Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 180 of 433
Found at i:56499959 original size:40 final size:40
Alignment explanation
Indices: 56499914--56500079 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
56499904 CGGAATATAA
56499914 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56499954 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56499994 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56500034 CCGGATATAATTC-C-AGCA-TAATGTCTTCGGGGCTTAGC
1 CCGGATATAA-TCACTAGCACAAATGCCTTCGGGTCTTAGC
56500072 CCGGATAT
1 CCGGATAT
56500080 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
38 23 0.22
39 5 0.05
40 77 0.73
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56502489 original size:14 final size:14
Alignment explanation
Indices: 56502472--56502509 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
56502462 TTCTTCGTTC
56502472 CCTTCTCTTTCTTT
1 CCTTCTCTTTCTTT
56502486 CCTTCTCTTTTCTTT
1 CCTTCTC-TTTCTTT
56502501 -CTT-TCTTTC
1 CCTTCTCTTTC
56502510 CTCTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.17
13 2 0.09
14 10 0.43
15 7 0.30
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (14 bp):
CCTTCTCTTTCTTT
Found at i:56502497 original size:15 final size:15
Alignment explanation
Indices: 56502457--56502506 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
56502447 CTTGCTCTCT
*
56502457 TTCTCTTCTTCGTTCCC
1 TTCTCTT-TTC-TTTCC
56502474 TTCTC-TTTCTTTCC
1 TTCTCTTTTCTTTCC
*
56502488 TTCTCTTTTCTTTCT
1 TTCTCTTTTCTTTCC
56502503 TTCT
1 TTCT
56502507 TTCCTCTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 9 0.30
15 15 0.50
16 1 0.03
17 5 0.17
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (15 bp):
TTCTCTTTTCTTTCC
Found at i:56502501 original size:19 final size:20
Alignment explanation
Indices: 56502445--56502520 Score: 72
Period size: 19 Copynumber: 3.9 Consensus size: 20
56502435 CTAGCCTCTC
56502445 TCCTTGCTCTCTTTCTCTTC-T
1 TCCTT-CTCTCTTTCT-TTCTT
*
56502466 TCGTTC-C-CTTCTCTTTCTT
1 TCCTTCTCTCTT-TCTTTCTT
56502485 TCCTTCTCT-TTTCTTTCTT
1 TCCTTCTCTCTTTCTTTCTT
*
56502504 TCTTTC-CTCTTTCTTTC
1 TCCTTCTCTCTTTCTTTC
56502521 ACTTTCTCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.17
19 31 0.66
20 4 0.09
21 4 0.09
ACGTcount: A:0.00, C:0.36, G:0.03, T:0.62
Consensus pattern (20 bp):
TCCTTCTCTCTTTCTTTCTT
Found at i:56505569 original size:40 final size:40
Alignment explanation
Indices: 56505514--56505721 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
56505504 TGAATGATAC
* *
56505514 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56505554 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56505594 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
56505634 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56505674 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56505714 CC-GGCTAA
1 CCGGGCTAA
56505722 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56513661 original size:40 final size:40
Alignment explanation
Indices: 56513606--56513813 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
56513596 TGAATGATAC
* *
56513606 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56513646 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56513686 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
56513726 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56513766 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56513806 CC-GGCTAA
1 CCGGGCTAA
56513814 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56516558 original size:40 final size:40
Alignment explanation
Indices: 56516450--56516659 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
56516440 CGGGATTTAA
* * * * *
56516450 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56516490 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56516530 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56516570 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56516610 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56516650 CCGGATATAT
1 CCGGATATAT
56516660 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56524691 original size:40 final size:40
Alignment explanation
Indices: 56524583--56524792 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
56524573 CGGGATTTAA
* * * * *
56524583 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
56524623 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56524663 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56524703 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56524743 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
56524783 CCGGATATAT
1 CCGGATATAT
56524793 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:56534293 original size:12 final size:12
Alignment explanation
Indices: 56534276--56534300 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56534266 TGGACAAAAA
56534276 TTGGCTTTTAAT
1 TTGGCTTTTAAT
56534288 TTGGCTTTTAAT
1 TTGGCTTTTAAT
56534300 T
1 T
56534301 CATTTAATAA
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):
TTGGCTTTTAAT
Found at i:56536152 original size:30 final size:30
Alignment explanation
Indices: 56536076--56536374 Score: 229
Period size: 30 Copynumber: 10.1 Consensus size: 30
56536066 TAAAATTACA
*
56536076 ATGGTTGTCACCATCCCTTTTCATAGTTT-G
1 ATGGTCGTCACCATCCCTTTTCATA-TTTCG
* * *
56536106 ATAG-C-TGAAGCTATCCCTTTTCATATTTCG
1 ATGGTCGT-CA-CCATCCCTTTTCATATTTCG
*
56536136 ATGGTCATCACCATCCCTTTTCAT-TGTT-G
1 ATGGTCGTCACCATCCCTTTTCATAT-TTCG
* *
56536165 ATGGTTGTCACCATCCCTTTTCATAATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTTCG
* * * **
56536195 ATAGCCG-AAGTTATCCCTTTTCATATTTCG
1 ATGGTCGTCA-CCATCCCTTTTCATATTTCG
* **
56536225 ATGGTCGTCACCATCCTTTTTCATGGTT-G
1 ATGGTCGTCACCATCCCTTTTCATATTTCG
* * *
56536254 ATGGTTGTCACCATCCCATTTCATAATTCG
1 ATGGTCGTCACCATCCCTTTTCATATTTCG
* *** * * *
56536284 ATAG-CCAAAGCTATCCCTTTCCATAGTTCG
1 ATGGTCGTCA-CCATCCCTTTTCATATTTCG
* * *
56536314 ATGGTCGTCACTATCCTTTTTCATAGTT-G
1 ATGGTCGTCACCATCCCTTTTCATATTTCG
56536343 ATGGTCGTCACCATCCCTTTTCATATTTCG
1 ATGGTCGTCACCATCCCTTTTCATATTTCG
56536373 AT
1 AT
56536375 AGCCGAAGCT
Statistics
Matches: 207, Mismatches: 48, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
28 1 0.00
29 82 0.40
30 118 0.57
31 5 0.02
32 1 0.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (30 bp):
ATGGTCGTCACCATCCCTTTTCATATTTCG
Found at i:56536227 original size:89 final size:89
Alignment explanation
Indices: 56536076--56536396 Score: 507
Period size: 89 Copynumber: 3.6 Consensus size: 89
56536066 TAAAATTACA
* * *
56536076 ATGGTTGTCACCATCCCTTTTCATAGTTTGATAGCTGAAGCTATCCCTTTTCATATTTCGATGGT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
* * *
56536141 CATCACCATCCCTTTTCATTGTTG
66 CGTCACCATCCTTTTTCATAGTTG
*
56536165 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGTTATCCCTTTTCATATTTCGATGGT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
*
56536230 CGTCACCATCCTTTTTCATGGTTG
66 CGTCACCATCCTTTTTCATAGTTG
* * * *
56536254 ATGGTTGTCACCATCCCATTTCATAATTCGATAGCCAAAGCTATCCCTTTCCATAGTTCGATGGT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
*
56536319 CGTCACTATCCTTTTTCATAGTTG
66 CGTCACCATCCTTTTTCATAGTTG
* *
56536343 ATGGTCGTCACCATCCCTTTTCATATTTCGATAGCCGAAGCTATCCCTTTTCAT
1 ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCAT
56536397 TGGTTGATGA
Statistics
Matches: 213, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 213 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (89 bp):
ATGGTTGTCACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGT
CGTCACCATCCTTTTTCATAGTTG
Found at i:56536642 original size:21 final size:22
Alignment explanation
Indices: 56536604--56536647 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
56536594 ATAAATACAA
* *
56536604 TCAATTTAAACAATATTC-TAT
1 TCAATTCAAACAAAATTCATAT
*
56536625 TCAATTCAATCAAAATTCATAT
1 TCAATTCAAACAAAATTCATAT
56536647 T
1 T
56536648 TTTGTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (22 bp):
TCAATTCAAACAAAATTCATAT
Found at i:56540466 original size:30 final size:30
Alignment explanation
Indices: 56540428--56540621 Score: 112
Period size: 30 Copynumber: 6.5 Consensus size: 30
56540418 ATGGTTGTCA
*
56540428 CCATCCCTTTTCATAATTTAATAGCCGAAG
1 CCATCCCTTTTCATAATTTGATAGCCGAAG
* * * * *
56540458 CTATCCCTTTTCAT-ATTTCAATGGTCGTCA-
1 CCATCCCTTTTCATAATTT-GATAGCCG-AAG
* * * *
56540488 CCATCCCTTTTCATTA-TTGATGGTC-ATTG
1 CCATCCCTTTTCATAATTTGATAGCCGA-AG
* * *
56540517 CCGTCCCTTTTCATAATTCGATAGCAGAAG
1 CCATCCCTTTTCATAATTTGATAGCCGAAG
* * * * *
56540547 CTATCCTTTTTCAT-ATTTCGATGGTCGTCA-
1 CCATCCCTTTTCATAATTT-GATAGCCG-AAG
* *
56540577 CCATCCCTTTTCATAATTCGATAGCTGAAG
1 CCATCCCTTTTCATAATTTGATAGCCGAAG
*
56540607 CTATCCCTTTTCATA
1 CCATCCCTTTTCATA
56540622 GTTCGGTTGT
Statistics
Matches: 122, Mismatches: 31, Indels: 22
0.70 0.18 0.13
Matches are distributed among these distances:
29 28 0.23
30 87 0.71
31 7 0.06
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (30 bp):
CCATCCCTTTTCATAATTTGATAGCCGAAG
Found at i:56540916 original size:21 final size:19
Alignment explanation
Indices: 56540870--56540917 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
56540860 CTAAATGAAT
*
56540870 AAATTCAATCAATTTAATC
1 AAATTCAATCAATTCAATC
*
56540889 AATATTCTATTCAATTCAATCC
