Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 185 of 318
Found at i:57759777 original size:12 final size:12
Alignment explanation
Indices: 57759760--57759784 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57759750 ATGCAAGTGA
57759760 TCTTGATGATTT
1 TCTTGATGATTT
57759772 TCTTGATGATTT
1 TCTTGATGATTT
57759784 T
1 T
57759785 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:57760576 original size:47 final size:47
Alignment explanation
Indices: 57760504--57760726 Score: 215
Period size: 47 Copynumber: 4.7 Consensus size: 47
57760494 AATTTCTTGT
*
57760504 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGA
* *
57760550 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTA-GA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACGATTATGA
* * * **
57760598 GTGCCAGTGTAAGACATGTATGGGACATGCATTGGCCTCGACAATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGA
* * *
57760645 -TAGCCAGTGTAAGACGTGTCT-GGACATGCATCAG-CACGTATATACGA
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-AT-TATGA
* *
57760692 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
57760727 AGAAACTTAT
Statistics
Matches: 145, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
45 3 0.02
46 35 0.24
47 62 0.43
48 32 0.22
49 8 0.06
50 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATTATGA
Found at i:57760665 original size:94 final size:94
Alignment explanation
Indices: 57760504--57760726 Score: 247
Period size: 94 Copynumber: 2.4 Consensus size: 94
57760494 AATTTCTTGT
* **
57760504 GTGCCAGTGTAAAACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACAATGAGTGCCAGTGTAAGACCATG
* *
57760569 TCTGGGACATGGCATC-G-GCGTAGAGATGA
66 TCT-GGACAT-GCATCAGCACGTAGAGACGA
* * * *
57760598 GTGCCAGTGTAAGACATGTATGGGACATGCATTGGCCTCGACAATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACAATGAGT-GCCAGTGTAAGACCA
* *
57760661 TGTCTGGACATGCATCAGCACGTATATACGA
64 TGTCTGGACATGCATCAGCACGTAGAGACGA
* *
57760692 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
57760727 AGAAACTTAT
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
92 5 0.05
93 7 0.06
94 62 0.57
95 30 0.28
96 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (94 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACAATGAGTGCCAGTGTAAGACCATG
TCTGGACATGCATCAGCACGTAGAGACGA
Found at i:57761797 original size:23 final size:23
Alignment explanation
Indices: 57761767--57761826 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
57761757 GTATCCCAAG
57761767 CACACGGGCGTGTGCCCTATACC
1 CACACGGGCGTGTGCCCTATACC
*
57761790 CACACGGGCGTGTGCCCTATGCC
1 CACACGGGCGTGTGCCCTATACC
57761813 CACACGGGCGTGTG
1 CACACGGGCGTGTG
57761827 GAGCCTTAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.15, C:0.37, G:0.32, T:0.17
Consensus pattern (23 bp):
CACACGGGCGTGTGCCCTATACC
Found at i:57765998 original size:24 final size:24
Alignment explanation
Indices: 57765978--57766062 Score: 143
Period size: 24 Copynumber: 3.5 Consensus size: 24
57765968 TCCAATCTGT
* *
57765978 ACACATAGTGCCATACAAATCCAC
1 ACACATAGTGCCATACAAATTCGC
57766002 ACACATAGTGCCATACAAATTCGC
1 ACACATAGTGCCATACAAATTCGC
*
57766026 ACACATAGTGCCATTCAAATTCGC
1 ACACATAGTGCCATACAAATTCGC
57766050 ACACATAGTGCCA
1 ACACATAGTGCCA
57766063 AAATCATTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.20
Consensus pattern (24 bp):
ACACATAGTGCCATACAAATTCGC
Found at i:57766008 original size:48 final size:48
Alignment explanation
Indices: 57765927--57766059 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 48
57765917 CATGTTAACC
* ** * * * *
57765927 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAA-T
1 CGCACACATAGTGCCATACAAATTCACACACATAGTGACATACAAATT
* * *
57765974 CTGTACACATAGTGCCATACAAATCCACACACATAGTGCCATACAAATT
1 C-GCACACATAGTGCCATACAAATTCACACACATAGTGACATACAAATT
* *
57766023 CGCACACATAGTGCCATTCAAATTCGCACACATAGTG
1 CGCACACATAGTGCCATACAAATTCACACACATAGTG
57766060 CCAAAATCAT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 67 0.96
49 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (48 bp):
CGCACACATAGTGCCATACAAATTCACACACATAGTGACATACAAATT
Found at i:57766032 original size:72 final size:72
Alignment explanation
Indices: 57765929--57766062 Score: 171
Period size: 72 Copynumber: 1.9 Consensus size: 72
57765919 TGTTAACCCG
* ** * * * *
57765929 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAA-TCTGTACACATAGTGCCATA
1 CACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATTC-GCACACATAGTGCCATA
57765993 CAAATCCA
65 CAAATCCA
* *
57766001 CACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATTCGCACACATAGTGCCA
57766063 AAATCATTTC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 50 0.96
73 2 0.04
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (72 bp):
CACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATTCGCACACATAGTGCCATAC
AAATCCA
Found at i:57767256 original size:17 final size:17
Alignment explanation
Indices: 57767234--57767267 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57767224 CCCCACTTAA
*
57767234 TATATTATAACTTATTT
1 TATATTATAACATATTT
57767251 TATATTATAACATATTT
1 TATATTATAACATATTT
57767268 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:57773571 original size:72 final size:72
Alignment explanation
Indices: 57773467--57773601 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 72
57773457 ATGTTAACCT
* ** * * * *
57773467 GCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCGTACACATAGTGCCATA
1 GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATA
57773532 CAAATCC
66 CAAATCC
* * *
57773539 GCACACATAGTGCCATACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
57773602 AAATCATTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.24
Consensus pattern (72 bp):
GCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCATA
CAAATCC
Found at i:57773599 original size:24 final size:24
Alignment explanation
Indices: 57773467--57773601 Score: 148
Period size: 24 Copynumber: 5.6 Consensus size: 24
57773457 ATGTTAACCT
57773467 GCACACATAGTGCC-TT-AGTAATTC
1 GCACACATAGTGCCATTCA--AATTC
* * * * * *
57773491 ACATACATATTGACATTCCAATCC
1 GCACACATAGTGCCATTCAAATTC
* * *
57773515 GTACACATAGTGCCATACAAATCC
1 GCACACATAGTGCCATTCAAATTC
*
57773539 GCACACATAGTGCCATACAAATTC
1 GCACACATAGTGCCATTCAAATTC
57773563 GCACACATAGTGCCATTCAAATTC
1 GCACACATAGTGCCATTCAAATTC
57773587 GCACACATAGTGCCA
1 GCACACATAGTGCCA
57773602 AAATCATTTC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 91 0.98
25 2 0.02
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.24
Consensus pattern (24 bp):
GCACACATAGTGCCATTCAAATTC
Found at i:57774800 original size:17 final size:17
Alignment explanation
Indices: 57774778--57774811 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57774768 CCGTACTTAA
*
57774778 TATATTATAACTTATTT
1 TATATTATAACATATTT
57774795 TATATTATAACATATTT
1 TATATTATAACATATTT
57774812 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:57777786 original size:2 final size:2
Alignment explanation
Indices: 57777779--57777815 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
57777769 ACATTCATGA
57777779 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57777816 AAACTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:57778548 original size:39 final size:40
Alignment explanation
Indices: 57778466--57778548 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 40
57778456 TTAATTCACT
* * *
57778466 AGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATCCC
1 AGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATCCC
* * *
57778506 AGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATCTC
1 AGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATCCC
57778545 AGCA
1 AGCA
57778549 CAATTCATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 19 0.51
40 18 0.49
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (40 bp):
AGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATCCC
Found at i:57778673 original size:45 final size:46
Alignment explanation
Indices: 57778619--57778727 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 46
57778609 TGCACACTTT
* *
57778619 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
57778665 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
57778712 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
57778728 ATCTTAAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 25 0.44
46 5 0.09
47 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:57782006 original size:30 final size:30
Alignment explanation
Indices: 57781972--57782031 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
57781962 TTCCCGAGCC
57781972 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
57782002 TAGGGGCAAAAGTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
57782032 CGTATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:57782502 original size:46 final size:45
Alignment explanation
Indices: 57782452--57782624 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
57782442 TGATTGAGCA
* *
57782452 TCCGAACTAGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
57782498 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
57782543 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
