Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 185 of 310
Found at i:60574615 original size:594 final size:598
Alignment explanation
Indices: 60573487--60574684 Score: 2145
Period size: 594 Copynumber: 2.0 Consensus size: 598
60573477 AAAGGTTAAT
60573487 GAAACAAATCTAAACAACTAAGATTGACCCTAGAAGTTAGTAGTAATCAGCACCTATAACTACAC
1 GAAACAAATCTAAACAACTAAGATTGACCCTAGAAGTTAGTAGTAATCAGCACCTATAACTACAC
60573552 GACTCTGAGTCTGAAAATAGCGAGTTAAGTGAGCCACCCACCTCCAATGTGATGAAATACATCCA
66 GACTCTGAGTCTGAAAATAGCGAGTTAAGTGAGCCACCCACCTCCAATGTGATGAAATACATCCA
60573617 TGCATGGACATGGGATTTTATGCTCTCAAATACATCAATACGAACAGAAAATTCATAGAACGAAT
131 TGCATGGACATGGGATTTTATGCTCTCAAATACATCAATACGAACAGAAAATTCATAGAACGAAT
*
60573682 TGCTAAACCCCCTTGATTGTATAGCTTAAATAGCATTCTCAAGTTTTCAAGAATAAGCTCTTTTC
196 TGCTAAACCCCCTAGATTGTATAGCTTAAATAGCATTCTCAAGTTTTCAAGAATAAGCTCTTTTC
* * *
60573747 CCCTTCAAATATCATCTTTCCAGTAGCATCTAGACTTTCTTTCAGTAAATGTTTTACAAGGCTAA
261 CCCTTCAAACATCACCTTTCCAGTAGCATCTAGACTTTCTTTCAGCAAATGTTTTACAAGGCTAA
*
60573812 ATGGAAAATATTAAAGGTGGGAAAGAGGTAGCTTGTATGTAGAGAAAAAAGGATTCCTAGGTGAT
326 ATGGAAAATATTAAAGGTGGGAAAGAGGTAGCTTGTATGTAGAGAAAAAAGGAGTCCTAGGTGAT
*
60573877 TCTGTCCCATTATGCTATATTGTGTTTCACCATATCCATAATACACAATTACTTTGAGGTCTTAA
391 TCTGTCCCACTATGCTATATTGTGTTTCACCATATCCATAATACACAATTACTTTGAGGTCTTAA
** *
60573942 CCATATAAATTTGGTAGGTCGCATCAACATCAGTTTTTATGTACTATAAATTTTATATGTTGTTT
456 CCATATAAATTTGGTAGGTCGCATCAACATCAGTTTTTATGTACTATAAATTTTATACATTGATT
60574007 TTTTTAATGTTCAGAGGAAGAGAAAAGGGGGAAA-GGG-G-C-TGAATTTGGTTTCAAGTCACAT
521 TTTTTAATGTTCAGAGGAAGAGAAAAGGGGGAAAGGGGAGACTTGAATTTGGTTTCAAGTCACAT
60574068 CAATGAGGCATTA
586 CAATGAGGCATTA
* * *
60574081 GAAACAAATTTAAACAACTAAGATTGACCCTAGAAGTTAGTAGTAATCAGCATCTATAACTACAT
1 GAAACAAATCTAAACAACTAAGATTGACCCTAGAAGTTAGTAGTAATCAGCACCTATAACTACAC
*
60574146 GACTCTGAGTCTGAAAATAGTGAGTTAAGTGAGCCACCCACCTCCAATGTGATGAAATACATCCA
66 GACTCTGAGTCTGAAAATAGCGAGTTAAGTGAGCCACCCACCTCCAATGTGATGAAATACATCCA
* *
60574211 TGCATGGGCATGGGATTTTATGCTCTCAAATACATCAATACGAACAGAAAATTCATAGAATGAAT
131 TGCATGGACATGGGATTTTATGCTCTCAAATACATCAATACGAACAGAAAATTCATAGAACGAAT
60574276 TGCTAAACCCCCTAGATTGTATAGCTTAAATAGCATTCTCAAGTTTTCAAGAATAAGCTCTTTTC
196 TGCTAAACCCCCTAGATTGTATAGCTTAAATAGCATTCTCAAGTTTTCAAGAATAAGCTCTTTTC
60574341 CCCTTCAAACATCACCTTTCCAGTAGCATCTAGACTTTCTTTCAGCAAATGTTTTAC-AGTGCTA
261 CCCTTCAAACATCACCTTTCCAGTAGCATCTAGACTTTCTTTCAGCAAATGTTTTACAAG-GCTA
* *
60574405 AATGGAAAATTTTAAAGGTGGGAAAGAGGTAGCTTGTATGTAGAGAAAAAATGAGTCCTAGGTGA
325 AATGGAAAATATTAAAGGTGGGAAAGAGGTAGCTTGTATGTAGAGAAAAAAGGAGTCCTAGGTGA
** *
60574470 TTCTGTCCTGCTATGCTATATTGTGTTTCACCATATCCATAATACACAATTCCTTTGAGGTCTTA
390 TTCTGTCCCACTATGCTATATTGTGTTTCACCATATCCATAATACACAATTACTTTGAGGTCTTA
*
60574535 ACCATATAAATTTGGTAGGTCGCATTAACATCAGTTTTTATGTACTATAAATTTTATACATTGAT
455 ACCATATAAATTTGGTAGGTCGCATCAACATCAGTTTTTATGTACTATAAATTTTATACATTGAT
60574600 TTTTTTAATGTTCAGAGGAAGAGAAAAGGGGGAAAGGGGGAGACCTTGAATTTGGTTTCAAGTCA
520 TTTTTTAATGTTCAGAGGAAGAGAAAAGGGGGAAA-GGGGAGA-CTTGAATTTGGTTTCAAGTCA
60574665 CATCAATGAGGCATTA
583 CATCAATGAGGCATTA
60574681 GAAA
1 GAAA
60574685 AGAAAAACAA
Statistics
Matches: 576, Mismatches: 21, Indels: 8
0.95 0.03 0.01
Matches are distributed among these distances:
593 2 0.00
594 530 0.92
596 3 0.01
597 1 0.00
599 1 0.00
600 39 0.07
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (598 bp):
GAAACAAATCTAAACAACTAAGATTGACCCTAGAAGTTAGTAGTAATCAGCACCTATAACTACAC
GACTCTGAGTCTGAAAATAGCGAGTTAAGTGAGCCACCCACCTCCAATGTGATGAAATACATCCA
TGCATGGACATGGGATTTTATGCTCTCAAATACATCAATACGAACAGAAAATTCATAGAACGAAT
TGCTAAACCCCCTAGATTGTATAGCTTAAATAGCATTCTCAAGTTTTCAAGAATAAGCTCTTTTC
CCCTTCAAACATCACCTTTCCAGTAGCATCTAGACTTTCTTTCAGCAAATGTTTTACAAGGCTAA
ATGGAAAATATTAAAGGTGGGAAAGAGGTAGCTTGTATGTAGAGAAAAAAGGAGTCCTAGGTGAT
TCTGTCCCACTATGCTATATTGTGTTTCACCATATCCATAATACACAATTACTTTGAGGTCTTAA
CCATATAAATTTGGTAGGTCGCATCAACATCAGTTTTTATGTACTATAAATTTTATACATTGATT
TTTTTAATGTTCAGAGGAAGAGAAAAGGGGGAAAGGGGAGACTTGAATTTGGTTTCAAGTCACAT
CAATGAGGCATTA
Found at i:60576940 original size:771 final size:771
Alignment explanation
Indices: 60575459--60577000 Score: 3066
Period size: 771 Copynumber: 2.0 Consensus size: 771
60575449 AATACCCAAG
60575459 TCCTCAATAAATCGGCGCTGTGATTCTTGTGAACTCCAAGTTTCACAATATTGGAACAGAATTTC
1 TCCTCAATAAATCGGCGCTGTGATTCTTGTGAACTCCAAGTTTCACAATATTGGAACAGAATTTC
*
60575524 CCTAATAAGAGTAGCTTGAAGGTAAGGATAATCATCACGGTAGGGCATGTGAAGGGCTACATAGA
66 CCTAATAAGAGCAGCTTGAAGGTAAGGATAATCATCACGGTAGGGCATGTGAAGGGCTACATAGA
60575589 TAGCCCAGTGACACTGCTCCTGACATAGTAACTGGGATACAAGTCCCATGTCAAGTGATTGAAGA
131 TAGCCCAGTGACACTGCTCCTGACATAGTAACTGGGATACAAGTCCCATGTCAAGTGATTGAAGA
60575654 TCATTAGAATGGAAAGCACCAACAGCTTCCAAGATTGCTCGCTGATGCCAGATCATATGGTAGTC
196 TCATTAGAATGGAAAGCACCAACAGCTTCCAAGATTGCTCGCTGATGCCAGATCATATGGTAGTC
60575719 AAGGGGATCATGTGTTGAAGAGAAGGTGCTAAACATTGCCTTCAGAGAACATAGTTGACTCTCTT
261 AAGGGGATCATGTGTTGAAGAGAAGGTGCTAAACATTGCCTTCAGAGAACATAGTTGACTCTCTT
60575784 CACTGGCATGCAGAAGCATAAGATAGTATGAAAGATCAAATCTTTCCACTCTGCTCAAATTTGCA
326 CACTGGCATGCAGAAGCATAAGATAGTATGAAAGATCAAATCTTTCCACTCTGCTCAAATTTGCA
60575849 TTCTCTTCAACTGGTCCTTCATCAATATAAATTGGAACAGGAAACGGAGCTTTTCCATCATCAAG
391 TTCTCTTCAACTGGTCCTTCATCAATATAAATTGGAACAGGAAACGGAGCTTTTCCATCATCAAG
60575914 AAGGTGCTGATAAGTTCGAAACACAACAGGCAAAGCAGTATCTGAAGGTAGGTGATACCACATTA
456 AAGGTGCTGATAAGTTCGAAACACAACAGGCAAAGCAGTATCTGAAGGTAGGTGATACCACATTA
60575979 ACAATCCTAGGAATCTCTTCCAGTCAATCTTAATACCATGCAAAGCACCATGAATATTGCCAGCA
521 ACAATCCTAGGAATCTCTTCCAGTCAATCTTAATACCATGCAAAGCACCATGAATATTGCCAGCA
60576044 AGCAACTCATAAAGCCGAATCCTGTCCTTCTCGATGAAATTGAAGTCCAGACCATTAATTCTCCA
586 AGCAACTCATAAAGCCGAATCCTGTCCTTCTCGATGAAATTGAAGTCCAGACCATTAATTCTCCA
60576109 AATATCAAGCTGTCTTGAAACATCAGAACGATTAACTGTTGATCCACCAGCCTGGCTTAGTAAAC
651 AATATCAAGCTGTCTTGAAACATCAGAACGATTAACTGTTGATCCACCAGCCTGGCTTAGTAAAC
60576174 AAGCCAATCTAACATCTCCTTTAGAAGCTGCCAGCTCCACAGCTGCATCAAGTTGT
716 AAGCCAATCTAACATCTCCTTTAGAAGCTGCCAGCTCCACAGCTGCATCAAGTTGT
60576230 TCCTCAATAAATCGGCGCTGTGATTCTTGTGAACTCCAAGTTTCACAATATTGGAACAGAATTTC
1 TCCTCAATAAATCGGCGCTGTGATTCTTGTGAACTCCAAGTTTCACAATATTGGAACAGAATTTC
60576295 CCTAATAAGAGCAGCTTGAAGGTAAGGATAATCATCACGGTAGGGCATGTGAAGGGCTACATAGA
66 CCTAATAAGAGCAGCTTGAAGGTAAGGATAATCATCACGGTAGGGCATGTGAAGGGCTACATAGA
60576360 TAGCCCAGTGACACTGCTCCTGACATAGTAACTGGGATACAAGTCCCATGTCAAGTGATTGAAGA
131 TAGCCCAGTGACACTGCTCCTGACATAGTAACTGGGATACAAGTCCCATGTCAAGTGATTGAAGA
60576425 TCATTAGAATGGAAAGCACCAACAGCTTCCAAGATTGCTCGCTGATGCCAGATCATATGGTAGTC
196 TCATTAGAATGGAAAGCACCAACAGCTTCCAAGATTGCTCGCTGATGCCAGATCATATGGTAGTC
60576490 AAGGGGATCATGTGTTGAAGAGAAGGTGCTAAACATTGCCTTCAGAGAACATAGTTGACTCTCTT
261 AAGGGGATCATGTGTTGAAGAGAAGGTGCTAAACATTGCCTTCAGAGAACATAGTTGACTCTCTT
60576555 CACTGGCATGCAGAAGCATAAGATAGTATGAAAGATCAAATCTTTCCACTCTGCTCAAATTTGCA
326 CACTGGCATGCAGAAGCATAAGATAGTATGAAAGATCAAATCTTTCCACTCTGCTCAAATTTGCA
60576620 TTCTCTTCAACTGGTCCTTCATCAATATAAATTGGAACAGGAAACGGAGCTTTTCCATCATCAAG
391 TTCTCTTCAACTGGTCCTTCATCAATATAAATTGGAACAGGAAACGGAGCTTTTCCATCATCAAG
60576685 AAGGTGCTGATAAGTTCGAAACACAACAGGCAAAGCAGTATCTGAAGGTAGGTGATACCACATTA
456 AAGGTGCTGATAAGTTCGAAACACAACAGGCAAAGCAGTATCTGAAGGTAGGTGATACCACATTA
60576750 ACAATCCTAGGAATCTCTTCCAGTCAATCTTAATACCATGCAAAGCACCATGAATATTGCCAGCA
521 ACAATCCTAGGAATCTCTTCCAGTCAATCTTAATACCATGCAAAGCACCATGAATATTGCCAGCA
60576815 AGCAACTCATAAAGCCGAATCCTGTCCTTCTCGATGAAATTGAAGTCCAGACCATTAATTCTCCA
586 AGCAACTCATAAAGCCGAATCCTGTCCTTCTCGATGAAATTGAAGTCCAGACCATTAATTCTCCA
60576880 AATATCAAGCTGTCTTGAAACATCAGAACGATTAACTGTTGATCCACCAGCCTGGCTTAGTAAAC
651 AATATCAAGCTGTCTTGAAACATCAGAACGATTAACTGTTGATCCACCAGCCTGGCTTAGTAAAC
*
60576945 AAGCCAATCTAACATCTCCTTTAGAAGCTGCCAGCTCCACAGCTGCATCTAGTTGT
716 AAGCCAATCTAACATCTCCTTTAGAAGCTGCCAGCTCCACAGCTGCATCAAGTTGT
60577001 CGCCCAGTCA
Statistics
Matches: 769, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
771 769 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (771 bp):
TCCTCAATAAATCGGCGCTGTGATTCTTGTGAACTCCAAGTTTCACAATATTGGAACAGAATTTC
CCTAATAAGAGCAGCTTGAAGGTAAGGATAATCATCACGGTAGGGCATGTGAAGGGCTACATAGA
TAGCCCAGTGACACTGCTCCTGACATAGTAACTGGGATACAAGTCCCATGTCAAGTGATTGAAGA
TCATTAGAATGGAAAGCACCAACAGCTTCCAAGATTGCTCGCTGATGCCAGATCATATGGTAGTC
AAGGGGATCATGTGTTGAAGAGAAGGTGCTAAACATTGCCTTCAGAGAACATAGTTGACTCTCTT
CACTGGCATGCAGAAGCATAAGATAGTATGAAAGATCAAATCTTTCCACTCTGCTCAAATTTGCA
TTCTCTTCAACTGGTCCTTCATCAATATAAATTGGAACAGGAAACGGAGCTTTTCCATCATCAAG
AAGGTGCTGATAAGTTCGAAACACAACAGGCAAAGCAGTATCTGAAGGTAGGTGATACCACATTA
ACAATCCTAGGAATCTCTTCCAGTCAATCTTAATACCATGCAAAGCACCATGAATATTGCCAGCA
AGCAACTCATAAAGCCGAATCCTGTCCTTCTCGATGAAATTGAAGTCCAGACCATTAATTCTCCA
AATATCAAGCTGTCTTGAAACATCAGAACGATTAACTGTTGATCCACCAGCCTGGCTTAGTAAAC
AAGCCAATCTAACATCTCCTTTAGAAGCTGCCAGCTCCACAGCTGCATCAAGTTGT
Found at i:60580785 original size:13 final size:13
Alignment explanation
Indices: 60580767--60580793 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60580757 GAAGAAATCG
60580767 CACACGGGCGTGT
1 CACACGGGCGTGT
60580780 CACACGGGCGTGT
1 CACACGGGCGTGT
60580793 C
1 C
60580794 CTTGTTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:60585276 original size:16 final size:15
Alignment explanation
Indices: 60585233--60585278 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
60585223 TATCATCATC
*
60585233 TCATATTTTCATATA
1 TCATATTTTCATGTA
*
60585248 TCA-ATTATCATGTA
1 TCATATTTTCATGTA
60585262 TCATCATTTTCATGTA
1 TCAT-ATTTTCATGTA
60585278 T
1 T
60585279 TTCAGGCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.50
Consensus pattern (15 bp):
TCATATTTTCATGTA
Found at i:60585661 original size:24 final size:24
Alignment explanation
Indices: 60585625--60585676 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
60585615 GAGTTCAAGC
*
60585625 GAGCCATGTCAGGAAGCTCAT-TA
1 GAGCCATATCAGGAAGCTCATGTA
*
60585648 GAGCCTATATCAGGACGCTCATGTA
1 GAGCC-ATATCAGGAAGCTCATGTA
60585673 GAGC
1 GAGC
60585677 TACGCTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATGTA
Found at i:60587670 original size:55 final size:54
Alignment explanation
Indices: 60587575--60587724 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
60587565 CTACTTTGTT
* ** * *
60587575 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
60587629 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
60587684 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
60587725 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:60587687 original size:27 final size:27
Alignment explanation
Indices: 60587547--60587724 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
60587537 TAAATTGTAC
60587547 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
60587574 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
60587600 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
60587628 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
60587656 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
60587683 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
60587710 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60587725 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:60587688 original size:82 final size:81
Alignment explanation
Indices: 60587548--60587703 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
60587538 AAATTGTACA
* * * *
60587548 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
60587613 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
60587629 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
60587692 TGTGCGAGTTGA
63 TGTGCGAATTGA
