Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 182 of 352
Found at i:59743769 original size:20 final size:20
Alignment explanation
Indices: 59743722--59743770 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
59743712 AAAATTATAT
* *
59743722 TTTTTATATTTATATTTTTA
1 TTTTTATTTTTAGATTTTTA
59743742 TTTTTATTTTTAGATTTTTA
1 TTTTTATTTTTAGATTTTTA
59743762 TTTTTATTT
1 TTTTTATTT
59743771 ATTACATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTATTTTTAGATTTTTA
Found at i:59745002 original size:18 final size:18
Alignment explanation
Indices: 59744979--59745020 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
59744969 GCTAGGTGCA
*
59744979 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
59744997 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
59745015 TTTCCT
1 TATCCT
59745021 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:59747969 original size:126 final size:126
Alignment explanation
Indices: 59747744--59747998 Score: 456
Period size: 126 Copynumber: 2.0 Consensus size: 126
59747734 TTATAGCCTC
* *
59747744 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGAAATTTTGCTG
*
59747809 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
*
59747870 ATTTTTCTATGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGAAATTTTGCTG
* *
59747935 ACCGTGTATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
59747996 ATT
1 ATT
59747999 CTTGCAAAAA
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 123 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTATCGACACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:59748566 original size:20 final size:19
Alignment explanation
Indices: 59748541--59748611 Score: 94
Period size: 19 Copynumber: 3.8 Consensus size: 19
59748531 ACGATTATGT
*
59748541 ATCAATTAACTCTAAATTTA
1 ATCAATTAACCCT-AATTTA
59748561 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
*
59748580 ATCAA-T--CCATAATTTA
1 ATCAATTAACCCTAATTTA
59748596 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
59748612 ACCCTAAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
16 14 0.31
17 1 0.02
18 1 0.02
19 17 0.38
20 12 0.27
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:59748736 original size:15 final size:16
Alignment explanation
Indices: 59748710--59748745 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
59748700 ATTTTAAACA
59748710 CTAAAAACCCCTAACC
1 CTAAAAACCCCTAACC
59748726 CTAAAAA-CCCTAACC
1 CTAAAAACCCCTAACC
*
59748741 TTAAA
1 CTAAA
59748746 TCCTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.17
Consensus pattern (16 bp):
CTAAAAACCCCTAACC
Found at i:59750820 original size:45 final size:45
Alignment explanation
Indices: 59750763--59750985 Score: 347
Period size: 45 Copynumber: 5.0 Consensus size: 45
59750753 CGATAACATT
* * *
59750763 TCACCGGCATTATAGCCTGCTAAGCTCGAAGGCCCGAACAGTATC
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
59750808 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* *
59750853 TCACCGGTATTATAGCCTGCTAGGTTCGAAGACCCGAATAGTATC
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* *
59750898 TCATCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* * * *
59750943 TCACCGGCATTATAACCTACTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTA
59750986 CTGTACGATA
Statistics
Matches: 165, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 165 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
Found at i:59751842 original size:47 final size:47
Alignment explanation
Indices: 59751790--59751984 Score: 345
Period size: 47 Copynumber: 4.1 Consensus size: 47
59751780 AAAATTTTCT
*
59751790 TTAACTAAGTAACTTATCTGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
59751837 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
59751884 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
* * *
59751931 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAATAAGC
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
59751978 TTTAACT
1 -TTAACT
59751985 TCAACTTATA
Statistics
Matches: 143, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
47 137 0.96
48 6 0.04
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:59758394 original size:18 final size:18
Alignment explanation
Indices: 59758371--59758409 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
59758361 TATAGCCTGC
59758371 TAGGCTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAA
59758389 TAGGCTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAA
59758407 TAG
1 TAG
59758410 TATCTCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.26, G:0.28, T:0.13
Consensus pattern (18 bp):
TAGGCTCGAAGACCCGAA
Found at i:59758425 original size:63 final size:63
Alignment explanation
Indices: 59758326--59758454 Score: 206
Period size: 63 Copynumber: 2.0 Consensus size: 63
59758316 TATAGCCTGC
*
59758326 TAGGCTCGAAGGCCCGAACAATATCTCACCGTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAACAATATCTCACCGTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
* * *
59758389 TAGGCTCGAAGACCCGAATAGTATCTCACCAG-TATTATAGCCTGCTAGGTTCGAAGACCCGAA
1 TAGGCTCGAAGACCCGAACAATATCTCACC-GTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
59758452 TAG
1 TAG
59758455 TATCTCATCG
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 60 0.98
64 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (63 bp):
TAGGCTCGAAGACCCGAACAATATCTCACCGTTATTATAGCCTGCTAGGCTCGAAGACCCGAA
Found at i:59758458 original size:45 final size:45
Alignment explanation
Indices: 59758389--59758546 Score: 244
Period size: 45 Copynumber: 3.5 Consensus size: 45
59758379 AAGACCCGAA
* *
59758389 TAGGCTCGAAGACCCGAATAGTATCTCACCAGTATTATAGCCTGC
1 TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
* * *
59758434 TAGGTTCGAAGACCCGAATAGTATCTCATCGGTATTATAGCCTGC
1 TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
* *
59758479 TAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATAGCCTGC
1 TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
*
59758524 TAGGCTCAAAGACCTGAATAGTA
1 TAGGCTCAAAGACCCGAATAGTA
59758547 CTATACGATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 103 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (45 bp):
TAGGCTCAAAGACCCGAATAGTATCTCACCGGTATTATAGCCTGC
Found at i:59759403 original size:47 final size:48
Alignment explanation
Indices: 59759349--59759451 Score: 163
Period size: 47 Copynumber: 2.2 Consensus size: 48
59759339 TTAAAATTTT
** *
59759349 CTTTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAG
1 CTTTAACTAAGTAACTTATCCGGAAATATTAAAAGCAAATTTAACAAA
*
59759397 C-TTAACTAAGTAACTTGTCCGGAAATATTAAAAGCAAATTTAACAAA
1 CTTTAACTAAGTAACTTATCCGGAAATATTAAAAGCAAATTTAACAAA
59759444 CTTTAACT
1 CTTTAACT
59759452 TCAACTTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 43 0.86
48 7 0.14
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.30
Consensus pattern (48 bp):
CTTTAACTAAGTAACTTATCCGGAAATATTAAAAGCAAATTTAACAAA
Found at i:59762106 original size:153 final size:153
Alignment explanation
Indices: 59761828--59762121 Score: 444
Period size: 153 Copynumber: 1.9 Consensus size: 153
59761818 GTGCAGGAGA
* * * * * *
59761828 CACATGCCCGTGTGGCTAGGTCGTGTGGGCATTCGAAATGAGATCACATGCCCGTGTCTCAACCT
1 CACATGCCCGCGTGGCTAGGCCATGTGGGCATTCGAAATGAGATCACATGCCCATATCTCAACCC
* * *
59761893 GTGTCCGACCCTATTTAACTCACTAACTTGGGTCACACGGCCAGCCCACACGCCCATGTGCCAGG
66 GTGTCCGACCCCATGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCCATGTGCCAGG
59761958 CCGTGTGCCCTTTGAAATGGCCT
131 CCGTGTGCCCTTTGAAATGGCCT
* * * *
59761981 CACATGCCTGCGTGGCTAGGCCATGTGGGCATTTGAAATGAGATCACATGGCCATATCTTAACCC
1 CACATGCCCGCGTGGCTAGGCCATGTGGGCATTCGAAATGAGATCACATGCCCATATCTCAACCC
* **
59762046 GTGTCCGACCCCGTGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCTGTGTGCCAGG
66 GTGTCCGACCCCATGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCCATGTGCCAGG
59762111 CCGTGTGCCCT
131 CCGTGTGCCCT
59762122 CCAAAATGGC
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
153 125 1.00
ACGTcount: A:0.20, C:0.32, G:0.25, T:0.23
Consensus pattern (153 bp):
CACATGCCCGCGTGGCTAGGCCATGTGGGCATTCGAAATGAGATCACATGCCCATATCTCAACCC
GTGTCCGACCCCATGTAACTCACTAACTTGGGTCACACGGCCAGACCACACGCCCATGTGCCAGG
CCGTGTGCCCTTTGAAATGGCCT
Found at i:59766461 original size:25 final size:25
Alignment explanation
Indices: 59766433--59766510 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
59766423 CTCCTCCGAA
59766433 CTGAATATCGGTAAGCTCATATGAG
1 CTGAATATCGGTAAGCTCATATGAG
* *
59766458 CTGAGTATTGGTAAGCTC-TCATGAG
1 CTGAATATCGGTAAGCTCAT-ATGAG
* *
59766483 CAGCAA-ATCGGTAAGCTCATACGAG
1 CTG-AATATCGGTAAGCTCATATGAG
59766508 CTG
1 CTG
59766511 TGGTGAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 1 0.02
25 40 0.93
26 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (25 bp):
CTGAATATCGGTAAGCTCATATGAG
Found at i:59768195 original size:26 final size:27
Alignment explanation
Indices: 59768151--59768203 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
59768141 AATCCTTTAA
* * *
59768151 CCAAACCCTAAATTTGAATCTTGAACC
1 CCAAACCCTAAAATCGAATATTGAACC
59768178 CCAAACCC-AAAATCGAATATTGAACC
1 CCAAACCCTAAAATCGAATATTGAACC
59768204 TTAAATCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.42, C:0.30, G:0.08, T:0.21
Consensus pattern (27 bp):
CCAAACCCTAAAATCGAATATTGAACC
Found at i:59771611 original size:104 final size:105
Alignment explanation
Indices: 59771367--59771612 Score: 266
Period size: 104 Copynumber: 2.4 Consensus size: 105
59771357 AATTTGCCCA
* *
59771367 TGTGATTCTAAATCATAAACAATGAGTTAC-ACGACTGAGACACACACCTATGTCCTTGCCTGTG
1 TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTGAGACACACACCTATGTCCTTGCCTGTG
* * *
59771431 TGGCTCACACGGCCTAGTACATGCCAATGTCATCTACCCG
66 TGGCTCACACAGCCTAGCACATGCCAATGTCATCTAACCG
* * * * * * *
59771471 TATGGTTCTAAGTCATAAACAGTGAGTTACACGGCCT-AGACACACACTTATGTTCTTG-CTCGT
1 TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTGAGACACACACCTATGTCCTTGCCT-GT
* * ** * **
59771534 GTGGCTCA-ACAGCTTGGGCACATGCTTATGTCATTTAATTG
65 GTGGCTCACACAGCCT-AGCACATGCCAATGTCATCTAACCG
*
59771575 TGTGATTCTAAATCATAAAAAATGAGTTACAAGGCCTG
1 TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTG
59771613 TACACATGCC
Statistics
Matches: 113, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
103 7 0.06
104 103 0.91
105 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (105 bp):
TGTGATTCTAAATCATAAACAATGAGTTACAAGGCCTGAGACACACACCTATGTCCTTGCCTGTG
TGGCTCACACAGCCTAGCACATGCCAATGTCATCTAACCG