1 AA-ATTC-AATCAATTCAAT-C
56540911 AAATTCA
1 AAATTCA
56540918 CTTTTTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 14 0.58
22 3 0.12
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTCAATCAATTCAATC
Found at i:56544862 original size:17 final size:17
Alignment explanation
Indices: 56544836--56544873 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
56544826 AAGTGAGGTT
56544836 AATT-TAGTAATTAATA
1 AATTATAGTAATTAATA
56544852 AATTATAGTAATTAATA
1 AATTATAGTAATTAATA
56544869 AATTA
1 AATTA
56544874 ACTTTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
AATTATAGTAATTAATA
Found at i:56548964 original size:44 final size:41
Alignment explanation
Indices: 56548901--56549057 Score: 194
Period size: 44 Copynumber: 3.7 Consensus size: 41
56548891 TATGTGTTTT
56548901 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGATTTAC
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGA-TTAC
*
56548945 GTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGATT-C
1 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTAC
56548986 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCG--ATTTGATTAC
* *
56549029 ATGTAAGACCACGTCTGGGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGACGTTGGCAT
56549058 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 4, Indels: 15
0.84 0.03 0.12
Matches are distributed among these distances:
41 28 0.27
42 13 0.13
43 27 0.26
44 33 0.32
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTAC
Found at i:56549015 original size:85 final size:84
Alignment explanation
Indices: 56548901--56549057 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 84
56548891 TATGTGTTTT
* *
56548901 GTGTAAGACCACGTCTGGGACGTTGGCATCGACT-TATGATTTACGTGTAAGACCATGTCTGGGA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGA-TATATGA-TTACATGTAAGACCACGTCTGGGA
56548965 CGTTGGCATCGTATTTGATTC
64 CGTTGGCATCGTATTTGATTC
*
56548986 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACATGTAAGACCACGTCTGGGA
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATATGATTACATGTAAGACCACGTCTGGGA
*
56549049 TGTTGGCAT
64 CGTTGGCAT
56549058 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
84 32 0.49
85 32 0.49
86 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTACATGTAAGACCACGTCTGGGACG
TTGGCATCGTATTTGATTC
Found at i:56558574 original size:3 final size:3
Alignment explanation
Indices: 56558566--56558621 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
56558556 TCGTAATATA
56558566 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56558614 ATT -TT ATT
1 ATT ATT ATT
56558622 TTTAAAAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:56559365 original size:39 final size:39
Alignment explanation
Indices: 56559307--56559445 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
56559297 TTGTGATCTG
* *
56559307 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
*
56559346 AATCCCGAAGGCTAACTGAAGCACATAAGTGCTAAAC-A
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
* *
56559384 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1 -AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
56559424 AAGCCCGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
56559446 TCATCAGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 91 0.99
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACGA
Found at i:56566018 original size:46 final size:46
Alignment explanation
Indices: 56565968--56566058 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
56565958 GCTTACACTA
*
56565968 GCACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACGT
1 GCACTCGTCTCAATGCCGATACCATGTCCCAGACATGGTCTTACGT
56566014 GCACTCGTCTCAATGCCGATACCATGTCCCAGACATGGTCTTACG
1 GCACTCGTCTCAATGCCGATACCATGTCCCAGACATGGTCTTACG
56566059 CTGGCTCTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (46 bp):
GCACTCGTCTCAATGCCGATACCATGTCCCAGACATGGTCTTACGT
Found at i:56567942 original size:37 final size:38
Alignment explanation
Indices: 56567901--56567975 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
56567891 GCATAGTCCA
56567901 AATA-TTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
1 AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
56567938 AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
1 AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
56567976 GGCAAGTTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 4 0.11
38 33 0.89
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (38 bp):
AATATTTTTTTTCAATAAATTGTCAATCCTCCAAAAAT
Found at i:56568579 original size:22 final size:21
Alignment explanation
Indices: 56568529--56568582 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 21
56568519 TTTCAAAATA
56568529 TCAAGT-TTGACGTCGTGACG
1 TCAAGTCTTGACGTCGTGACG
**
56568549 TCACCTCTTGCACGTCGTGACG
1 TCAAGTCTTG-ACGTCGTGACG
56568571 TCAAGTCTTGAC
1 TCAAGTCTTGAC
56568583 CTCAGGCCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.14
21 5 0.18
22 19 0.68
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.30
Consensus pattern (21 bp):
TCAAGTCTTGACGTCGTGACG
Found at i:56570581 original size:29 final size:27
Alignment explanation
Indices: 56570547--56570649 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
56570537 TACTCAATCA
*
56570547 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
56570576 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
56570605 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
56570634 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56570650 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:56573055 original size:413 final size:410
Alignment explanation
Indices: 56572148--56573085 Score: 1035
Period size: 409 Copynumber: 2.3 Consensus size: 410
56572138 TTAGCAATTG
* * * * * * **
56572148 TAAAGTTAGGTTGAATTGAG-GGAGAATCCATGGCTTTTAGTTCAGTATTCTCCCAGATTGTGCC
1 TAAAGTTAGGTTGAATCGAGAGGAGAATCTATGGCTTTTAGTTTAATATTCTCACAAACAGTGCC
*** * * *
56572212 AATTGTTGATGTCTCTTTCACTGGGCTCGGAGATTGGTTGAGCTAAACTTTATAGCCAGAAAATC
66 AATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGAGCTAAACTTTATAGCCAGAAAATC
* * * * *
56572277 TACAAAGTGTACTAGTAATATGGGTAGTCATGGTTGATGGTAGATATGATTGTGAGAACTTGTAC
131 TACAAAGTGTACTAGCAATATAGATAGTCATGGTTGATGGTAGAGATGATTGTAAGAACTTGTAC
* ** * * * *
56572342 TCAATATTTGGTAATGATCATATGGCAACCAATTGTTGTTGGAAGTATGTTAGAAAAACATACAA
196 TCAATATTTGGTAATGATCATATGGAAACCAATTACTATTGAAAGTATGCTAAAAAAACATACAA
* ** * * *
56572407 ATTAGTTGGAGCTGATATTCTTGATGGGTTGGTCTTTCTGGACCTTGTCACCACGTAGGAAAATG
261 ATTAGTTGGAGCTGAGATTCTTGATAAGTTGGTCTTTCTGAAACTTGTAACCACGTAGGAAAATG
* * * * *
56572472 TTTGGGCTCAAACTCTCAATCAAAAGGTTAAGAGGAGCCATCGTAAGTGGTTGGGCTAACTCAAG
326 TTTGGGCTCAAACTCTCAATCAAAACGTCAAGAGGAGCCATCGTAAGTAGATGGGCTAACTAAAG
* * * * *
56572537 AACAGGGGCGTTAGCAATTG
391 AACAAGGGCGTCAACAACTA
* * * ** * *
56572557 TAAAGTTAGCTTGAATCAAG-GGAGAACCTATAACTTTTAGTTTAATATTCTCATAAACAGTACC
1 TAAAGTTAGGTTGAATCGAGAGGAGAATCTATGGCTTTTAGTTTAATATTCTCACAAACAGTGCC
* * *
56572621 ACTTGTTGATGTCTCTTTTGTTGGGCTTGAAGACTAGTTGAGCTACACTTTATAGCC-GAACAAT
66 AATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGAGCTAAACTTTATAGCCAGAA-AAT
* * *
56572685 CTGCAAAGTGTTCTAGCAATATAGATAGTCATGGTTGATGGTAGAGATGGTTGTTAAGAACTTGT
130 CTACAAAGTGTACTAGCAATATAGATAGTCATGGTTGATGGTAGAGATGATTG-TAAGAACTTGT
* * **
56572750 ATTCAAAATATTTTGGTAATGATCGTATGGAAACCGGTTACTATTGAAAGTAT-CTAAAAAAACA
194 ACTC--AATA-TTTGGTAATGATCATATGGAAACCAATTACTATTGAAAGTATGCTAAAAAAACA
*** * * * * *
56572814 TATTGATTGGTTGGAGCTGAGATTCTTGGTAAGTTGGT-TTTTTGAAACTTGTAACCATGTGGGA
256 TACAAATTAGTTGGAGCTGAGATTCTTGATAAGTTGGTCTTTCTGAAACTTGTAACCACGTAGGA
* * * * *
56572878 TAATGTTTGGGCT-AGTACTCTCTATCAAAACG-CAGGGAGGAGCTATCGTAAGTAGATGGGCTA
321 AAATGTTTGGGCTCA-AACTCTCAATCAAAACGTCA-AGAGGAGCCATCGTAAGTAGATGGGCTA
* * **
56572941 ATTAAAGAACAAGGGTGTCAATTACTA
384 ACTAAAGAACAAGGGCGTCAACAACTA
* *
56572968 TAAAGTTAGGTTAAATCGAGAGAGAGAATATATGGCTTTTAGTTTAATATTCTCACAAACAGTGC
1 TAAAGTTAGGTTGAATCGAGAG-GAGAATCTATGGCTTTTAGTTTAATATTCTCACAAACAGTGC
* *
56573033 CAATTGTTGATATCTCTTTTGTTGGGCTTGGATACTAGTTGAGCTAAACTTTA
65 CAATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGAGCTAAACTTTA
56573086 AGATACTATT
Statistics
Matches: 430, Mismatches: 90, Indels: 14
0.81 0.17 0.03
Matches are distributed among these distances:
408 3 0.01
409 146 0.34
410 15 0.03
411 104 0.24
412 44 0.10
413 118 0.27
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (410 bp):
TAAAGTTAGGTTGAATCGAGAGGAGAATCTATGGCTTTTAGTTTAATATTCTCACAAACAGTGCC
AATTGTTGATGTCTCTTTTGTTGGGCTTGGAGACTAGTTGAGCTAAACTTTATAGCCAGAAAATC
TACAAAGTGTACTAGCAATATAGATAGTCATGGTTGATGGTAGAGATGATTGTAAGAACTTGTAC
TCAATATTTGGTAATGATCATATGGAAACCAATTACTATTGAAAGTATGCTAAAAAAACATACAA
ATTAGTTGGAGCTGAGATTCTTGATAAGTTGGTCTTTCTGAAACTTGTAACCACGTAGGAAAATG
TTTGGGCTCAAACTCTCAATCAAAACGTCAAGAGGAGCCATCGTAAGTAGATGGGCTAACTAAAG
AACAAGGGCGTCAACAACTA
Found at i:56573987 original size:44 final size:44
Alignment explanation
Indices: 56573933--56574022 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
56573923 ATTTAAGTAA
* * * * *
56573933 AATAGAAGTTGTGATAATTATACATTTACAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
56573977 AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
1 AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
56574021 AA
1 AA