60587704 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:60595641 original size:27 final size:27
Alignment explanation
Indices: 60595610--60595787 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
60595600 TAAATTGTAC
60595610 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
60595637 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60595663 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60595691 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60595719 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
60595746 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60595773 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60595788 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60595671 original size:54 final size:55
Alignment explanation
Indices: 60595610--60595787 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 55
60595600 TAAATTGTAC
* *
60595610 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
* * * * *
60595665 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGA-ATTGAATATGAT
* * * *
60595719 AGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
*
60595773 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60595788 GGCTCAATAT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
54 61 0.58
55 44 0.42
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAATTGAATATGAT
Found at i:60595724 original size:82 final size:81
Alignment explanation
Indices: 60595611--60595766 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60595601 AAATTGTACA
* *
60595611 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
60595675 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60595692 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
60595757 TGCGAGTTGA
65 TGCGAATTGA
60595767 TTATATAGCA
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:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60595778 original size:82 final size:81
Alignment explanation
Indices: 60595607--60595787 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
60595597 GATTAAATTG
* *
60595607 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60595672 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60595688 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60595752 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60595770 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60595788 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60599734 original size:41 final size:39
Alignment explanation
Indices: 60599626--60599735 Score: 98
Period size: 37 Copynumber: 2.8 Consensus size: 39
60599616 TTGGATAATT
***
60599626 CGAAGTAATAGATTGACACCCAGTGTCTCATCGGTCTTGC
1 CGAAGTAATAG-TTGACACCCAGTGTCTCATCAAACTTGC
* ** ** *
60599666 CGAAGCAA-A-TTGGTACCCAGTACCTCATCAAACTTATC
1 CGAAGTAATAGTTGACACCCAGTGTCTCATCAAACTT-GC
60599704 CGAAGTAATAGTTTGACACCCAGTGTCTCATC
1 CGAAGTAATAG-TTGACACCCAGTGTCTCATC
60599736 GACTCGAAGC
Statistics
Matches: 52, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
37 19 0.37
38 8 0.15
39 2 0.04
40 7 0.13
41 16 0.31
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (39 bp):
CGAAGTAATAGTTGACACCCAGTGTCTCATCAAACTTGC
Found at i:60600582 original size:13 final size:14
Alignment explanation
Indices: 60600553--60600593 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
60600543 CTAAATTTTC
*
60600553 CTTTTTCTTTCTTT
1 CTTTTTCTTTCTCT
60600567 CTTTTTCTTTC-CT
1 CTTTTTCTTTCTCT
*
60600580 CTTTTTCCTTCTCT
1 CTTTTTCTTTCTCT
60600594 GTTTCGTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTTTTCTTTCTCT
Found at i:60601451 original size:169 final size:169
Alignment explanation
Indices: 60601124--60601430 Score: 490
Period size: 169 Copynumber: 1.8 Consensus size: 169
60601114 ACTTGGAGAG
* * *
60601124 ATTGAAGGCTCATCTGCAAAGCATGACAATTATGGAATGTAATCTTTGAAGATATGCAATCTTAG
1 ATTGAAGGCTCATCTACAAAGCATGACAATTATAGAATGTAATCTTTGAAGATATGCAATCTTAC
* * * *
60601189 ATATTACTTGTAACCTTAGAAGATATGATTTTGTAATCTTAGATATTTGATTTGTAGATAGCTTT
66 ATATTACTTGTAACCTTAAAAGATATGATTTTGTAATCTTAGAGATTTGATTTGTAGACAACTTT
* *
60601254 TAATTTTAACCATTGATGGAGTTTAATCTATAGTATTGA
131 TAATCTTAACCATTGATGGACTTTAATCTATAGTATTGA
60601293 ATTGAAGGC-CAATCTACAAAGCATGACAATTATAGAATGTAATCTTTGAAGATATGCAATCTTA
1 ATTGAAGGCTC-ATCTACAAAGCATGACAATTATAGAATGTAATCTTTGAAGATATGCAATCTTA
* * *
60601357 CATTTTACTTGTAATCTTAAAATATATGATTTTGTAATCTTAGAGATTTGATTTGTAGACAACTT
65 CATATTACTTGTAACCTTAAAAGATATGATTTTGTAATCTTAGAGATTTGATTTGTAGACAACTT
60601422 TTAATCTTA
130 TTAATCTTA
60601431 GTTGTTGATG
Statistics
Matches: 126, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
168 1 0.01
169 125 0.99
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (169 bp):
ATTGAAGGCTCATCTACAAAGCATGACAATTATAGAATGTAATCTTTGAAGATATGCAATCTTAC
ATATTACTTGTAACCTTAAAAGATATGATTTTGTAATCTTAGAGATTTGATTTGTAGACAACTTT
TAATCTTAACCATTGATGGACTTTAATCTATAGTATTGA
Found at i:60602465 original size:125 final size:127
Alignment explanation
Indices: 60602275--60602536 Score: 316
Period size: 125 Copynumber: 2.1 Consensus size: 127
60602265 GAGTATGAGC
* * *
60602275 TTGCCTTCTATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGTATATTCGGATATTTAGAT
1 TTGCCTT-TATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGGATAATCGGATACTTAGAT
* * * * *
60602340 CAAACAGAAAATC-GAAA-CCAAGTACATTAGGACACGACTACTCGAATTTCTAATTACCGAATA
65 C-AACAGAAAAACTGAAACCCAA-TACATTAGGACACAACTACTCGAATTTCCAAGTACCAAATA
* * * *
60602403 TTGCCTTTATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCGGTTACTTAGATC
1 TTGCCTTTATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGGATAATCGGATACTTAGATC
* * * *
60602466 AACTGAAAAACTGAAACCCAATACGTTAGGACACAATTTCTCGAATTTCCAAGTACCAAATA
66 AACAGAAAAACTGAAACCCAATACATTAGGACACAACTACTCGAATTTCCAAGTACCAAATA
*
60602528 TTTCCTTTA
1 TTGCCTTTA
60602537 CTTGAAAAAT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
124 9 0.08
125 67 0.58
126 7 0.06
127 25 0.22
128 7 0.06
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (127 bp):
TTGCCTTTATTTCATTTAAAACTCATGTAATTAAATTTTAAAAAGGATAATCGGATACTTAGATC
AACAGAAAAACTGAAACCCAATACATTAGGACACAACTACTCGAATTTCCAAGTACCAAATA
Found at i:60602719 original size:3 final size:3
Alignment explanation
Indices: 60602705--60603121 Score: 95
Period size: 3 Copynumber: 139.3 Consensus size: 3
60602695 GGATAATATA
* * ** * * *
60602705 AAT AAT AGT AAT AAT AAT AA- AAA AAT GGT AAT AAT ATT AAA AAA AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * **
60602753 AA- ATAT AAT GAT GAT AAT AGT GTT AAT AAT AAT AAT AAT AAT AA-
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
60602797 ACA- AAT GACAT ATT AAT GAT AATT GAA- AAT AAT GAT AAT AAT AAT
1 A-AT AAT -A-AT AAT AAT AAT AA-T -AAT AAT AAT AAT AAT AAT AAT
* *
60602842 GGAAGT AAT GAA- AAT AAT AAT AAT AGA- AAC AAT AGT AAT AA- AAGT
1 --AA-T AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AA-T
* *
60602887 AAT AAT AA- AAT AA- AA- AAT AAC AAT GAT ACATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT AAT
* ** * * *
60602931 -AT ATGT GCT AAT AAT AAT AAC AAT -AT AA- AAA AAG AA- AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
60602973 ACT -AT ATT AAT AAA AAT AAT AGT AAGTT AAT AAT AAT GGT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT
* * * * * * *
60603019 AAG GA- AAT AAT AAT AAT AA- AAT AAT AAA AAT ACT ATT ACGTT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT
* * * * *
60603064 ACT AAT AAT AA- AA- AAG AA- AAT AGT AAT AGT -AT ATAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
60603106 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
60603122 CTCTCCCCCT
Statistics
Matches: 307, Mismatches: 67, Indels: 80
0.68 0.15 0.18
Matches are distributed among these distances:
2 37 0.12
3 237 0.77
4 18 0.06
5 14 0.05
6 1 0.00
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:60602737 original size:20 final size:20
Alignment explanation
Indices: 60602697--60602754 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
60602687 AATAGGACGG
*
60602697 ATAATATAAATAATAGTAATA
1 ATAATA-AAAAAATAGTAATA
*
60602718 ATAATAAAAAAATGGTAATA
1 ATAATAAAAAAATAGTAATA
*
60602738 ATATTAAAAAAA-AGTAA
1 ATAATAAAAAAATAGTAA
60602755 ATATAATGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.12
20 23 0.70
21 6 0.18
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (20 bp):
ATAATAAAAAAATAGTAATA
Found at i:60602865 original size:15 final size:14
Alignment explanation
Indices: 60602824--60603050 Score: 58
Period size: 14 Copynumber: 15.7 Consensus size: 14
60602814 GATAATTGAA
*
60602824 AATAATGATAATAAT
1 AATAATAATAA-AAT
60602839 AATGGAAGTAATGAAAAT
1 AAT--AA-TAAT-AAAAT
*
60602857 AATAATAATAGAAAC
1 AATAATAATA-AAAT
*
60602872 AATAGTAAT-AAA-
1 AATAATAATAAAAT
*
60602884 AGTAATAATAAAAT
1 AATAATAATAAAAT
60602898 AA-AA-AATAACAAT
1 AATAATAATAA-AAT
*
60602911 GATACAT--TAATAAT
1 AATA-ATAATAA-AAT
****
60602925 AATAATATATGTGCT
1 AATAATA-ATAAAAT
60602940 AATAATAATAACAAT
1 AATAATAATAA-AAT
*
60602955 -ATAA-AA-AAAGAA
1 AATAATAATAAA-AT
* * *
60602967 AATAATACTATATT
1 AATAATAATAAAAT
* *
60602981 AATAAAAATAATAGT
1 AATAATAATAA-AAT
**
60602996 AAGTTAATAATAATGGT
1 AA--TAATAATAA-AAT
* **
60603013 AATAAAAAGGAAAT
1 AATAATAATAAAAT
60603027 AATAATAATAAAAT
1 AATAATAATAAAAT
*
60603041 AATAAAAATA
1 AATAATAATA
60603051 CTATTACGTT
Statistics
Matches: 153, Mismatches: 37, Indels: 45
0.65 0.16 0.19
Matches are distributed among these distances:
11 1 0.01
12 15 0.10
13 20 0.13
14 48 0.31
15 40 0.26
16 3 0.02
17 15 0.10
18 9 0.06
19 2 0.01
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.27
Consensus pattern (14 bp):
AATAATAATAAAAT
Found at i:60603050 original size:20 final size:20
Alignment explanation
Indices: 60602877--60603050 Score: 64
Period size: 20 Copynumber: 8.6 Consensus size: 20
60602867 GAAACAATAG
*
60602877 TAATAAAAGTAATAATAAAA
1 TAATAAAAATAATAATAAAA
* * * * *
60602897 TAAAAAATAACAATGATACAT
1 TAATAAA-AATAATAATAAAA
* ****
60602918 TAATAATAATAATATATGTGC
1 TAATAAAAATAATA-ATAAAA
* *
60602939 TAATAATAATAACAATATAAA
1 TAATAAAAATAATAATA-AAA
* * * *
60602960 -AAAAGAAAATAATACTATAT
1 TAATA-AAAATAATAATAAAA
* **
60602980 TAATAAAAATAATAGTAAGT
1 TAATAAAAATAATAATAAAA
* **
60603000 TAATAATAATGGTAATAAAA
1 TAATAAAAATAATAATAAAA
**
60603020 -AGGAAATAATAATAATAAAA
1 TAATAAA-AATAATAATAAAA
60603040 TAATAAAAATA
1 TAATAAAAATA
60603051 CTATTACGTT
Statistics
Matches: 105, Mismatches: 42, Indels: 14
0.65 0.26 0.09
Matches are distributed among these distances:
19 3 0.03
20 58 0.55
21 44 0.42
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (20 bp):
TAATAAAAATAATAATAAAA
Found at i:60603565 original size:12 final size:12
Alignment explanation
Indices: 60603548--60603592 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
60603538 GTTAGTGGGG
60603548 TGGTTTAGTGGT
1 TGGTTTAGTGGT
60603560 TGGTTTAGTGG-
1 TGGTTTAGTGGT
*
60603571 -GGTGTAGTGGT
1 TGGTTTAGTGGT
60603582 TGGTTTAGTGG
1 TGGTTTAGTGG
60603593 GGTGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.09, C:0.00, G:0.47, T:0.44
Consensus pattern (12 bp):
TGGTTTAGTGGT
Found at i:60603581 original size:22 final size:22
Alignment explanation
Indices: 60603539--60603597 Score: 91
Period size: 22 Copynumber: 2.5 Consensus size: 22
60603529 GGTGATAAAG
60603539 TTAGTGGGGTGGTTTAGTGGTTGGT
1 TTAGTGGGGT-G--TAGTGGTTGGT
60603564 TTAGTGGGGTGTAGTGGTTGGT
1 TTAGTGGGGTGTAGTGGTTGGT
60603586 TTAGTGGGGTGT
1 TTAGTGGGGTGT
60603598 TAATTGGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
22 23 0.68
24 1 0.03