Found at i:59778845 original size:225 final size:225
Alignment explanation
Indices: 59778454--59778906 Score: 816
Period size: 225 Copynumber: 2.0 Consensus size: 225
59778444 AAATTCAGAT
* *
59778454 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCATGGCCTCAAAAATAAGATTT
1 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGACCTCAAAAATAAGATTT
59778519 AGATCCTATTCAGATACCACACATCCTGGAAACATGCCCATGTCATCTTCCTACGTGGCTATAAA
66 AGATCCTATTCAGATACCACACATCCTGGAAACATGCCCATGTCATCTTCCTACGTGGCTATAAA
*
59778584 TTATAAATAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
131 TTATAAACAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
*
59778649 CATAAATTCGATATCGAAAAATTATTTTAA
196 CATAAATTCGATATCAAAAAATTATTTTAA
59778679 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGACCTCAAAAATAAGATTT
1 TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGACCTCAAAAATAAGATTT
* * *
59778744 AGATCCTATTCAGATACCACACTTCCTGGAAACATGCCCATGTCATCTTCCTACGTGGTTATAAG
66 AGATCCTATTCAGATACCACACATCCTGGAAACATGCCCATGTCATCTTCCTACGTGGCTATAAA
* *
59778809 TTATAAACAGTGAGTTACACTGTAATAGCCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
131 TTATAAACAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
*
59778874 CATAAATTCGATGTCAAAAAATTATTTTAA
196 CATAAATTCGATATCAAAAAATTATTTTAA
59778904 TAT
1 TAT
59778907 TATTTTATGT
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
225 218 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (225 bp):
TATAAATACATTGTGAAGGTCAGTGCTCGTGTTGGGCAACATTCACGACCTCAAAAATAAGATTT
AGATCCTATTCAGATACCACACATCCTGGAAACATGCCCATGTCATCTTCCTACGTGGCTATAAA
TTATAAACAGTGAGTTACACTGTAACAACCCAGTTTTGGCTAAATCAGAACAGTGGTTTCAGAAC
CATAAATTCGATATCAAAAAATTATTTTAA
Found at i:59781723 original size:34 final size:32
Alignment explanation
Indices: 59781652--59781721 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
59781642 CTAGGACTAG
*
59781652 CATAGAGTGTGTGAGAGTTTAGCTATACATGC
1 CATATAGTGTGTGAGAGTTTAGCTATACATGC
59781684 CATATAGTGTGTGAGAGTTTAGCTATACATGC
1 CATATAGTGTGTGAGAGTTTAGCTATACATGC
59781716 CATATA
1 CATATA
59781722 TACTCTGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (32 bp):
CATATAGTGTGTGAGAGTTTAGCTATACATGC
Found at i:59781731 original size:34 final size:32
Alignment explanation
Indices: 59781661--59781731 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
59781651 GCATAGAGTG
* *
59781661 TGTGAGAGTTTAGCTATACATGCCATATAGTG
1 TGTGAGAGTTTAGCTATACATGCCATATACTC
59781693 TGTGAGAGTTTAGCTATACATGCCATATATACTC
1 TGTGAGAGTTTAGCTATACATGCC--ATATACTC
59781727 TGTGA
1 TGTGA
59781732 TAGTGTGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 24 0.69
34 11 0.31
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (32 bp):
TGTGAGAGTTTAGCTATACATGCCATATACTC
Found at i:59782453 original size:46 final size:46
Alignment explanation
Indices: 59782401--59782493 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
59782391 GTTGAGTAAG
*
59782401 TATGCCAGGGAATATTTTTCTACCGAAGAGATTATGTGTAAGCGGT
1 TATGCCAGGGAATAGTTTTCTACCGAAGAGATTATGTGTAAGCGGT
*
59782447 TATGCCAGGGAATAGTTTTCTACTGAAGAGATTATGTGTAAGCGGT
1 TATGCCAGGGAATAGTTTTCTACCGAAGAGATTATGTGTAAGCGGT
59782493 T
1 T
59782494 CGTCGACGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (46 bp):
TATGCCAGGGAATAGTTTTCTACCGAAGAGATTATGTGTAAGCGGT
Found at i:59786582 original size:34 final size:33
Alignment explanation
Indices: 59786497--59786590 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 33
59786487 ATTGCATACT
* *
59786497 ATACTGATTCTGTAATGGGCTTAGGCCCCACTA
1 ATACTGATTCTGAAATGGGCTAAGGCCCCACTA
* * *
59786530 ATACTG-TTACTGAAATGGGCTCAGGCCCACATTG
1 ATACTGATT-CTGAAATGGGCTAAGGCCC-CACTA
* *
59786564 TTTCTGATTCTGAAATGGGCTAAGGCC
1 ATACTGATTCTGAAATGGGCTAAGGCC
59786591 ATAACTGAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 2 0.04
33 23 0.45
34 24 0.47
35 2 0.04
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (33 bp):
ATACTGATTCTGAAATGGGCTAAGGCCCCACTA
Found at i:59789356 original size:39 final size:39
Alignment explanation
Indices: 59789297--59789504 Score: 319
Period size: 39 Copynumber: 5.3 Consensus size: 39
59789287 TAATGGAGAA
*
59789297 TTATATCCGGGCTAAATCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
59789336 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
59789375 TTATATCCGGGCTAAGTCCCGAAGTCATTCGTGCTGGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
59789414 CTATATCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
59789453 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
59789492 TTATATCCGGGCT
1 TTATATCCGGGCT
59789505 TAAAGTCTCG
Statistics
Matches: 154, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 142 0.92
40 12 0.08
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:59794916 original size:47 final size:47
Alignment explanation
Indices: 59794847--59794948 Score: 204
Period size: 47 Copynumber: 2.2 Consensus size: 47
59794837 GATCATTATG
59794847 GTATATGTGAAGCTTATTAAGTTAGCCATTTAAAATGGCTTGTAAAT
1 GTATATGTGAAGCTTATTAAGTTAGCCATTTAAAATGGCTTGTAAAT
59794894 GTATATGTGAAGCTTATTAAGTTAGCCATTTAAAATGGCTTGTAAAT
1 GTATATGTGAAGCTTATTAAGTTAGCCATTTAAAATGGCTTGTAAAT
59794941 GTATATGT
1 GTATATGT
59794949 AGCCATGAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (47 bp):
GTATATGTGAAGCTTATTAAGTTAGCCATTTAAAATGGCTTGTAAAT
Found at i:59806938 original size:20 final size:20
Alignment explanation
Indices: 59806900--59806939 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
59806890 AAAAAGCGAA
59806900 AGAAGAGGAAAAAGAAAAAG
1 AGAAGAGGAAAAAGAAAAAG
59806920 AGAAG-GGAAAGAAGCAAAAA
1 AGAAGAGGAAA-AAG-AAAAA
59806940 TGTAAAGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 8 0.44
21 5 0.28
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (20 bp):
AGAAGAGGAAAAAGAAAAAG
Found at i:59813495 original size:152 final size:151
Alignment explanation
Indices: 59813302--59813586 Score: 462
Period size: 152 Copynumber: 1.9 Consensus size: 151
59813292 TTCTCAAAAA
* * *
59813302 AATAATATTTTATTATTTTTAAAATTTAATAATGTGACACTATTTTATTGGTGTCTAAAAATTAT
1 AATAATATTTTATTATTTTTAAAATTTAATAATGTGACACTATTTTATTAGTGCCAAAAAATTAT
* * * *
59813367 ATTTTTTAGATCATTTTAATATAATTTATTTTTTTAAAATGAAGGATGGGGTTTTATATTGAAAT
66 ATTTTTTAGATAATCTTAATATAATTTATTTTTTTAAAACGAAGGAT-GGGTTTTATACTGAAAT
59813432 TAATAGATATAGATGAGTGTAT
130 TAATAGATATAGATGAGTGTAT
* * *
59813454 AATAATATTTTGTTATTTTTAAAATTTAATGATGTGGCACTATTTTATTAGTGCCAAAAAATTAT
1 AATAATATTTTATTATTTTTAAAATTTAATAATGTGACACTATTTTATTAGTGCCAAAAAATTAT
*
59813519 ATTTTTTAGATAATCTTAATATAATTTATTTTTTTTAAACGAAGGATGGGTTTTATACTGAAATT
66 ATTTTTTAGATAATCTTAATATAATTTATTTTTTTAAAACGAAGGATGGGTTTTATACTGAAATT
59813584 AAT
131 AAT
59813587 GGAATAATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
151 20 0.16
152 102 0.84
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (151 bp):
AATAATATTTTATTATTTTTAAAATTTAATAATGTGACACTATTTTATTAGTGCCAAAAAATTAT
ATTTTTTAGATAATCTTAATATAATTTATTTTTTTAAAACGAAGGATGGGTTTTATACTGAAATT
AATAGATATAGATGAGTGTAT
Found at i:59819430 original size:24 final size:23
Alignment explanation
Indices: 59819403--59819486 Score: 89
Period size: 24 Copynumber: 3.6 Consensus size: 23
59819393 CAGCTCGTAA
59819403 GAGCTTACTGTTTTCAACTCGTT
1 GAGCTTACTGTTTTCAACTCGTT
* *
59819426 GGAGCTTACTGTTATCAGCTCGTAT
1 -GAGCTTACTGTTTTCAACTCGT-T
* *
59819451 GAGCTTACTGATTT-AACTCATT
1 GAGCTTACTGTTTTCAACTCGTT
*
59819473 AGAGCTTACCGTTT
1 -GAGCTTACTGTTT
59819487 CAGCTCAATA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
22 1 0.02
23 16 0.32
24 32 0.64
25 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.39
Consensus pattern (23 bp):
GAGCTTACTGTTTTCAACTCGTT
Found at i:59819455 original size:48 final size:47
Alignment explanation
Indices: 59819377--59819492 Score: 153
Period size: 48 Copynumber: 2.4 Consensus size: 47
59819367 CAGCTCGAAT
* * *
59819377 GAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTTCAACTCGTTG
1 GAGCTTACCG-T-TATCAGCTCGTAAGAGCTTACTGATTT-AACTCATTA
* *
59819427 GAGCTTACTGTTATCAGCTCGTATGAGCTTACTGATTTAACTCATTA
1 GAGCTTACCGTTATCAGCTCGTAAGAGCTTACTGATTTAACTCATTA
59819474 GAGCTTACCGTT-TCAGCTC
1 GAGCTTACCGTTATCAGCTC
59819493 AATAGATCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
46 7 0.12
47 18 0.30
48 25 0.42
49 1 0.02
50 9 0.15
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (47 bp):
GAGCTTACCGTTATCAGCTCGTAAGAGCTTACTGATTTAACTCATTA
Found at i:59819493 original size:23 final size:24
Alignment explanation
Indices: 59819377--59819503 Score: 82
Period size: 24 Copynumber: 5.3 Consensus size: 24
59819367 CAGCTCGAAT
* * *
59819377 GAGCTTACCGATATATCAGCTCGTAA
1 GAGCTTACTGAT-T-TCAGCTCATTA
* * * *
59819403 GAGCTTACTGTTTTCAACTCGTTG
1 GAGCTTACTGATTTCAGCTCATTA
*
59819427 GAGCTTACTG-TTATCAGCTC-GTA
1 GAGCTTACTGATT-TCAGCTCATTA
*
59819450 TGAGCTTACTGATTT-AACTCATTA
1 -GAGCTTACTGATTTCAGCTCATTA
* *
59819474 GAGCTTACCG-TTTCAGCTCAATA
1 GAGCTTACTGATTTCAGCTCATTA
*
59819497 GATCTTA
1 GAGCTTA
59819504 TTGTCCATCA
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
22 3 0.04
23 29 0.35
24 37 0.45
25 3 0.04
26 10 0.12
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (24 bp):
GAGCTTACTGATTTCAGCTCATTA
Found at i:59825476 original size:35 final size:35
Alignment explanation
Indices: 59825430--59825500 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
59825420 ACATTTAAAC
59825430 AACTCAATTTGCAACCAAATGAACCAATTCAATAA
1 AACTCAATTTGCAACCAAATGAACCAATTCAATAA
59825465 AACTCAATTTGCAACCAAATGAACCAATTCAATAA
1 AACTCAATTTGCAACCAAATGAACCAATTCAATAA
59825500 A
1 A
59825501 CATTATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.23
Consensus pattern (35 bp):
AACTCAATTTGCAACCAAATGAACCAATTCAATAA
Found at i:59826275 original size:22 final size:22
Alignment explanation
Indices: 59826214--59826267 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
59826204 AGCTGGAAAT
59826214 AGGAAGCTCTATTGAGCTGAAC
1 AGGAAGCTCTATTGAGCTGAAC
*
59826236 GGGAAGCTCTATTGAGCTGAAC
1 AGGAAGCTCTATTGAGCTGAAC
59826258 AGGAAGCTCT
1 AGGAAGCTCT
59826268 TACGAGCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (22 bp):
AGGAAGCTCTATTGAGCTGAAC
Found at i:59833962 original size:25 final size:25
Alignment explanation
Indices: 59833913--59833964 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
59833903 AAAATTGTTT
*
59833913 TAAGAATTTTATTTCTAAAAGAAAA
1 TAAGAATTTTATTTCGAAAAGAAAA
*
59833938 TAAGAATTTTATTT-GAAATGTAAAA
1 TAAGAATTTTATTTCGAAAAG-AAAA
59833963 TA
1 TA