57782591 CCCGAGCTCGATGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57782625 GGGGTGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.55
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:57782608 original size:93 final size:93
Alignment explanation
Indices: 57782449--57782619 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
57782439 GGATGATTGA
* *
57782449 GCATCCGAACTAGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTAGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGATGAGT
57782514 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
57782542 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAGCTCGATGAGT
1 GCATCCGAACTAGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGATGAGT
57782607 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57782620 ACTTAGGGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTAGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGATGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57784304 original size:11 final size:12
Alignment explanation
Indices: 57784290--57784320 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
57784280 CCGAGATAAA
57784290 ATAATTATTTT-
1 ATAATTATTTTG
57784301 ATAATTATTTTG
1 ATAATTATTTTG
57784313 ATAATTAT
1 ATAATTAT
57784321 GATATGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
ATAATTATTTTG
Found at i:57785569 original size:46 final size:46
Alignment explanation
Indices: 57785516--57785688 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
57785506 TGATTGAGCA
57785516 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
57785562 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
57785607 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57785655 CCCGAGCTCGATGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
57785689 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57785672 original size:93 final size:93
Alignment explanation
Indices: 57785513--57785683 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
57785503 GGATGATTGA
* * *
57785513 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGATGAGT
57785578 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
57785606 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGATGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGATGAGT
57785671 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57785684 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGATGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57788409 original size:12 final size:12
Alignment explanation
Indices: 57788392--57788416 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57788382 ATGTAAGTGA
57788392 TCTTGATGATTT
1 TCTTGATGATTT
57788404 TCTTGATGATTT
1 TCTTGATGATTT
57788416 T
1 T
57788417 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:57789208 original size:47 final size:47
Alignment explanation
Indices: 57789133--57789452 Score: 284
Period size: 47 Copynumber: 6.8 Consensus size: 47
57789123 GATTTCTTGT
*
57789133 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
*
57789179 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTA-GA-GATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACGATGATGA
* * *
57789227 GTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
* * * * *
57789274 -TAGCCAATGTAAGACGTGTCTAGGACATGCATCGG-C-TGA-GA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATG-A
* * *
57789318 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGTAT-ATACTA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACG-ATGAT--GA
* * * * *
57789366 GAGCTAGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCGATGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGATGATGA
57789415 -TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GT-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
57789453 AACTTATCCC
Statistics
Matches: 227, Mismatches: 27, Indels: 37
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.00
44 31 0.14
45 4 0.02
46 28 0.12
47 61 0.27
48 39 0.17
49 49 0.22
50 9 0.04
51 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (47 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACGATGATGA
Found at i:57789400 original size:141 final size:140
Alignment explanation
Indices: 57789135--57789452 Score: 376
Period size: 141 Copynumber: 2.2 Consensus size: 140
57789125 TTTCTTGTGT
*
57789135 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTAT-AGTGCCAGTGTAAGACCATGTC
* * * *
57789200 TGGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCT
65 TGGGACATGGCATCGACGTAGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCT
57789265 CGACGATGATA
130 CGACGATGATA
* * * * * *
57789276 GCCAATGTAAGACGTGTCTAGGACATGCATCGGCTGAGAGT-T-GTGCTAGTGTAAGA-CATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CACAGTATAGTGCCAGTGTAAGACCATGTC
* * * *
57789338 TGGGACAT-GCATCAGCACGTATATACT-AGAGCTAGTGTAAGACCATGTCTGGGATATGGCATC
65 TGGGACATGGCATC-G-ACGTAGAGA-TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
*
57789401 AGCCTCGATGATGATA
125 AGCCTCGACGATGATA
57789417 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
57789453 AACTTATCCC
Statistics
Matches: 150, Mismatches: 19, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
137 5 0.03
138 15 0.10
139 32 0.21
140 13 0.09
141 62 0.41
142 15 0.10
143 8 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTATAGTGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGACGTAGAGATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTC
GACGATGATA
Found at i:57793605 original size:19 final size:19
Alignment explanation
Indices: 57793560--57793596 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57793550 CCAAACACCA
* *
57793560 AAAAAGTAAATTATTTTCC
1 AAAAATTAAATCATTTTCC
57793579 AAAAATTAAATCATTTTC
1 AAAAATTAAATCATTTTC
57793597 TAGAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATTAAATCATTTTCC
Found at i:57798025 original size:42 final size:42
Alignment explanation
Indices: 57797965--57798061 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
57797955 TCGACAATGA
* * *
57797965 TTCGGCTA-ATTATGTGCACTTAGTGTGTGAAATCGAGATAGC
1 TTCGGCTATA-TATGTGCACTTACTGTGCGAAATCAAGATAGC
* *
57798007 TTCGGCTATATATTTGCACTTACTGTGCGAGATCAAGATAGC
1 TTCGGCTATATATGTGCACTTACTGTGCGAAATCAAGATAGC
57798049 TTCGGCTATATAT
1 TTCGGCTATATAT
57798062 ATATATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
42 48 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (42 bp):
TTCGGCTATATATGTGCACTTACTGTGCGAAATCAAGATAGC
Found at i:57813968 original size:13 final size:13
Alignment explanation
Indices: 57813950--57813978 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
57813940 ATAAAATTGG
57813950 AAAGATGAAAAAT
1 AAAGATGAAAAAT
57813963 AAAGATGAAAAAT
1 AAAGATGAAAAAT
57813976 AAA
1 AAA
57813979 AAAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:57814151 original size:10 final size:10
Alignment explanation
Indices: 57814136--57814160 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57814126 AAAATCGTAA
57814136 TAGCTTAATC
1 TAGCTTAATC
57814146 TAGCTTAATC
1 TAGCTTAATC
57814156 TAGCT
1 TAGCT
57814161 ATTTTCGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (10 bp):
TAGCTTAATC
Found at i:57815900 original size:91 final size:91
Alignment explanation
Indices: 57815741--57815926 Score: 345
Period size: 91 Copynumber: 2.0 Consensus size: 91
57815731 ACATGAATTA
* *
57815741 ATATAAAATATGCATGAAAATCATGAAATTAAGCATAATTTCACATACTTTCCAAATTCATGTCT
1 ATATAAAAGATGCATGAAAATCATGAAATTAAGCATAATTTCACATACTTTCCAAATTCATGTAT
57815806 AAAATTACTAATTAAGTAAAATTCAC
66 AAAATTACTAATTAAGTAAAATTCAC
*
57815832 ATATAAAAGATGCATGAAAATCATGCAATTAAGCATAATTTCACATACTTTCCAAATTCATGTAT
1 ATATAAAAGATGCATGAAAATCATGAAATTAAGCATAATTTCACATACTTTCCAAATTCATGTAT
57815897 AAAATTACTAATTAAGTAAAATTCAC
66 AAAATTACTAATTAAGTAAAATTCAC
57815923 ATAT
1 ATAT
57815927 TTCAATAATA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.33
Consensus pattern (91 bp):
ATATAAAAGATGCATGAAAATCATGAAATTAAGCATAATTTCACATACTTTCCAAATTCATGTAT
AAAATTACTAATTAAGTAAAATTCAC
Found at i:57821669 original size:21 final size:23
Alignment explanation
Indices: 57821644--57821703 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
57821634 GTTTTAAAAA
*
57821644 TTGTTTTAGTA-TTATTTTTAT-
1 TTGTTTTAATATTTATTTTTATG
*
57821665 TTGTTTTAATATTTGTTTTTATG
1 TTGTTTTAATATTTATTTTTATG
*
57821688 TT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
57821704 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.48
22 15 0.45
23 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTGTTTTAATATTTATTTTTATG
Found at i:57821724 original size:27 final size:25
Alignment explanation
Indices: 57821673--57821724 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
57821663 ATTTGTTTTA
* *
57821673 ATATTTGTTTTTATGTTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAAT
57821698 ATATTTGATTTATTATATTTTTAAAAT
1 ATATTTG-TTT-TTATATTTTTAAAAT
57821725 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 3 0.13
27 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (25 bp):
ATATTTGTTTTTATATTTTTAAAAT
Found at i:57824140 original size:40 final size:40
Alignment explanation
Indices: 57824095--57824261 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57824085 CGGAATATAA
57824095 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