25 10 0.29
ACGTcount: A:0.08, C:0.00, G:0.49, T:0.42
Consensus pattern (22 bp):
TTAGTGGGGTGTAGTGGTTGGT
Found at i:60604218 original size:134 final size:133
Alignment explanation
Indices: 60604080--60604367 Score: 328
Period size: 134 Copynumber: 2.2 Consensus size: 133
60604070 CTCCACTACG
* * * *
60604080 ACTTCAGGGAGACAAGGTTTG-TGGTCTTCAGTCCACTCCACTGCAACTCCAAGGAGATAAGACT
1 ACTTCAGGGAGACAAGATCTGCT-ATCTTCAATCCACTCCACTGCAACTCCAAGGAGATAAGACT
* * * *
60604144 TGCT-ACTTCAACCTACTCTATTGCAACTTCAGAAAGATAAGATTTACTATCTTTGATCTGCTCC
65 TG-TAACTTCAACCTACTCT-CTGCAACTTCAGAAAGATAAGATTTACTATCCTCGATCTACTCC
60604208 GCTATA
128 GCTATA
* * ** * * *
60604214 ACTTCAAGGAGATAAGATCTGCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGACTT
1 ACTTCAGGGAGACAAGATCTGCTATCTTCAATCCACTCCACTGCAACTCCAAGGAGATAAGACTT
* * * * * *
60604279 GTAACTTCAACTTGCTCTCTGCAACTTCAGAGAGATAAGGTTTGCTATCCTCGATCTATTCCGCT
66 GTAACTTCAACCTACTCTCTGCAACTTCAGAAAGATAAGATTTACTATCCTCGATCTACTCCGCT
60604344 ATA
131 ATA
* *
60604347 ACTTCAGGGAAATAAGATCTG
1 ACTTCAGGGAGACAAGATCTG
60604368 GTGGCTTAAA
Statistics
Matches: 129, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
133 62 0.48
134 66 0.51
135 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (133 bp):
ACTTCAGGGAGACAAGATCTGCTATCTTCAATCCACTCCACTGCAACTCCAAGGAGATAAGACTT
GTAACTTCAACCTACTCTCTGCAACTTCAGAAAGATAAGATTTACTATCCTCGATCTACTCCGCT
ATA
Found at i:60604362 original size:133 final size:134
Alignment explanation
Indices: 60604115--60604367 Score: 348
Period size: 133 Copynumber: 1.9 Consensus size: 134
60604105 CTTCAGTCCA
*
60604115 CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTATTGCAACTTCAGAAAG
1 CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
* * * *
60604180 ATAAGATTTACTATCTTTGATCTGCTCCGCTATAACTTCAAGGAGATAAGATCTGCTATCTTCAA
66 ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTATCTTCAA
60604245 TCTG
131 TCTG
* * * * * *
60604249 CTCCACTGCAACTTCAGGGAGATGAGACTTG-TAACTTCAACTTGCTCT-CTGCAACTTCAGAGA
1 CTCCACTGCAACTCCAAGGAGATAAGACTTGCT-ACTTCAACCTACTCTACTGCAACTTCAGAAA
* * * *
60604312 GATAAGGTTTGCTATCCTCGATCTATTCCGCTATAACTTCAGGGAAATAAGATCTG
65 GATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTG
60604368 GTGGCTTAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
133 62 0.60
134 41 0.40
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (134 bp):
CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTATCTTCAA
TCTG
Found at i:60604403 original size:133 final size:134
Alignment explanation
Indices: 60604115--60604408 Score: 340
Period size: 133 Copynumber: 2.2 Consensus size: 134
60604105 CTTCAGTCCA
* * *
60604115 CTCCACTGCAACTCCAAGGAGATAAGACTTGCTACTTCAACCTACTCTATTGCAACTTCAGAAAG
1 CTCCACTGCAACTACAGGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
* * * * * *
60604180 ATAAGATTTACTATCTTTGATCTGCTCCGCTATAACTTCAAGGAGATAAGATCTGCTATCTTCAA
66 ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTAGCTTAAA
60604245 TCTG
131 TCTG
* * * * *
60604249 CTCCACTGCAACTTCAGGGAGATGAGACTTG-TAACTTCAACTTGCTCT-CTGCAACTTCAGAGA
1 CTCCACTGCAACTACAGGGAGATAAGACTTGCT-ACTTCAACCTACTCTACTGCAACTTCAGAAA
* * * * * *
60604312 GATAAGGTTTGCTATCCTCGATCTATTCCGCTATAACTTCAGGGAAATAAGATCTGGTGGCTTAA
65 GATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTAGCTTAA
60604377 ATCTG
130 ATCTG
* * ** *
60604382 CTTCATTGCCGCTACATGGAGATAAGA
1 CTCCACTGCAACTACAGGGAGATAAGA
60604409 TTCGCAGTCT
Statistics
Matches: 133, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
133 92 0.69
134 41 0.31
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (134 bp):
CTCCACTGCAACTACAGGGAGATAAGACTTGCTACTTCAACCTACTCTACTGCAACTTCAGAAAG
ATAAGATTTACTATCCTCGATCTACTCCGCTATAACTTCAAGGAAATAAGATCTGCTAGCTTAAA
TCTG
Found at i:60604506 original size:44 final size:45
Alignment explanation
Indices: 60604061--60604540 Score: 230
Period size: 45 Copynumber: 10.8 Consensus size: 45
60604051 AATTGATAAT
* * * * * * *
60604061 TTCAACCTGCTCCACTACGACTTCAGGGAGACAAGGTTTG-TGGTC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCT-ATC
* * *
60604106 TTCAGTCC-ACTCCACTGCAACTCCAAGGAGATAAGACTT-GCTA-C
1 TTCA-ACCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATC
* * ** **
60604150 TTCAACCTACTCTATTGCAACTTCAGAAAGATAAGATTTACTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
** * * * ** *
60604195 TTTGATCTGCTCCGCTATAACTTCAAGGAGATAAGA-TCTGCTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTC-GCTATC
* * * *
60604240 TTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGACTT-G-TAAC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATC
* * * * * *
60604284 TTCAACTTGCT-CTCTGCAACTTCAGAGAGATAAGGTTTGCTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
* * * * * ** * * **
60604328 CTCGATCTATTCCGCTATAACTTCAGGGAAATAAGA-TCTGGTGGC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTC-GCTATC
* * * * * ** * *
60604373 TTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATTCGC-AGTC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTA-TC
* * * **
60604418 TTCAATCTGCTCCACTACTGCTT-AGGGAGATAAGATTCGCTATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
** *
60604462 TTCAGTCTACTCCACTGCAACTTCAGGGTGATAAGACTT-G-TATC
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATC
*
60604506 TTGAACCTACTCCACTGCAACTTCAGGGAGATAAG
1 TTCAACCTACTCCACTGCAACTTCAGGGAGATAAG
60604541 GCTGGTGGCT
Statistics
Matches: 320, Mismatches: 97, Indels: 37
0.70 0.21 0.08
Matches are distributed among these distances:
42 2 0.01
43 25 0.08
44 123 0.38
45 160 0.50
46 9 0.03
47 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (45 bp):
TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCTATC
Found at i:60604560 original size:44 final size:44
Alignment explanation
Indices: 60604114--60604561 Score: 157
Period size: 44 Copynumber: 10.1 Consensus size: 44
60604104 TCTTCAGTCC
* * * * *
60604114 ACTCCACTGCAACTCCAAGGAGATAAGACTTGCTA-CTTCAACCT
1 ACTCCACTGCAACTTCAGGGAGATAAGAC-TGGTAGCTTAAATCT
* * ** * ** * **
60604158 ACTCTATTGCAACTTCAGAAAGATAAGATTTACTATCTTTGATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGA-CTGGTAGCTTAAATCT
* * ** * * * *
60604203 GCTCCGCTATAACTTCAAGGAGATAAGATCTGCTATCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGA-CTGGTAGCTTAAATCT
* * * * *
60604248 GCTCCACTGCAACTTCAGGGAGATGAGACTTGTAACTTCAA-CTT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATC-T
* * * ** * * * **
60604292 GCT-CTCTGCAACTTCAGAGAGATAAGGTTTGCTATCCTCGATCT
1 ACTCCACTGCAACTTCAGGGAGATAA-GACTGGTAGCTTAAATCT
* * ** * *
60604336 ATTCCGCTATAACTTCAGGGAAATAAGATCTGGTGGCTTAAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGA-CTGGTAGCTTAAATCT
* * * ** * * * * * *
60604381 GCTTCATTGCCGCTACATGGAGATAAGATTCGCAGTCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAG-CTTAAATCT
* * ** * * * * *
60604426 GCTCCACTACTGCTT-AGGGAGATAAGATTCGCTATCTTCAGTCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACT-GGTAGCTTAAATCT
* * * * *
60604470 ACTCCACTGCAACTTCAGGGTGATAAGACTTGTATCTTGAACCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATCT
* *
60604514 ACTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATCT
60604558 ACTC
1 ACTC
60604562 TATTGCCGCT
Statistics
Matches: 291, Mismatches: 103, Indels: 20
0.70 0.25 0.05
Matches are distributed among these distances:
43 20 0.07
44 136 0.47
45 135 0.46
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAATCT
Found at i:60604578 original size:177 final size:178
Alignment explanation
Indices: 60604346--60604673 Score: 479
Period size: 177 Copynumber: 1.8 Consensus size: 178
60604336 ATTCCGCTAT
* *
60604346 AACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATT
1 AACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATT
60604411 CG-CAGTCT-TCAATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TCGCT-ATCTTCAGTCTAC
66 CGCCA-T-TATCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-G-TAATCTTCAGTCTAC
*
60604472 TCCACTGCAACTTCAGGGTGATAAGACTTGTATCTTGAACCTACTCCACTGC
127 TCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGC
*
60604524 AACTTCAGGGAGATAAG-GCTGGTGGCTTAAATCTAC-TCTATTGCCGCTACATGGAGATAAGAT
1 AACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTACTTC-ATTGCCGCTACATGGAGATAAGAT
* * * * *
60604587 TCGCCATTATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTGTAATTTTCAGTCTGCTCC
65 TCGCCATTATCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTACTCC
*
60604652 ACTGCAATTTCAGGGAGATAAG
130 ACTGCAACTTCAGGGAGATAAG
60604674 GCTGGTGGCT
Statistics
Matches: 135, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
176 4 0.03
177 112 0.83
178 19 0.14
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (178 bp):
AACTTCAGGGAAATAAGAGCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATT
CGCCATTATCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTACTCCA
CTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACCTACTCCACTGC
Found at i:60604656 original size:133 final size:132
Alignment explanation
Indices: 60604515--60604939 Score: 636
Period size: 133 Copynumber: 3.2 Consensus size: 132
60604505 CTTGAACCTA
60604515 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * *
60604580 ATAAGATTCGCCATTATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTGTAATTTTCAGT
66 ATAAGATTTGCC-TTATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGT
60604645 CTG
130 CTG
*
60604648 CTCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* *
60604713 ATAAGATTTGCCGTCT-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTCAG
66 ATAAGATTTGCC-T-TATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAG
60604777 TCTG
129 TCTG
** * * *
60604781 CTCCACTGCAACTTCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * * * *
60604846 ATAAGATTTGCCGTATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAATTTTTAGT
66 ATAAGATTTGCCTTA-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGT
60604911 CTG
130 CTG
*
60604914 CTCCACTGTAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
60604940 ACTTATATCT
Statistics
Matches: 266, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.00
133 264 0.99
134 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (132 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
ATAAGATTTGCCTTATCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAGTC
TG
Found at i:60604715 original size:177 final size:177
Alignment explanation
Indices: 60604346--60604717 Score: 448
Period size: 177 Copynumber: 2.1 Consensus size: 177
60604336 ATTCCGCTAT
* * * *
60604346 AACTTCAGGGAAATAAGATCTGGTGGCTTAAATCTGCTTCATTGCCGCTACATGGAGATAAGATT
1 AACTACAGGGAGATAAG-GCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATT
60604411 CGCAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTATCTTCAGTCTACTCCA
65 CGCAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTATCTTCAGTCTACTCCA
* * * *
60604476 CTGCAACTTCAGGGTGATAAGACTTGTATCTTGAACCTACTCCACTGC
130 CTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTACTCCACTGC
*
60604524 AACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTAC-TCTATTGCCGCTACATGGAGATAAGATT
1 AACTACAGGGAGATAAGGCTGGTGGCTTAAATCTACTTC-ATTGCCGCTACATGGAGATAAGATT
* * * * *
60604588 CGCCA-T-TATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGA-TCTG-TAATTTTCAGTCTGC
65 CG-CAGTCT-TCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCT-ATCTTCAGTCTAC
* * * * * *
60604649 TCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGC
126 TCCACTGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTACTCCACTGC
** *
60604701 CGCTACATGGAGATAAG