59833965 TAATGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (25 bp):
TAAGAATTTTATTTCGAAAAGAAAA
Found at i:59843223 original size:46 final size:45
Alignment explanation
Indices: 59843124--59843242 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 45
59843114 ATGAGCTTTC
* * * *
59843124 CGATTCAGC-CCATAAGAGCTTACCGTTTCAGCTCATTGGAGATTAT
1 CGATTCAGCTCAAT-AGAGCTTACTG-TTCAGCTCAATAGAGATTAT
* *
59843170 CGATTCAGCTCGATAGAGCTTACTGTTCAGCTCAATAGAGCTTAT
1 CGATTCAGCTCAATAGAGCTTACTGTTCAGCTCAATAGAGATTAT
* * *
59843215 CGTTTTCAGGTTAATAGAGCTTACTGTT
1 CG-ATTCAGCTCAATAGAGCTTACTGTT
59843243 TATCAGCTCA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 19 0.31
46 40 0.65
47 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (45 bp):
CGATTCAGCTCAATAGAGCTTACTGTTCAGCTCAATAGAGATTAT
Found at i:59843230 original size:24 final size:22
Alignment explanation
Indices: 59843138--59843242 Score: 86
Period size: 23 Copynumber: 4.6 Consensus size: 22
59843128 TCAGCCCATA
* *
59843138 AGAGCTTACCGTTTCAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
* * *
59843161 GGAGATTA-TCGATTCAGCTCGAT
1 AGAGCTTACT-G-TTCAGCTCAAT
59843184 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* * *
59843206 AGAGCTTATCGTTTTCAGGTTAAT
1 AGAGCTTA-C-TGTTCAGCTCAAT
59843230 AGAGCTTACTGTT
1 AGAGCTTACTGTT
59843243 TATCAGCTCA
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
22 21 0.32
23 25 0.38
24 19 0.29
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:59843243 original size:24 final size:24
Alignment explanation
Indices: 59843173--59843252 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
59843163 AGATTATCGA
*
59843173 TTCAGCTCGATAGAGCTTACTG--
1 TTCAGCTCAATAGAGCTTACTGTT
59843195 TTCAGCTCAATAGAGCTTA-TCGTT
1 TTCAGCTCAATAGAGCTTACT-GTT
* *
59843219 TTCAGGTTAATAGAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACTGTT
59843243 TATCAGCTCA
1 T-TCAGCTCA
59843253 GGAGGAGCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.02
22 19 0.40
24 21 0.44
25 7 0.15
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACTGTT
Found at i:59843449 original size:20 final size:20
Alignment explanation
Indices: 59843426--59843487 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
59843416 GTTATTATTG
59843426 ATGAATTACTGTTTATACGA
1 ATGAATTACTGTTTATACGA
* *
59843446 ATGAACTACTAG-TTATATGA
1 ATGAATTACT-GTTTATACGA
*
59843466 ATGAATTACAGTTTATACGA
1 ATGAATTACTGTTTATACGA
59843486 AT
1 AT
59843488 AGAAATGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGAATTACTGTTTATACGA
Found at i:59846736 original size:24 final size:24
Alignment explanation
Indices: 59846698--59846745 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
59846688 TATTAAACAT
*
59846698 ATAATATAATATTTATATAATAAA
1 ATAATATAATATTTAAATAATAAA
59846722 ATAA-ATAATATTTTAAATAATAAA
1 ATAATATAATA-TTTAAATAATAAA
59846746 TCTTTCACCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATATAATATTTAAATAATAAA
Found at i:59849411 original size:44 final size:44
Alignment explanation
Indices: 59849345--59849454 Score: 184
Period size: 44 Copynumber: 2.5 Consensus size: 44
59849335 TGTTGCAGAA
59849345 AAGGATTTAGCCCGGACGGGTAATCCGTTAATCTCAAATATAGG
1 AAGGATTTAGCCCGGACGGGTAATCCGTTAATCTCAAATATAGG
* * * *
59849389 AAGGATTTAGCCCAGACAGGTAATCCGTTGATCTTAAATATAGG
1 AAGGATTTAGCCCGGACGGGTAATCCGTTAATCTCAAATATAGG
59849433 AAGGATTTAGCCCGGACGGGTA
1 AAGGATTTAGCCCGGACGGGTA
59849455 TTCCTTGAGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (44 bp):
AAGGATTTAGCCCGGACGGGTAATCCGTTAATCTCAAATATAGG
Found at i:59861002 original size:35 final size:35
Alignment explanation
Indices: 59860915--59861077 Score: 177
Period size: 35 Copynumber: 4.5 Consensus size: 35
59860905 GAAAAGTGTG
* *
59860915 AAATGTAGGTATGGTATCATCCATACTGAGTTGTG
1 AAATGTAGGTATGGTATTATCCATACTGAGTTGTA
*
59860950 AAATGTAGGTATGGTATTATCCATACTGAGCTGTA
1 AAATGTAGGTATGGTATTATCCATACTGAGTTGTA
*
59860985 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTA-T-T---ATCCATACTGAGTTGTA
* * * *
59861024 GAAATGTAGGTATGGCATT-TCCCTTACCGAGTTGAA
1 -AAATGTAGGTATGGTATTAT-CCATACTGAGTTGTA
59861060 AAATGTAGGTATGGTATT
1 AAATGTAGGTATGGTATT
59861078 TCAATGAGGA
Statistics
Matches: 111, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
34 1 0.01
35 75 0.68
36 3 0.03
37 1 0.01
38 1 0.01
39 2 0.02
40 28 0.25
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTATCCATACTGAGTTGTA
Found at i:59861028 original size:75 final size:75
Alignment explanation
Indices: 59860915--59861081 Score: 213
Period size: 75 Copynumber: 2.3 Consensus size: 75
59860905 GAAAAGTGTG
** *
59860915 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-CCAT
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TCCCAT
* *
59860974 ACTGAGCTGTA
65 ACCGAGCTGAA
*
59860985 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCTTA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCATA
*
59861050 CCGAGTTGAA
66 CCGAGCTGAA
59861060 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
59861082 TGAGGAAAAC
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 14 0.17
73 4 0.05
74 5 0.06
75 61 0.73
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCATA
CCGAGCTGAA
Found at i:59868212 original size:17 final size:17
Alignment explanation
Indices: 59868190--59868223 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
59868180 AAATGGAAAC
59868190 TAATCTTAGAAGATTTG
1 TAATCTTAGAAGATTTG
*
59868207 TAATCTTATAAGATTTG
1 TAATCTTAGAAGATTTG
59868224 ATTTTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (17 bp):
TAATCTTAGAAGATTTG
Found at i:59873757 original size:21 final size:20
Alignment explanation
Indices: 59873728--59873767 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
59873718 ATATTAATAA
*
59873728 ATTATTTAAACATAATTAAAT
1 ATTAATTAAA-ATAATTAAAT
*
59873749 ATTAATTAAAATTATTAAA
1 ATTAATTAAAATAATTAAA
59873768 AAATTCTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAATTAAAATAATTAAAT
Found at i:59878488 original size:112 final size:114
Alignment explanation
Indices: 59878328--59878553 Score: 368
Period size: 112 Copynumber: 2.0 Consensus size: 114
59878318 CATCAGTTAA
*
59878328 ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATGGTAGTTAAAGTACTAATTAAC-
1 ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAACG
59878392 G-GCAATTTACCAGTGATAAATATAGTCAAGAACATAGATCAAGCTTTAG
66 GTGCAATTTACCAGTGAT-AATATAGTCAAGAACATAGATCAAGCTTTAG
59878441 ATGGTATGCTATGTAT-CGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAACG
1 ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAAC-
*
59878505 GAAGGTGCAATTTACGAGTGATAATATAGTCAAGAACATAGATCAAGCT
65 ---GGTGCAATTTACCAGTGATAATATAGTCAAGAACATAGATCAAGCT
59878554 CCCTCGCTCA
Statistics
Matches: 105, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
112 46 0.44
113 16 0.15
117 28 0.27
118 15 0.14
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (114 bp):
ATGGTATGCTATGTATCCGTAGAATCTTAGCTGTAGCTTGATAGTAGTTAAAGTACTAATTAACG
GTGCAATTTACCAGTGATAATATAGTCAAGAACATAGATCAAGCTTTAG
Found at i:59880622 original size:15 final size:15
Alignment explanation
Indices: 59880580--59880624 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
59880570 AAGAAAATTG
* *
59880580 GAAAGATGGAAAATT
1 GAAAGATAGAAAATA
*
59880595 GAAAGGGTAGAAAATA
1 GAAA-GATAGAAAATA
59880611 GAAAGATAGAAAAT
1 GAAAGATAGAAAAT
59880625 GTAATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.16
Consensus pattern (15 bp):
GAAAGATAGAAAATA
Found at i:59891731 original size:58 final size:59
Alignment explanation
Indices: 59891658--59891779 Score: 201
Period size: 58 Copynumber: 2.1 Consensus size: 59
59891648 AAATTGTCCA
* *
59891658 ACACATTAATAAATTACACTAGACTTTAAAATTGTTGTGGTTTA-GTTTCCTTTAGTAG
1 ACACATTAATAAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
*
59891716 ACACATTAATCAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
1 ACACATTAATAAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
*
59891775 CCACA
1 ACACA
59891780 AGACTAATGG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
58 41 0.69
59 18 0.31
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (59 bp):
ACACATTAATAAATTACACTAAACTTTAAAAATGTTGTGGTTTAGGTTTCCTTTAGTAG
Found at i:59898364 original size:26 final size:25
Alignment explanation
Indices: 59898324--59898385 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
59898314 ACATATTTTC
*
59898324 TCAAAATTTTTCCAAAGGC-AAAATCG
1 TCAAAATTTTACC-AA-GCAAAAATCG
*
59898350 TTAAAATTTTACCAAGCATAAAATCG
1 TCAAAATTTTACCAAGCA-AAAATCG
59898376 TCAAAATTTT
1 TCAAAATTTT
59898386 GTTGGAGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 2 0.06
25 2 0.06
26 27 0.87
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (25 bp):
TCAAAATTTTACCAAGCAAAAATCG
Found at i:59915560 original size:451 final size:460
Alignment explanation
Indices: 59914721--59915602 Score: 1219
Period size: 451 Copynumber: 1.9 Consensus size: 460
59914711 CCATGTTAGA
* * *
59914721 AGGATAAGATCGTACTATGAGACTTTCTAGCATTATTTTGGGGAGCTTTCCCCTTTTTCAGTTTT
1 AGGATAAGATCGTACAATAAGACTTCCTAGCATTATTTTGGGGAGCTTTCCCC--TTTCAGTTTT
* * * *
59914786 TGGACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGGTTGGAATGGATAGGTTTTAAACAAAT
64 TGGACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGATTGGAACGAATAGGTTTTAAACAAAG
* *
59914851 ATTTTTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCTGAACTAAAGCTCTAAA
129 ATTTCTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCT--ACTAAAGCTCAAAA
*
59914916 TTTCACATATTGGACTAAGTGTTTTAAAAAGAAATTTTTTTTTCTTTTGTTGCAAATTTACTTCA
192 TTTCAAATATTGGACTAAGTGTTTTAAAAAGAAA-TTTTTTTTCTTTTGTTGCAAATTTACTTCA
* * * * **
59914981 GTATGTAATAAAAAAAATTTCAAATTGTGGGGTTGGGTCCAGCACATGCATTCTGTAACTGTGGA
256 ATATGTAATAAAAAAAATTTCAAATTGTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGA
* ** ** * *
59915046 TTTAAGTTCTTCATTGATTCCTTCATTGATTTTTCAATCCAGCCTTTGAAAACAAAGAAGAAAAA
321 TCTAAACTCTTCATCAAATCCTTCATCGATTTTTCAATCCAGCCTTTGAAAACAAAGAAGAAAAA
*
59915111 AGAAAACTCAAAAATTAGCTATGAATTTAAGCTTGAAAAAAACTCAAACTAGATTATTATTTCAT
386 AGAAAACCCAAAAATTAGCTATGAATTTAAGCTTGAAAAAAACTCAAACTAGATTATTATTTCAT
59915176 CTATATCAAG
451 CTATATCAAG
* * **
59915186 AGGATAAGATCGTACAATAAGACTTCCTGGCATTATTTTGGGGAGCTTTTCCC-TTCCTTTTTTG
1 AGGATAAGATCGTACAATAAGACTTCCTAGCATTATTTTGGGGAGCTTTCCCCTTTCAGTTTTTG
* * * * *
59915250 GATTGTTGATGGAGGAACTCATGGGGTTGAGCATCGATTGGAACGAATGGGTTTTTAACAAAGAT
66 GACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGATTGGAACGAATAGGTTTTAAACAAAGAT