56574023 ATTCAAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTAAACATTAAAAAATAATTAGAATTT
Found at i:56574822 original size:5 final size:6
Alignment explanation
Indices: 56574809--56574867 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
56574799 ATAATTTAAT
* * *
56574809 AAATAA AAATAA AAATCTAA AACTAA AACTAA AACTAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
56574859 AAATAA AAA
1 AAATAA AAA
56574868 ACAAATAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
6 44 0.90
8 5 0.10
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:56574901 original size:9 final size:9
Alignment explanation
Indices: 56574887--56574928 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
56574877 TTTATACAAA
56574887 TAATTTAGT
1 TAATTTAGT
* *
56574896 TAATTTGGG
1 TAATTTAGT
*
56574905 TAATTAAGT
1 TAATTTAGT
56574914 TAATTTAGT
1 TAATTTAGT
56574923 TAATTT
1 TAATTT
56574929 TATACTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (9 bp):
TAATTTAGT
Found at i:56582269 original size:2 final size:2
Alignment explanation
Indices: 56582262--56582298 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
56582252 AACACAGCTT
56582262 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
56582299 GTAGAGAACC
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:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:56583415 original size:20 final size:22
Alignment explanation
Indices: 56583372--56583420 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
56583362 ATTTATATAA
*
56583372 ATATAATAATAAATATGTAGTT
1 ATATAATAATAAATATATAGTT
*
56583394 ATATAATAA-AAATATAT-TTT
1 ATATAATAATAAATATATAGTT
56583414 ATATAAT
1 ATATAAT
56583421 TTATTATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.36
21 7 0.28
22 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
ATATAATAATAAATATATAGTT
Found at i:56584188 original size:19 final size:19
Alignment explanation
Indices: 56584164--56584204 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
56584154 CATAATAATA
* *
56584164 TATATAAATATATTTTTAT
1 TATATAAATACATATTTAT
*
56584183 TATATAATTACATATTTAT
1 TATATAAATACATATTTAT
56584202 TAT
1 TAT
56584205 TTATTTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATAAATACATATTTAT
Found at i:56584229 original size:28 final size:26
Alignment explanation
Indices: 56584174--56584231 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
56584164 TATATAAATA
* * *
56584174 TATT-TTTATTATATAATTACATATT
1 TATTATTTATTATATAATAAAATAAT
56584199 TATTATTTATTTATATAAATAAAATAAT
1 TATTATTTA-TTATAT-AATAAAATAAT
56584227 TATTA
1 TATTA
56584232 ATTAAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 4 0.15
27 6 0.22
28 13 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TATTATTTATTATATAATAAAATAAT
Found at i:56584240 original size:95 final size:98
Alignment explanation
Indices: 56584042--56584241 Score: 300
Period size: 95 Copynumber: 2.1 Consensus size: 98
56584032 TTAAGAAAAT
*
56584042 AAAATATATTTAACATAACGATAAATATAAAAATATTTTTTATTATATAATTACATATTTATATG
1 AAAATATATTTAACATAACAATAAATATAAAAATATTTTTTATTATATAATTACATATTTATAT-
56584107 AATTTATTTATATAAATAAATAAGTTACTAATTA
65 AATTTATTTATATAAATAAATAAGTTACTAATTA
* * * *
56584141 AAAATATTTTTAACATAATAATATATATAAATATA-TTTTTATTATATAATTACATATTTAT-T-
1 AAAATATATTTAACATAACAATAAATATAAAAATATTTTTTATTATATAATTACATATTTATATA
*
56584203 ATTTATTTATATAAATAAAATAA-TTATTAATTA
66 ATTTATTTATATAAAT-AAATAAGTTACTAATTA
56584236 AAAATA
1 AAAATA
56584242 AATTAAAAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
95 31 0.33
96 6 0.06
97 1 0.01
98 26 0.28
99 30 0.32
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (98 bp):
AAAATATATTTAACATAACAATAAATATAAAAATATTTTTTATTATATAATTACATATTTATATA
ATTTATTTATATAAATAAATAAGTTACTAATTA
Found at i:56584310 original size:14 final size:13
Alignment explanation
Indices: 56584277--56584315 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
56584267 CAAAATGTTT
56584277 ATTAATTAAAAAC
1 ATTAATTAAAAAC
*
56584290 ATTAATTAAAAAT
1 ATTAATTAAAAAC
*
56584303 TTTAAATTAAAAA
1 ATT-AATTAAAAA
56584316 AACTTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:56587565 original size:23 final size:23
Alignment explanation
Indices: 56587535--56587583 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
56587525 GGTTGTGCCA
56587535 TGAGATTCATGCATGTTTTTGGT
1 TGAGATTCATGCATGTTTTTGGT
56587558 TGAGATTCATGCATGTTTTTGGT
1 TGAGATTCATGCATGTTTTTGGT
56587581 TGA
1 TGA
56587584 TGGCTTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.18, C:0.08, G:0.27, T:0.47
Consensus pattern (23 bp):
TGAGATTCATGCATGTTTTTGGT
Found at i:56588791 original size:79 final size:82
Alignment explanation
Indices: 56588651--56588835 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
56588641 TCGAATGATG
* * *
56588651 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
56588715 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
56588731 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
56588793 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
56588811 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56588836 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:56588843 original size:40 final size:40
Alignment explanation
Indices: 56588652--56588843 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
56588642 CGAATGATGT
* * * * *
56588652 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
56588692 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
56588732 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
56588771 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
56588811 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
56588844 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:56588866 original size:79 final size:79
Alignment explanation
Indices: 56588651--56588868 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
56588641 TCGAATGATG
* * * * ** *
56588651 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
56588714 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
56588731 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
56588796 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
56588811 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
56588869 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:56593214 original size:39 final size:39
Alignment explanation
Indices: 56593161--56593302 Score: 194
Period size: 39 Copynumber: 3.6 Consensus size: 39
56593151 AAACATATTC
* * * *
56593161 ACCTTTAAGCATATACCATATTACACATATAATCACATA
1 ACCTTTAAGCATATATCACAATACTCATATAATCACATA
* *
56593200 ACCTTTAAGGATATATCACAATACTCATATAATCGCATA
1 ACCTTTAAGCATATATCACAATACTCATATAATCACATA
* *
56593239 ACATTCAAGCATATATCACAATACTCATATAATCACATA
1 ACCTTTAAGCATATATCACAATACTCATATAATCACATA
* *
56593278 ACATTCAAGCATATATCACAATACT
1 ACCTTTAAGCATATATCACAATACT
56593303 AAAAAACATG
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.30
Consensus pattern (39 bp):
ACCTTTAAGCATATATCACAATACTCATATAATCACATA
Found at i:56597748 original size:48 final size:48
Alignment explanation
Indices: 56597705--56597938 Score: 236
Period size: 48 Copynumber: 4.9 Consensus size: 48
56597695 CTCATAAAGG
*
56597705 TGCCAATGCCATGTCCCAGACATGGTCTTATACGGGA-CATCATATCGA
1 TGCCAATGCCATATCCCAGACATGGTCTTATACGGGATC-TCATATCGA
* * * * *
56597753 TGCCAATGCCATATCTCAGATATGGTCTTACATGGGATCTCATATTGA
1 TGCCAATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGA
* * * * ** *
56597801 TGCCGATGCCATGTCCTAGACGTAATCTTATACGGGATCTCTTATCGA
1 TGCCAATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGA
* * * * *
56597849 TGCCGATGCCATATCCCAGATATGGTCTTACATGGGATCTCATCTCGA
1 TGCCAATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGA
* ** * * *
56597897 TGCCGATGCCATATCTTAGATATTGTCTTATACGAGATCTCA
1 TGCCAATGCCATATCCCAGACATGGTCTTATACGGGATCTCA
56597939 ATACTCACAA
Statistics
Matches: 151, Mismatches: 34, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
48 150 0.99
49 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (48 bp):
TGCCAATGCCATATCCCAGACATGGTCTTATACGGGATCTCATATCGA
Found at i:56597926 original size:96 final size:96
Alignment explanation
Indices: 56597705--56597938 Score: 308
Period size: 96 Copynumber: 2.4 Consensus size: 96
56597695 CTCATAAAGG
* * * * *
56597705 TGCCAATGCCATGTCCCAGACATGGTCTTATACGGGA-CATCATATCGATGCCAATGCCATATCT
1 TGCCGATGCCATATCCTAGACATAGTCTTATACGGGATC-TCATATCGATGCCAATGCCATATCC
*
56597769 CAGATATGGTCTTACATGGGATCTCATATTGA
65 CAGATATGGTCTTACATGGGATCTCATATCGA
* * * * *
56597801 TGCCGATGCCATGTCCTAGACGTAATCTTATACGGGATCTCTTATCGATGCCGATGCCATATCCC
1 TGCCGATGCCATATCCTAGACATAGTCTTATACGGGATCTCATATCGATGCCAATGCCATATCCC
*
56597866 AGATATGGTCTTACATGGGATCTCATCTCGA
66 AGATATGGTCTTACATGGGATCTCATATCGA
* * * *
56597897 TGCCGATGCCATATCTTAGATATTGTCTTATACGAGATCTCA
1 TGCCGATGCCATATCCTAGACATAGTCTTATACGGGATCTCA
56597939 ATACTCACAA
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
96 118 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (96 bp):
TGCCGATGCCATATCCTAGACATAGTCTTATACGGGATCTCATATCGATGCCAATGCCATATCCC
AGATATGGTCTTACATGGGATCTCATATCGA
Found at i:56602229 original size:40 final size:40
Alignment explanation
Indices: 56602174--56602341 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
56602164 TGAATGATAC
* *