1 AACTACAGGGAGATAAG
60604718 ATTTGCCGTC
Statistics
Matches: 167, Mismatches: 22, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
176 6 0.04
177 143 0.86
178 18 0.11
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (177 bp):
AACTACAGGGAGATAAGGCTGGTGGCTTAAATCTACTTCATTGCCGCTACATGGAGATAAGATTC
GCAGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCTATCTTCAGTCTACTCCAC
TGCAACTTCAGGGAGATAAGACTGGTAGCTTAAACCTACTCCACTGC
Found at i:60604715 original size:266 final size:266
Alignment explanation
Indices: 60604443--60604939 Score: 642
Period size: 266 Copynumber: 1.9 Consensus size: 266
60604433 TACTGCTTAG
* * * ***
60604443 GGAGATAAGATTCGCTATCTTC-AGTCTACTCCACTGCAACTTCAGGGTGATAAGA-CT-TGTAT
1 GGAGATAAGATTCGCCATCTTCGA-TCTACTCCACTACAACTT-AGGGAGATAAGATCTACAAAT
* *
60604505 CTTGAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCG
64 -TTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCG
* * * *
60604570 CTACATGGAGATAAGATTCGCCAT-TATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTG
128 CTACATGGAGATAAGATTCGCCGTAT-TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTG
* *
60604634 TAATTTTCAGTCTGCTCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATT
192 CAATTTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATT
60604699 GCCGCTACAT
257 GCCGCTACAT
* * * **
60604709 GGAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTT
1 GGAGATAAGATTCGCCATCTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTACAAATTT
** * ** * *
60604774 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTA
66 CAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTA
* * * *
60604839 CATGGAGATAAGATTTGCCGTATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAAT
131 CATGGAGATAAGATTCGCCGTATTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAAT
* *
60604904 TTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAG
196 TTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
60604940 ACTTATATCT
Statistics
Matches: 195, Mismatches: 32, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
265 11 0.06
266 180 0.92
267 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (266 bp):
GGAGATAAGATTCGCCATCTTCGATCTACTCCACTACAACTTAGGGAGATAAGATCTACAAATTT
CAACCTACTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTA
CATGGAGATAAGATTCGCCGTATTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAAT
TTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCG
CTACAT
Found at i:60604920 original size:177 final size:177
Alignment explanation
Indices: 60604733--60605084 Score: 442
Period size: 177 Copynumber: 2.0 Consensus size: 177
60604723 CCGTCTTCGA
* *
60604733 TCTGCTCCACTACT-GCTT-AGGGAGATAAGATCTACAAAT-TTC-AGTCTGCTCCACTGCAACT
1 TCTGCTCCACT-CTAACTTCAGGGAGATAAGA-CT-CAAATCTTCAACT-TGCTCCACTGCAACT
* ** **
60604794 TCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTACATGGAGATAAGATTTGCCG
62 TCAGGAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGCCG
* * * *
60604859 TATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAATTTTTAG
127 TATTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTTAG
* * * * * *
60604910 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATATCTTGAACTTGCTCCACTGTAACTTCAT
1 TCTGCTCCACTCTAACTTCAGGGAGATAAGACTCAAATCTTCAACTTGCTCCACTGCAACTTCAG
* * *
60604975 GAAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGTCGTCTT
66 GAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGCCGTATT
* *
60605040 CGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTT
131 CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTT
60605085 CGGTGTTGCT
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
176 4 0.03
177 131 0.88
178 14 0.09
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (177 bp):
TCTGCTCCACTCTAACTTCAGGGAGATAAGACTCAAATCTTCAACTTGCTCCACTGCAACTTCAG
GAAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGATTTGCCGTATT
CGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATTTTTAG
Found at i:60605004 original size:44 final size:44
Alignment explanation
Indices: 60604910--60605006 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
60604900 CAATTTTTAG
* * * *
60604910 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATATCTTGAA
1 TCTGCTCCACTGTAACTTCAGGAAGATAAGACTGATAGCTTAAA
* * * *
60604954 -CTTGCTCCACTGTAACTTCATGAAGATAAGGCTGGTGGCTTAAA
1 TC-TGCTCCACTGTAACTTCAGGAAGATAAGACTGATAGCTTAAA
60604998 TCTGCTCCA
1 TCTGCTCCA
60605007 TTGCCGCTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.02
44 41 0.95
45 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGTAACTTCAGGAAGATAAGACTGATAGCTTAAA
Found at i:60605025 original size:266 final size:266
Alignment explanation
Indices: 60604515--60605029 Score: 595
Period size: 266 Copynumber: 1.9 Consensus size: 266
60604505 CTTGAACCTA
*
60604515 CTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * *
60604580 ATAAGATTCGCCATTATCGATTTGCTCCACTACTGCTTAGGGAGCTAAGATCTGTAATTTTCAGT
66 ATAAGATTCGCCATTATCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGT
* * * * * * **
60604645 CTGCTCCACTGCAATTTCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCTATTGCCGCTACATG
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTGATAGCTTAAATCTACTCCACTGCAACTACATG
* ** * ** * *
60604710 GAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAATTTC
196 AAGATAAGAGCTGCCGGCTTAAATCTGCTCCACTACCGCTCAGGGAGATAAGATCTACAAATTTC
60604775 AGTCTG
261 AGTCTG
** * *
60604781 CTCCACTGCAACTTCAGGGAGATAAGTTTAGTGGCTTAAATCTGCTTTATTGCCGCTACATGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
* * * * * *
60604846 ATAAGATTTGCC-GTATTCGATCTGCTCCATTACTGTTTAAGGAGATAAGGTCTGCAATTTTTAG
66 ATAAGATTCGCCATTA-TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAG
* * * * * * *
60604910 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTTATATCTTGAA-CTTGCTCCACTGTAACTTCA
130 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGATAGCTTAAATC-TACTCCACTGCAACTACA
** * * *
60604974 TGAAGATAAG-GCTGGTGGCTTAAATCTGCTCCATTGCCGCTACATGGAGATAAGAT
194 TGAAGATAAGAGCTGCCGGCTTAAATCTGCTCCACTACCGCT-CAGGGAGATAAGAT
60605030 TTGTCGTCTT
Statistics
Matches: 203, Mismatches: 43, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
265 24 0.12
266 179 0.88
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (266 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTAGTGGCTTAAATCTACTCTATTGCCGCTACATGGAG
ATAAGATTCGCCATTATCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTGATAGCTTAAATCTACTCCACTGCAACTACATG
AAGATAAGAGCTGCCGGCTTAAATCTGCTCCACTACCGCTCAGGGAGATAAGATCTACAAATTTC
AGTCTG
Found at i:60606335 original size:7 final size:7
Alignment explanation
Indices: 60606323--60606355 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
60606313 TGGTCTCTCC
60606323 TTTTTCT
1 TTTTTCT
60606330 TTTTTCT
1 TTTTTCT
60606337 TTTTTCT
1 TTTTTCT
60606344 TTTTTCT
1 TTTTTCT
60606351 TTTTT
1 TTTTT
60606356 TTTCTGTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:60606367 original size:21 final size:21
Alignment explanation
Indices: 60606323--60606369 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
60606313 TGGTCTCTCC
*
60606323 TTTTTCTTTTTTCTTTTTTCT
1 TTTTTCTTTTTTCTTTTGTCT
*
60606344 TTTTTCTTTTTT-TTTCTGTGT
1 TTTTTCTTTTTTCTTT-TGTCT
60606365 TTTTT
1 TTTTT
60606370 TTGAAACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (21 bp):
TTTTTCTTTTTTCTTTTGTCT
Found at i:60611498 original size:125 final size:127
Alignment explanation
Indices: 60611300--60611553 Score: 318
Period size: 125 Copynumber: 2.0 Consensus size: 127
60611290 GCTTGCCTTC
* * *
60611300 TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGTATATTCGGATATTTAGATCAAACAGA
1 TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAGA
* * * * *
60611365 AAATCGAAACCCAGTACGTTAGGGCACGACTACTCGAATTTCTAATTA-CAGAATATTGCATT
66 AAACCGAAACCCAATACGTTAGGACACGACTACTCGAATTTCCAAGTACCA-AATATTGCATT
* * * *
60611427 TATTTTATTTAAAACTCATGTATTTTAA-TTT-AAAAGGATAATCGGTTACTTAGATCAAAC-GA
1 TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAG-
* * * *
60611489 AAAACCGAAACCCAATACGTTAGGACACGATTTCTCTAATTTCCAAGTACCAAATATTGCCTT
65 AAAACCGAAACCCAATACGTTAGGACACGACTACTCGAATTTCCAAGTACCAAATATTGCATT
60611552 TA
1 TA
60611554 CTTGAAAAAT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
124 1 0.01
125 78 0.72
126 5 0.05
127 25 0.23
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (127 bp):
TATTTCATTTAAAACTCATATATTTAAATTTTAAAAAGGATAATCGGATACTTAGATCAAACAGA
AAACCGAAACCCAATACGTTAGGACACGACTACTCGAATTTCCAAGTACCAAATATTGCATT
Found at i:60611752 original size:20 final size:20
Alignment explanation
Indices: 60611727--60611764 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60611717 ATAAATAATA
60611727 GTAATAATCA-TAAAAAAATG
1 GTAATAAT-ATTAAAAAAATG
60611747 GTAATAATATTAAAAAAA
1 GTAATAATATTAAAAAAA
60611765 GTAAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
GTAATAATATTAAAAAAATG
Found at i:60611850 original size:3 final size:3
Alignment explanation
Indices: 60611835--60612052 Score: 66
Period size: 3 Copynumber: 73.7 Consensus size: 3
60611825 GATAATTGAA
* *
60611835 AAT AAT GAT AAT AAT AAT GGAAGT AAT GAA- AAT AAT AAT GAT AGA-
1 AAT AAT AAT AAT AAT AAT --AA-T AAT -AAT AAT AAT AAT AAT A-AT
* * * *
60611880 AAC AAT AGT AAT AA- AAGT AAT AAT AA- AAT AAA AAT AGA- AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * **
60611924 -AC AAT AAT AAT AAT -AT ACGT GCT AAT AAT AAT AAT AAT -AT AA-
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * **
60611966 AAA AAG AA- AAT AAT ACT -AT ATT AAT AAA AAT AAT AAT -AG AAG GTT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
60612011 AAT AAT AAT AGT AAT AAA AAGGT AAT AAT AAT AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA--T AAT AAT AAT AAT AAT AAT AA
60612053 AACACTATTA
Statistics
Matches: 158, Mismatches: 34, Indels: 46
0.66 0.14 0.19
Matches are distributed among these distances:
2 21 0.13
3 123 0.78
4 9 0.06
5 4 0.03
6 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:60612012 original size:23 final size:23
Alignment explanation
Indices: 60611986--60612049 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
60611976 TAATACTATA
* *
60611986 TTAATAAAAATAATAATAGAAGG
1 TTAATAATAATAATAATAAAAGG
*
60612009 TTAATAATAATAGTAATAAAAAGG
1 TTAATAATAATAATAAT-AAAAGG
60612033 -TAATAATAATAA-AATAA
1 TTAATAATAATAATAATAA
60612050 TAAAACACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 3 0.08
23 26 0.72
24 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.28
Consensus pattern (23 bp):
TTAATAATAATAATAATAAAAGG
Found at i:60612593 original size:10 final size:10
Alignment explanation
Indices: 60612578--60612611 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
60612568 TTTAGTGATT
60612578 GGTTTAGTGG
1 GGTTTAGTGG
60612588 GGTTTAGTGG
1 GGTTTAGTGG
60612598 TTGGTTTAGTGG
1 --GGTTTAGTGG
60612610 GG
1 GG
60612612 CGTTAATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.09, C:0.00, G:0.50, T:0.41
Consensus pattern (10 bp):
GGTTTAGTGG
Found at i:60612594 original size:22 final size:22
Alignment explanation
Indices: 60612566--60612611 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
60612556 TTAGTGGGGT
60612566 GGTTTAGTGATTGGTTTAGTGG
1 GGTTTAGTGATTGGTTTAGTGG
*
60612588 GGTTTAGTGGTTGGTTTAGTGG
1 GGTTTAGTGATTGGTTTAGTGG
60612610 GG
1 GG
60612612 CGTTAATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.46, T:0.43
Consensus pattern (22 bp):
GGTTTAGTGATTGGTTTAGTGG
Found at i:60612609 original size:12 final size:12