57824135 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
57824175 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57824215 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57824254 CCGGATAT
1 CCGGATAT
57824262 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57824245 original size:80 final size:79
Alignment explanation
Indices: 57824095--57824261 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
57824085 CGGAATATAA
* *
57824095 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
57824160 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
57824175 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
57824237 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
57824254 CCGGATAT
1 CCGGATAT
57824262 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:57825109 original size:17 final size:19
Alignment explanation
Indices: 57825086--57825131 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57825076 AAGAAGCATG
57825086 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57825104 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57825122 AATCATGCTC
1 AATCATGCTC
57825132 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:57832148 original size:40 final size:40
Alignment explanation
Indices: 57832103--57832269 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
57832093 CGGAATATAA
57832103 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
57832143 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
57832183 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
57832223 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57832262 CCGGATAT
1 CCGGATAT
57832270 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57832253 original size:80 final size:79
Alignment explanation
Indices: 57832103--57832269 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
57832093 CGGAATATAA
* *
57832103 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
57832168 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
57832183 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
57832245 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
57832262 CCGGATAT
1 CCGGATAT
57832270 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:57833116 original size:17 final size:19
Alignment explanation
Indices: 57833093--57833138 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57833083 AAGAAGCATG
57833093 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57833111 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57833129 AATCATGCTC
1 AATCATGCTC
57833139 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:57844309 original size:27 final size:27
Alignment explanation
Indices: 57844272--57844323 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
57844262 ACAACTTGAT
*
57844272 AAAATGACTATTTTGCCCTTATGTGGA
1 AAAATGACTATTTTGCCCCTATGTGGA
57844299 AAAATGACTATTTTGCCCCTATGTG
1 AAAATGACTATTTTGCCCCTATGTG
57844324 ATATATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCCTATGTGGA
Found at i:57859490 original size:20 final size:20
Alignment explanation
Indices: 57859467--57859504 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57859457 CACATCCAAA
*
57859467 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
57859487 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
57859505 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:57864025 original size:18 final size:17
Alignment explanation
Indices: 57863995--57864028 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57863985 GACACCCTCT
*
57863995 GGAATCGATTTTGGGGA
1 GGAATCGACTTTGGGGA
57864012 GGAATTCGACTTTGGGG
1 GGAA-TCGACTTTGGGG
57864029 GTGAGTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.09, G:0.41, T:0.29
Consensus pattern (17 bp):
GGAATCGACTTTGGGGA
Found at i:57865575 original size:34 final size:33
Alignment explanation
Indices: 57865527--57865591 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
57865517 CTGTTTGCAT
*
57865527 TCTGTACTGTTACTGTAATGGGCTAAGGCCCAC
1 TCTGTACTGATACTGTAATGGGCTAAGGCCCAC
*
57865560 TCTGATACTGATACTGTAATGGGTTAAGGCCC
1 TCTG-TACTGATACTGTAATGGGCTAAGGCCC
57865592 TAATTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (33 bp):
TCTGTACTGATACTGTAATGGGCTAAGGCCCAC
Found at i:57871558 original size:40 final size:40
Alignment explanation
Indices: 57871509--57871676 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
57871499 TCTTCGGAAT
* * * *
57871509 TTAG-CCGGATATAACCACAAGCGCAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
57871548 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
57871588 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
57871628 TTAGCCCGGATATATTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
57871668 TTAGCCCGG
1 TTAGCCCGG
57871677 TATCATTCAA
Statistics
Matches: 109, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 3 0.03
40 106 0.97
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:57879687 original size:39 final size:40
Alignment explanation
Indices: 57879537--57879710 Score: 190
Period size: 40 Copynumber: 4.4 Consensus size: 40
57879527 AACCGAGTCT
* * * * * *
57879537 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
* * * ** * * *
57879576 CTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
*
57879616 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
*
57879656 CTTCGGGACTTAGCCC-GATATATTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
57879695 CTTCGGGACTTAGCCC
1 CTTCGGGACTTAGCCC
57879711 AGGTATCATT
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 47 0.42
40 66 0.58
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGC
Found at i:57887974 original size:50 final size:50
Alignment explanation
Indices: 57887920--57888019 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
57887910 ATTGTGTTGA
* * *
57887920 ATGATTTATGAGAATTTATGATATATATTGTGAATTGATCTGTAATACCT
1 ATGATTTATGAGAATGTATGATATATATTATGAATTGATATGTAATACCT
*
57887970 ATGATTTATGAGAATGTATGATATATGTTATGAATTGATATGTAATACCT
1 ATGATTTATGAGAATGTATGATATATATTATGAATTGATATGTAATACCT
57888020 CGTAACCCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (50 bp):
ATGATTTATGAGAATGTATGATATATATTATGAATTGATATGTAATACCT
Found at i:57892059 original size:49 final size:49
Alignment explanation
Indices: 57892002--57892150 Score: 154
Period size: 58 Copynumber: 2.9 Consensus size: 49
57891992 GTTGATGTCA
*
57892002 TTTTCTTTTACTCCTCTAGCAAATGTCCCTTTCTTGTTTTCTGACATTG
1 TTTTCTTTTACTCCTCTAGCAAATATCCCTTTCTTGTTTTCTGACATTG
* * * * *
57892051 TTTTCTTTTACTCCTTTAGCTAACAAATATCTTTCTTTTTCCTTCTATTCTGACGTTG
1 TTTTCTTTTACTCC--T--CTAGCAAATATC---C-CTTT-CTTGTTTTCTGACATTG
*
57892109 TTTTCTTTTACTCCTCTAGCAAACATCCCTTTCTTGTTTTCT
1 TTTTCTTTTACTCCTCTAGCAAATATCCCTTTCTTGTTTTCT
57892151 TTGGCCGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
49 22 0.28
50 3 0.04
51 2 0.03
53 10 0.12
54 10 0.12
56 2 0.03
57 3 0.04
58 28 0.35
ACGTcount: A:0.15, C:0.25, G:0.07, T:0.52
Consensus pattern (49 bp):
TTTTCTTTTACTCCTCTAGCAAATATCCCTTTCTTGTTTTCTGACATTG
Found at i:57893195 original size:17 final size:18
Alignment explanation
Indices: 57893173--57893207 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
57893163 TTTTAGGCCT
57893173 TGTGGGCC-ACACGGGCA
1 TGTGGGCCTACACGGGCA
*
57893190 TGTGGGCCTACATGGGCA
1 TGTGGGCCTACACGGGCA
57893208 AATGACATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.26, G:0.40, T:0.17
Consensus pattern (18 bp):
TGTGGGCCTACACGGGCA
Found at i:57897763 original size:51 final size:51
Alignment explanation
Indices: 57897686--57897884 Score: 337
Period size: 51 Copynumber: 3.9 Consensus size: 51
57897676 CGGATATAGG
* *
57897686 GTGGCCTTCACATAGTTCCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
57897737 GTGGCCTTCACCTAGTACCACACTTGTGTCCAAAGCTATTTTATTCGCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
57897788 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
57897839 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
57897885 CTAAGGTTCA
Statistics
Matches: 139, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
50 1 0.01
51 138 0.99
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:57897956 original size:24 final size:24
Alignment explanation
Indices: 57897927--57897990 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
57897917 ACAATGCCTT
*
57897927 GACTTATTTCACTTTGATACCATG
1 GACTTATTTCACTTAGATACCATG
*
57897951 GACTTATTTCACTTAGATGCCATG
1 GACTTATTTCACTTAGATACCATG
*
57897975 GTCTTATTTCACTTAG
1 GACTTATTTCACTTAG
57897991 CACAATTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (24 bp):
GACTTATTTCACTTAGATACCATG
Found at i:57910143 original size:22 final size:22
Alignment explanation
Indices: 57910085--57910146 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
57910075 AATCTTTCAA
* *
57910085 GGTGGTGTAAGGGTAGTGGTAT
1 GGTGGTGCAAGGGTGGTGGTAT
*
57910107 GGTGGTGCTAGGGTGGTGGTAT
1 GGTGGTGCAAGGGTGGTGGTAT
* *
57910129 GGTGGTTCAATGGTGGTG
1 GGTGGTGCAAGGGTGGTG
57910147 ATTTAATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.13, C:0.03, G:0.52, T:0.32
Consensus pattern (22 bp):
GGTGGTGCAAGGGTGGTGGTAT
Found at i:57912461 original size:25 final size:25
Alignment explanation