56602174 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56602214 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
56602254 TCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56602294 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56602334 CC-GGCTAA
1 CCGGGCTAA
56602342 ATTCCGAAGA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 6 0.06
40 96 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56609755 original size:40 final size:40
Alignment explanation
Indices: 56609670--56609820 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
56609660 AATTGAATGA
* * *
56609670 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
56609710 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
56609751 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
56609790 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
56609821 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:56609834 original size:40 final size:40
Alignment explanation
Indices: 56609706--56609836 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
56609696 TATGCTGGAA
* * *
56609706 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
56609746 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
56609786 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
56609826 ATTATATCCGG
1 ATTATATCCGG
56609837 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:56611868 original size:78 final size:80
Alignment explanation
Indices: 56611685--56611905 Score: 272
Period size: 78 Copynumber: 2.8 Consensus size: 80
56611675 GCTACTCGTT
* * * *
56611685 CAAACGCCTTCGGGACATAGCCCGG-TCATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGAT-ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
56611749 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
56611765 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56611828 AATTAGTAACTCGCA
66 AATTAGTAACTCGCA
* ** * * *
56611843 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCGTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
56611906 AGACATCATT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
77 3 0.02
78 54 0.44
79 12 0.10
80 53 0.43
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:56611902 original size:40 final size:40
Alignment explanation
Indices: 56611666--56611905 Score: 269
Period size: 40 Copynumber: 6.0 Consensus size: 40
56611656 CGGAGTTTAA
** * *
56611666 CCGGATATAGCT-ACTCGTTCAAACGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
56611706 CCGG-TCATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGAT-ATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56611746 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56611786 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56611824 CCGGA-ATTAGTAACTCGCACGAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
56611864 CCGGATATAGTCACTTAGCACAAA-GCCGTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56611904 CC
1 CC
56611906 AGACATCATT
Statistics
Matches: 176, Mismatches: 15, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
38 34 0.19
39 4 0.02
40 126 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56612624 original size:2 final size:2
Alignment explanation
Indices: 56612617--56612646 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56612607 ATGTGCAAAC
56612617 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56612647 GCAAGAGCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56613988 original size:90 final size:90
Alignment explanation
Indices: 56613835--56614002 Score: 336
Period size: 90 Copynumber: 1.9 Consensus size: 90
56613825 ATTCGATGTG
56613835 TATACTTGTACATTCGTATCACATGCAACAAGTTTTTGGCGCCGTTGCCAGAGGTCGACAATTTG
1 TATACTTGTACATTCGTATCACATGCAACAAGTTTTTGGCGCCGTTGCCAGAGGTCGACAATTTG
56613900 GTGAAATTTAGTTGTGATTATCTAT
66 GTGAAATTTAGTTGTGATTATCTAT
56613925 TATACTTGTACATTCGTATCACATGCAACAAGTTTTTGGCGCCGTTGCCAGAGGTCGACAATTTG
1 TATACTTGTACATTCGTATCACATGCAACAAGTTTTTGGCGCCGTTGCCAGAGGTCGACAATTTG
56613990 GTGAAATTTAGTT
66 GTGAAATTTAGTT
56614003 TTATCTTACT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (90 bp):
TATACTTGTACATTCGTATCACATGCAACAAGTTTTTGGCGCCGTTGCCAGAGGTCGACAATTTG
GTGAAATTTAGTTGTGATTATCTAT
Found at i:56616892 original size:41 final size:41
Alignment explanation
Indices: 56616846--56616945 Score: 130
Period size: 41 Copynumber: 2.4 Consensus size: 41
56616836 TTAACGGGCT
*
56616846 TGCTCACATAAGCAGTCAGTCAAGACGT-AGCTACTCGGTGC
1 TGCTCACACAAGCAGTCAGTCAAGACGTGA-CTACTCGGTGC
* *
56616887 TGCTCACACAAGCTGTCAGTTAAGACGTGACTACTCGGTGC
1 TGCTCACACAAGCAGTCAGTCAAGACGTGACTACTCGGTGC
* * *
56616928 TACTCATACAAGCTGTCA
1 TGCTCACACAAGCAGTCA
56616946 AGTAATTGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
41 52 0.98
42 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
TGCTCACACAAGCAGTCAGTCAAGACGTGACTACTCGGTGC
Found at i:56620627 original size:50 final size:50
Alignment explanation
Indices: 56620568--56620669 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
56620558 ATTTAATGCC
56620568 TATGTTTATTTTCAAGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
1 TATGTTTATTTTCAAGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
* * *
56620618 TATGTTTATTTTTAGGAAGCTAGGAATTGGGAAGGTGAGACCCACAACAG
1 TATGTTTATTTTCAAGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
56620668 TA
1 TA
56620670 ATGCTGTAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.26
Consensus pattern (50 bp):
TATGTTTATTTTCAAGAAGCTAGGAATTGGGAAGGCGAGACCCACAACAG
Found at i:56627356 original size:40 final size:39
Alignment explanation
Indices: 56627297--56627504 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
56627287 CAGAATACAA
* *
56627297 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
56627337 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
56627377 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56627417 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
56627457 CTGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
56627497 CCGGATAT
1 CCGGATAT
56627505 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 138 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56634005 original size:40 final size:39
Alignment explanation
Indices: 56633960--56634167 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
56633950 CGGAATACAA
*
56633960 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56634000 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56634040 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56634080 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
56634120 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56634160 CCGGATAT
1 CCGGATAT
56634168 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56634100 original size:80 final size:80
Alignment explanation
Indices: 56633960--56634166 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
56633950 CGGAATACAA
* * *
56633960 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
56634025 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* ** * *
56634040 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACAAAT
*
56634104 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
56634120 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
56634167 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:56641959 original size:40 final size:39
Alignment explanation
Indices: 56641914--56642121 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
56641904 CGGAATACAA
*
56641914 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56641954 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56641994 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56642034 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
56642074 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56642114 CCGGATAT
1 CCGGATAT
56642122 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56642054 original size:80 final size:80
Alignment explanation
Indices: 56641914--56642120 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
56641904 CGGAATACAA
* * *
56641914 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
56641979 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* ** * *
56641994 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACAAAT
*
56642058 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
56642074 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
56642121 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:56652030 original size:14 final size:14
Alignment explanation
Indices: 56652011--56652039 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56652001 AGCCTGGCAA
56652011 CCACGTCACACGGG
1 CCACGTCACACGGG
56652025 CCACGTCACACGGG
1 CCACGTCACACGGG
56652039 C
1 C
56652040 GTGTCCCTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.45, G:0.28, T:0.07
Consensus pattern (14 bp):
CCACGTCACACGGG
Found at i:56659883 original size:24 final size:23
Alignment explanation
Indices: 56659856--56659920 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
56659846 CAGCTTGTAA
56659856 GAGCTTACTATTTTCAGCTCAT-T
1 GAGCTTACTA-TTTCAGCTCATAT
* *
56659879 GGAGCTTACCATTTCAGCTCGTAT
1 -GAGCTTACTATTTCAGCTCATAT
*
56659903 GAGCTTACT-GTTCAGCTC
1 GAGCTTACTATTTCAGCTC
56659921 GATAGGGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.22