Alignment explanation
Indices: 60612565--60612609 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
60612555 GTTAGTGGGG
*
60612565 TGGTTTAGTGAT
1 TGGTTTAGTGGT
60612577 TGGTTTAGTGG-
1 TGGTTTAGTGGT
60612588 -GGTTTAGTGGT
1 TGGTTTAGTGGT
60612599 TGGTTTAGTGG
1 TGGTTTAGTGG
60612610 GGCGTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 10 0.33
12 20 0.67
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (12 bp):
TGGTTTAGTGGT
Found at i:60626121 original size:18 final size:19
Alignment explanation
Indices: 60626098--60626136 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
60626088 AAAAAAGAAA
60626098 AAAAATATG-CATATATAT
1 AAAAATATGACATATATAT
60626116 AAAAATATGTACATATATAT
1 AAAAATATG-ACATATATAT
60626136 A
1 A
60626137 TAGGTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATATGACATATATAT
Found at i:60626580 original size:3 final size:3
Alignment explanation
Indices: 60626569--60626635 Score: 73
Period size: 3 Copynumber: 22.3 Consensus size: 3
60626559 CAATAATACC
* * * *
60626569 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
60626614 AAT AAT AAT AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
60626636 GCAAAGTACT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:60632192 original size:11 final size:11
Alignment explanation
Indices: 60632176--60632200 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
60632166 TTTCGTTTAG
60632176 TAAGCTAGTAT
1 TAAGCTAGTAT
60632187 TAAGCTAGTAT
1 TAAGCTAGTAT
60632198 TAA
1 TAA
60632201 AGTTTCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (11 bp):
TAAGCTAGTAT
Found at i:60633417 original size:53 final size:51
Alignment explanation
Indices: 60633308--60633443 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 51
60633298 CCATAGCAAC
* * *
60633308 AAGTGATAAGTGATATCCGTATAAGACCATAGCTGGGCTATGGCTTCAGATTA
1 AAGTGATAAGTGATCT-CGTATAAGACCATAGCTGGGCTATGGATTAAGA-TA
60633361 AAGTGATACAAGTGATCT-GTATAAGACCATAGCTGGGCTATGGAATTAAAGA-A
1 AAGTGAT--AAGTGATCTCGTATAAGACCATAGCTGGGCTATGG-ATT-AAGATA
* *
60633414 AAGTGATAAGTGCTCTCGTGTAAGACCATA
1 AAGTGATAAGTGATCTCGTATAAGACCATA
60633444 TCCGGGATAT
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
51 8 0.11
52 12 0.16
53 40 0.55
54 2 0.03
55 11 0.15
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (51 bp):
AAGTGATAAGTGATCTCGTATAAGACCATAGCTGGGCTATGGATTAAGATA
Found at i:60636443 original size:122 final size:124
Alignment explanation
Indices: 60636255--60636500 Score: 426
Period size: 122 Copynumber: 2.0 Consensus size: 124
60636245 AAAACCGGAG
* *
60636255 CCCGGCCTGGCCCGCCTGTATTAATTTTTATATATAATTTTTAAATGTATATAATATATCAAAAA
1 CCCGGCCTGGCCCGCCTGTATTAATTTTTATATATAATTTTTAAATATATATAATACATCAAAAA
60636320 TACTAAAAACATCAAAATAAATATTTGCCAACAAATTGAAAATAAATTTTAAAAAATAT
66 TACTAAAAACATCAAAATAAATATTTGCCAACAAATTGAAAATAAATTTTAAAAAATAT
60636379 CCCGGCC-GGCTCCGCCTGTATTAATTTTTATAT-T-ATTTTTAAATATATATAATACATCAAAA
1 CCCGGCCTGGC-CCGCCTGTATTAATTTTTATATATAATTTTTAAATATATATAATACATCAAAA
* *
60636441 ATACTAAAAACATTAAAATAAATATTTTCCAACAAATTGAAAATAAATTTTAAAAAATAT
65 ATACTAAAAACATCAAAATAAATATTTGCCAACAAATTGAAAATAAATTTTAAAAAATAT
60636501 GTAGACTTAA
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
122 84 0.72
123 4 0.03
124 29 0.25
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.35
Consensus pattern (124 bp):
CCCGGCCTGGCCCGCCTGTATTAATTTTTATATATAATTTTTAAATATATATAATACATCAAAAA
TACTAAAAACATCAAAATAAATATTTGCCAACAAATTGAAAATAAATTTTAAAAAATAT
Found at i:60636604 original size:30 final size:31
Alignment explanation
Indices: 60636541--60636604 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
60636531 ACTTAACAAG
*
60636541 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATGAA
* *
60636572 CAAATGCCTTTAAAATAAT-AACAAAATGAA
1 CAAATGCCTCTAAAATAATAAAAAAAATGAA
60636602 CAA
1 CAA
60636605 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.59, C:0.14, G:0.05, T:0.22
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATGAA
Found at i:60637408 original size:13 final size:13
Alignment explanation
Indices: 60637392--60637416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60637382 AATATAATAT
60637392 ATATACACACAAC
1 ATATACACACAAC
60637405 ATATACACACAA
1 ATATACACACAA
60637417 TTATATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
ATATACACACAAC
Found at i:60641612 original size:21 final size:21
Alignment explanation
Indices: 60641586--60641629 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
60641576 CACTTATGAT
* *
60641586 TAGGTGTGATTTTGAGCATCC
1 TAGGTGTGAATTTGAACATCC
60641607 TAGGTGTGAATTTGAACATCC
1 TAGGTGTGAATTTGAACATCC
60641628 TA
1 TA
60641630 TTGGGTTGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (21 bp):
TAGGTGTGAATTTGAACATCC
Found at i:60655286 original size:226 final size:226
Alignment explanation
Indices: 60654916--60655344 Score: 680
Period size: 226 Copynumber: 1.9 Consensus size: 226
60654906 ATCTGCATCC
* * *
60654916 TAACTTGGTGGGTTATCTGTAAAGATGGAAATAAGAGGAGGAGTGCACTTACGGAGCTCAGTATG
1 TAACCTGGTGGGTTATCTGTAAAGATGGAAATAAGAGGAGGAGTGCACTTACAGAGCTCAGTATA
*
60654981 AGTTCAATCACAAGAAAACCAGTGCAAACAATAGACAAATCGTACAAAATATCAACTTATAGAAT
66 AGTTCAATCACAAGAAAACCAGTGCAAACAATAGACAAATCGTACAAAATATCAACTCATAGAAT
* * *
60655046 GATCACAATTGAATAGAAA-TCTAAAATTTTGGTATTTCAAATCAACTCATCGCCATAATATCTC
131 GATCACAATTGAATACAAATTC-AAAATTTTGGTATTTCAAATAAACTCATCACCATAATATCTC
60655110 AATATTCACCTCTGTATACCGAGTCCGCGTCA
195 AATATTCACCTCTGTATACCGAGTCCGCGTCA
* * * * * *
60655142 TAACCTGGTGGGTTATTTGTAAATATGGAAATAAGAGGGGGAGTGCGCTTATAGAGCTCAGTGTA
1 TAACCTGGTGGGTTATCTGTAAAGATGGAAATAAGAGGAGGAGTGCACTTACAGAGCTCAGTATA
** * *
60655207 AGTTCAATCACTGGAAAACCAGTGCAAACAATAGACAAGTTGTACAAAATATCAACTCATAGAAT
66 AGTTCAATCACAAGAAAACCAGTGCAAACAATAGACAAATCGTACAAAATATCAACTCATAGAAT
*
60655272 GATCACAATTGAATACCAATTCAAAATTTTGGTATTTCAAATAAACTCATCACCATAATATCTCA
131 GATCACAATTGAATACAAATTCAAAATTTTGGTATTTCAAATAAACTCATCACCATAATATCTCA
60655337 ATATTCAC
196 ATATTCAC
60655345 ATCTATGCAA
Statistics
Matches: 184, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
226 182 0.99
227 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.27
Consensus pattern (226 bp):
TAACCTGGTGGGTTATCTGTAAAGATGGAAATAAGAGGAGGAGTGCACTTACAGAGCTCAGTATA
AGTTCAATCACAAGAAAACCAGTGCAAACAATAGACAAATCGTACAAAATATCAACTCATAGAAT
GATCACAATTGAATACAAATTCAAAATTTTGGTATTTCAAATAAACTCATCACCATAATATCTCA
ATATTCACCTCTGTATACCGAGTCCGCGTCA
Found at i:60655681 original size:47 final size:47
Alignment explanation
Indices: 60655587--60655685 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
60655577 GATAACTACA
* * * * *
60655587 GACTAAAATACATTGTGGATAAACTATTAGTTGAATAGATGATTGTT
1 GACTAAAATACATTGTGGATAAACCATTAGTTGAACAAATAACTGTT
*
60655634 GACTAAAATACGTTGTGGAT-AACCATTAGTT-AAGCAAATAAACTGTT
1 GACTAAAATACATTGTGGATAAACCATTAGTTGAA-CAAAT-AACTGTT
60655681 GACTA
1 GACTA
60655686 CTTCCTCCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
45 2 0.05
46 13 0.30
47 29 0.66
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (47 bp):
GACTAAAATACATTGTGGATAAACCATTAGTTGAACAAATAACTGTT
Found at i:60658017 original size:25 final size:25
Alignment explanation
Indices: 60657962--60658034 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
60657952 TATGTTCATA
* *
60657962 CGAGCTGT-GAATCGGTATGCTCACT
1 CGAGCTGTAG-ATCGGTATGCTCTCG
*
60657987 CAAGCTGTAGATCGGTATGCTCTCG
1 CGAGCTGTAGATCGGTATGCTCTCG
** *
60658012 CGAGCTAAAAATCGGTATGCTCT
1 CGAGCTGTAGATCGGTATGCTCT
60658035 GTGGATCTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 39 0.98
26 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
CGAGCTGTAGATCGGTATGCTCTCG
Found at i:60659951 original size:18 final size:18
Alignment explanation
Indices: 60659930--60659964 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
60659920 TATTTATTTA
* *
60659930 GTAACAGTCAGTTATTCG
1 GTAACAATCAATTATTCG
60659948 GTAACAATCAATTATTC
1 GTAACAATCAATTATTC
60659965 AATAATAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (18 bp):
GTAACAATCAATTATTCG
Found at i:60659963 original size:36 final size:36
Alignment explanation
Indices: 60659910--60660193 Score: 159
Period size: 36 Copynumber: 7.7 Consensus size: 36
60659900 TCATTAACTC
* * *
60659910 TCAG-AACAATTATTTATTTAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * *
60659945 TCGGTAACAATCAATTATTCAATAATA-ACTAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTC-AGTTAT
* * * *
60659981 TCAGTATCGATCAATTAATCGGTTATCCAGTAACAGTAAATTAT
1 TCAGTA---A-CAATCAA----TTATTCAGTAACAGTCAGTTAT
* *
60660025 TCAGTAA-AATC-ATATATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAAT-TATTCAGTAAC-AGTCAGTTAT
* * * *
60660061 TCAGTAGCAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAGTCAGTTAT
** * *
60660097 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
60660133 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTA-
1 TCAGTAACAATC-AATTATTCAGTAACAGTCAGTTAT
* *
60660168 TCTGGTAACAGTCAATTATTCAGTAA
1 TC-AGTAACAATCAATTATTCAGTAA
60660194 TTTCAGTTAT
Statistics
Matches: 190, Mismatches: 40, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
34 1 0.01
35 18 0.09
36 119 0.63
37 19 0.10
38 1 0.01
39 4 0.02
40 6 0.03
41 1 0.01
44 21 0.11
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:60660029 original size:18 final size:18
Alignment explanation
Indices: 60660003--60660193 Score: 151
Period size: 18 Copynumber: 10.6 Consensus size: 18
60659993 AATTAATCGG
* *
60660003 TTATCCAGTAACAGTAAA
1 TTATTCAGTAACAGTCAA
*
60660021 TTATTCAGTAA-AATC-A
1 TTATTCAGTAACAGTCAA
* *
60660037 TATATTCAGTAACAATTAA
1 T-TATTCAGTAACAGTCAA
*
60660056 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
60660074 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
60660093 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
60660111 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
60660129 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
60660148 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
60660165 TTA-TCTGGTAACAGTCAA
1 TTATTC-AGTAACAGTCAA
60660183 TTATTCAGTAA
1 TTATTCAGTAA
60660194 TTTCAGTTAT
Statistics
Matches: 136, Mismatches: 25, Indels: 24
0.74 0.14 0.13
Matches are distributed among these distances:
16 2 0.01
17 17 0.12
18 98 0.72
19 18 0.13
20 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:60660138 original size:72 final size:71
Alignment explanation
Indices: 60660004--60660204 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 71
60659994 ATTAATCGGT
* * * * *
60660004 TATCCAGTAACAGTAAATTATTCAGTAAAATC-ATATATTCAGTAACAATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCAAT-TATTCAGTAA-TATTCAGTTATTCAGTAA
*
60660068 CAGTC-AT
64 CAGTCTAA
* * * *
60660075 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
60660140 CAGTCTAA
64 CAGTCTAA
* * *
60660148 TATCCAGTAACAGTCAATTA-TCTGGTAACAGTCAATTATTCAGTAAT-TTCAGTTATT
1 TATCCAGTAACAATCAATTATTC-AGTAA-AATCAATTATTCAGTAATATTCAGTTATT
60660205 TTATACCTTT
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
71 13 0.12
72 77 0.72
73 15 0.14
74 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:60660373 original size:6 final size:6
Alignment explanation
Indices: 60660362--60660395 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
60660352 ACAAATCCGA
* *
60660362 AACAGT AACAGT AACGGT AACGGT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACA
60660396 ATATCCGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (6 bp):
AACAGT
Found at i:60670671 original size:5 final size:5
