCACA
44309859 CCCCCTAACCAAGCCGCAC
1 CCCCCTAACCAAGCCGCAC
44309878 CCCCCTAACCAAGCCGCAC
1 CCCCCTAACCAAGCCGCAC
44309897 TACCCTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.58, G:0.11, T:0.05
Consensus pattern (19 bp):
CCCCCTAACCAAGCCGCAC
Found at i:44309902 original size:19 final size:19
Alignment explanation
Indices: 44309857--44309902 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
44309847 CTTGTGACCA
44309857 CACC-CCCTAACCAAGCCG
1 CACCACCCTAACCAAGCCG
*
44309875 CACCCCCCTAACCAAGCCG
1 CACCACCCTAACCAAGCCG
*
44309894 CACTACCCT
1 CACCACCCT
44309903 CTAAAGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.26, C:0.57, G:0.09, T:0.09
Consensus pattern (19 bp):
CACCACCCTAACCAAGCCG
Found at i:44315834 original size:13 final size:13
Alignment explanation
Indices: 44315812--44315844 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44315802 AAGGATTTGT
44315812 TTAT-TAAACTAA
1 TTATCTAAACTAA
44315824 TTATCTAAACTAA
1 TTATCTAAACTAA
*
44315837 TTAACTAA
1 TTATCTAA
44315845 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:44321887 original size:17 final size:17
Alignment explanation
Indices: 44321865--44321907 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
44321855 GTGGGAGAAA
*
44321865 TTATTTTTCTTTA-GTTT
1 TTATTTTT-TTTAGGTGT
44321882 TTATTTCTTTTTAGGTGT
1 TTATTT-TTTTTAGGTGT
44321900 TTATTTTT
1 TTATTTTT
44321908 ATTTTTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (17 bp):
TTATTTTTTTTAGGTGT
Found at i:44335171 original size:42 final size:44
Alignment explanation
Indices: 44335071--44335180 Score: 131
Period size: 42 Copynumber: 2.6 Consensus size: 44
44335061 CAATGTCAAC
* * *
44335071 GTCCCGGACGTGGTCTTACA-TATAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGATAATCAAATATCGATGCCACT
* *
44335114 GTCCCAAACAGGGTCTTACACGA-AATCAAATAT-GATGCCGA-T
1 GTCCCAGACATGGTCTTACACGATAATCAAATATCGATGCC-ACT
44335156 GTCCCAGACATGGTCTTACAC-ATAA
1 GTCCCAGACATGGTCTTACACGATAA
44335181 ATATCAAATC
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 28 0.49
43 27 0.47
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGATAATCAAATATCGATGCCACT
Found at i:44339048 original size:15 final size:16
Alignment explanation
Indices: 44339016--44339053 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
44339006 GCTTTTTGTC
44339016 ATTAAATATTTGATAA
1 ATTAAATATTTGATAA
44339032 A-TAAATATTT-ATGAA
1 ATTAAATATTTGAT-AA
44339047 ATTAAAT
1 ATTAAAT
44339054 GATAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTAAATATTTGATAA
Found at i:44343562 original size:26 final size:25
Alignment explanation
Indices: 44343519--44343588 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
44343509 GGACTCACCA
* *
44343519 CAGCTCATATGAGATTACCGATATAT
1 CAGCTCGTATGAGCTTACCGAT-TAT
* * *
44343545 CAGCTCGTAAGAGCTTA-CTATTCT
1 CAGCTCGTATGAGCTTACCGATTAT
*
44343569 CAGCTCGTTTGAGCTTACCG
1 CAGCTCGTATGAGCTTACCG
44343589 TTTTAGATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 17 0.49
25 4 0.11
26 14 0.40
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTAT
Found at i:44348245 original size:46 final size:46
Alignment explanation
Indices: 44348187--44348354 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 46
44348177 TCTCATAGCC
* *
44348187 GATGTATGTCCCAGACATGTCTTACACTGGC-TTACGTC-TAGAGGCA
1 GATGCATGTCCCAGACATGTCTTACACTGGCACT-CGTCTTA-AGGCA
* * *
44348233 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCGTCTTAAGGCA
*
44348279 GATGTCATGTCCCAGACATGGTCTTACACT-G-ACTC-TCATAATGTGGTC-
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCGTCTTAA---GG-CA
*
44348327 GATGCATGTCCCAGACATGCCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
44348355 AGCTCACAAT
Statistics
Matches: 106, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
45 5 0.05
46 53 0.50
47 32 0.30
48 15 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCGTCTTAAGGCA
Found at i:44348303 original size:94 final size:91
Alignment explanation
Indices: 44348085--44348357 Score: 238
Period size: 94 Copynumber: 2.9 Consensus size: 91
44348075 CATGGGGTAG
* * * * * *
44348085 AATGCCGATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCACATATTTGTGCCGATGCCATG
1 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCT-T-AC-T-CTAG-GGCGATG-CATG
* *
44348150 TCCCAGGCATGGTCTTACA-TTGACACATCTCAT
60 TCCCAGACAT-GTCTTACACTAG-CACATCTCAT
44348183 -A-GCCGATGT-ATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTAGAGGCAGATGCATGTCC
1 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTTAC-TCTAG-GGC-GATGCATGTCC
*
44348244 CAGACATGTCTTACACTAGCAC-TCGTCTT
63 CAGACATGTCTTACACTAGCACATC-TCAT
*
44348273 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGAC-T-CTCATAATGTGGTCGATGCATGT
1 AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTTACTC-T-A-G-GG-CGATGCATGT
*
44348336 CCCAGACATGCCTTACACTAGC
61 CCCAGACATGTCTTACACTAGC
44348358 TCACAATAAC
Statistics
Matches: 150, Mismatches: 14, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
89 2 0.01
90 14 0.09
91 22 0.15
92 17 0.11
93 16 0.11
94 58 0.39
95 13 0.09
96 7 0.05
97 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (91 bp):
AATGCCGATGTCATGTCCCAGACATGGTCTTACACTGGCTTACTCTAGGGCGATGCATGTCCCAG
ACATGTCTTACACTAGCACATCTCAT
Found at i:44354158 original size:29 final size:29
Alignment explanation
Indices: 44354126--44354198 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
44354116 CTTCGAGCTC
*
44354126 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44354155 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44354184 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
44354199 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:44362198 original size:29 final size:29
Alignment explanation
Indices: 44362108--44362267 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
44362098 ACTCGATTTC
* * **
44362108 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
44362137 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
44362165 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