23 18 0.50
24 10 0.28
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (23 bp):
GAGCTTACTATTTCAGCTCATAT
Found at i:56659906 original size:23 final size:24
Alignment explanation
Indices: 56659845--56659910 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 24
56659835 TACTGATATA
* * *
56659845 TCAGCTTGTAAGAGCTTACTATTT
1 TCAGCTCGTATGAGCTTACCATTT
*
56659869 TCAGCTCAT-TGGAGCTTACCA-TT
1 TCAGCTCGTAT-GAGCTTACCATTT
56659892 TCAGCTCGTATGAGCTTAC
1 TCAGCTCGTATGAGCTTAC
56659911 TGTTCAGCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (24 bp):
TCAGCTCGTATGAGCTTACCATTT
Found at i:56667310 original size:21 final size:21
Alignment explanation
Indices: 56667281--56667320 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56667271 CATACGGGTT
56667281 AATAAATAA-AAAAATAATAAA
1 AATAAATAATAAAAA-AATAAA
*
56667302 AATATATAATAAAAAAATA
1 AATAAATAATAAAAAAATA
56667321 GGCAATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
AATAAATAATAAAAAAATAAA
Found at i:56667312 original size:13 final size:11
Alignment explanation
Indices: 56667285--56667320 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
56667275 CGGGTTAATA
56667285 AATAAAAAAAT
1 AATAAAAAAAT
56667296 AATAAAAATATAT
1 AATAAAAA-A-AT
56667309 AATAAAAAAAT
1 AATAAAAAAAT
56667320 A
1 A
56667321 GGCAATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.48
12 2 0.09
13 10 0.43
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:56676870 original size:53 final size:55
Alignment explanation
Indices: 56676733--56676889 Score: 178
Period size: 55 Copynumber: 2.9 Consensus size: 55
56676723 GCATGGCATT
* * * * *
56676733 CTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGGCAAT-GTATTGATGAGTTA
1 CTATAAGGCAAGGATACCATGTAAGACCATGTCAAGAC-ATGGCATTGGTGAGTTA
* * *
56676788 CTATAAGGCAAAGG-TCCCATGTAAAACCATGCCAAGACATGGCATTGGTGAGTT-
1 CTATAAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTA
* *
56676842 C-ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGT
1 CTATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGT
56676890 ACGTTCAAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
52 4 0.05
53 37 0.43
54 3 0.03
55 38 0.44
56 4 0.05
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (55 bp):
CTATAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTA
Found at i:56676896 original size:53 final size:53
Alignment explanation
Indices: 56676781--56676889 Score: 139
Period size: 53 Copynumber: 2.0 Consensus size: 53
56676771 AATGTATTGA
* * *
56676781 TGAGTTACTATAAGGCAAAGGTCCCATGTAAAACCATGCCAAGACATGGCATTGG
1 TGAGTT-C-ATAAGGCAAAGGTACCACGTAAAACCATGCCAAGACATGGCAATGG
* *
56676836 TGAGTTCATAAGGC-AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGG
1 TGAGTTCATAAGGCAAAGG-TACCACGTAAAACCATGCCAAGACATGGCAATGG
56676889 T
1 T
56676890 ACGTTCAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 4 0.08
53 37 0.77
54 1 0.02
55 6 0.12
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (53 bp):
TGAGTTCATAAGGCAAAGGTACCACGTAAAACCATGCCAAGACATGGCAATGG
Found at i:56682543 original size:29 final size:29
Alignment explanation
Indices: 56682502--56682580 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
56682492 AATGAGATCG
* * *
56682502 CACACTTACTGCTTGATAGTTTTACTTCA
1 CACACTTAGTGCTCGATAATTTTACTTCA
*
56682531 CACACTTAGTGCTCGATAATTTTACTTCG
1 CACACTTAGTGCTCGATAATTTTACTTCA
56682560 CACACTTAGTGCTCGATAATT
1 CACACTTAGTGCTCGATAATT
56682581 CACATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (29 bp):
CACACTTAGTGCTCGATAATTTTACTTCA
Found at i:56689582 original size:66 final size:68
Alignment explanation
Indices: 56689504--56689653 Score: 234
Period size: 71 Copynumber: 2.2 Consensus size: 68
56689494 TAGTACCACT
*
56689504 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
56689566 CACG
65 CACG
56689570 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
56689635 ATCACG
63 ATCACG
56689641 CATGCGACCTAGC
1 CATGCGACCTAGC
56689654 TACTACAGGG
Statistics
Matches: 77, Mismatches: 1, Indels: 7
0.91 0.01 0.08
Matches are distributed among these distances:
66 13 0.17
67 6 0.08
68 1 0.01
69 1 0.01
71 56 0.73
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:56689689 original size:71 final size:71
Alignment explanation
Indices: 56689522--56689682 Score: 243
Period size: 71 Copynumber: 2.3 Consensus size: 71
56689512 CTAGCCGATT
56689522 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
** *
56689587 TTTATC
66 TACAGC
* *
56689593 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTAC-
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
*
56689657 TACAGGG
66 TACA-GC
*
56689664 TGTCTCGTAGCTTTCTTGT
1 TGTCTCGTAGCTCTCTTGT
56689683 ACACATGATG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
70 2 0.03
71 78 0.98
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.35
Consensus pattern (71 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TACAGC
Found at i:56697134 original size:71 final size:71
Alignment explanation
Indices: 56696985--56697143 Score: 216
Period size: 71 Copynumber: 2.3 Consensus size: 71
56696975 CTAGCCGATT
*
56696985 TGTCTCGTAGCTCTC-TG-CTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
** *
56697048 TTTATC
66 TACAGC
* *
56697054 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTAC-
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
*
56697118 TACAGGG
66 TACA-GC
*
56697125 TGTCTCGTAGCTTTCTTGT
1 TGTCTCGTAGCTCTCTTGT
56697144 ACACATGATG
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 13 0.17
70 4 0.05
71 60 0.78
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (71 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
TACAGC
Found at i:56706356 original size:39 final size:40
Alignment explanation
Indices: 56706298--56706398 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
56706288 AAATTGAATG
* *
56706298 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
56706337 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
56706377 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56706399 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56706391 original size:40 final size:40
Alignment explanation
Indices: 56706298--56706448 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
56706288 AAATTGAATG
* * * * *
56706298 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56706337 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56706377 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
56706417 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
56706449 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:56706463 original size:40 final size:38
Alignment explanation
Indices: 56706294--56706465 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
56706284 TGAGAAATTG
* *
56706294 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
56706333 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
56706370 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
56706410 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
56706450 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
56706466 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:56714385 original size:39 final size:40
Alignment explanation
Indices: 56714327--56714427 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
56714317 AAATTGAATG
* *
56714327 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
56714366 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
56714406 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56714428 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56714420 original size:40 final size:40
Alignment explanation
Indices: 56714327--56714477 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
56714317 AAATTGAATG
* * * * *
56714327 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56714366 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
56714406 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
56714446 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
56714478 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:56714492 original size:40 final size:38
Alignment explanation
Indices: 56714323--56714494 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
56714313 TGAGAAATTG
* *
56714323 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
56714362 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
56714399 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
56714439 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
56714479 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
56714495 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:56718755 original size:47 final size:47
Alignment explanation
Indices: 56718686--56718780 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
56718676 AGATAGTGTG
*
56718686 ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTTTGATAATCTGT
1 ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
56718733 ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
1 ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
56718780 A
1 A
56718781 AAGCAAAGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (47 bp):
ATAGATCTTCAACGAACTTCCAATCGATTAAGCTTCTGATAATCTGT
Found at i:56725727 original size:32 final size:31