Alignment explanation
Indices: 60670661--60670685 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
60670651 TTTTACATTA
60670661 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
60670686 TCACACCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:60673526 original size:29 final size:30
Alignment explanation
Indices: 60673471--60673530 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
60673461 AATTTGAATT
* *
60673471 AAAATTAAAGTTTGATGTATATAATTGTAC
1 AAAATTAAACTTTGATGTACATAATTGTAC
60673501 AAAATTAAACTTT-ATGTACA-AGATTGTAC
1 AAAATTAAACTTTGATGTACATA-ATTGTAC
60673530 A
1 A
60673531 TTGGATCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 1 0.04
29 14 0.52
30 12 0.44
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.37
Consensus pattern (30 bp):
AAAATTAAACTTTGATGTACATAATTGTAC
Found at i:60676498 original size:18 final size:18
Alignment explanation
Indices: 60676477--60676511 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60676467 AATTAACATT
60676477 TATTTTAAAATTTTCAAA
1 TATTTTAAAATTTTCAAA
*
60676495 TATTTTTAAATTTTCAA
1 TATTTTAAAATTTTCAA
60676512 GCTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTTTAAAATTTTCAAA
Found at i:60682080 original size:12 final size:12
Alignment explanation
Indices: 60682063--60682089 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60682053 TTCCTTGGTT
60682063 TGGGTACTTTTA
1 TGGGTACTTTTA
60682075 TGGGTACTTTTA
1 TGGGTACTTTTA
60682087 TGG
1 TGG
60682090 AAGACAACAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (12 bp):
TGGGTACTTTTA
Found at i:60686154 original size:43 final size:44
Alignment explanation
Indices: 60686100--60686183 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
60686090 AGGAGTGGTG
* * *
60686100 CACGTGTTTGCG-AGTCATGTAAACAAGCTTTCAATGAGTAGAA
1 CACGTGATTGCGAAGCCATGTAAACAAGCTTTCAAGGAGTAGAA
*
60686143 CACGTGATTGCGAAAGCCATGTAAACATGCTTTCAAGGAGT
1 CACGTGATTGCG-AAGCCATGTAAACAAGCTTTCAAGGAGT
60686184 GGAGCATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 11 0.31
45 24 0.69
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (44 bp):
CACGTGATTGCGAAGCCATGTAAACAAGCTTTCAAGGAGTAGAA
Found at i:60686260 original size:22 final size:23
Alignment explanation
Indices: 60686221--60686273 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
60686211 AAATGCGCTA
*
60686221 TTGAGGAGTGGAAAACGTACTT-
1 TTGAAGAGTGGAAAACGTACTTG
** *
60686243 TTGAAGAGTGGAGCACGTGCTTG
1 TTGAAGAGTGGAAAACGTACTTG
60686266 TT-AAGAGT
1 TTGAAGAGT
60686274 CATATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.28, C:0.09, G:0.34, T:0.28
Consensus pattern (23 bp):
TTGAAGAGTGGAAAACGTACTTG
Found at i:60689208 original size:25 final size:25
Alignment explanation
Indices: 60689174--60689228 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
60689164 ATTTTCCACA
*
60689174 TGGCTTAGCACACGGGCATGTAACT
1 TGGCCTAGCACACGGGCATGTAACT
*
60689199 TGGCCTAGCACATGGGCATGTAACT
1 TGGCCTAGCACACGGGCATGTAACT
60689224 TGGCC
1 TGGCC
60689229 GTATGAGCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (25 bp):
TGGCCTAGCACACGGGCATGTAACT
Found at i:60691366 original size:60 final size:61
Alignment explanation
Indices: 60691293--60691423 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 61
60691283 GGGGTGGCTT
*
60691293 AGGCCGTGTTAGAGTCTAATAAATAGACACGAGCGTGCAGTCTAGCCAT-TGAGGAAGTCC
1 AGGCCGTGTTAGAGTCTAATAAATAGACACGAGCGTGCAGTCTACCCATATGAGGAAGTCC
** * * ** *
60691353 AGGCCGTGTTAGAGTCTGCTAAATAGACACGGGTGTGTGGTCTACCCGTATGAGGAAGTCC
1 AGGCCGTGTTAGAGTCTAATAAATAGACACGAGCGTGCAGTCTACCCATATGAGGAAGTCC
60691414 AGGCCGTGTT
1 AGGCCGTGTT
60691424 GATTTCCCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
60 41 0.66
61 21 0.34
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (61 bp):
AGGCCGTGTTAGAGTCTAATAAATAGACACGAGCGTGCAGTCTACCCATATGAGGAAGTCC
Found at i:60693458 original size:27 final size:26
Alignment explanation
Indices: 60693394--60693461 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
60693384 TGTAAAGCCT
*
60693394 AAAGATAAATTAAAAATAGTATTAAAG
1 AAAGATAAA-TAAAAAAAGTATTAAAG
60693421 AGAA-ATAAAATAAAAAAAGTAATTTAAA-
1 A-AAGAT-AAATAAAAAAAGT-A-TTAAAG
60693449 AAAGATAAATAAA
1 AAAGATAAATAAA
60693462 GATAAAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
27 21 0.60
28 9 0.26
29 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (26 bp):
AAAGATAAATAAAAAAAGTATTAAAG
Found at i:60694816 original size:29 final size:30
Alignment explanation
Indices: 60694784--60694840 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
60694774 ACCACGAATA
*
60694784 TAATTAAACTAACAA-ATTCAACCAAAAAC
1 TAATTAAACTAACAAGACTCAACCAAAAAC
*
60694813 TAATTACACTAACAAGACTCAACCAAAA
1 TAATTAAACTAACAAGACTCAACCAAAA
60694841 GCAATCGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.56, C:0.23, G:0.02, T:0.19
Consensus pattern (30 bp):
TAATTAAACTAACAAGACTCAACCAAAAAC
Found at i:60695977 original size:19 final size:19
Alignment explanation
Indices: 60695953--60695990 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60695943 GACATTCCTC
60695953 ATTCCTGCTATCAATCTTA
1 ATTCCTGCTATCAATCTTA
60695972 ATTCCTGCTATCAATCTTA
1 ATTCCTGCTATCAATCTTA
60695991 TCAAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (19 bp):
ATTCCTGCTATCAATCTTA
Found at i:60700263 original size:54 final size:54
Alignment explanation
Indices: 60700200--60700310 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
60700190 AGAAATAGTG
* * * *
60700200 AGATGGGTGGTCGGAGTGGTTGTAGAA-AGGGGGAAAGGGAATTTAAGTTTGGCA
1 AGATGGGTGGCCGAAGTGATTGTAGAATA-GGGGAAAGAGAATTTAAGTTTGGCA
60700254 AGATGGGTGGCCGAAGTGATTGTAGAATAGGGGAAAGAGAATTTAAGTTTGGCA
1 AGATGGGTGGCCGAAGTGATTGTAGAATAGGGGAAAGAGAATTTAAGTTTGGCA
60700308 AGA
1 AGA
60700311 AAGATGAAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.23
Consensus pattern (54 bp):
AGATGGGTGGCCGAAGTGATTGTAGAATAGGGGAAAGAGAATTTAAGTTTGGCA
Found at i:60701596 original size:39 final size:40
Alignment explanation
Indices: 60701552--60701633 Score: 148
Period size: 39 Copynumber: 2.0 Consensus size: 40
60701542 TAATTTACAA
60701552 ATTGTGTTTTAAATAATAATTTCATGT-AAAAATAAAATT
1 ATTGTGTTTTAAATAATAATTTCATGTAAAAAATAAAATT
60701591 ATTGTGTTTTAAATAATAATTTCATGTAAAAAAATAAAATT
1 ATTGTGTTTTAAATAATAATTTCATGT-AAAAAATAAAATT
60701632 AT
1 AT
60701634 GTAACATGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 27 0.66
41 14 0.34
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (40 bp):
ATTGTGTTTTAAATAATAATTTCATGTAAAAAATAAAATT
Found at i:60706107 original size:14 final size:14
Alignment explanation
Indices: 60706090--60706116 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60706080 ATTTTTTTTA
60706090 TTATATTTTAATTT
1 TTATATTTTAATTT
60706104 TTATATTTTAATT
1 TTATATTTTAATT
60706117 GTGAATGTTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATTTTAATTT
Found at i:60710652 original size:42 final size:43
Alignment explanation
Indices: 60710552--60710705 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
60710542 GTTATCGTGA
* * *
60710552 AAGACCATGTCTGGGA-TGTTGGCATCGACT-TATGATTTACGTGT
1 AAGACCATGTCTGGGACAG-TGGCATCGA-TAT-TTATTTACATGT
* *
60710596 AAGACTATGTCTGGGACA-TCGGCATCG-TATTTGGTTT-CATGT
1 AAGACCATGTCTGGGACAGT-GGCATCGATATTT-ATTTACATGT
* *
60710638 AAGACCCTGTCTGGGACAGTGGCATTGATATTTATTTACATGT
1 AAGACCATGTCTGGGACAGTGGCATCGATATTTATTTACATGT
**
60710681 AAGACCACATCTGGGAC-GTTGGCAT
1 AAGACCATGTCTGGGACAG-TGGCAT
60710706 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
42 32 0.36
43 36 0.40
44 22 0.24
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
AAGACCATGTCTGGGACAGTGGCATCGATATTTATTTACATGT
Found at i:60717787 original size:21 final size:21
Alignment explanation
Indices: 60717763--60717811 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
60717753 TCAGCTACCT
*
60717763 CCGTACC-CTCCAGCACAGCCC
1 CCGTACCGCGCCAGCACAG-CC
60717784 CCGTACCCGCGCCAGCACAGCC
1 CCGTA-CCGCGCCAGCACAGCC
60717806 CCGTAC
1 CCGTAC
60717812 GCTTCGCGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 9 0.36
23 10 0.40
ACGTcount: A:0.18, C:0.55, G:0.18, T:0.08
Consensus pattern (21 bp):
CCGTACCGCGCCAGCACAGCC
Found at i:60720084 original size:129 final size:131
Alignment explanation
Indices: 60719919--60720199 Score: 338
Period size: 129 Copynumber: 2.1 Consensus size: 131
60719909 TTTTTAAAAA
* *
60719919 AAAATCCTTTAAAACGAAGACGAGATTCGATATTTGGCAA-TCCGTGGAATCGTGCCCTAACGTG
1 AAAATCCCTTAAAACGAAGACGAGATGCGATATTTGGCAACT-CGTGGAATCGTGCCCTAACGTG
* *
60719983 TTGGGTT-G-TAATTTCACGTTTGCCCAAAATAATCGAATATCACTTCAAATTTCACTCATGTCT
65 TT-GGTTGGCGAATTTCACGTTTGCCCAAAATAATCAAATATCACTTCAAATTTCACTCATGTCT
60720046 TTT
129 TTT
*
60720049 AAAATCCCTT-AAACGAAGGCGATG-TGCGATATTTGGCAACTCGTGGAATCGTGCCCTAACGTG
1 AAAATCCCTTAAAACGAAGACGA-GATGCGATATTTGGCAACTCGTGGAATCGTGCCCTAACGTG
* ** * * * * *
60720112 TTGGTTGGCGAATTTCTCGTTTGCTTAAAATAATCAAATATCTCCTCAAAATTTCGCTCGTATCT
65 TTGGTTGGCGAATTTCACGTTTGCCCAAAATAATCAAATATCACTTC-AAATTTCACTCATGTCT
*
60720177 TCTA
129 T-TT
* *
60720181 AAAATCCTTTAAAATGAAG
1 AAAATCCCTTAAAACGAAG
60720200 GCAATACTCC
Statistics
Matches: 128, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
128 4 0.03
129 50 0.39
130 42 0.33
131 15 0.12
132 10 0.08
133 7 0.05
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (131 bp):
AAAATCCCTTAAAACGAAGACGAGATGCGATATTTGGCAACTCGTGGAATCGTGCCCTAACGTGT
TGGTTGGCGAATTTCACGTTTGCCCAAAATAATCAAATATCACTTCAAATTTCACTCATGTCTTT
T
Found at i:60723916 original size:3 final size:3
Alignment explanation
Indices: 60723742--60723900 Score: 75
Period size: 3 Copynumber: 54.0 Consensus size: 3
60723732 AAATAGCAAA
* * * **
60723742 AAT AGT AAT AAT AAT AAA AAT AAC AAT AAT AAT AAAT AAT GCT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * *
60723787 ATT AATT AAT AAT AA- AAT AAT AAGT AGAT AA- ACT CAA- AA- AAG AA-
1 AAT AA-T AAT AAT AAT AAT AAT AA-T A-AT AAT AAT -AAT AAT AAT AAT
* * * * *
60723831 AAT -AT AAT CAT AAT AAA AAT AAT AGT GAT AAA AAT AAT AAT AGA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
60723875 AAT AAT AGT AAT AAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
60723901 GGTATTAGAA
Statistics
Matches: 116, Mismatches: 26, Indels: 28
0.68 0.15 0.16
Matches are distributed among these distances:
2 15 0.13
3 88 0.76
4 12 0.10
5 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:60731721 original size:70 final size:70
Alignment explanation
Indices: 60731638--60731772 Score: 261
Period size: 70 Copynumber: 1.9 Consensus size: 70
60731628 ATATAAAAAC
*
60731638 AAAAAAAAAGATAAAATTATCCTCACCGTAAACTTAATTGAATAATAAACCATTAAACTATACCA
1 AAAAAAAAAGATAAAATTATCCCCACCGTAAACTTAATTGAATAATAAACCATTAAACTATACCA
60731703 CAAAT
66 CAAAT
60731708 AAAAAAAAAGATAAAATTATCCCCACCGTAAACTTAATTGAATAATAAACCATTAAACTATACCA
1 AAAAAAAAAGATAAAATTATCCCCACCGTAAACTTAATTGAATAATAAACCATTAAACTATACCA
60731773 TTTATTTGAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.24
Consensus pattern (70 bp):
AAAAAAAAAGATAAAATTATCCCCACCGTAAACTTAATTGAATAATAAACCATTAAACTATACCA
CAAAT
Found at i:60733921 original size:38 final size:38
Alignment explanation
Indices: 60733879--60733958 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
60733869 ATTTATTTAT
60733879 ATTTATTCA-TATAATAAGCTA-TTAATATAATTAATATA
1 ATTTATT-ATTATAATAAGCTATTTAATAT-ATTAATATA
* * * *
60733917 ATTTATTATTTTAATAAGTTATTTAATATTTTAATTTA
1 ATTTATTATTATAATAAGCTATTTAATATATTAATATA
60733955 ATTT
1 ATTT
60733959 TAATAACGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 1 0.03
38 28 0.78
39 7 0.19