44362195 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44362224 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44362253 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
44362268 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:44369328 original size:28 final size:28
Alignment explanation
Indices: 44369259--44369359 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44369249 GACAAGATTG
* * * *
44369259 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44369289 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44369317 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44369346 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44369360 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44377282 original size:28 final size:28
Alignment explanation
Indices: 44377213--44377313 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
44377203 GACAAGATTG
* * * *
44377213 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
44377243 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44377271 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
44377300 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44377314 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44380457 original size:80 final size:80
Alignment explanation
Indices: 44380373--44380521 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44380363 TATGGTAACC
* * * *
44380373 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44380437 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44380453 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44380518 CCGG
66 CCGG
44380522 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:44380463 original size:40 final size:38
Alignment explanation
Indices: 44380414--44380521 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44380404 ATCACGATTT
*
44380414 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44380454 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44380494 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44380522 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:44382197 original size:46 final size:46
Alignment explanation
Indices: 44382144--44382319 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
44382134 TATTTGGGCA
44382144 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44382190 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44382235 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44382283 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44382320 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44382299 original size:93 final size:93
Alignment explanation
Indices: 44382140--44382311 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44382130 GGGATATTTG
* *
44382140 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44382205 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
44382233 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
44382298 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44382312 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44385289 original size:15 final size:15
Alignment explanation
Indices: 44385269--44385337 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44385259 GTATCTTGGG
44385269 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44385284 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44385299 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44385314 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44385329 TTTCTTTAT
1 TTTCTTTAT
44385338 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44385338 original size:30 final size:30
Alignment explanation
Indices: 44385260--44385347 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44385250 CATAGTATCG
* * * *
44385260 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44385290 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44385320 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44385348 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44387845 original size:47 final size:46
Alignment explanation
Indices: 44387727--44387900 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
44387717 TGGATATTTG
*
44387727 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGA
* * *
44387774 TG--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATG---CGA
*
44387819 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCG-A
* *
44387867 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
44387901 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.04
44 2 0.02
45 32 0.30
46 30 0.28
47 31 0.29
48 5 0.05
50 4 0.04
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGA
Found at i:44387896 original size:46 final size:46
Alignment explanation
Indices: 44387732--44387905 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
44387722 ATTTGGGCAT
* *
44387732 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
44387777 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
44387822 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
44387870 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44387906 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.26
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:44393332 original size:18 final size:17
Alignment explanation
Indices: 44393309--44393342 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
44393299 TAGCTGTGCC
44393309 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
44393327 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
44393343 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:44394593 original size:11 final size:11
Alignment explanation
Indices: 44394557--44394612 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
44394547 CATGGTATGT
44394557 ATGATATGCAC
1 ATGATATGCAC
* *
44394568 ATGACATG--T
1 ATGATATGCAC
44394577 ATGATATGCAC
1 ATGATATGCAC
44394588 ATGATATG-A-
1 ATGATATGCAC
*
44394597 ATGACATGCAC
1 ATGATATGCAC
44394608 ATGAT
1 ATGAT
44394613 GTATTTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 14 0.40
10 2 0.06
11 19 0.54
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (11 bp):
ATGATATGCAC
Done.