* *
59915315 ATTCTTTATTTTACAGATTTGGGTTAGTTCCTAACAAAGGAAA-TT-T-CTAAA-CT-AAAATTT
131 -TTCTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCTACTAAAGCTCAAAATTT
* * * * *
59915375 TAAAT-TTTG-C-AAGTGTTTTACAAAGAAA-TTTTTTTCTTTTGTTGCAAATTTGCTTCAATGT
195 CAAATATTGGACTAAGTGTTTTAAAAAGAAATTTTTTTTCTTTTGTTGCAAATTTACTTCAATAT
* * * *
59915436 TTAATAAAGAAATTTTCAAATTTTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGATCTA
260 GTAATAAAAAAAATTTCAAATTGTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGATCTA
*
59915501 AACTCTT-ATCCAAATCCTTCATCGATTTTTCAATTCAGCCTTTGAAAACAAAGAAGAAAAAAGA
325 AACTCTTCAT-CAAATCCTTCATCGATTTTTCAATCCAGCCTTTGAAAACAAAGAAGAAAAAAGA
59915565 AAACCCAAAAATTAGCTATGAATTTAAGCTTGAAAAAA
389 AAACCCAAAAATTAGCTATGAATTTAAGCTTGAAAAAA
59915603 TATGAAATCA
Statistics
Matches: 370, Mismatches: 45, Indels: 18
0.85 0.10 0.04
Matches are distributed among these distances:
450 2 0.01
451 176 0.48
453 17 0.05
454 1 0.00
455 3 0.01
456 9 0.02
457 2 0.01
458 5 0.01
461 1 0.00
462 67 0.18
463 39 0.11
465 48 0.13
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (460 bp):
AGGATAAGATCGTACAATAAGACTTCCTAGCATTATTTTGGGGAGCTTTCCCCTTTCAGTTTTTG
GACTGTTGATGAAGGAACTCATGGGGCTGAGCATCGATTGGAACGAATAGGTTTTAAACAAAGAT
TTCTTTATTTTACAAAATTGGGTTAGTTCCTAACAAAGGAAATTTCTACTAAAGCTCAAAATTTC
AAATATTGGACTAAGTGTTTTAAAAAGAAATTTTTTTTCTTTTGTTGCAAATTTACTTCAATATG
TAATAAAAAAAATTTCAAATTGTGGGGTTGAGTCCAGCACACGCATGCCATAACTGTGGATCTAA
ACTCTTCATCAAATCCTTCATCGATTTTTCAATCCAGCCTTTGAAAACAAAGAAGAAAAAAGAAA
ACCCAAAAATTAGCTATGAATTTAAGCTTGAAAAAAACTCAAACTAGATTATTATTTCATCTATA
TCAAG
Found at i:59920631 original size:130 final size:130
Alignment explanation
Indices: 59920494--59920795 Score: 365
Period size: 130 Copynumber: 2.3 Consensus size: 130
59920484 GCAAAAATTG
* * *
59920494 TTCATGATCGTAAAGCAATGAACTTAGGCTGTGATCATAAATCAACAAGCCTTAACAATATTAGT
1 TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAATCAACAAGCCTTAACAATATCAGT
** * * * * * *
59920559 TATGATCA-TAAATCAGTGATCTGTTTGGAGTTG-TACTCGTAAATCAGTTAACTCAAGGAAGAT
66 TATGAT-AGTAAATCAACGAGCTGTTAGGAGCTGCGA-TCATAAATCAGCTAACTCAAGGAAGAT
59920622 TT
129 TT
* * * * *
59920624 TTCATGATCGTAAATCAATAAACTTTGGCTGTGATCGTAAATCAACGAGCTTTAATAATATCAGT
1 TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAATCAACAAGCCTTAACAATATCAGT
* * *
59920689 TGTGATAGTAAATTAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAGGGAAGATTT
66 TATGATAGTAAATCAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAAGGAAGATTT
* * **
59920754 TTCATGATTGTAAATCAATGAGCTCGGGCTGTGATCGTAAAT
1 TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAAT
59920796 TAGCTAACTT
Statistics
Matches: 146, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
129 1 0.01
130 144 0.99
131 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (130 bp):
TTCATGATCGTAAATCAATGAACTTAGGCTGTGATCGTAAATCAACAAGCCTTAACAATATCAGT
TATGATAGTAAATCAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAAGGAAGATTT
Found at i:59920854 original size:62 final size:63
Alignment explanation
Indices: 59920718--59920860 Score: 162
Period size: 62 Copynumber: 2.3 Consensus size: 63
59920708 GCTGTTAGGA
* * * * * * *
59920718 GCTGCGATCATAAATCAGCTAACTCAGGGAAGATTTTTCATGATTGTAAATCAATGAGCTCGG
1 GCTGTGATCGTAAATCAGCTAACTCAGGAAAGATTGTTCATAATTGTAAATCAATGAACTCAG
* * * *
59920781 GCTGTGATCGTAAATTAGCTAACTTA-GAAAGATTGTTCATAATTGTAAATCAGTGAACTTAG
1 GCTGTGATCGTAAATCAGCTAACTCAGGAAAGATTGTTCATAATTGTAAATCAATGAACTCAG
* *
59920843 GTTGTGGTCGTAAATCAG
1 GCTGTGATCGTAAATCAG
59920861 TGAGCCTTAA
Statistics
Matches: 66, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
62 44 0.67
63 22 0.33
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (63 bp):
GCTGTGATCGTAAATCAGCTAACTCAGGAAAGATTGTTCATAATTGTAAATCAATGAACTCAG
Found at i:59920876 original size:192 final size:191
Alignment explanation
Indices: 59920617--59920963 Score: 469
Period size: 192 Copynumber: 1.8 Consensus size: 191
59920607 TAACTCAAGG
* * * *
59920617 AAGATTTTTCATGATCGTAAATCAATAAACTTTGGCTGTGATCGTAAATCAACGAGCTTTAATAA
1 AAGATTGTTCATAATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAA
* * * * *
59920682 TATCAGTTGTGATAGTAAATTAACGAGCTGTTAGGAGCTGCGATCATAAATCAGCTAACTCAGGG
66 TATCAGTTGTGATAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCA-GA
* **
59920747 AAGATTTTTCATGATTGTAAATCAATGAGCTCGGGCTGTGATCGTAAATTAGCTAACTTAGA
130 AAGATTATTCATGATCATAAATCAATGAGCTCGGGCTGTGATCGTAAATTAGCTAACTTAGA
* * * * * **
59920809 AAGATTGTTCATAATTGTAAATCAGTGAACTTAGGTTGTGGTCGTAAATCAGTGAGCCTTAATAA
1 AAGATTGTTCATAATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAA
* * * * *
59920874 TATCAGTTGTGATAATGAATCAACGAGCTATTTGAAGTTGCTATCGTAAATCAGCTAACTCAGAA
66 TATCAGTTGTGATAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCAGAA
59920939 AGATTATTCATGATCATAAATCAAT
131 AGATTATTCATGATCATAAATCAAT
59920964 TAACTTGGTT
Statistics
Matches: 131, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
191 24 0.18
192 107 0.82
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (191 bp):
AAGATTGTTCATAATCGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAACGAGCCTTAATAA
TATCAGTTGTGATAATAAATCAACGAGCTATTAGAAGCTGCGATCATAAATCAGCTAACTCAGAA
AGATTATTCATGATCATAAATCAATGAGCTCGGGCTGTGATCGTAAATTAGCTAACTTAGA
Found at i:59921041 original size:128 final size:129
Alignment explanation
Indices: 59920791--59921219 Score: 513
Period size: 128 Copynumber: 3.3 Consensus size: 129
59920781 GCTGTGATCG
* * * * * * *
59920791 TAAATTAGCTAACTTAGAAAGATTGTTCATAATTGTAAATCAGTGAACTTAGGTTGTGGTCGTAA
1 TAAATCAGCTAACTCAGAAAGATTATTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAA
* * * * *
59920856 ATCAGTGAGCCTTAATAATATCAGTTGTGATAATGAATCAACGAGCTATTTGAAGTTGCTATCG
66 ATCAGTGAGCCTTAATAATATCAGTTGTGATCATAAATCAACGAGCTATTTGGAGTTGCAATCA
* * *
59920920 TAAATCAGCTAACTCAGAAAGATTATTCATGATCATAAATCAATTAACTT-GGTTGTGATCATAA
1 TAAATCAGCTAACTCAGAAAGATTATTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAA
* * * * * * *
59920984 ATCAGTGAGACTTAATAATTTTAGCTAG-GATCGTAAATCAACGAGCTGTTTGGAGTTGCGATCA
66 ATCAGTGAGCCTTAATAATATCAG-TTGTGATCATAAATCAACGAGCTATTTGGAGTTGCAATCA
* * * * *
59921048 TAAATCAACTAACTCAGAAAGATTGTT-TTAATCGTAAATAAATGAACTTAGGTTGTGATCCTAA
1 TAAATCAGCTAACTCAGAAAGATTATTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAA
* *
59921112 ATCAGCGAGCCTTAATAATATCAGTTGTGATCATAAATCAACGAGCTATTTGGAGTTACAATCA
66 ATCAGTGAGCCTTAATAATATCAGTTGTGATCATAAATCAACGAGCTATTTGGAGTTGCAATCA
* * * *
59921176 TAAATCATCTAACTTAGAAAAAGGTTATTCATGATCGTAAATCA
1 TAAATCAGCTAACTCAG--AAAGATTATTCATAATCGTAAATCA
59921220 GCAATCCTTA
Statistics
Matches: 249, Mismatches: 45, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
127 19 0.08
128 167 0.67
129 44 0.18
130 8 0.03
131 11 0.04
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (129 bp):
TAAATCAGCTAACTCAGAAAGATTATTCATAATCGTAAATCAATGAACTTAGGTTGTGATCATAA
ATCAGTGAGCCTTAATAATATCAGTTGTGATCATAAATCAACGAGCTATTTGGAGTTGCAATCA
Found at i:59927061 original size:16 final size:17
Alignment explanation
Indices: 59927029--59927062 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59927019 CGGGTTTGAG
59927029 ACACGGGCGTATGTGACC
1 ACACGGGCG-ATGTGACC
59927047 ACACGGGCG-TGTGACC
1 ACACGGGCGATGTGACC
59927063 CTTGTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.15
Consensus pattern (17 bp):
ACACGGGCGATGTGACC
Found at i:59933839 original size:24 final size:24
Alignment explanation
Indices: 59933782--59933840 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
59933772 TTTAAATGAT
59933782 TAAATATCAAATTTAACAAAAAAA
1 TAAATATCAAATTTAACAAAAAAA
* *
59933806 TAAA-AGTCAAA-TTAATAAAAAATG
1 TAAATA-TCAAATTTAACAAAAAA-A
59933830 TAAATATCAAA
1 TAAATATCAAA
59933841 AATTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 11 0.37
24 18 0.60
25 1 0.03
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.25
Consensus pattern (24 bp):
TAAATATCAAATTTAACAAAAAAA
Found at i:59935059 original size:14 final size:14
Alignment explanation
Indices: 59935024--59935050 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59935014 AATAGACTTT
59935024 TTTAAAAAAAAACC
1 TTTAAAAAAAAACC
59935038 TTTAAAAAAAAAC
1 TTTAAAAAAAAAC
59935051 TTGTGAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (14 bp):
TTTAAAAAAAAACC
Found at i:59935958 original size:31 final size:31
Alignment explanation
Indices: 59935923--59935987 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
59935913 AACAATCCAA
*
59935923 TGACTTAAATAAAAA-TATTTGAATAGTTCAG
1 TGACTTAAATAAAAACT-TTCGAATAGTTCAG
*
59935954 TGACTTAAATAAAAACTTTCGAATAGTTTAG
1 TGACTTAAATAAAAACTTTCGAATAGTTCAG
59935985 TGA
1 TGA
59935988 TTGAATTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCGAATAGTTCAG
Found at i:59938482 original size:23 final size:23
Alignment explanation
Indices: 59938452--59938497 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
59938442 GTGTTTCATG
59938452 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
59938475 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
59938498 ACTAGCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (23 bp):
TCTGCTGCCTGATTAAGTTACAT
Found at i:59938776 original size:25 final size:26
Alignment explanation
Indices: 59938741--59938789 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
59938731 TCTCCAATTC
*
59938741 TTAAACTTGATTTTGA-AATAAAAAA
1 TTAAACATGATTTTGATAATAAAAAA
*
59938766 TTAAACATGATTTTTATAATAAAA
1 TTAAACATGATTTTGATAATAAAA
59938790 CTTATTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (26 bp):
TTAAACATGATTTTGATAATAAAAAA
Found at i:59940366 original size:120 final size:120
Alignment explanation
Indices: 59940217--59941446 Score: 2329
Period size: 120 Copynumber: 10.3 Consensus size: 120
59940207 TATGATTATG
59940217 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
*
59940282 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59940337 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
*
59940402 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59940457 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
*
59940522 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
* *
59940577 TTAATTAAAATATATTTAATAATAATTATGTTAATTAATATTTTACAGTATCATATATTATAATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
*
59940642 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59940697 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