Indices: 57912433--57912480 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57912423 TTATACCATG
* * *
57912433 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
57912458 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
57912481 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:57912549 original size:20 final size:20
Alignment explanation
Indices: 57912524--57912582 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
57912514 TAAATATGGT
57912524 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
57912544 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
57912564 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
57912583 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:57912564 original size:11 final size:11
Alignment explanation
Indices: 57912528--57912582 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
57912518 TATGGTATGT
57912528 ATGATATGCAC
1 ATGATATGCAC
* *
57912539 ATGAAATG--T
1 ATGATATGCAC
57912548 ATGATATGCAC
1 ATGATATGCAC
*
57912559 ATGATATG--T
1 ATGATATGCAC
57912568 ATGATATGCAC
1 ATGATATGCAC
57912579 ATGA
1 ATGA
57912583 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:57912660 original size:24 final size:24
Alignment explanation
Indices: 57912633--57912751 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
57912623 GAGGAAGTGA
*
57912633 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
57912657 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
57912680 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
57912704 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57912728 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57912752 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:57912702 original size:47 final size:48
Alignment explanation
Indices: 57912633--57912751 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
57912623 GAGGAAGTGA
57912633 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
57912680 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
57912728 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57912752 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:57912976 original size:31 final size:31
Alignment explanation
Indices: 57912941--57913035 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
57912931 CGTTTACAGT
57912941 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57912972 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
57913003 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57913034 AA
1 AA
57913036 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:57914323 original size:31 final size:31
Alignment explanation
Indices: 57914254--57914401 Score: 165
Period size: 31 Copynumber: 4.8 Consensus size: 31
57914244 TCAATCTCAG
* *
57914254 CATAT-ACTAGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
* * *
57914284 CATGTCACTGAGCCAAAGCTCTTT-CATTGTT
1 CATATCACTGGGCCAAAGC-CTTTACATTATT
57914315 CATATCACTGGGCCAAAGCCTTTACATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
* * * * *
57914346 CATGTCACTGGGCCAAAGCTTTTTCATTGTC
1 CATATCACTGGGCCAAAGCCTTTACATTATT
* *
57914377 CATATCACTAGGCCGAAGCCTTTAC
1 CATATCACTGGGCCAAAGCCTTTAC
57914402 TGTAAATGAC
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
30 8 0.08
31 85 0.88
32 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTACATTATT
Found at i:57914339 original size:62 final size:62
Alignment explanation
Indices: 57914254--57914401 Score: 244
Period size: 62 Copynumber: 2.4 Consensus size: 62
57914244 TCAATCTCAG
*
57914254 CATAT-ACTAGGCCGAAGCCTTTACATTATTCATGTCACTGAGCCAAAGCTCTTTCATTGTT
1 CATATCACTAGGCCGAAGCCTTTACATTATTCATGTCACTGAGCCAAAGCTCTTTCATTGTC
* * * *
57914315 CATATCACTGGGCCAAAGCCTTTACATTATTCATGTCACTGGGCCAAAGCTTTTTCATTGTC
1 CATATCACTAGGCCGAAGCCTTTACATTATTCATGTCACTGAGCCAAAGCTCTTTCATTGTC
57914377 CATATCACTAGGCCGAAGCCTTTAC
1 CATATCACTAGGCCGAAGCCTTTAC
57914402 TGTAAATGAC
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
61 5 0.06
62 74 0.94
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (62 bp):
CATATCACTAGGCCGAAGCCTTTACATTATTCATGTCACTGAGCCAAAGCTCTTTCATTGTC
Found at i:57914655 original size:25 final size:25
Alignment explanation
Indices: 57914622--57914687 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
57914612 TTTTAATAAC
57914622 GGGGCAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
*
57914647 GGGGAAAAGCCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTTGATAAACT
*
57914672 GGCGCAAAGCCCTTTT
1 GGGGCAAAGCCCTTTT
57914688 GCACTTCCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTTGATAAACT
Found at i:57917069 original size:3 final size:3
Alignment explanation
Indices: 57917063--57917101 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
57917053 TACTACTACA
57917063 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57917102 TTCATAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57919067 original size:46 final size:46
Alignment explanation
Indices: 57919017--57919192 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
57919007 TGGTTGAGCA
57919017 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57919063 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57919108 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57919156 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57919193 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 59 0.53
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:57919173 original size:93 final size:93
Alignment explanation
Indices: 57919014--57919185 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
57919004 GGATGGTTGA
* *
57919014 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
57919079 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
57919107 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
57919171 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
57919186 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 4 0.05
93 72 0.95
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57921987 original size:31 final size:31
Alignment explanation
Indices: 57921945--57922027 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
57921935 CAATCTCAGT
57921945 ATAT-ACTGGGCCGAAGCCTTTCCATTATTC
1 ATATCACTGGGCCGAAGCCTTTCCATTATTC
* * * *
57921975 ATGTCACTGGGCCAAAGCCTTTTCATTGTTC
1 ATATCACTGGGCCGAAGCCTTTCCATTATTC
*
57922006 ATATCACTAGGCCGAAGCCTTT
1 ATATCACTGGGCCGAAGCCTTT
57922028 ACTGTAAATG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 3 0.07
31 42 0.93
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTCCATTATTC
Found at i:57922272 original size:24 final size:25
Alignment explanation
Indices: 57922240--57922291 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
57922230 GCCTAGCCTC
57922240 TTTTAAT-AACTGGGGCAAAACCCT
1 TTTTAATAAACTGGGGCAAAACCCT
*
57922264 TTTTGATAAACTGGGGCAAAACCCT
1 TTTTAATAAACTGGGGCAAAACCCT
57922289 TTT
1 TTT
57922292 ACACTTCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAACCCT
Found at i:57924698 original size:3 final size:3
Alignment explanation
Indices: 57924690--57924726 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
57924680 ATTTAATTAC
57924690 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
57924727 TTCATAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:57926839 original size:31 final size:31
Alignment explanation
Indices: 57926799--57926884 Score: 122
Period size: 31 Copynumber: 2.8 Consensus size: 31
57926789 TCAATCTCAG
*
57926799 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCTGAAGCCTTTACATTATT
* *
57926829 CATGTCACTGGGCTGAAGCCCTTT-CATTGTT
1 CATATCACTGGGCTGAAG-CCTTTACATTATT
57926860 CATATCACTGGGCTGAAGCCTTTAC
1 CATATCACTGGGCTGAAGCCTTTAC
57926885 TGTAAATGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.18
31 35 0.71
32 5 0.10
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCTGAAGCCTTTACATTATT
Found at i:57927122 original size:24 final size:25
Alignment explanation
Indices: 57927095--57927146 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
57927085 GCCTAGCCTC
57927095 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
57927119 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
57927144 TTT
1 TTT
57927147 GCACTTCCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:57927147 original size:24 final size:23
Alignment explanation
Indices: 57927075--57927147 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 23
57927065 GCTTTATCAT
** *
57927075 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTG
57927100 ATAACTGGGGCAAAGCCCTTTTTG
1 ATAACTGGGGCAAAGCCC-TTTTG
57927124 ATAAACTGGGGCAAAGCCCTTTTG
1 AT-AACTGGGGCAAAGCCCTTTTG
57927148 CACTTCCTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.02
24 18 0.42
25 24 0.56
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTG
Found at i:57933605 original size:42 final size:42
Alignment explanation
Indices: 57933541--57933623 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
57933531 CTTACATGTC
**
57933541 ATTCAGTATCGATGCCTCTGTCCCA-AACAGGGTCTTACACGA
1 ATTCAGTATCGATGCCGATGTCCCAGAA-AGGGTCTTACACGA
*
57933583 ATTCAG-ATACGATGCCGATGTCCCAGAAATGGTCTTACACG
1 ATTCAGTAT-CGATGCCGATGTCCCAGAAAGGGTCTTACACG
57933624 TAAATCTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 2 0.06