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (38 bp):
ATTTATTATTATAATAAGCTATTTAATATATTAATATA
Found at i:60743833 original size:2 final size:2
Alignment explanation
Indices: 60743826--60743860 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
60743816 AAAGACAAAA
60743826 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
60743861 AGATTTGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:60745832 original size:21 final size:21
Alignment explanation
Indices: 60745793--60745834 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60745783 GTCTCATTTT
*
60745793 TATTTGTTTTTTTTATTTTAA
1 TATTTGTTTTTTGTATTTTAA
60745814 TATTTGTTTTTATGT-TTTTAA
1 TATTTGTTTTT-TGTATTTTAA
60745835 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (21 bp):
TATTTGTTTTTTGTATTTTAA
Found at i:60746266 original size:26 final size:24
Alignment explanation
Indices: 60746236--60746285 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
60746226 AAATAAAAAA
*
60746236 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
60746262 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
60746286 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:60746639 original size:21 final size:21
Alignment explanation
Indices: 60746597--60746642 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
60746587 AAGATAGATG
* *
60746597 AATAGATAATAAAAAAATAAT
1 AATAGATAACAAAAAAACAAT
* *
60746618 AATAGATAACAAAATACCAAT
1 AATAGATAACAAAAAAACAAT
60746639 AATA
1 AATA
60746643 ATGAAGGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (21 bp):
AATAGATAACAAAAAAACAAT
Found at i:60747566 original size:14 final size:14
Alignment explanation
Indices: 60747549--60747580 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
60747539 AACATAATCG
60747549 AAAAAAAGAAAAAT
1 AAAAAAAGAAAAAT
*
60747563 AAAAAAATAAAAAT
1 AAAAAAAGAAAAAT
60747577 AAAA
1 AAAA
60747581 CCACCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAAAAGAAAAAT
Found at i:60753352 original size:5 final size:5
Alignment explanation
Indices: 60753342--60753377 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
60753332 ATAATTTAAC
* *
60753342 TCGAT TCGAT TCGAT TCGAT TCGAC TCGAC TCGAT T
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT T
60753378 TTCATTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (5 bp):
TCGAT
Found at i:60754036 original size:26 final size:27
Alignment explanation
Indices: 60754006--60754059 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
60753996 AAAAAGGTTT
* *
60754006 AAAATGTCCCCCCAAAATTTTAA-TTC
1 AAAATGTCACCCAAAAATTTTAACTTC
60754032 AAAATGTCACCCAAAAATTTTAACTTC
1 AAAATGTCACCCAAAAATTTTAACTTC
60754059 A
1 A
60754060 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAATGTCACCCAAAAATTTTAACTTC
Found at i:60758696 original size:50 final size:49
Alignment explanation
Indices: 60758621--60758797 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 49
60758611 CCATGGCAAC
60758621 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
*
60758671 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGAAAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAA-TGA
* *
60758721 AAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAATGA
* * *
60758771 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
60758798 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
49 3 0.03
50 88 0.76
51 25 0.22
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (49 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGAAAATGA
Found at i:60758811 original size:31 final size:31
Alignment explanation
Indices: 60758773--60758859 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
60758763 ACAAATGACA
*
60758773 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
60758804 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
60758835 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
60758860 AAGTGACAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:60758870 original size:7 final size:7
Alignment explanation
Indices: 60758858--60758886 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
60758848 AGCTTCGGCT
60758858 ACAAGTG
1 ACAAGTG
60758865 ACAAGTG
1 ACAAGTG
60758872 ACAAGTG
1 ACAAGTG
60758879 ACAAGTG
1 ACAAGTG
60758886 A
1 A
60758887 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:60759020 original size:42 final size:42
Alignment explanation
Indices: 60758938--60759092 Score: 233
Period size: 42 Copynumber: 3.7 Consensus size: 42
60758928 TATGTGATCA
60758938 TGTAAGACCATAGCTGGGC-ATGGCATCGATATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATG
*
60758979 TGTAAGACCATAGCTGGGCTATGACATCGATATATGAATATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATG
* *
60759021 TGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATG
1 TGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATG
* **
60759063 TGTAAGACCATAGTTGAACTATGGCATCGA
1 TGTAAGACCATAGCTGGGCTATGGCATCGA
60759093 GAAAACGAAG
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
41 20 0.19
42 83 0.80
43 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATG
Found at i:60762259 original size:155 final size:156
Alignment explanation
Indices: 60762100--60762394 Score: 405
Period size: 155 Copynumber: 1.9 Consensus size: 156
60762090 AAAATGACTT
* *
60762100 AAAAAAAACTGACATTGCGAAACTGGTGTTAAATCCATTGCTGAAA-TAAGAAATTCTAGAATGA
1 AAAAAAAAATGACATTGCGAAACTGGTGTTAAATCCATTGCTCAAATTAAGAAATTCTAGAATGA
** * *
60762164 GGTTGTTTAGGGATAGGTTTAAAGGTATTGTATAAATTGTACAAAATAGGC-AACTCGCAATAAA
66 GGTTGTTTAGGGATAGCATTAAAGGCATTGTATAAATTGTACAAAATAGGCAAACTCACAATAAA
60762228 ATTGCTATGACCATATCGTGATTTAA
131 ATTGCTATGACCATATCGTGATTTAA
* ** ****
60762254 AAAAAAAAATGACATTGCTAAACTGGTGTTAAATTGATTGCTCAAATTTCTCAATTCTAGAATGA
1 AAAAAAAAATGACATTGCGAAACTGGTGTTAAATCCATTGCTCAAATTAAGAAATTCTAGAATGA
* * * * *
60762319 GGTTGTTTAGGGATAGCATTAAAGGCATTGTATAGATTGTATAAATTAGTCAAACTCACAGTAAA
66 GGTTGTTTAGGGATAGCATTAAAGGCATTGTATAAATTGTACAAAATAGGCAAACTCACAATAAA
*
60762384 ATTGTTATGAC
131 ATTGCTATGAC
60762395 TGGATAGCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
154 41 0.34
155 58 0.48
156 21 0.17
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (156 bp):
AAAAAAAAATGACATTGCGAAACTGGTGTTAAATCCATTGCTCAAATTAAGAAATTCTAGAATGA
GGTTGTTTAGGGATAGCATTAAAGGCATTGTATAAATTGTACAAAATAGGCAAACTCACAATAAA
ATTGCTATGACCATATCGTGATTTAA
Found at i:60763566 original size:18 final size:19
Alignment explanation
Indices: 60763529--60763566 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
60763519 TTTTATATAT
60763529 TTTTAAAAACATTATTAAA
1 TTTTAAAAACATTATTAAA
* *
60763548 TTTTATAAA-ATTGTTAAA
1 TTTTAAAAACATTATTAAA
60763566 T
1 T
60763567 GAAATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTTAAAAACATTATTAAA
Found at i:60764206 original size:16 final size:16
Alignment explanation
Indices: 60764187--60764221 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60764177 ATTTTTCATT
60764187 TTTTTA-TCTTTTCAA
1 TTTTTATTCTTTTCAA
*
60764202 ATTTTATTCTTTTCAA
1 TTTTTATTCTTTTCAA
60764218 TTTT
1 TTTT
60764222 CTTTTTACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTATTCTTTTCAA
Found at i:60764208 original size:15 final size:15
Alignment explanation
Indices: 60764188--60764221 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
60764178 TTTTTCATTT
60764188 TTTTA-TCTTTTCAAA
1 TTTTATTCTTTTC-AA
60764203 TTTTATTCTTTTCAA
1 TTTTATTCTTTTCAA
60764218 TTTT
1 TTTT
60764222 CTTTTTACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTATTCTTTTCAA
Found at i:60780743 original size:6 final size:6
Alignment explanation
Indices: 60780734--60780767 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
60780724 TATGTCTTTT
60780734 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
60780768 GATAAGAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:60787564 original size:18 final size:18
Alignment explanation
Indices: 60787543--60787585 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
60787533 CCTTTCCCCC
*
60787543 TTCTTTCATTTGTTTATT
1 TTCTTTCATTTATTTATT
*
60787561 TTCTTTCGTTTATTTATT
1 TTCTTTCATTTATTTATT
*
60787579 TGCTTTC
1 TTCTTTC
60787586 TTTTTATGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.14, G:0.07, T:0.70
Consensus pattern (18 bp):
TTCTTTCATTTATTTATT
Found at i:60788724 original size:20 final size:19
Alignment explanation
Indices: 60788696--60788741 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
60788686 TTTTTATTTA
60788696 TTATTTTTT-ATTATACTTT
1 TTATTTTTTGA-TATACTTT
*
60788715 TTAGTTTTTTGATATATTTT
1 TTA-TTTTTTGATATACTTT
60788735 TTATTTT
1 TTATTTT
60788742 GGTCAGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 16 0.67
21 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (19 bp):
TTATTTTTTGATATACTTT
Found at i:60788734 original size:19 final size:18
Alignment explanation
Indices: 60788690--60788741 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
60788680 GTAACTTTTT
60788690 TATTTATTATTTTTTATTA
1 TATTT-TTATTTTTTATTA
60788709 TACTTTTTAGTTTTTTGA-TA
1 TA-TTTTTA-TTTTTT-ATTA
60788729 TATTTTTTATTTT
1 TA-TTTTTATTTT
60788742 GGTCAGAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 9 0.31
20 19 0.66
21 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (18 bp):
TATTTTTATTTTTTATTA
Found at i:60793478 original size:49 final size:49
Alignment explanation
Indices: 60793406--60793503 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
60793396 TACTTTTAAG
* * *
60793406 GTAAACAACACCCGTCTGAAACCTTATTTTGATAAGAATGATAGCAGGA
1 GTAAAAAACACCCATCTAAAACCTTATTTTGATAAGAATGATAGCAGGA
* * *
60793455 GTAAAAAACACCCATTTAAAACCTTATTTTGATGAGACTGATAGCAGGA
1 GTAAAAAACACCCATCTAAAACCTTATTTTGATAAGAATGATAGCAGGA
60793504 ATGAGGAGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (49 bp):
GTAAAAAACACCCATCTAAAACCTTATTTTGATAAGAATGATAGCAGGA
Found at i:60797029 original size:31 final size:28
Alignment explanation
Indices: 60796961--60797017 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
60796951 AAGCTTAAAT
60796961 TACATATTTTATTCATCATCTAATTCTA
1 TACATATTTTATTCATCATCTAATTCTA
60796989 TACATATTTTATTCATCATCTAATTCTA
1 TACATATTTTATTCATCATCTAATTCTA
60797017 T
1 T
60797018 CTCTAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.51
Consensus pattern (28 bp):
TACATATTTTATTCATCATCTAATTCTA
Found at i:60799413 original size:21 final size:21
Alignment explanation
Indices: 60799389--60799428 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60799379 ACTGATTTGT
60799389 ACATAATATGCCA-TGATATGC
1 ACATAATATG-CAGTGATATGC
*
60799410 ACATGATATGCAGTGATAT
1 ACATAATATGCAGTGATAT
60799429 ATACATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATAATATGCAGTGATATGC
Found at i:60799428 original size:10 final size:11
Alignment explanation
Indices: 60799389--60799421 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
60799379 ACTGATTTGT
*
60799389 ACATAATATGC
1 ACATGATATGC
60799400 -CATGATATGC
1 ACATGATATGC
60799410 ACATGATATGC
1 ACATGATATGC
60799421 A
1 A
60799422 GTGATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (11 bp):
ACATGATATGC
Found at i:60799434 original size:21 final size:20
Alignment explanation
Indices: 60799388--60799438 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
60799378 TACTGATTTG
*
60799388 TACATAATATGCCATGATATG
1 TACAT-ATATGCCATGATATA
*
60799409 CACATGATATG-CAGTGATATA
1 TACAT-ATATGCCA-TGATATA
60799430 TACATATAT
1 TACATATAT
60799439 ACATGGGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (20 bp):
TACATATATGCCATGATATA