59940762 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59940816 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
*
59940881 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59940936 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
* * *
59941001 TCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59941056 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
59941121 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59941175 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
* *
59941240 TAAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59941295 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
*
59941360 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
59941415 TTAATTAAAATATATTTAATAATAATTATGTT
1 TTAATTAAAATATATTTAATAATAATTATGTT
59941447 TAAATATGAT
Statistics
Matches: 1092, Mismatches: 16, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
119 236 0.22
120 856 0.78
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGT
Found at i:59940596 original size:15 final size:16
Alignment explanation
Indices: 59940570--59940616 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
59940560 TTTTTAAATT
59940570 ATATAGTTTAATTAA-A
1 ATATA-TTTAATTAATA
59940586 ATATATTTAA-TAATA
1 ATATATTTAATTAATA
59940601 AT-TATGTTAATTAATA
1 ATATAT-TTAATTAATA
59940617 TTTTACAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.21
15 12 0.43
16 10 0.36
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
ATATATTTAATTAATA
Found at i:59940944 original size:18 final size:17
Alignment explanation
Indices: 59940916--59940950 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59940906 ATTATTAAGA
*
59940916 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59940933 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59940951 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59940987 original size:359 final size:359
Alignment explanation
Indices: 59940217--59941446 Score: 2352
Period size: 359 Copynumber: 3.4 Consensus size: 359
59940207 TATGATTATG
59940217 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
**
59940282 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAA
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAA
59940347 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
131 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
59940412 AATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAAT
196 AATATAAGAATATTAATTATTAAGAA-TTTTTTAAATTATATAGTTTAATTAAAATATATTTAAT
59940477 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
260 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
* *
59940542 TATTAATTATTAAGAATTTTTTTAAATTATATAGT
325 TATTAATTATTAAGAATTTTATTAAATTATATATT
* *
59940577 TTAATTAAAATATATTTAATAATAATTATGTTAATTAATATTTTACAGTATCATATATTATAATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
59940642 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAA
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAA
59940707 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
131 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
59940772 AATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
196 AATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
59940837 ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAAT
261 ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAAT
59940902 ATTAATTATTAAGAATTTTATTAAATTATATATT
326 ATTAATTATTAAGAATTTTATTAAATTATATATT
59940936 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
* *
59941001 TCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAA
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAA
59941066 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
131 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
59941131 AATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
196 AATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
*
59941196 ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTAAGTAAATTAATATAAGAAT
261 ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAAT
59941261 ATTAATTATTAAGAATTTTATTAAATTATATATT
326 ATTAATTATTAAGAATTTTATTAAATTATATATT
59941295 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
* *
59941360 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAA
59941425 TATATTTAATAATAATTATGTT
131 TATATTTAATAATAATTATGTT
59941447 TAAATATGAT
Statistics
Matches: 857, Mismatches: 13, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
359 640 0.75
360 217 0.25
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (359 bp):
TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAA
TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
AATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAATATATTTAATA
ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAAT
ATTAATTATTAAGAATTTTATTAAATTATATATT
Found at i:59941115 original size:479 final size:478
Alignment explanation
Indices: 59940217--59941446 Score: 2334
Period size: 479 Copynumber: 2.6 Consensus size: 478
59940207 TATGATTATG
59940217 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
59940282 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAA
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAA-TTTTTTAAATTATATAGTTTAATTAAAA
59940347 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
130 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
* *
59940412 AATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAAT
195 AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT
*
59940477 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAA
260 AATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAA
**
59940542 TATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTATG
325 TATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTATG
59940607 TTAATTAATATTTTACAGTATCATATATTATAATTTGAGTAAATTAATATAAGAATATTAATTAT
390 TTAATTAATATTTTACAGTATCATATATTATAATTTGAGTAAATTAATATAAGAATATTAATTAT
59940672 TAAGAATTTCATTAAATTATATAGT
455 TAAGAATTT-ATTAAATTATATAGT
59940697 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
59940762 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAAT
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAAT
59940827 ATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTA
131 ATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTA
59940892 ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
196 ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
59940957 ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAAT
261 ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAAT
*
59941022 ATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGT
326 ATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGT
* *
59941087 TAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATT
391 TAATTAATATTTTACAGTATCATATATTATAATTTGAGTAAATTAATATAAGAATATTAATTATT
*
59941152 AAGAATTTTTTAAATTATATAGT
456 AAGAATTTATTAAATTATATAGT
59941175 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
1 TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
* *
59941240 TAAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAA
66 TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAAA
59941305 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
130 TATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATT
59941370 AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT
195 AATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT
59941435 AATAATTATGTT
260 AATAATTATGTT
59941447 TAAATATGAT
Statistics
Matches: 738, Mismatches: 11, Indels: 3
0.98 0.01 0.00
Matches are distributed among these distances:
478 118 0.16
479 519 0.70
480 101 0.14
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (478 bp):
TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATT
TGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAAAT
ATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTA
ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAAT
ATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGT
TAATTAATATTTTACAGTATCATATATTATAATTTGAGTAAATTAATATAAGAATATTAATTATT
AAGAATTTATTAAATTATATAGT
Found at i:59941303 original size:18 final size:17
Alignment explanation
Indices: 59941275--59941309 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59941265 ATTATTAAGA
*
59941275 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59941292 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59941310 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59941423 original size:18 final size:17
Alignment explanation
Indices: 59941395--59941429 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
59941385 ATTATTAAGA
*
59941395 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
59941412 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
59941430 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:59941686 original size:16 final size:16
Alignment explanation
Indices: 59941665--59941733 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
59941655 GATTAGCTAT
*
59941665 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
59941681 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
59941698 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
59941714 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
59941730 TACA
1 TACA
59941734 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 34 0.69
17 15 0.31
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:59941707 original size:33 final size:32
Alignment explanation
Indices: 59941665--59941733 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
59941655 GATTAGCTAT
*
59941665 TACACCTCTAATCTAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
59941698 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
59941730 TACA
1 TACA
59941734 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:59953638 original size:16 final size:17
Alignment explanation
Indices: 59953602--59953638 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
59953592 AATTTTATTT
*
59953602 TAATAATAAATTTTAAA
1 TAATAATAAAGTTTAAA
59953619 -AATAAT-AAGTTTAAA
1 TAATAATAAAGTTTAAA
59953634 TAATA
1 TAATA
59953639 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAAGTTTAAA
Found at i:59953691 original size:15 final size:15
Alignment explanation
Indices: 59953671--59953727 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
59953661 ATTCAATATT
59953671 AATATTTTAATAATA
1 AATATTTTAATAATA
*
59953686 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