42 32 0.89
43 2 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (42 bp):
ATTCAGTATCGATGCCGATGTCCCAGAAAGGGTCTTACACGA
Found at i:57942120 original size:40 final size:40
Alignment explanation
Indices: 57942056--57942223 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
57942046 CCTTTGGGAT
* **
57942056 TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAACAACTCGCACAATTGCCTTCGGGTC
* *** *
57942095 TTAACCCGGATTTGGTAACTTGCACAATTGCCTTCGGGTC
1 TTAACCCGGATATAACAACTCGCACAATTGCCTTCGGGTC
*
57942135 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
1 TTAACCCGGATATAACAACTCGCAC-AATTGCCTTCGGGTC
** * * * * *
57942175 TTAGGCCGGACATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAACCCGGATATAA-CAACTCGCACAATTGCCTTCGGGTC
*
57942215 TTAGCCCGG
1 TTAACCCGG
57942224 GTAACATTCA
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAACCCGGATATAACAACTCGCACAATTGCCTTCGGGTC
Found at i:57949216 original size:29 final size:28
Alignment explanation
Indices: 57949182--57949284 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
57949172 TAATCGATCA
*
57949182 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
57949211 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
57949240 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
57949269 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
57949285 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:57957130 original size:29 final size:28
Alignment explanation
Indices: 57957096--57957198 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
57957086 TAATCGATCA
*
57957096 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
57957125 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
57957154 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
57957183 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
57957199 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:57961319 original size:28 final size:27
Alignment explanation
Indices: 57961251--57961321 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
57961241 TATAGTGAGT
*
57961251 CCGCACACTTAGTGCTATATAATCAAC
1 CCGCACACTTAGTGCTACATAATCAAC
*
57961278 CCGCACACTTAGTGCTACATGATCAAAC
1 CCGCACACTTAGTGCTACATAATC-AAC
*
57961306 TCGCACACTTAGTGCT
1 CCGCACACTTAGTGCT
57961322 GTACGAGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (27 bp):
CCGCACACTTAGTGCTACATAATCAAC
Found at i:57970882 original size:40 final size:40
Alignment explanation
Indices: 57970837--57971043 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
57970827 CGGAATATAA
* *
57970837 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-TCGCACAAATGCCTTCGGGCCTTAGC
* *
57970877 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
* *
57970917 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
** * * * *
57970957 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
** * * *
57970997 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATAACTC-GCACAAATGCCTTCGGGCCTTAGC
57971036 CCGGATAT
1 CCGGATAT
57971044 CATTCAATTT
Statistics
Matches: 146, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 14 0.10
40 132 0.90
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATAACTCGCACAAATGCCTTCGGGCCTTAGC
Found at i:57971892 original size:17 final size:19
Alignment explanation
Indices: 57971869--57971914 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
57971859 AAGAAGCATG
57971869 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
57971887 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
57971905 AATCATGCTC
1 AATCATGCTC
57971915 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:57978501 original size:17 final size:18
Alignment explanation
Indices: 57978481--57978514 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57978471 AAGAAAGTAC
57978481 TAAAAATTCAA-TTTTAT
1 TAAAAATTCAACTTTTAT
*
57978498 TAAAATTTCAACTTTTA
1 TAAAAATTCAACTTTTA
57978515 AGACTTTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAAAATTCAACTTTTAT
Found at i:57979184 original size:20 final size:20
Alignment explanation
Indices: 57979155--57979192 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57979145 ATATTATCAT
*
57979155 TTCCAAATTTACTCATTCAC
1 TTCCAAATTTACACATTCAC
*
57979175 TTCCAGATTTACACATTC
1 TTCCAAATTTACACATTC
57979193 CCTTAAGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.39
Consensus pattern (20 bp):
TTCCAAATTTACACATTCAC
Found at i:58008136 original size:34 final size:34
Alignment explanation
Indices: 58008093--58008170 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 34
58008083 AAAATAATAA
* *
58008093 ATAATTTAATCATATTTTTATATTATTATTAAAT
1 ATAATTTAATCATATCTTAATATTATTATTAAAT
58008127 ATAATTTAATCATATCTTAATATTATTATTAAAT
1 ATAATTTAATCATATCTTAATATTATTATTAAAT
58008161 ATAATTTAAT
1 ATAATTTAAT
58008171 AATTTATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (34 bp):
ATAATTTAATCATATCTTAATATTATTATTAAAT
Found at i:58008186 original size:25 final size:26
Alignment explanation
Indices: 58008144--58008192 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
58008134 AATCATATCT
* *
58008144 TAATATTATTATTAAATATAATTTAA
1 TAATATTATAATTAAATAAAATTTAA
*
58008170 TAAT-TTATAATTGAATAAAATTT
1 TAATATTATAATTAAATAAAATTT
58008193 TTAACATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TAATATTATAATTAAATAAAATTTAA
Found at i:58013760 original size:24 final size:23
Alignment explanation
Indices: 58013724--58013768 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
58013714 CTCTTTCGAG
58013724 AGGAGGAAGAAGAGAGAATGAAAA
1 AGGAGGAAGAAGAGA-AATGAAAA
58013748 AGGAGAGAA-AAGAGAAATGAA
1 AGGAG-GAAGAAGAGAAATGAA
58013769 TGGGATAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 11 0.55
25 3 0.15
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.04
Consensus pattern (23 bp):
AGGAGGAAGAAGAGAAATGAAAA
Found at i:58013761 original size:22 final size:22
Alignment explanation
Indices: 58013727--58013768 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
58013717 TTTCGAGAGG
*
58013727 AGGAAGAAGAGAG-AATGAAAA
1 AGGAAGAAAAGAGAAATGAAAA
58013748 AGGAGAGAAAAGAGAAATGAA
1 AGGA-AGAAAAGAGAAATGAA
58013769 TGGGATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (22 bp):
AGGAAGAAAAGAGAAATGAAAA
Found at i:58016703 original size:11 final size:12
Alignment explanation
Indices: 58016676--58016701 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58016666 GAGCTGTAGT
58016676 AAACTAAATTAA
1 AAACTAAATTAA
58016688 AAACTAAATTAA
1 AAACTAAATTAA
58016700 AA
1 AA
58016702 CTTAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAACTAAATTAA
Found at i:58018264 original size:2 final size:2
Alignment explanation
Indices: 58018257--58018292 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
58018247 CTATGGTTGT
58018257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58018293 CTGTGTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58020611 original size:30 final size:29
Alignment explanation
Indices: 58020563--58020640 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 29
58020553 GTCATTAGGG
* *
58020563 TTTATTAGGCACTATGTACCAGTGATTATA
1 TTTATCAGGCACTATGTACCAGTG-CTATA
* * * *
58020593 TTTATCAGGTACTTTGTACCGGTGCTGTA
1 TTTATCAGGCACTATGTACCAGTGCTATA
*
58020622 TTTATCAGGCAATATGTAC
1 TTTATCAGGCACTATGTAC
58020641 TGGTGATAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (29 bp):
TTTATCAGGCACTATGTACCAGTGCTATA
Found at i:58020639 original size:29 final size:30
Alignment explanation
Indices: 58020563--58020646 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
58020553 GTCATTAGGG
* * *
58020563 TTTATTAGGCACTATGTACCAGTGATTATA
1 TTTATCAGGCACTATGTACCGGTGACTATA
* * *
58020593 TTTATCAGGTACTTTGTACCGGTG-CTGTA
1 TTTATCAGGCACTATGTACCGGTGACTATA
* *
58020622 TTTATCAGGCAATATGTACTGGTGA
1 TTTATCAGGCACTATGTACCGGTGA
58020647 TAGATACCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 23 0.53
30 20 0.47
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (30 bp):
TTTATCAGGCACTATGTACCGGTGACTATA
Found at i:58022921 original size:24 final size:24
Alignment explanation
Indices: 58022857--58022950 Score: 84
Period size: 24 Copynumber: 3.9 Consensus size: 24
58022847 TAGTGCTCCA
* * *
58022857 TGAACTTCCCGATATTGGCTATTCG
1 TGAACTTCCCGATA-TGGTTCTTTG
58022882 -G-ACTTCCCGATATGGTTCTTTG
1 TGAACTTCCCGATATGGTTCTTTG
* *
58022904 TGAACTTCCTGATGTGGTTCTTTG
1 TGAACTTCCCGATATGGTTCTTTG
* * *
58022928 TGAACATCTCGAATATGGCTCTT
1 TGAACTTCCCG-ATATGGTTCTT
58022951 ATGAGCTACC
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
22 7 0.12
23 12 0.21
24 28 0.50
25 9 0.16
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (24 bp):
TGAACTTCCCGATATGGTTCTTTG
Found at i:58038501 original size:43 final size:43
Alignment explanation
Indices: 58038454--58038540 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
58038444 ATTTGTGATT
**
58038454 TCGATATGTGTTTACAAGTAACACC-CTGTCTGGGACAG-TGGCA
1 TCGATATGTGGCTACAAGTAACACCAC-GTCTGGGAC-GTTGGCA
* *
58038497 TCGATATGTGGCTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGGCTACAAGTAACACCACGTCTGGGACGTTGGCA
58038540 T
1 T
58038541 TGTACGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 36 0.95
44 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (43 bp):
TCGATATGTGGCTACAAGTAACACCACGTCTGGGACGTTGGCA