Alignment explanation
Indices: 56725673--56725733 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
56725663 AACCTTAATG
**
56725673 TCATCCTTTACTTTGTTGTTTTTCATTCTTT
1 TCATCCTTTACTTTGTCATTTTTCATTCTTT
*
56725704 TCATTCTTGTACTTTGTCATTTTTCATTCT
1 TCATCCTT-TACTTTGTCATTTTTCATTCT
56725734 GTGCAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.11, C:0.20, G:0.07, T:0.62
Consensus pattern (31 bp):
TCATCCTTTACTTTGTCATTTTTCATTCTTT
Found at i:56732214 original size:37 final size:37
Alignment explanation
Indices: 56732164--56732236 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
56732154 AAATTAGCTC
56732164 ATTTAATACACAAATCATTCAATTCAACTTAAGACTT
1 ATTTAATACACAAATCATTCAATTCAACTTAAGACTT
56732201 ATTTAATACACAAATCATTCAATTCAACTTAAGACT
1 ATTTAATACACAAATCATTCAATTCAACTTAAGACT
56732237 CATACTTTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (37 bp):
ATTTAATACACAAATCATTCAATTCAACTTAAGACTT
Found at i:56734745 original size:50 final size:51
Alignment explanation
Indices: 56734680--56734913 Score: 256
Period size: 52 Copynumber: 4.6 Consensus size: 51
56734670 ATCGGGTATG
**
56734680 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACCATTTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATTTGAAACA
** * * *
56734730 TGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAACCATTTGAAACA
* * * * **
56734782 CATAGTAGCCTTCACATAGTACTACACATGCGACCT-AATCATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATTTGAAACA
* * * * *
56734832 CGTAGTAGCCTGCAGTTAGTACTACACACGGGACCTAAAACCATTTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AAACCATTTGAAACA
* *
56734884 CATAGTAGCCTGCACATAGTAATACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
56734914 TGTTCTCACA
Statistics
Matches: 146, Mismatches: 34, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
50 71 0.49
52 75 0.51
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACCATTTGAAACA
Found at i:56734816 original size:102 final size:102
Alignment explanation
Indices: 56734680--56734913 Score: 396
Period size: 102 Copynumber: 2.3 Consensus size: 102
56734670 ATCGGGTATG
* * *
56734680 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTTGGTACATGTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCTGCAC
*
56734745 TTAGTACTACACACGTGACCTAAAACCATTTTAAACA
66 TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
* * *
56734782 CATAGTAGCCTTCACATAGTACTACACATGCGACCTAATCATCTGGTACACGTAGTAGCCTGCAG
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCTGCAC
56734847 TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
66 TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
*
56734884 CATAGTAGCCTGCACATAGTAATACACATG
1 CATAGTAGCCTGCACATAGTACTACACATG
56734914 TGTTCTCACA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCTAACCATCTGGTACACGTAGTAGCCTGCAC
TTAGTACTACACACGGGACCTAAAACCATTTTAAACA
Found at i:56740374 original size:31 final size:31
Alignment explanation
Indices: 56740339--56740402 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
56740329 CCTTTTCATA
56740339 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
56740370 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
56740401 TT
1 TT
56740403 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:56740671 original size:23 final size:23
Alignment explanation
Indices: 56740617--56740735 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
56740607 CCTAGCCTCT
* *
56740617 TTTAATAACTGGGGAAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56740640 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
56740664 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56740687 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
56740710 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56740733 TTT
1 TTT
56740736 TGCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 71 0.77
24 21 0.23
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:56740817 original size:20 final size:20
Alignment explanation
Indices: 56740788--56740852 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
56740778 ATGAATACAC
*
56740788 CATGTACATATCATACATAT
1 CATGTGCATATCATACATAT
* *
56740808 CATGTGCATAGCATACATGT
1 CATGTGCATATCATACATAT
*
56740828 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
56740848 CATGT
1 CATGT
56740853 TTACTAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:56756739 original size:40 final size:40
Alignment explanation
Indices: 56756660--56756836 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
56756650 CGGATGATAA
* * * * *
56756660 CCGGACTAAGATCCGAAGGCATTCGTGCAAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
56756700 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
56756740 CCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
56756780 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
56756820 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
56756837 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 100 0.85
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:56756795 original size:80 final size:80
Alignment explanation
Indices: 56756660--56756836 Score: 252
Period size: 80 Copynumber: 2.2 Consensus size: 80
56756650 CGGATGATAA
* * *
56756660 CCGGACTAAGATCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGACTAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
56756725 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * *
56756740 CCGGACTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGACTAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
56756805 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
56756820 CCGG-CTAA-ATCCCGAAG
1 CCGGACTAAGA-CCCGAAG
56756837 ATACTTGGGT
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 11 0.12
80 74 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGACTAAGACCCGAAGGCATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:56757104 original size:22 final size:22
Alignment explanation
Indices: 56757064--56757105 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
56757054 GAATGTGCAT
*
56757064 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
56757086 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
56757106 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:56762501 original size:22 final size:23
Alignment explanation
Indices: 56762473--56762516 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
56762463 TAATAGGGAA
* *
56762473 TAAAATA-TAAATTTTATGTGGC
1 TAAAATACAAAATATTATGTGGC
56762495 TAAAATACAAAATATTATGTGG
1 TAAAATACAAAATATTATGTGG
56762517 TTGAAACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (23 bp):
TAAAATACAAAATATTATGTGGC
Found at i:56763998 original size:27 final size:27
Alignment explanation
Indices: 56763941--56764051 Score: 96
Period size: 27 Copynumber: 4.1 Consensus size: 27
56763931 TGTCCCATAG
* * * ***
56763941 ACACCTATATTACAGAATGTCCTGTGG
1 ACACCTATATTGCAGAAGGTCTTGCAA
*
56763968 ACACCTATATTGCGGAAGGTCTTGCAA
1 ACACCTATATTGCAGAAGGTCTTGCAA
* * *
56763995 ACACCTATGTTGCAGAATGTCTTGCAG
1 ACACCTATATTGCAGAAGGTCTTGCAA
* ** *
56764022 ACACTTATATTGCAGACTGTCCTGCAA
1 ACACCTATATTGCAGAAGGTCTTGCAA
56764049 ACA
1 ACA
56764052 TATAACCATG
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (27 bp):
ACACCTATATTGCAGAAGGTCTTGCAA
Found at i:56764048 original size:54 final size:54
Alignment explanation
Indices: 56763941--56764051 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 54
56763931 TGTCCCATAG
** * *
56763941 ACACCTATATTACAGAATGTCCTGTGGACACCTATATTGCGGAAGGTCTTGCAA
1 ACACCTATATTACAGAATGTCCTGCAGACACCTATATTGCAGAAGGTCCTGCAA
* * * * **
56763995 ACACCTATGTTGCAGAATGTCTTGCAGACACTTATATTGCAGACTGTCCTGCAA
1 ACACCTATATTACAGAATGTCCTGCAGACACCTATATTGCAGAAGGTCCTGCAA
56764049 ACA
1 ACA
56764052 TATAACCATG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (54 bp):
ACACCTATATTACAGAATGTCCTGCAGACACCTATATTGCAGAAGGTCCTGCAA
Found at i:56765332 original size:69 final size:69
Alignment explanation
Indices: 56765220--56765359 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
56765210 ATATATAACA
56765220 TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
1 TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
56765285 ATTC
66 ATTC
* *
56765289 TAACTTAATTTAATTTTCATCAACCAACATCATTCATCGGCTTATTATGCACATAAGTTAGTTCA
1 TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
56765354 ATTC
66 ATTC
56765358 TA
1 TA
56765360 TCACTCGCAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (69 bp):
TAACTTAATTTAATTTTCATCAACCAACATCATTCATCAGCTTATTATGAACATAAGTTAGTTCA
ATTC
Found at i:56767167 original size:15 final size:16
Alignment explanation
Indices: 56767147--56767182 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
56767137 GAGGTGTTGC
*
56767147 TGATTT-GTGAGTTTG
1 TGATTTGGTGAGATTG
56767162 TGATTTGGTGAGATTG
1 TGATTTGGTGAGATTG
56767178 TGATT
1 TGATT
56767183 AGGCAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (16 bp):
TGATTTGGTGAGATTG
Found at i:56767464 original size:2 final size:2
Alignment explanation
Indices: 56767457--56767489 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
56767447 GTTTTCAATT
56767457 TA TA 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 TA TA T
56767490 TACAATTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56772366 original size:23 final size:23