59953705 AATATATTAATAATA
1 AATATTTTAATAATA
*
59953720 AATGTTTT
1 AATATTTT
59953728 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:59954593 original size:63 final size:63
Alignment explanation
Indices: 59954456--59954620 Score: 287
Period size: 63 Copynumber: 2.6 Consensus size: 63
59954446 TTATTAAATT
*
59954456 TTAATAGAATTATTATTAAAATATGAATTAATAAAAAT-AAAATATATAATTTAATAACATTA
1 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTA
* * *
59954518 TTAATATGATTATCATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTC
1 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTA
59954581 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAA
1 TTAATATAATTATTATTAAAATATGAATTAATAAAAATAA
59954621 TAATTAATAA
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 35 0.36
63 61 0.64
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (63 bp):
TTAATATAATTATTATTAAAATATGAATTAATAAAAATAAAAATATATAATTTAATAACATTA
Found at i:59958284 original size:18 final size:18
Alignment explanation
Indices: 59958261--59958297 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
59958251 CCATGGGTCA
59958261 AGTTACACGGGATTACCG
1 AGTTACACGGGATTACCG
59958279 AGTTACACGGGATTACCG
1 AGTTACACGGGATTACCG
59958297 A
1 A
59958298 ATGAGCTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (18 bp):
AGTTACACGGGATTACCG
Found at i:59968761 original size:13 final size:12
Alignment explanation
Indices: 59968739--59968768 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
59968729 CGTAGGGTTC
59968739 TTTTTTTTTATT
1 TTTTTTTTTATT
59968751 TTTTATTTTTATT
1 TTTT-TTTTTATT
59968764 TTTTT
1 TTTTT
59968769 GGAATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:59969317 original size:116 final size:116
Alignment explanation
Indices: 59969109--59969335 Score: 355
Period size: 116 Copynumber: 2.0 Consensus size: 116
59969099 TTGGTGTGGT
* * *
59969109 TGACAAAACAGCCACTCTGATTTCAATTCAGTGACTCAACTTTCGAAAAATAACAAATCAACCCT
1 TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
* *
59969174 TTTAATCATTTTCCATTACAAATGTAATAGAAAAATGACATGACATGTAGC
66 TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACATGTAGC
* **
59969225 TGACAAAACAGTCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAGTCAT
1 TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
* * *
59969290 TTTAACCATTTTCCGTTACAAACGTAATGGAAAAGTGACATGACAT
66 TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACAT
59969336 CCTATTGTGT
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (116 bp):
TGACAAAACAGCCACTCTAATTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAATCAACCAT
TTTAACCATTTTCCATTACAAACGTAATAGAAAAATGACATGACATGTAGC
Found at i:59972769 original size:26 final size:26
Alignment explanation
Indices: 59972740--59972828 Score: 87
Period size: 25 Copynumber: 3.5 Consensus size: 26
59972730 ATGAGTATCT
59972740 CGATAAATGGCTCTTCGTGAGCTTTC
1 CGATAAATGGCTCTTCGTGAGCTTTC
* *
59972766 CGATTAAA-GGCTCTTTGTAAGC-TTC
1 CGA-TAAATGGCTCTTCGTGAGCTTTC
* * *
59972791 CTG-TTAATGGCTCTCCG-GAGCTTCC
1 C-GATAAATGGCTCTTCGTGAGCTTTC
59972816 CGATAAATGGCTC
1 CGATAAATGGCTC
59972829 ACAAGAGCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
24 7 0.14
25 23 0.46
26 16 0.32
27 4 0.08
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
CGATAAATGGCTCTTCGTGAGCTTTC
Found at i:59972893 original size:25 final size:25
Alignment explanation
Indices: 59972785--59972903 Score: 109
Period size: 25 Copynumber: 4.8 Consensus size: 25
59972775 GCTCTTTGTA
* * **
59972785 AGCTTCCTGTTA-ATGGCTCTCCGG
1 AGCTTCCCGTTATATGGCTCACAAG
* *
59972809 AGCTTCCCGATAAATGGCTCACAAG
1 AGCTTCCCGTTATATGGCTCACAAG
* ** *
59972834 AGCTTCCCATTATACAGCTCACATG
1 AGCTTCCCGTTATATGGCTCACAAG
59972859 AGCTTCCCGTTATATGGCTCGA-AAG
1 AGCTTCCCGTTATATGGCTC-ACAAG
59972884 AGCTTCCCGTT-TATGTGCTC
1 AGCTTCCCGTTATATG-GCTC
59972904 GTATGAGTAT
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
24 14 0.18
25 62 0.81
26 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (25 bp):
AGCTTCCCGTTATATGGCTCACAAG
Found at i:59972916 original size:26 final size:25
Alignment explanation
Indices: 59972862--59972918 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
59972852 TCACATGAGC
*
59972862 TTCCCGTTATATGGCTCGAAAGAGC
1 TTCCCGTTATATGGCTCGAAAGAGA
* *
59972887 TTCCCGTT-TATGTGCTCGTATGAGTA
1 TTCCCGTTATATG-GCTCGAAAGAG-A
59972913 TTCCCG
1 TTCCCG
59972919 AATATGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 17 0.63
26 6 0.22
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (25 bp):
TTCCCGTTATATGGCTCGAAAGAGA
Found at i:59974668 original size:33 final size:33
Alignment explanation
Indices: 59974571--59974653 Score: 132
Period size: 32 Copynumber: 2.5 Consensus size: 33
59974561 GTAAGGGTGA
59974571 CACTTGAAAAGGAAATGTACACTTTGTGTGTA-
1 CACTTGAAAAGGAAATGTACACTTTGTGTGTAC
**
59974603 CACTTGAAAAGGAAACATACACTTTGTGTGTAC
1 CACTTGAAAAGGAAATGTACACTTTGTGTGTAC
*
59974636 CACTTGAAAAGGGAATGT
1 CACTTGAAAAGGAAATGT
59974654 GCACCTAGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (33 bp):
CACTTGAAAAGGAAATGTACACTTTGTGTGTAC
Found at i:59975764 original size:19 final size:19
Alignment explanation
Indices: 59975740--59975795 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
59975730 GTCTTAAGCC
*
59975740 ACACGGGCGTGTGTAATCT
1 ACACGGGCGTGTGTAAACT
59975759 ACAC-GGC---T-TAAAC-
1 ACACGGGCGTGTGTAAACT
*
59975772 ACACGGGCGTGTGTAACCT
1 ACACGGGCGTGTGTAAACT
59975791 ACACG
1 ACACG
59975796 ACCTAAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 1 0.03
17 1 0.03
18 7 0.24
19 9 0.31
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (19 bp):
ACACGGGCGTGTGTAAACT
Found at i:59975780 original size:32 final size:32
Alignment explanation
Indices: 59975739--59975812 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
59975729 TGTCTTAAGC
* * *
59975739 CACACGGGCGTGTGTAATCTACACGGCTTAAA
1 CACACGGGCGTGTGTAACCTACACGACCTAAA
59975771 CACACGGGCGTGTGTAACCTACACGACCTAAA
1 CACACGGGCGTGTGTAACCTACACGACCTAAA
59975803 CACACGGGCG
1 CACACGGGCG
59975813 CGTATGGTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (32 bp):
CACACGGGCGTGTGTAACCTACACGACCTAAA
Found at i:59976442 original size:137 final size:138
Alignment explanation
Indices: 59976195--59976470 Score: 545
Period size: 137 Copynumber: 2.0 Consensus size: 138
59976185 GTAAATGTCT
59976195 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCGTGCTACGAGC
1 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCGTGCTACGAGC
59976260 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
66 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
59976325 TGAAATGA
131 TGAAATGA
59976333 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGC-TCCGTGCTACGAGC
1 TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCGTGCTACGAGC
59976397 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
66 TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
59976462 TGAAATGA
131 TGAAATGA
59976470 T
1 T
59976471 GGATAAATGT
Statistics
Matches: 138, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 88 0.64
138 50 0.36
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (138 bp):
TCCAACCAAGCAAGAGCTGAATCAGAGGAAGCTGAGAGTGCTTCTCAAGCTTCCGTGCTACGAGC
TACAGATAGTAGTAGTAGAAGGTCCGAATCAAAGGGCCGAGTGAATATGCTAAAGAAGTTTTCTT
TGAAATGA
Found at i:59978737 original size:21 final size:22
Alignment explanation
Indices: 59978695--59978740 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
59978685 TTTAATTGAG
* *
59978695 TTTTTTTTATTTGTATAGTTCA
1 TTTTTTTTATTTGTAAAATTCA
*
59978717 TTTTTTTTCTTT-TAAAATTCA
1 TTTTTTTTATTTGTAAAATTCA
59978738 TTT
1 TTT
59978741 GATATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTTTTATTTGTAAAATTCA
Found at i:59978839 original size:25 final size:23
Alignment explanation
Indices: 59978811--59978866 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
59978801 TTTGAAGTAT
* * *
59978811 TTTTTTATATTATATTATTTTGACA
1 TTTTTTATAATAT-TTAGTTT-AAA
*
59978836 TTTTGTATAATATTTAGTTTAAA
1 TTTTTTATAATATTTAGTTTAAA
59978859 TTTTTTAT
1 TTTTTTAT
59978867 TATCTGTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.35
24 6 0.23
25 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TTTTTTATAATATTTAGTTTAAA
Found at i:59985304 original size:33 final size:32
Alignment explanation
Indices: 59985229--59985306 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
59985219 CGTAAGGGTG
59985229 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
59985261 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
1 ACACTTGAAAAGGAAACGTACACTTTGTGTGT
59985293 ACCACTTGAAAAGG
1 A-CACTTGAAAAGG
59985307 GAATGTGCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 33 0.73
33 12 0.27
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (32 bp):
ACACTTGAAAAGGAAACGTACACTTTGTGTGT
Found at i:59991478 original size:94 final size:94
Alignment explanation
Indices: 59991355--59991531 Score: 273
Period size: 94 Copynumber: 1.9 Consensus size: 94
59991345 GTTATGTGAG
* * * *
59991355 AGCCAGTGTAAGACCATATCTGGGGCATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACGTG
59991420 TCTAGGACATGCATCAGCAACATTATGAT
66 TCTAGGACATGCATCAGCAACATTATGAT
* * * *
59991449 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACGTG
*
59991514 TCTGGGACATGCATCAGC
66 TCTAGGACATGCATCAGC
59991532 TAAGCTTCGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCATAGAGACGAGGGCCAGTGTAAGACGTG
TCTAGGACATGCATCAGCAACATTATGAT
Found at i:59991560 original size:44 final size:44
Alignment explanation
Indices: 59991407--59991571 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 44
59991397 GACGAGGGCT
*
59991407 AGTGTAAGACGTGTCTAGGACATGCATCAGC-AA-CATTATGATAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGC-TTA-G-T-GCC
* * *
59991453 AGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGC-TA-AGCTTAGTGCC
* * * *
59991501 AGTGTAAGACGTGTCTGGGACATGCATCAGCTAAGCTTCGTGCT
1 AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGCTTAGTGCC
*
59991545 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTAGGACATGCAT
59991572 TACACAAGAG
Statistics
Matches: 101, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 33 0.33
45 2 0.02
46 16 0.16
47 25 0.25
48 19 0.19
49 1 0.01
50 2 0.02
51 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCAGCTAAGCTTAGTGCC
Found at i:59992527 original size:55 final size:55
Alignment explanation
Indices: 59992412--59992530 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