Found at i:58047977 original size:2 final size:2
Alignment explanation
Indices: 58047970--58047998 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58047960 TGTATGGGAT
58047970 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58047999 GAGAATGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58053310 original size:17 final size:18
Alignment explanation
Indices: 58053284--58053317 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58053274 TTTTTGTTTA
58053284 AATAAATTAAT-AGCATT
1 AATAAATTAATAAGCATT
*
58053301 AATAATTTAATAAGCAT
1 AATAAATTAATAAGCAT
58053318 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AATAAATTAATAAGCATT
Found at i:58061357 original size:25 final size:25
Alignment explanation
Indices: 58061295--58061357 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
58061285 TACTCTAGAT
*
58061295 AGCCATATATCAGGAAGTTCAAATG
1 AGCCATATATCGGGAAGTTCAAATG
**
58061320 AGCC--ATATCGGGAAGCTTCGGA-G
1 AGCCATATATCGGGAAG-TTCAAATG
58061343 AGCCATATATCGGGA
1 AGCCATATATCGGGA
58061358 CACTCATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 15 0.47
24 4 0.12
25 13 0.41
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
AGCCATATATCGGGAAGTTCAAATG
Found at i:58069254 original size:27 final size:27
Alignment explanation
Indices: 58069224--58069285 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
58069214 CAATTTGTAA
*
58069224 AATTACCAAAGTACCATCGATTTACAG
1 AATTACCAAAGTACCATCAATTTACAG
*** *
58069251 AATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAAGTACCATCAATTTACAG
58069278 AATTACCA
1 AATTACCA
58069286 TTTTATCCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCATCAATTTACAG
Found at i:58069286 original size:27 final size:27
Alignment explanation
Indices: 58069235--58069471 Score: 314
Period size: 27 Copynumber: 8.8 Consensus size: 27
58069225 ATTACCAAAG
* *
58069235 TACCATCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
58069262 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
58069289 TATCCTCGATTTA-TAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
58069315 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
58069342 CACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
58069369 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
58069396 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
58069423 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
58069450 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
58069472 TGAAATACCC
Statistics
Matches: 185, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.12
27 163 0.88
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:58069428 original size:81 final size:81
Alignment explanation
Indices: 58069210--58069499 Score: 350
Period size: 81 Copynumber: 3.6 Consensus size: 81
58069200 TACTGAAATG
* * * * * * * *
58069210 CCCTCAATTTGTAAAATTACCAAAGTACCATCGATTTACAGAATTACCATTTTACCCTCAATTTA
1 CCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
*
58069275 CAGAATTACCATTTTA
66 CAGAATTACCGTTTTA
* * * * * *
58069291 TCCTCGATTTAT-AAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTCACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
*
58069355 CAAAATTACCGTTTTA
66 CAGAATTACCGTTTTA
* *
58069371 CCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
58069436 CAGAATTACCGTTTTA
66 CAGAATTACCGTTTTA
* * * * *
58069452 CCCTCGATTTACAAAATTACTGA-AATACCCTTGGTTTACAAAATTACC
1 CCCTCGATTTATAAAATTAC-CATATTACCCTCGATTTACAAAATTACC
58069500 AAAATACCCT
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 68 0.38
81 112 0.62
82 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (81 bp):
CCCTCGATTTATAAAATTACCATATTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
CAGAATTACCGTTTTA
Found at i:58069480 original size:27 final size:27
Alignment explanation
Indices: 58069235--58069513 Score: 264
Period size: 27 Copynumber: 10.4 Consensus size: 27
58069225 ATTACCAAAG
* *
58069235 TACCATCGATTTACAGAATTACC-ATTT
1 TACCCTCGATTTACAAAATTACCGA-TT
* *
58069262 TACCCTCAATTTACAGAATTACC-ATTT
1 TACCCTCGATTTACAAAATTACCGA-TT
* *
58069289 TATCCTCGATTTA-TAAATTACC-ATTT
1 TACCCTCGATTTACAAAATTACCGA-TT
* * *
58069315 TACCCTCAATTTATAGAATTACCG-TT
1 TACCCTCGATTTACAAAATTACCGATT
*
58069341 TCACCCTCGATTTACAAAATTACCGTTT
1 T-ACCCTCGATTTACAAAATTACCGATT
*
58069369 TACCCTCGATTTATAAAATTACC-ATTT
1 TACCCTCGATTTACAAAATTACCGA-TT
* *
58069396 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* *
58069423 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* **
58069450 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACCGATT
* * * **
58069477 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCGATT
58069504 TACCCTCGAT
1 TACCCTCGAT
58069514 CAGTAAAATT
Statistics
Matches: 215, Mismatches: 31, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 25 0.12
27 187 0.87
28 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGATT
Found at i:58069481 original size:54 final size:54
Alignment explanation
Indices: 58069235--58069500 Score: 304
Period size: 54 Copynumber: 4.9 Consensus size: 54
58069225 ATTACCAAAG
* * *
58069235 TACCATCGATTTACAGAATTACC-ATTTTACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGA-TTTACCCTCGATTTACAGAATTACCATTT
* * * * *
58069289 TATCCTCGATTTA-TAAATTACC-ATTTTACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGA-TTTACCCTCGATTTACAGAATTACCATTT
* * * *
58069342 CACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTACAGAATTACCATTT
* * *
58069396 TACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTACAGAATTACCATTT
* ** * * *
58069450 TACCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCA
1 TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTACAGAATTACCA
58069501 AAATACCCTC
Statistics
Matches: 183, Mismatches: 27, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
53 47 0.26
54 136 0.74
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGATTTACCCTCGATTTACAGAATTACCATTT
Found at i:58069508 original size:54 final size:54
Alignment explanation
Indices: 58069343--58069669 Score: 205
Period size: 54 Copynumber: 6.1 Consensus size: 54
58069333 TTACCGTTTC
*** * * ***
58069343 ACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTT
1 ACCCTCGATTTACAAAATTACCGAAATACCCTTGGTTTATAAAATTACCAAAAT
* *** * * * * ****
58069397 ACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTT
1 ACCCTCGATTTACAAAATTACCGAAATACCCTTGGTTTATAAAATTACCAAAAT
* *
58069451 ACCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAAT
1 ACCCTCGATTTACAAAATTACCGAAATACCCTTGGTTTATAAAATTACCAAAAT
* * * * * *
58069505 ACCCTCGA-TCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAAT
1 ACCCTCGATTTA-CAAAATTACCGAAATACCCTTGGTTTATAAAATTACCAAAAT
* ** * *
58069559 ACCC-CTGGTTTGTAAAATTACCAAAATACCAC-TGG-CTAGTAAAATTACCAAAAT
1 ACCCTC-GATTTACAAAATTACCGAAATACC-CTTGGTTTA-TAAAATTACCAAAAT
* *** * * * * *
58069613 ACCCTTGATTTGTGAAATTATCGAAATACTCTTGATTTGTAAAA-TATCAAAAT
1 ACCCTCGATTTACAAAATTACCGAAATACCCTTGGTTTATAAAATTACCAAAAT
58069666 ACCC
1 ACCC
58069670 CTGTAGGGTA
Statistics
Matches: 225, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
53 17 0.08
54 205 0.91
55 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (54 bp):
ACCCTCGATTTACAAAATTACCGAAATACCCTTGGTTTATAAAATTACCAAAAT
Found at i:58069521 original size:27 final size:28
Alignment explanation
Indices: 58069464--58069669 Score: 169
Period size: 27 Copynumber: 7.6 Consensus size: 28
58069454 CTCGATTTAC
** *
58069464 AAAATTACTGAAATACCCT-TGGTTTA-C
1 AAAATTACCAAAATACCCTCTGG-TTAGT
* *
58069491 AAAATTACCAAAATACCCTC-GATCAGT
1 AAAATTACCAAAATACCCTCTGGTTAGT
*
58069518 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTCTGGTTAGT
* *
58069545 AAAATTACTAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTCTGGTTAGT
* *
58069572 AAAATTACCAAAATA-CCACTGGCTAGT
1 AAAATTACCAAAATACCCTCTGGTTAGT
* *
58069599 AAAATTACCAAAATACCCT-TGATTTGT
1 AAAATTACCAAAATACCCTCTGGTTAGT
* * * * * *
58069626 GAAATTATCGAAATACTCT-TGATTTGT
1 AAAATTACCAAAATACCCTCTGGTTAGT
*
58069653 AAAA-TATCAAAATACCC
1 AAAATTACCAAAATACCC
58069670 CTGTAGGGTA
Statistics
Matches: 151, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.11
27 133 0.88
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.30
Consensus pattern (28 bp):
AAAATTACCAAAATACCCTCTGGTTAGT
Found at i:58069524 original size:81 final size:80
Alignment explanation
Indices: 58069356--58069607 Score: 238
Period size: 81 Copynumber: 3.1 Consensus size: 80
58069346 CTCGATTTAC
* *** * **
58069356 AAAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAAAATTACCGT
1 AAAATTACCGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
** *
58069421 TTTACCCTCGAT-TT
66 AATACCCTCGATAGT
* *
58069435 ACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACC
1 A-A-AATTACCGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACC
58069500 AAAATACCCTCGATCAGT
64 AAAATACCCTCGAT-AGT
**** * * * **
58069518 AAAATTACCAAAATACCC-CTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAATTACCA
1 AAAATTACCGTTTTACCCTC-GATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
* *
58069582 AAATACCACTGGCTAGT
65 AAATACC-CTCGATAGT
58069599 AAAATTACC
1 AAAATTACC
58069608 AAAATACCCT
Statistics
Matches: 142, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