Alignment explanation
Indices: 56772336--56772404 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
56772326 AGCGAAGATA
56772336 TCCTAAGTTGTGAGACTTAGACC
1 TCCTAAGTTGTGAGACTTAGACC
*
56772359 TCCTAAGTTGTAAGACTTAGA-C
1 TCCTAAGTTGTGAGACTTAGACC
*
56772381 TGCCTAAGTTGCGAGACTTAGACC
1 T-CCTAAGTTGTGAGACTTAGACC
56772405 GAATAAGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
22 2 0.05
23 38 0.93
24 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
TCCTAAGTTGTGAGACTTAGACC
Found at i:56777261 original size:29 final size:29
Alignment explanation
Indices: 56777229--56777301 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
56777219 CTTCGAGCTC
*
56777229 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
56777258 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
56777287 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
56777302 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:56785404 original size:29 final size:29
Alignment explanation
Indices: 56785372--56785444 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
56785362 CTTCGAGCTC
*
56785372 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
56785401 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
56785430 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
56785445 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:56820546 original size:22 final size:22
Alignment explanation
Indices: 56820521--56820564 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
56820511 CAATTTATTT
56820521 GTCAATTTAAGCTCAAGAGCAA
1 GTCAATTTAAGCTCAAGAGCAA
56820543 GTCAATTTAAGCTCAAGAGCAA
1 GTCAATTTAAGCTCAAGAGCAA
56820565 AGGGGAACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (22 bp):
GTCAATTTAAGCTCAAGAGCAA
Found at i:56821022 original size:40 final size:40
Alignment explanation
Indices: 56820840--56821043 Score: 175
Period size: 40 Copynumber: 5.1 Consensus size: 40
56820830 CGAATGATAT
* * *
56820840 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAG-TGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTG-CTATAA
* * * *
56820881 CCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGTTACTA-ATC
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTATA-A
** *
56820921 CCGGGCTAAG-CCCGAAGGCATGGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
* *
56820959 TCCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
* ** * *
56821000 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
56821040 CCGG
1 CCGG
56821044 TTAAACTCCG
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
39 32 0.24
40 75 0.56
41 27 0.20
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
Found at i:56824101 original size:20 final size:22
Alignment explanation
Indices: 56824078--56824132 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
56824068 TCAATGCTTG
56824078 CAAACATAT-ACC-AGCCAATT
1 CAAACATATAACCAAGCCAATT
56824098 CAAACATTATAACCAAGCCAATT
1 CAAACA-TATAACCAAGCCAATT
*
56824121 CAAACATCTAAC
1 CAAACATATAAC
56824133 ATGATATATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 6 0.19
21 3 0.10
22 8 0.26
23 14 0.45
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (22 bp):
CAAACATATAACCAAGCCAATT
Found at i:56825705 original size:40 final size:40
Alignment explanation
Indices: 56825660--56825827 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
56825650 CGGAATATAA
56825660 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56825700 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56825740 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
56825780 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
56825820 CCGGATAT
1 CCGGATAT
56825828 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56825810 original size:80 final size:80
Alignment explanation
Indices: 56825676--56825825 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
56825666 ATAATCACGT
*
56825676 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
56825740 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
56825756 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
56825819 CCCGGAT
64 CCCGGAT
56825826 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:56833655 original size:39 final size:39
Alignment explanation
Indices: 56833612--56833741 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
56833602 CGGAATATAA
56833612 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAG
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAG
* ** * *
56833651 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAG
* ** * *
56833690 CCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 -CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTT-AG
56833731 CCGGATATAAT
1 CCGGATATAAT
56833742 TTCCAGCATA
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.46
40 36 0.51
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAG
Found at i:56833755 original size:40 final size:39
Alignment explanation
Indices: 56833612--56833776 Score: 129
Period size: 40 Copynumber: 4.2 Consensus size: 39
56833602 CGGAATATAA
* ** * *
56833612 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAG
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAC
* *
56833651 CCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCTC-CAGCAC-AATTGCCTTCGGGTCTTA-C
* ** * *
56833691 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTT-AC
* * * *
56833731 CCGGATATAATTTCCAGCATAATTGTCTTCGGGT-TTGC
1 CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAC
56833769 CCGGATAT
1 CCGGATAT
56833777 CATTCAATTT
Statistics
Matches: 99, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
38 9 0.09
39 34 0.34
40 55 0.56
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (39 bp):
CCGGATATAATCTCCAGCACAATTGCCTTCGGGTCTTAC
Found at i:56835993 original size:39 final size:40
Alignment explanation
Indices: 56835848--56836054 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
56835838 CAATTGAATG
* * ** * **
56835848 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
56835888 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* *
56835928 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
56835968 AAATCCGGGCTAATA-CCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* *
56836007 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
56836047 ATATCCGG
1 ATATCCGG
56836055 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 38 0.27
40 101 0.71
41 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:56836019 original size:79 final size:80
Alignment explanation
Indices: 56835848--56836054 Score: 247
Period size: 79 Copynumber: 2.6 Consensus size: 80
56835838 CAATTGAATG
* * ** * * *
56835848 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
*
56835913 ATTGTGCTAGTGACT
66 ATTGTGCAAGTGACT
* * * *
56835928 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
* *
56835992 TTTGTGCAAGTCG-TT
66 ATTGTGCAAGT-GACT
* *
56836007 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
56836055 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
79 63 0.58
80 45 0.42
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAGTGACT
Found at i:56838085 original size:29 final size:28
Alignment explanation
Indices: 56838053--56838155 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
56838043 GTGACGAGAT
* *
56838053 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
56838082 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
56838111 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
56838140 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56838156 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:56845870 original size:29 final size:28
Alignment explanation
Indices: 56845838--56845940 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
56845828 GTGACGAGAT
* *
56845838 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
56845867 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
56845896 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
56845925 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56845941 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:56861510 original size:13 final size:13
Alignment explanation
Indices: 56861492--56861531 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
56861482 GAAGTAATCA
56861492 CACACGGGCGTGT
1 CACACGGGCGTGT
*
56861505 CACACGGGCATGT
1 CACACGGGCGTGT
*
56861518 CACACAGGCGTGT
1 CACACGGGCGTGT
56861531 C
1 C
56861532 CCTGCTCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:56866171 original size:13 final size:13
Alignment explanation
Indices: 56866155--56866189 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
56866145 CTAGACACAC
56866155 GGCCGTGTGTCTT
1 GGCCGTGTGTCTT
56866168 GGCCGTGTGTCTT
1 GGCCGTGTGTCTT
56866181 GGCCGTGTG
1 GGCCGTGTG
56866190 AATTTAACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.43, T:0.34
Consensus pattern (13 bp):
GGCCGTGTGTCTT
Found at i:56875596 original size:40 final size:40
Alignment explanation
Indices: 56875429--56875596 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
56875419 TCTTTGGAAT
* * *
56875429 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * ** * *
56875468 TTAACCCGAATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