59992402 CTTAAACTTT
* * * *
59992412 TAAGTCAGTATTGTCCACGGGTAGGCCACATGGGCGTGCGTCATAGCCGTGTCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATGCCTA
* * *
59992467 TAAGTCAGTATTGTTCACGGGTAGGCCACACGGGCATGTGTCATGGCCATGCCCTA
1 TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATG-CCTA
59992523 -AAGTCAGT
1 TAAGTCAGT
59992531 GTTGCACATG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 53 0.95
56 3 0.05
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (55 bp):
TAAGTCAGTATTGTCCACGGGTAGGCCACACGGGCATGCGTCATAGCCATGCCTA
Found at i:59995248 original size:67 final size:67
Alignment explanation
Indices: 59995172--59995305 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
59995162 TTTCTTTATT
59995172 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
1 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
59995237 AG
66 AG
*
59995239 TTAAGTTTTAATATATTTTTAATTAATAAAACTTTAATTAATTATTTATTTTAATGAAATTTCTC
1 TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
59995304 AG
66 AG
59995306 GTAACATGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (67 bp):
TTAAGTTTTAATATATTTTTAATTAATAAAAATTTAATTAATTATTTATTTTAATGAAATTTCTC
AG
Found at i:59998519 original size:5 final size:6
Alignment explanation
Indices: 59998504--59998529 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
59998494 TCAAAAACAT
59998504 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
59998530 TTGTATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:60015818 original size:46 final size:46
Alignment explanation
Indices: 60015751--60015928 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
60015741 TGTAACCCGC
* *
60015751 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * *
60015797 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * ** *
60015843 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAC
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
60015890 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
60015929 CTCAACCATC
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 2 0.02
46 71 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:60015866 original size:93 final size:93
Alignment explanation
Indices: 60015759--60015929 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
60015749 GCCCATAAGT
*** *
60015759 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTCAA
60015824 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
60015852 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTCAA
60015917 CGAGTTCGGATGC
66 CGAGTTCGGATGC
60015930 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:60018507 original size:30 final size:30
Alignment explanation
Indices: 60018471--60018530 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
60018461 AAACCTCAAA
60018471 GTTTTTATTCCTTACATTTAGGTCCTTACT
1 GTTTTTATTCCTTACATTTAGGTCCTTACT
*
60018501 GTTTTTATTCCTTGCATTTAGGTCCTTACT
1 GTTTTTATTCCTTACATTTAGGTCCTTACT
60018531 AACACTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (30 bp):
GTTTTTATTCCTTACATTTAGGTCCTTACT
Found at i:60035494 original size:46 final size:46
Alignment explanation
Indices: 60035427--60035602 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
60035417 TGTAACCCGC
*
60035427 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
60035473 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGT-TCGCAT
* * * *
60035519 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
** * *
60035566 CCATAAATGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
60035603 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 70 0.65
47 34 0.31
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:60035546 original size:93 final size:93
Alignment explanation
Indices: 60035434--60035604 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
60035424 CGCCCATAAG
* * *
60035434 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
60035499 ACGAGCTCGGATGTCTAGTTACATTTCA
66 ACGAGCTCGGATGTCTAGTTACATTTCA
*
60035527 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
* *
60035592 ATGAGTTCGGATG
66 ACGAGCTCGGATG
60035605 CTCAACCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGTCTAGTTACATTTCA
Found at i:60043058 original size:47 final size:49
Alignment explanation
Indices: 60042938--60043115 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 49
60042928 TGTAACCCGC
* * *
60042938 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
60042983 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
60043033 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
60043076 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
60043116 TCAACCATCC
Statistics
Matches: 111, Mismatches: 9, Indels: 22
0.78 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 36 0.32
46 29 0.26
47 30 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:60043103 original size:93 final size:92
Alignment explanation
Indices: 60042945--60043115 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
60042935 CGCCCATAAG
*
60042945 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60043010 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
* *
60043037 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGAC-GTCGCATCCATAAGTGAACTCGGACTCAACTCA
60043102 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
60043116 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 29 0.39
93 46 0.61
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:60082994 original size:27 final size:27
Alignment explanation
Indices: 60082964--60083141 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60082954 ATATTGAGTC
* * * *
60082964 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
60082991 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60083018 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
60083046 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
60083073 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
60083100 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60083127 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60083142 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:60083103 original size:82 final size:81
Alignment explanation
Indices: 60082985--60083140 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60082975 TGCTATATAA
* *
60082985 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60083050 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60083067 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60083131 CACTTAGTGC
65 CACTTAGTGC
60083141 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60087252 original size:45 final size:45
Alignment explanation
Indices: 60087188--60087404 Score: 318
Period size: 45 Copynumber: 4.9 Consensus size: 45
60087178 CGCACAGTAT
*
60087188 TATTCGGGCCTTTGAGCCTAGCAGGCTATATTGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
60087233 TATTCAGGCCTTTGAGCCTAGCACGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
60087278 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
60087323 TATTCGGGCCTTTGAGCCTACCAGGCTATAATGCCGGTGAAATGA-
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT-AC
* *
60087368 TA-TCGGG--TTTAAAACCTAGCAGGCTA-AATGCCGGTGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
60087405 TTTGATAAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
42 14 0.09
43 12 0.08
44 5 0.03
45 128 0.80
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:60091615 original size:27 final size:27
Alignment explanation
Indices: 60091576--60091671 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 27
60091566 CATTATCGCA
**
60091576 GCAAAGCTTCCAGTAATAGTAAATGTG
1 GCAAAGCCACCAGTAATAGTAAATGTG
*
60091603 GCAAAGCCACCAGT-ATCAGTATATGTG
1 GCAAAGCCACCAGTAAT-AGTAAATGTG
* * *
60091630 GCAAAGCCACCGGTAACAGTAATTGTG
1 GCAAAGCCACCAGTAATAGTAAATGTG
*
60091657 GCAGAGCCACCAGTA
1 GCAAAGCCACCAGTA
60091672 CAGTACTTCC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
26 2 0.03
27 55 0.95
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
GCAAAGCCACCAGTAATAGTAAATGTG
Found at i:60094592 original size:26 final size:26
Alignment explanation
Indices: 60094563--60094618 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
60094553 TCCTCTCTCA
60094563 AGCCATATAA-TAGGAAGCTCACAAAG
1 AGCCAT-TAATTAGGAAGCTCACAAAG
*
60094589 AGCCATTAATTGGGAAGCTCACAAAG
1 AGCCATTAATTAGGAAGCTCACAAAG
60094615 AGCC
1 AGCC
60094619 TATCAGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.16
Consensus pattern (26 bp):
AGCCATTAATTAGGAAGCTCACAAAG
Found at i:60094720 original size:26 final size:25
Alignment explanation
Indices: 60094693--60094788 Score: 92
Period size: 24 Copynumber: 3.9 Consensus size: 25
60094683 AAAGAAATTT
*
60094693 TAATCAGGAAGCTCACAAAGAGCCTT
1 TAATCAGGAAGCTCACAAAGAGCC-A
* *
60094719 TAATCAGG-AGCTC-CGAATAGCCA
1 TAATCAGGAAGCTCACAAAGAGCCA
* **
60094742 TATATCAGGAAGTTCA-AGCGAGCCA
1 TA-ATCAGGAAGCTCACAAAGAGCCA
60094767 T-ATCAGGAAGCTCACAAAGAGC
1 TAATCAGGAAGCTCACAAAGAGC
60094789 TACGTTTGTG
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
23 14 0.25
24 18 0.33
25 15 0.27
26 8 0.15
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (25 bp):
TAATCAGGAAGCTCACAAAGAGCCA
Found at i:60096939 original size:74 final size:75
Alignment explanation
Indices: 60096842--60097001 Score: 214
Period size: 74 Copynumber: 2.1 Consensus size: 75
60096832 CATAAATTAA
* *
60096842 AAAAGAAAATTAGGATTATTCCCTTACTAATAAAGAAGGAAAATGAAAAGTCAAAAAAAAGAATT
1 AAAAGAATA-TAGGATTATTCCCTTACTAATAAACAAGGAAAATGAAAAGTCAAAAAAAAGAATT
60096907 ATATT-ATTCC
65 ATATTCATTCC
* * * * *
60096917 AAAAGAATATAGGATTATTCCCTTATTAATAAACAATGTAAATGAACAGTTAAAAAAAAGAATTA
1 AAAAGAATATAGGATTATTCCCTTACTAATAAACAAGGAAAATGAAAAGTCAAAAAAAAGAATTA
* * *
60096982 TTTTCTTTTC
66 TATTCATTCC
60096992 AAAAGAATAT
1 AAAAGAATAT
60097002 TAATTTCCAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
74 53 0.72
75 21 0.28
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (75 bp):
AAAAGAATATAGGATTATTCCCTTACTAATAAACAAGGAAAATGAAAAGTCAAAAAAAAGAATTA
TATTCATTCC
Found at i:60097149 original size:132 final size:135
Alignment explanation
Indices: 60096977--60097254 Score: 373
Period size: 138 Copynumber: 2.1 Consensus size: 135
60096967 TAAAAAAAAG
* * ** ***
60096977 AATTATTTTCTTTTCAAAAGAATATTAATTTCCATATCTTTTATATTTT-TTCGA-ATTTATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGATACCAATTAA
* *