79 1 0.01
80 2 0.01
81 132 0.93
82 5 0.04
83 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.33
Consensus pattern (80 bp):
AAAATTACCGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAA
AATACCCTCGATAGT
Found at i:58069608 original size:81 final size:78
Alignment explanation
Indices: 58069464--58069725 Score: 260
Period size: 81 Copynumber: 3.2 Consensus size: 78
58069454 CTCGATTTAC
**
58069464 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCT-G-T-AGTAAAATTACCAA
*
58069529 AATACCCCTGGTTTGT
63 AATACCCCTGATTTGT
* *
58069545 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTGGCTAGTAAAATTACCAA
1 AAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACC-CT-G-TAGTAAAATTACCAA
*
58069610 AATACCCTTGATTTGT
63 AATACCCCTGATTTGT
* * * * * *
58069626 GAAATTA-TCGAAATACTCTTGATTTGTAAAA-TATCAAAATACCCCTGTAGGGTAGAATTACCG
1 AAAATTACT-GAAATACCCTTGGTTTGTAAAATTACCAAAATA-CCCTGTA--GTAAAATTACCA
**
58069689 AAATACCCCT-ATAGGGT
62 AAATACCCCTGAT-TTGT
*
58069706 AGAATTACTGAAATAACCCT
1 AAAATTACTGAAAT-ACCCT
58069726 GTAGGGTAAA
Statistics
Matches: 151, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.01
79 3 0.02
80 43 0.28
81 99 0.66
82 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (78 bp):
AAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTGTAGTAAAATTACCAAAAT
ACCCCTGATTTGT
Found at i:58069703 original size:27 final size:27
Alignment explanation
Indices: 58069662--58069873 Score: 277
Period size: 27 Copynumber: 8.0 Consensus size: 27
58069652 TAAAATATCA
58069662 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
58069689 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
58069716 AAATAACCCTGTAGGGTAAAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
58069743 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
58069770 AAATACCCCTGTAGGGCAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
58069797 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
58069824 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
58069851 AGATA-CCCT-T-GGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
58069874 ATTTTCCCCT
Statistics
Matches: 161, Mismatches: 24, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
24 11 0.07
25 1 0.01
26 4 0.02
27 145 0.90
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:58069773 original size:81 final size:80
Alignment explanation
Indices: 58069651--58069858 Score: 310
Period size: 81 Copynumber: 2.6 Consensus size: 80
58069641 CTCTTGATTT
* * *
58069651 GTAAAATATCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTG
1 GTAAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGCAGAATTACCG
58069716 AAATAACCC-TGTAGG
66 AAAT-ACCCTTGTAGG
* * *
58069731 GTAAAATTATCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGCAGAATTACC
1 GTAAAA-TATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGCAGAATTACC
58069796 GAAATACCCTTGTAGG
65 GAAATACCCTTGTAGG
* *
58069812 GTAGAAATATCGAAATACCCCTGTAGGGTAGAATTATCGAGATACCC
1 GTA-AAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCC
58069859 TTGGGTAAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
80 10 0.09
81 102 0.89
82 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (80 bp):
GTAAAATATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGCAGAATTACCG
AAATACCCTTGTAGG
Found at i:58070148 original size:24 final size:25
Alignment explanation
Indices: 58070077--58070143 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
58070067 AGGAAGTGCT
* *
58070077 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
58070102 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
58070127 AAAAGGGTTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
58070144 ATTATTAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:58070153 original size:24 final size:25
Alignment explanation
Indices: 58070077--58070153 Score: 93
Period size: 25 Copynumber: 3.1 Consensus size: 25
58070067 AGGAAGTGCT
* * *
58070077 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGATTATCA
*
58070102 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGATTATCA
* *
58070127 AAAAGGGTTTTGCCCCA-ATTATTA
1 AAAAGGGCTTTGCCCCAGATTATCA
58070151 AAA
1 AAA
58070154 GAGGCTAGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 8 0.17
25 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGATTATCA
Found at i:58072095 original size:40 final size:40
Alignment explanation
Indices: 58072003--58072153 Score: 212
Period size: 40 Copynumber: 3.8 Consensus size: 40
58071993 CGAATGGTAT
* * *
58072003 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
58072044 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
58072084 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
58072124 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
58072154 ATCACTATGA
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 74 0.74
41 26 0.26
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:58072168 original size:40 final size:40
Alignment explanation
Indices: 58072003--58072177 Score: 199
Period size: 40 Copynumber: 4.3 Consensus size: 40
58071993 CGAATGGTAT
* * *
58072003 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAAAA
* * *
58072044 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAAA
* * *
58072084 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAAA
* * * **
58072124 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAAA
58072164 CCGGGC-AATGTCCC
1 CCGGGCTAA-GTCCC
58072178 AAAGACAATC
Statistics
Matches: 116, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
39 2 0.02
40 87 0.75
41 27 0.23
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAAA
Found at i:58075820 original size:27 final size:27
Alignment explanation
Indices: 58075801--58076092 Score: 413
Period size: 27 Copynumber: 10.8 Consensus size: 27
58075791 ATTACCAAAA
* *
58075801 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
58075828 TACGCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
58075855 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
58075882 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
58075909 CACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
58075936 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * * *
58075963 CACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
58075990 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
58076017 TACCCTCGATTTATAGAATCACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
58076044 TACCCTCGATTTACAGAATTACCCTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
58076071 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTATAGAATTAC
58076093 TGAAATACCC
Statistics
Matches: 240, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 240 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:58076101 original size:27 final size:27
Alignment explanation
Indices: 58075762--58076290 Score: 216
Period size: 27 Copynumber: 19.7 Consensus size: 27
58075752 TTAGTTTACC
* * * * *
58075762 AAATTACTGAAATGCCCTCAAATTGTA
1 AAATTACCGAAATACCCTCGATTTATA
* *
58075789 AAATTACCAAAATACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* *** * *
58075816 GAATTACCGTTTTACGCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* **
58075843 GAATTACC-ATTTTACCCTCGATTTATA
1 AAATTACCGA-AATACCCTCGATTTATA
* ** *
58075870 GAATTACC-ATTTTACCCTTGATTTATA
1 AAATTACCGA-AATACCCTCGATTTATA
* **
58075897 GAATTACCG-TTTCACCCTCGATTTATA
1 AAATTACCGAAAT-ACCCTCGATTTATA
* ***
58075924 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* ** *
58075951 GAATTACCG-TTTCACCCTCGATTTACA
1 AAATTACCGAAAT-ACCCTCGATTTATA
* ***
58075978 AAATTATCGTTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* **
58076005 GAATTACC-ATTTTACCCTCGATTTATA
1 AAATTACCGA-AATACCCTCGATTTATA
* * *** *
58076032 GAATCACCGTTTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* ****
58076059 GAATTACCCTTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* * * *
58076086 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* **
58076113 AAATTACCAAAATA-CCTCGATCAATA
1 AAATTACCGAAATACCCTCGATTTATA
* * *
58076139 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GATTTATA
* ** * * *
58076166 AAATTGCTAAAATTCCC-CAGGTTTGTA
1 AAATTACCGAAATACCCTC-GATTTATA
* * * *
58076193 AAATTACCAAAATACCC-CTAGCTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
* * *
58076220 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCGAAATACCCTC-GATTTATA
* * *
58076247 AAATTATCGAAATACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTATA
*
58076274 AAA-TATCGAAATACCCT
1 AAATTACCGAAATACCCT
58076291 TGTATGGTAG
Statistics
Matches: 420, Mismatches: 69, Indels: 27
0.81 0.13 0.05
Matches are distributed among these distances:
26 41 0.10
27 371 0.88
28 8 0.02
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTATA
Found at i:58076103 original size:81 final size:81
Alignment explanation
Indices: 58075801--58076092 Score: 467
Period size: 81 Copynumber: 3.6 Consensus size: 81
58075791 ATTACCAAAA
* *
58075801 TACCCTCGATTTACAGAATTACCGTTTTACGCTCGATTTACAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
58075866 TATAGAATTACCATTT
66 TATAGAATTACCGTTT
* * * *
58075882 TACCCTTGATTTATAGAATTACCGTTTCACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