Found at i:60799550 original size:24 final size:25
Alignment explanation
Indices: 60799484--60799543 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
60799474 AAAAGTACTA
* * *
60799484 TGCCCTAGTTTACCGAAAAGGGCTT
1 TGCCCCAGTTTATCAAAAAGGGCTT
60799509 TGCCCCAGTTTATCAAAAAGGGCTT
1 TGCCCCAGTTTATCAAAAAGGGCTT
60799534 TGCCCCAGTT
1 TGCCCCAGTT
60799544 ATTAAAAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (25 bp):
TGCCCCAGTTTATCAAAAAGGGCTT
Found at i:60799556 original size:24 final size:24
Alignment explanation
Indices: 60799499--60799570 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
60799489 TAGTTTACCG
60799499 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
60799523 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
60799547 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
60799571 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:60807155 original size:25 final size:24
Alignment explanation
Indices: 60807126--60807197 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
60807116 GGAGGAAGTG
* *
60807126 CAAAAGGGCTATGCCCTAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAC
*
60807150 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAC
60807175 CAGAAAGGGCTTTGCCCCAGTTT
1 CA-AAAGGGCTTTGCCCCAGTTT
60807198 TTAAAAGAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 2 0.05
25 41 0.95
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAC
Found at i:60808325 original size:47 final size:47
Alignment explanation
Indices: 60808266--60808387 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
60808256 ATCCATAAGT
* * *
60808266 GAACTCAGACTCAACTCAATGAGTTCGGATGTCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGGCTAGTTACATCTCAC
* *
60808313 GAACTCGGACTCAGCTCAACGAGTTTGGATGGCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGGCTAGTTACATCTCAC
60808360 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
60808388 GCATTCGCAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGGCTAGTTACATCTCAC
Found at i:60808419 original size:46 final size:47
Alignment explanation
Indices: 60808212--60808433 Score: 194
Period size: 46 Copynumber: 4.8 Consensus size: 47
60808202 TGTAACCCGC
* *
60808212 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGC--GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCTAGTT-ACAT
* * *
60808258 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCGGATGTCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-CTAGTTACAT
* * *
60808308 -C-TCA-CGAACTCGGACTCAGCTCAACGAGTTTGGATGGCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCG--GGCTAGTTACAT
* *
60808355 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGC-A-TTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCTAGTT-ACAT
* *
60808398 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
60808434 ATGCCCAAAT
Statistics
Matches: 147, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 4 0.03
45 2 0.01
46 62 0.42
47 57 0.39
48 7 0.05
49 2 0.01
50 4 0.03
51 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCTAGTTACAT
Found at i:60814339 original size:93 final size:93
Alignment explanation
Indices: 60814215--60815184 Score: 1841
Period size: 93 Copynumber: 10.4 Consensus size: 93
60814205 CTCGGGCGTT
** * * * * * *
60814215 CATAAGTGAACTCAAATTTAACTCAATGAGTTCGGATGCCTAGTTACATCTTACGAACTTGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
* *
60814280 CAACTCAATGAGTTCGGACATTCGTATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
*
60814308 CAGAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60814373 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60814401 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60814466 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60814494 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60814559 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60814587 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60814652 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60814680 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60814745 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60814773 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60814838 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60814866 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60814931 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60814959 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60815024 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60815052 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
60815117 CAACTCAATGAGTTCGGGCATTCGCATC
66 CAACTCAATGAGTTCGGGCATTCGCATC
60815145 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
60815185 CAAATATCCT
Statistics
Matches: 865, Mismatches: 12, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 865 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGAGTTACATCTCACGAACTCGGACT
CAACTCAATGAGTTCGGGCATTCGCATC
Found at i:60823930 original size:14 final size:14
Alignment explanation
Indices: 60823911--60823945 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
60823901 TACTTGATTT
60823911 GTTCTTAATTATGC
1 GTTCTTAATTATGC
*
60823925 GTTCTTAATTATGT
1 GTTCTTAATTATGC
60823939 GTTCTTA
1 GTTCTTA
60823946 TTCCAGGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (14 bp):
GTTCTTAATTATGC
Found at i:60824378 original size:13 final size:13
Alignment explanation
Indices: 60824362--60824394 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60824352 TTCAATTAAA
*
60824362 TTAGTTAATTAGT
1 TTAGATAATTAGT
60824375 TTAGATAATTAGT
1 TTAGATAATTAGT
60824388 TTA-ATAA
1 TTAGATAA
60824395 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:60828974 original size:5 final size:5
Alignment explanation
Indices: 60828964--60829023 Score: 52
Period size: 6 Copynumber: 11.4 Consensus size: 5
60828954 ATTCTTGTAC
*
60828964 TTATT TTATT TTATTT TTATTT TTATT TATATT TTCATT TCAATT TTA--
1 TTATT TTATT TTA-TT TTA-TT TTATT T-TATT TT-ATT T-TATT TTATT
60829012 TTATT TTATT TT
1 TTATT TTATT TT
60829024 GAAAGACATA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 3 0.06
5 20 0.43
6 24 0.51
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:60831952 original size:13 final size:13
Alignment explanation
Indices: 60831936--60831968 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
60831926 TTCAATTAAA
*
60831936 TTAGTTAATTAGT
1 TTAGATAATTAGT
60831949 TTAGATAATTAGT
1 TTAGATAATTAGT
60831962 TTA-ATAA
1 TTAGATAA
60831969 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:60851481 original size:21 final size:22
Alignment explanation
Indices: 60851445--60851493 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
60851435 CTACAAATTT
60851445 TAAATGCAAATTACAAAAGAAC
1 TAAATGCAAATTACAAAAGAAC
* *
60851467 TAAAT-CAAGTTACAAATGAAC
1 TAAATGCAAATTACAAAAGAAC
*
60851488 AAAATG
1 TAAATG
60851494 TTGCTGCTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.20
Consensus pattern (22 bp):
TAAATGCAAATTACAAAAGAAC
Found at i:60863825 original size:30 final size:30
Alignment explanation
Indices: 60863791--60863851 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60863781 TCCTTAACTC
60863791 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
60863821 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
60863851 A
1 A
60863852 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:60864851 original size:72 final size:72
Alignment explanation
Indices: 60864734--60864879 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
60864724 AAAACCTATC
60864734 ACAAAACCACGCGATCAAGTTTTTGGCGCCGTTTCTGGGGAACTGAAATATTAGGAACGCTCAAT
1 ACAAAACCACGCGATCAAGTTTTTGGCGCCGTTTCTGGGGAACTGAAATATTAGGAACGCTCAAT
60864799 TTTTATT
66 TTTTATT
60864806 ACAAAACCACGCGATCAAGTTTTTGGCGCCGTTTCTGGGGAACTGAAATATTAGGAACGCTCAAT
1 ACAAAACCACGCGATCAAGTTTTTGGCGCCGTTTCTGGGGAACTGAAATATTAGGAACGCTCAAT
60864871 TTTTATT
66 TTTTATT
60864878 AC
1 AC
60864880 TTTAGCCATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (72 bp):
ACAAAACCACGCGATCAAGTTTTTGGCGCCGTTTCTGGGGAACTGAAATATTAGGAACGCTCAAT
TTTTATT
Found at i:60867971 original size:21 final size:21
Alignment explanation
Indices: 60867921--60867977 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
60867911 GTGAGGCTTG
*
60867921 CACACACGAGCGTGGTGTTTA
1 CACACACGGGCGTGGTGTTTA
60867942 CACACACGGGCGTGGTGTTTA
1 CACACACGGGCGTGGTGTTTA
*
60867963 CACACACGGGTGTGG
1 CACACACGGGCGTGG
60867978 GAGAAGTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.25, G:0.33, T:0.21
Consensus pattern (21 bp):
CACACACGGGCGTGGTGTTTA
Found at i:60872949 original size:86 final size:86
Alignment explanation
Indices: 60872803--60873044 Score: 423
Period size: 86 Copynumber: 2.8 Consensus size: 86
60872793 TGTTCAATAG
** * *
60872803 GTACACTTGCCCACATCGCGATAATAGTTAG-TTCAAGAACGAGTAATTATAAATTTTTAAAACC
1 GTACACTTGCCTGCATTGCGATAATAGTTAGTTTTAAGAACGAGTAATTATAAATTTTTAAAACC
60872867 TATCACGAAACCACGCGATCA
66 TATCACGAAACCACGCGATCA
60872888 GTACACTTGCCTGCATTGCGATAATAGTTAGTTTTAAGAACGAGTAATTATAAATTTTTAAAACC
1 GTACACTTGCCTGCATTGCGATAATAGTTAGTTTTAAGAACGAGTAATTATAAATTTTTAAAACC
60872953 TATCACGAAACCACGCGATCA
66 TATCACGAAACCACGCGATCA
* *
60872974 GTACACTTGCCTGCATTGCGATAATAGTTAGTTTTAAGAACGAGTAATTATAAATATTTAAAACT
1 GTACACTTGCCTGCATTGCGATAATAGTTAGTTTTAAGAACGAGTAATTATAAATTTTTAAAACC
60873039 TATCAC
66 TATCAC
60873045 ACAAAAGCGC
Statistics
Matches: 150, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
85 28 0.19
86 122 0.81
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (86 bp):
GTACACTTGCCTGCATTGCGATAATAGTTAGTTTTAAGAACGAGTAATTATAAATTTTTAAAACC
TATCACGAAACCACGCGATCA
Found at i:60873365 original size:27 final size:27
Alignment explanation
Indices: 60873335--60873389 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
60873325 GATGATACTC
* *
60873335 AACCTCCAACCGTAGAGATGGCTGAAA
1 AACCCCCAACCGTAGAGATGACTGAAA
60873362 AACCCCCAACCGTAGAGATGACTGAAA
1 AACCCCCAACCGTAGAGATGACTGAAA
60873389 A
1 A
60873390 CCAAGAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (27 bp):
AACCCCCAACCGTAGAGATGACTGAAA
Found at i:60880643 original size:187 final size:187
Alignment explanation
Indices: 60880328--60880701 Score: 748
Period size: 187 Copynumber: 2.0 Consensus size: 187
60880318 AAACTCTGTG
60880328 GCATTTTGAATCAAAGGTAATTACTTGGATGAGGGGAGACACCTATGTTTTCAGAATAAAATGCT
1 GCATTTTGAATCAAAGGTAATTACTTGGATGAGGGGAGACACCTATGTTTTCAGAATAAAATGCT
60880393 CAACTTGGAGTGTTTGAAACTTTGATGTTCTTTGAGTTGAATTCTCAATGTATGATTACCTGTGG
66 CAACTTGGAGTGTTTGAAACTTTGATGTTCTTTGAGTTGAATTCTCAATGTATGATTACCTGTGG
60880458 ATTATTTTGAGATATTATCGATAGAAATTATAAGTTGAGAAGAATTTATTTTGATTA
131 ATTATTTTGAGATATTATCGATAGAAATTATAAGTTGAGAAGAATTTATTTTGATTA
60880515 GCATTTTGAATCAAAGGTAATTACTTGGATGAGGGGAGACACCTATGTTTTCAGAATAAAATGCT
1 GCATTTTGAATCAAAGGTAATTACTTGGATGAGGGGAGACACCTATGTTTTCAGAATAAAATGCT
60880580 CAACTTGGAGTGTTTGAAACTTTGATGTTCTTTGAGTTGAATTCTCAATGTATGATTACCTGTGG
66 CAACTTGGAGTGTTTGAAACTTTGATGTTCTTTGAGTTGAATTCTCAATGTATGATTACCTGTGG
60880645 ATTATTTTGAGATATTATCGATAGAAATTATAAGTTGAGAAGAATTTATTTTGATTA
131 ATTATTTTGAGATATTATCGATAGAAATTATAAGTTGAGAAGAATTTATTTTGATTA
60880702 TGAGTTGAGA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 187 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (187 bp):
GCATTTTGAATCAAAGGTAATTACTTGGATGAGGGGAGACACCTATGTTTTCAGAATAAAATGCT
CAACTTGGAGTGTTTGAAACTTTGATGTTCTTTGAGTTGAATTCTCAATGTATGATTACCTGTGG
ATTATTTTGAGATATTATCGATAGAAATTATAAGTTGAGAAGAATTTATTTTGATTA
Done.