60097040 TATAA-TTATATTAATAAATTTGAAAAAATATATACAATTAATATTTTGTATGCATCAAATTCAT
66 TATAATTTATATTAATAAATTCGAAAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
60097104 ATATT
131 ATATT
* * *
60097109 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGATACCAATTCA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGATACCAATTAA
** *
60097174 TATAATTGTTTATATTAATAAATTCGGTAAAATATATTCAATTAATATTTTGTATGAATCAAATT
66 TATAA---TTTATATTAATAAATTCGAAAAAATATATACAATTAATATTTTGTATGAATCAAATT
60097239 CATATATT
128 CATATATT
60097247 AATTATAT
1 AATTATAT
60097255 CTATGTTCTC
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
132 45 0.36
133 3 0.02
134 10 0.08
138 67 0.54
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (135 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGATACCAATTAA
TATAATTTATATTAATAAATTCGAAAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATT
Found at i:60098468 original size:2 final size:2
Alignment explanation
Indices: 60098463--60098498 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
60098453 CATATATATA
60098463 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
60098499 GATGAGTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:60101499 original size:19 final size:19
Alignment explanation
Indices: 60101475--60101512 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60101465 AAATTGAATA
60101475 GACTTAGGTGAGCAAACAT
1 GACTTAGGTGAGCAAACAT
60101494 GACTTAGGTGAGCAAACAT
1 GACTTAGGTGAGCAAACAT
60101513 CGCCCCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
GACTTAGGTGAGCAAACAT
Found at i:60123081 original size:24 final size:24
Alignment explanation
Indices: 60123049--60123096 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
60123039 AATTAGGCTC
60123049 TAGTGATTGAAATTATGTCCAGAA
1 TAGTGATTGAAATTATGTCCAGAA
60123073 TAGTGATTGAAATTATGTCCAGAA
1 TAGTGATTGAAATTATGTCCAGAA
60123097 GCATCGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
TAGTGATTGAAATTATGTCCAGAA
Found at i:60124018 original size:15 final size:15
Alignment explanation
Indices: 60123994--60124025 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60123984 TATGCATACA
*
60123994 AAATATAAAAGACAT
1 AAATACAAAAGACAT
60124009 AAATACAAAAGACAT
1 AAATACAAAAGACAT
60124024 AA
1 AA
60124026 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:60137671 original size:6 final size:6
Alignment explanation
Indices: 60137599--60137669 Score: 106
Period size: 6 Copynumber: 11.8 Consensus size: 6
60137589 ACTTGAAGAT
60137599 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
1 GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA GATGGA
* * * *
60137647 AATGGT GATGGT GATGGT GATGG
1 GATGGA GATGGA GATGGA GATGG
60137670 TGCACTGGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.30, C:0.00, G:0.49, T:0.21
Consensus pattern (6 bp):
GATGGA
Found at i:60137848 original size:76 final size:76
Alignment explanation
Indices: 60137722--60137877 Score: 312
Period size: 76 Copynumber: 2.1 Consensus size: 76
60137712 AGTCTTCCAG
60137722 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
1 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
60137787 AACACGAAAGA
66 AACACGAAAGA
60137798 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
1 AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
60137863 AACACGAAAGA
66 AACACGAAAGA
60137874 AAAC
1 AAAC
60137878 AACAAAACAG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 80 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (76 bp):
AAACCGATCTTTGAGTCCTTGCGGTCATATGTAACAAGAGTATTCCGCACAATGATTCCTATTAC
AACACGAAAGA
Found at i:60138446 original size:27 final size:27
Alignment explanation
Indices: 60138408--60138463 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
60138398 CAATATTAAC
60138408 AATATTACATAACTAATCATTTTATAT
1 AATATTACATAACTAATCATTTTATAT
60138435 AATATTACATAACTAATCATTTTATAT
1 AATATTACATAACTAATCATTTTATAT
60138462 AA
1 AA
60138464 CAAGTAGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (27 bp):
AATATTACATAACTAATCATTTTATAT
Found at i:60141438 original size:31 final size:30
Alignment explanation
Indices: 60141363--60141439 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
60141353 ATTACGTTAG
*
60141363 TAGTCACCTAACTATTAGTAAATTTCATTTT
1 TAGTCACC-AACTATTAGTAAATATCATTTT
* * * *
60141394 TGGTTACTTAACTATTAGTAAATATCCTTTT
1 TAGTCAC-CAACTATTAGTAAATATCATTTT
60141425 TAGTCATCCAACTAT
1 TAGTCA-CCAACTAT
60141440 AAAAATTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
31 35 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (30 bp):
TAGTCACCAACTATTAGTAAATATCATTTT
Found at i:60145567 original size:19 final size:20
Alignment explanation
Indices: 60145543--60145581 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
60145533 TCTTATTTTT
60145543 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
60145562 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
60145582 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:60145599 original size:25 final size:23
Alignment explanation
Indices: 60145543--60145607 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
60145533 TCTTATTTTT
*
60145543 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
60145562 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
60145585 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
60145608 GTTTTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:60148900 original size:13 final size:12
Alignment explanation
Indices: 60148877--60148939 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
60148867 AGTAATTTTA
60148877 TATTAAAATTAT
1 TATTAAAATTAT
60148889 TATT-AAA-TAT
1 TATTAAAATTAT
60148899 TATTAATAATTA-
1 TATTAA-AATTAT
*
60148911 TATTAAGAA-TGT
1 TATTAA-AATTAT
60148923 TATT-AAATTAT
1 TATTAAAATTAT
60148934 ATATTA
1 -TATTA
60148940 TTTTATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:60148904 original size:22 final size:23
Alignment explanation
Indices: 60148877--60148939 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
60148867 AGTAATTTTA
60148877 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
60148899 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
60148923 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
60148940 TTTTATTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:60149047 original size:25 final size:26
Alignment explanation
Indices: 60148998--60149048 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
60148988 TATTTTATTT
*
60148998 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
60149024 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
60149049 ATCTACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:60149166 original size:39 final size:44
Alignment explanation
Indices: 60149120--60149213 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 44
60149110 TTACAACATT
*
60149120 TATTCCATT-CAATCAA-ACACAA-GAATT-CT-ATTACAGTTC
1 TATTCCATTCCAATCAACAAACAATGAATTACTGATTACAGTTC
* *
60149159 TATTCCATTCCATTCAACTAAACAATTGAATTATTGATTACAGTTC
1 TATTCCATTCCAATCAAC-AAACAA-TGAATTACTGATTACAGTTC
60149205 TATTCCATT
1 TATTCCATT
60149214 ATAGTGAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
39 9 0.20
40 6 0.13
42 5 0.11
44 5 0.11
45 1 0.02
46 19 0.42
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.38
Consensus pattern (44 bp):
TATTCCATTCCAATCAACAAACAATGAATTACTGATTACAGTTC
Found at i:60149172 original size:44 final size:46
Alignment explanation
Indices: 60149121--60149213 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
60149111 TACAACATTT
60149121 ATTCCATTCAA-TCAAACACA-AGAATT-CT-ATTACAGTTCTATTCC
1 ATTCCATTCAACT-AAACA-ATAGAATTACTGATTACAGTTCTATTCC
* *
60149165 ATTCCATTCAACTAAACAATTGAATTATTGATTACAGTTCTATTCC
1 ATTCCATTCAACTAAACAATAGAATTACTGATTACAGTTCTATTCC
60149211 ATT
1 ATT
60149214 ATAGTGAACG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 2 0.05
46 19 0.44
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (46 bp):
ATTCCATTCAACTAAACAATAGAATTACTGATTACAGTTCTATTCC
Found at i:60150653 original size:8 final size:8
Alignment explanation
Indices: 60150642--60150670 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
60150632 TTTAAATATT
60150642 TTATTTAC
1 TTATTTAC
60150650 TTATTTAC
1 TTATTTAC
60150658 TTATTTAC
1 TTATTTAC
60150666 TTATT
1 TTATT
60150671 GTATTATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (8 bp):
TTATTTAC
Found at i:60150775 original size:3 final size:3
Alignment explanation
Indices: 60150751--60150885 Score: 83
Period size: 3 Copynumber: 44.0 Consensus size: 3
60150741 TGGATTGCTA
* * * * *
60150751 ATT AAT ATT ATC ATT GTT ATT ATT ATT CTT ACT ATT ATAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
* * * * * * * *
60150797 GTT ATT ATT CTT ACT ATT ATT ATT ATC GTT ACT ATT TTT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
60150845 ATT -TAT ATAT ATT ATT ACT ATT ATT TTT CACT ATT ATT ATT
1 ATT AT-T AT-T ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
60150886 GTTAGAATTA
Statistics
Matches: 96, Mismatches: 32, Indels: 8
0.71 0.24 0.06
Matches are distributed among these distances:
2 1 0.01
3 86 0.90
4 9 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:60150857 original size:13 final size:13
Alignment explanation
Indices: 60150825--60150882 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
60150815 ATTATTATCG
60150825 TTACTATT-TTTA
1 TTACTATTATTTA
60150837 TTACTATTATTTA
1 TTACTATTATTTA
60150850 -TA-TA-TA-TTA
1 TTACTATTATTTA
60150859 TTACTATTATTT-
1 TTACTATTATTTA
60150871 TTCACTATTATT
1 TT-ACTATTATT
60150883 ATTGTTAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
9 3 0.08
10 4 0.10
11 4 0.10
12 14 0.35
13 15 0.38
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (13 bp):
TTACTATTATTTA
Found at i:60151215 original size:11 final size:12
Alignment explanation
Indices: 60151199--60151229 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60151189 TTGTGTGTTC
60151199 TTTATTTTA-TT
1 TTTATTTTATTT
60151210 TTTATTTTATTT
1 TTTATTTTATTT
60151222 TTTATTTT
1 TTTATTTT
60151230 CACAAATTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:60155674 original size:14 final size:14
Alignment explanation
Indices: 60155655--60155681 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60155645 GTTCTTTATT
60155655 TTATTTTTATTTTA
1 TTATTTTTATTTTA
60155669 TTATTTTTATTTT
1 TTATTTTTATTTT
60155682 CACAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTATTTTTATTTTA
Done.