56875508 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
56875548 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
56875588 TTAGCCCGG
1 TTAGCCCGG
56875597 GTATCATTCA
Statistics
Matches: 104, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 3 0.03
40 100 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:56888783 original size:27 final size:27
Alignment explanation
Indices: 56888744--56888802 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
56888734 TCTTTAACGA
56888744 TCTATCAAATTAAGATAAAAAAAAACT
1 TCTATCAAATTAAGATAAAAAAAAACT
* *
56888771 TCTATCAACTTAAGATAAAAAAAACCT
1 TCTATCAAATTAAGATAAAAAAAAACT
56888798 TCTAT
1 TCTAT
56888803 TCAGTCCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (27 bp):
TCTATCAAATTAAGATAAAAAAAAACT
Found at i:56894399 original size:47 final size:46
Alignment explanation
Indices: 56894324--56894498 Score: 201
Period size: 47 Copynumber: 3.7 Consensus size: 46
56894314 GATTTCTTGT
**
56894324 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATGA
* *
56894370 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCAG-CATAAAGATGA
1 GTGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCA-CAAGATGA
* * * *
56894418 GTGCCAGTGTAAGACATGTGTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-AAGATGA
* *
56894465 -TAGCCAGTGTAAGACGTGTCTGGGACATGCATCG
1 GT-GCCAGTGTAAGACATGTCTAGGACATGCATCG
56894499 ACTAAGAGTT
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
46 21 0.19
47 65 0.59
48 25 0.23
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACAAGATGA
Found at i:56894485 original size:94 final size:93
Alignment explanation
Indices: 56894324--56894497 Score: 244
Period size: 94 Copynumber: 1.9 Consensus size: 93
56894314 GATTTCTTGT
**
56894324 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
56894389 TCTAGGACATGGCATCAGCATAAAGATGA
66 TCTAGGACAT-GCATCAGCATAAAGATGA
* * * *
56894418 GTGCCAGTGTAAGACATGTGTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTGTAAGACCA
*
56894481 TGTCTGGGACATGCATC
64 TGTCTAGGACATGCATC
56894498 GACTAAGAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 5 0.07
94 49 0.69
95 17 0.24
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (93 bp):
GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACACGATGAGTGCCAGTGTAAGACCATG
TCTAGGACATGCATCAGCATAAAGATGA
Found at i:56902646 original size:46 final size:44
Alignment explanation
Indices: 56902503--56902638 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 44
56902493 CCCGCCCATA
* *
56902503 AGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACA-TT
* * * * * * *
56902550 CGCGAACTCGGACTCAACTCAACGACTTCGGACATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATT
*
56902596 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACAT
56902639 CCTAGTGACA
Statistics
Matches: 71, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
44 8 0.11
46 29 0.41
47 30 0.42
49 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATT
Found at i:56903087 original size:30 final size:30
Alignment explanation
Indices: 56903053--56903112 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56903043 ATTTAATATG
56903053 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
56903083 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
56903113 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:56923985 original size:21 final size:22
Alignment explanation
Indices: 56923956--56924006 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
56923946 ATTTTGTTTG
56923956 TTTTACTTTTTGAAAAA-TAATA
1 TTTT-CTTTTTGAAAAATTAATA
56923978 TTTTC-TTTTGAAAAATTAATA
1 TTTTCTTTTTGAAAAATTAATA
56923999 TTTT-TTTT
1 TTTTCTTTT
56924007 ATATTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTTCTTTTTGAAAAATTAATA
Found at i:56923988 original size:20 final size:20
Alignment explanation
Indices: 56923962--56924006 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
56923952 TTTGTTTTAC
56923962 TTTTTGAAAAA-TAATATTT
1 TTTTTGAAAAATTAATATTT
56923981 TCTTTTGAAAAATTAATATTT
1 T-TTTTGAAAAATTAATATTT
56924002 TTTTT
1 TTTTT
56924007 ATATTTGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 14 0.58
21 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTTGAAAAATTAATATTT
Found at i:56924408 original size:22 final size:24
Alignment explanation
Indices: 56924374--56924434 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
56924364 AAGCTAAGCA
* *
56924374 TTATTTAAGTAAA-TACTCATA-T
1 TTATATAATTAAAGTACTCATATT
*
56924396 TTATATAATTAAAGTAGTCATATT
1 TTATATAATTAAAGTACTCATATT
56924420 TTATATCAAGTTAAA
1 TTATAT-AA-TTAAA
56924435 ATATGTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 11 0.34
23 7 0.22
24 7 0.22
25 2 0.06
26 5 0.16
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (24 bp):
TTATATAATTAAAGTACTCATATT
Found at i:56924960 original size:44 final size:43
Alignment explanation
Indices: 56924910--56925013 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 43
56924900 ATTATTGTTT
56924910 TTAAAATAT-ATTACTAAAACAAAATTGAAATATTAAATAATTTA
1 TTAAAATATAATT--TAAAACAAAATTGAAATATTAAATAATTTA
* **
56924954 TTAAAATAATAATTTATATTAAAATTGAAATATTAAATAATTTA
1 TTAAAAT-ATAATTTAAAACAAAATTGAAATATTAAATAATTTA
56924998 TTAAAATAATAATTTA
1 TTAAAAT-ATAATTTA
56925014 TATTAATAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
44 50 0.91
45 2 0.04
46 3 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (43 bp):
TTAAAATATAATTTAAAACAAAATTGAAATATTAAATAATTTA
Found at i:56925014 original size:44 final size:44
Alignment explanation
Indices: 56924930--56925024 Score: 181
Period size: 44 Copynumber: 2.1 Consensus size: 44
56924920 TTACTAAAAC
56924930 AAAATTGAAATATTAAATAATTTATTAAAATAATAATTTATATT
1 AAAATTGAAATATTAAATAATTTATTAAAATAATAATTTATATT
56924974 AAAATTGAAATATTAAATAATTTATTAAAATAATAATTTATATT
1 AAAATTGAAATATTAAATAATTTATTAAAATAATAATTTATATT
56925018 AATAATT
1 AA-AATT
56925025 TATTATATGA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 46 0.92
45 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (44 bp):
AAAATTGAAATATTAAATAATTTATTAAAATAATAATTTATATT
Found at i:56925020 original size:13 final size:13
Alignment explanation
Indices: 56924960--56925027 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 13
56924950 TTTATTAAAA
56924960 TAATAATTTATAT
1 TAATAATTTATAT
*
56924973 TAA-AATTGAAATAT
1 TAATAATT--TATAT
*
56924987 TAAATAATTTATTAAAA
1 T-AATAATTTA-T--AT
56925004 TAATAATTTATAT
1 TAATAATTTATAT
56925017 TAATAATTTAT
1 TAATAATTTAT
56925028 TATATGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
12 4 0.09
13 15 0.34
14 6 0.14
15 4 0.09
16 13 0.30
17 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (13 bp):
TAATAATTTATAT
Found at i:56925030 original size:16 final size:16
Alignment explanation
Indices: 56924939--56925032 Score: 60
Period size: 16 Copynumber: 6.2 Consensus size: 16
56924929 CAAAATTGAA
56924939 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* *
56924956 AAAATAATAA--T-TT
1 ATATTAATAATTTATT
* *
56924969 ATATTAA-AATTGA-A
1 ATATTAATAATTTATT
56924983 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
* *
56925000 AAAATAATAA--T-TT
1 ATATTAATAATTTATT
56925013 ATATTAATAATTTATT
1 ATATTAATAATTTATT
56925029 ATAT
1 ATAT
56925033 GATAAGATAA
Statistics
Matches: 56, Mismatches: 12, Indels: 19
0.64 0.14 0.22
Matches are distributed among these distances:
12 2 0.04
13 17 0.30
14 7 0.12
15 3 0.05
16 21 0.38
17 6 0.11
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:56925106 original size:36 final size:35
Alignment explanation
Indices: 56925062--56925132 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
56925052 AATATTTATG
* * *
56925062 TTTAATATTATTGAAAATTATAATATT-TTATTAAT
1 TTTAATATTATTAAAAATAAAAAT-TTATTATTAAT
*
56925097 TTTAGATATTTTTAAAAATAAAAATTTATTATTAAT
1 TTTA-ATATTATTAAAAATAAAAATTTATTATTAAT
56925133 ATAATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
35 6 0.20
36 24 0.80
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (35 bp):
TTTAATATTATTAAAAATAAAAATTTATTATTAAT
Found at i:56925342 original size:2 final size:2
Alignment explanation
Indices: 56925335--56925374 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
56925325 TAAAAATGCA
56925335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56925375 TCTAGAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56927604 original size:101 final size:101
Alignment explanation
Indices: 56927448--56927635 Score: 261
Period size: 101 Copynumber: 1.9 Consensus size: 101
56927438 CAATAATCCG
* * *
56927448 GTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTCACCATCTGATACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACACGACCTCAACATATGATACACGTAGTAGCC
56927513 TGCACTTAGGAATACACACGTGATCGAAGTCATTGA
66 TGCACTTAGGAATACACACGTGATCGAAGTCATTGA
* ** * * *
56927549 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CTTAACAGTATGGTACACGTAGTCGC
1 GTACACATAGTAGCCTGCACTTAGTACTACACACACGACCTCAACA-TATGATACACGTAGTAGC
* *
56927613 CTGCACTTAGTACTACACACGTG
65 CTGCACTTAGGAATACACACGTG
56927636 TACTCACAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
100 5 0.07
101 70 0.93
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (101 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACACGACCTCAACATATGATACACGTAGTAGCC
TGCACTTAGGAATACACACGTGATCGAAGTCATTGA
Done.