58075947 TATAGAATTACCGTTT
66 TATAGAATTACCGTTT
* * *
58075963 CACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
58076028 TATAGAATCACCGTTT
66 TATAGAATTACCGTTT
* *
58076044 TACCCTCGATTTACAGAATTACCCTTTTACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTAC
58076093 TGAAATACCC
Statistics
Matches: 191, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 191 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TATAGAATTACCGTTT
Found at i:58076152 original size:53 final size:53
Alignment explanation
Indices: 58076074--58076235 Score: 180
Period size: 53 Copynumber: 3.0 Consensus size: 53
58076064 ACCCTTTTAC
** * **
58076074 CCTCGATTTATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA
1 CCTCGATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA
** * * *
58076127 CCTCGATCAATAAAATTACCAAAATACCCCTGGTTTGTAAAATTGCTAAAATT
1 CCTCGATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA
* * * * *
58076180 CCCCAGGTTTGTAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATA
1 CCTC-GATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA
58076234 CC
1 CC
58076236 CCTGATTTGT
Statistics
Matches: 88, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 46 0.52
54 42 0.48
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (53 bp):
CCTCGATTTATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATA
Found at i:58076272 original size:81 final size:80
Alignment explanation
Indices: 58076137--58076319 Score: 185
Period size: 81 Copynumber: 2.3 Consensus size: 80
58076127 CCTCGATCAA
* * * *
58076137 TAAAATTACCAAAATACCCCTGGTTTGTAAAATTGCTAAAATTCCCCAGGTTTGTAAAATTACCA
1 TAAAATTACCAAAATACCCCTGATTTGTAAAATTGCGAAAACTCCCCAGATTTGTAAAA-TACCA
58076202 AAATACCCCTAGCT-T-G
65 AAATA-CCCTAG-TATGG
* * * *
58076218 TAAAATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATACT-CTC-GATTTGTAAAATATC
1 TAAAATTACCAAAATACCCCTGATTTGTAAAATT-GCGAAA-ACTCCCCAGATTTGTAAAATACC
* *
58076281 GAAATACCCTTGTATGG
64 AAAATACCCTAGTATGG
* *
58076298 TAGAATTATCAAAATACCCCTG
1 TAAAATTACCAAAATACCCCTG
58076320 TAAGTTAGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 6 0.07
80 29 0.34
81 42 0.49
82 6 0.07
83 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCCTGATTTGTAAAATTGCGAAAACTCCCCAGATTTGTAAAATACCAA
AATACCCTAGTATGG
Found at i:58076315 original size:27 final size:27
Alignment explanation
Indices: 58076280--58076493 Score: 245
Period size: 27 Copynumber: 8.0 Consensus size: 27
58076270 TGTAAAATAT
* * *
58076280 CGAAATACCCTTGTATGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
58076307 CAAAATACCCCTGTAAGTTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
58076334 TGAAATAACCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
58076361 CGAAATACCCCTAAAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
58076388 TGAAATACCCCTGTAGGGCAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
58076415 CAAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
58076442 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
58076469 CGAGATA-CCCT-T-GGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
58076493 C
1 C
58076494 ATTTTGCCCC
Statistics
Matches: 159, Mismatches: 28, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
24 12 0.08
25 1 0.01
26 4 0.03
27 142 0.89
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:58078045 original size:71 final size:71
Alignment explanation
Indices: 58077929--58078092 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
58077919 CGATTTGTCT
*
58077929 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGTTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
58077994 CTTTCA
66 CTTTCA
58078000 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
58078065 CTTTCA
66 CTTTCA
58078071 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
58078093 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:58078130 original size:71 final size:70
Alignment explanation
Indices: 58077929--58078126 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
58077919 CGATTTGTCT
* * * * *
58077929 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGTTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
58077994 CTTTCA
65 CTTTCA
* * * *
58078000 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
58078065 CTTTCA
65 CTTTCA
* *
58078071 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
58078127 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:58083998 original size:28 final size:27
Alignment explanation
Indices: 58083935--58084004 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58083925 ATAGTGAGTC
58083935 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58083962 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58083990 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58084005 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58087279 original size:46 final size:48
Alignment explanation
Indices: 58087162--58087291 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 48
58087152 CATCTATCGG
* * * *
58087162 TGTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGA
1 TGTCGATG-CATGTCCCAGACATGTCTTACACTAGCTTCTACATCTTAA
* *
58087211 -GGCTGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTTAA
1 TGTC-GATGCATGTCCCAGACATGTCTTACACTAGCTTCTACATCTTAA
58087257 TGTCGATGCATGTCCCAGACATGTCTTACACTAGC
1 TGTCGATGCATGTCCCAGACATGTCTTACACTAGC
58087292 ACACATATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
46 36 0.50
47 4 0.06
48 28 0.39
49 4 0.06
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (48 bp):
TGTCGATGCATGTCCCAGACATGTCTTACACTAGCTTCTACATCTTAA
Found at i:58089046 original size:29 final size:30
Alignment explanation
Indices: 58088978--58089052 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
58088968 CTCTATTTTT
*
58088978 AATATGCACTTCGATG-TCATCCTGTTCTA
1 AATATGCACTTCGGTGCTCATCCTGTTCTA
*
58089007 AATATGTACTTCGGTGCT-ATCCTGTTCT-
1 AATATGCACTTCGGTGCTCATCCTGTTCTA
* *
58089035 ATTATTGCACTTTGGTGC
1 AATA-TGCACTTCGGTGC
58089053 ATTACTGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 3 0.08
29 35 0.90
30 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.41
Consensus pattern (30 bp):
AATATGCACTTCGGTGCTCATCCTGTTCTA
Found at i:58089672 original size:21 final size:21
Alignment explanation
Indices: 58089648--58089718 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
58089638 TGTTTTCATA
58089648 TAATTTGAGTATTATAATGAT
1 TAATTTGAGTATTATAATGAT
* * *
58089669 TAATTGATTGCAAGTGTTTTCAT-A-
1 TAA-T--TTG--AGTATTATAATGAT
58089693 TAATTTGAGTATTATAATGAT
1 TAATTTGAGTATTATAATGAT
58089714 TAATT
1 TAATT
58089719 GACGTGAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 8 0.22
20 1 0.03
21 11 0.30
22 1 0.03
23 1 0.03
24 6 0.16
25 1 0.03
26 8 0.22
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (21 bp):
TAATTTGAGTATTATAATGAT
Found at i:58089694 original size:45 final size:45
Alignment explanation
Indices: 58089630--58089720 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
58089620 TACATAAGTT
58089630 ATTGCAAGTGTTTTCATATAATTTGAGTATTATAATGATTAATTG
1 ATTGCAAGTGTTTTCATATAATTTGAGTATTATAATGATTAATTG
58089675 ATTGCAAGTGTTTTCATATAATTTGAGTATTATAATGATTAATTG
1 ATTGCAAGTGTTTTCATATAATTTGAGTATTATAATGATTAATTG
58089720 A
1 A
58089721 CGTGAAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.46
Consensus pattern (45 bp):
ATTGCAAGTGTTTTCATATAATTTGAGTATTATAATGATTAATTG
Found at i:58092325 original size:29 final size:29
Alignment explanation
Indices: 58092283--58092378 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
58092273 GAAAGCATGT
58092283 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
58092312 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
58092341 ATATGAAAGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
58092369 ATATGCATGT
1 ATATGAATGT
58092379 ATGTAGACTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 22 0.36
29 39 0.64
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:58096797 original size:27 final size:28
Alignment explanation
Indices: 58096740--58096809 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58096730 AAATTTGTAC
**
58096740 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
58096768 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
58096795 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58096810 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:58096818 original size:27 final size:27
Alignment explanation
Indices: 58096740--58096821 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
58096730 AAATTTGTAC
* *
58096740 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
58096768 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
58096795 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
58096822 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:58104874 original size:27 final size:28
Alignment explanation
Indices: 58104817--58104886 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58104807 AAATTTGTAC
**
58104817 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
58104845 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
58104872 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58104887 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Done.