Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 287 of 318
Found at i:90691967 original size:90 final size:90
Alignment explanation
Indices: 90691873--90692191 Score: 507
Period size: 90 Copynumber: 3.6 Consensus size: 90
90691863 TACGGATTAA
* * * *
90691873 ATTAAATTTGCAGGTACAAAAAAATACAAACATTCTAAGAAATTAATACACAAAAATATAAAAAA
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACAAAAATATAAAAAT
90691938 GAAACCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCTAAACAACTAC
* *
90691963 ATTAAATTTATAGATGT-AAAAAATACAAACATTCTAAGAAATTAATACACAAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACAAAAATATAAAAAT
*
90692027 GAAATCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCTAAACAACTAC
* * *
90692052 ATTAAATTTAAAAATATAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACAAAAATATAAAAAT
90692117 GAAACCTTAAATCCTAAACAACTAC
66 GAAACCTTAAATCCTAAACAACTAC
* *
90692142 ATTAAATTTACAGGTGTAAAAAAATACAAACATTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATATAAAAAAATACAAACATTCT-AAGAAATTAATACA
90692192 ATTATTTTGA
Statistics
Matches: 211, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
89 84 0.40
90 121 0.57
91 6 0.03
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (90 bp):
ATTAAATTTACAGATATAAAAAAATACAAACATTCTAAGAAATTAATACACAAAAATATAAAAAT
GAAACCTTAAATCCTAAACAACTAC
Found at i:90692025 original size:40 final size:40
Alignment explanation
Indices: 90691981--90692116 Score: 96
Period size: 40 Copynumber: 3.1 Consensus size: 40
90691971 TATAGATGTA
90691981 AAAAATACAAACATTCTAAGAAATTAATACACAAAAATAT
1 AAAAATACAAACATTCTAAGAAATTAATACACAAAAATAT
* * * * *
90692021 AAAAATGA-AATCTTAAATCCTAA-ACAACTACATTAAATTTAAAAATAT
1 AAAAAT-ACAA----ACATTCTAAGA-AATTA-A-TACA--CAAAAATAT
*
90692069 AAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATAT
1 --AAAAATACAAACATTCTAAGAAATTAATACACAAAAATAT
90692111 AAAAAT
1 AAAAAT
90692117 GAAACCTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
40 14 0.20
41 1 0.01
42 7 0.10
43 1 0.01
44 14 0.20
45 2 0.03
46 14 0.20
47 1 0.01
48 8 0.11
49 1 0.01
50 8 0.11
ACGTcount: A:0.61, C:0.12, G:0.03, T:0.24
Consensus pattern (40 bp):
AAAAATACAAACATTCTAAGAAATTAATACACAAAAATAT
Found at i:90692791 original size:75 final size:76
Alignment explanation
Indices: 90692693--90692843 Score: 259
Period size: 76 Copynumber: 2.0 Consensus size: 76
90692683 CCCGAAAAAG
* *
90692693 GTGGTGCCAGCCATCAGTGTCCCAAAGT-AAAAAAAAATGCATTGGGAGGCAAAAAATGTACTTG
1 GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAATGCATTGAGAGGCAAAAAATGTACTTG
*
90692757 GTGCCGGCCAT
66 GTACCGGCCAT
*
90692768 GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAATGCATTGAGAGGCGAAAAATGTACTTG
1 GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAATGCATTGAGAGGCAAAAAATGTACTTG
90692833 GTACCGGCCAT
66 GTACCGGCCAT
90692844 TACATGGCCA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
75 27 0.38
76 44 0.62
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (76 bp):
GTGGTGCCAACCATCAGTGTCCCAAAGTAAAAAAAAAATGCATTGAGAGGCAAAAAATGTACTTG
GTACCGGCCAT
Found at i:90693115 original size:73 final size:71
Alignment explanation
Indices: 90692990--90693142 Score: 193
Period size: 75 Copynumber: 2.1 Consensus size: 71
90692980 AATTTATATG
* *
90692990 CACTGGTGCCAGCAATCAGTGTTCCAAAAAAATTTGCATTGGGAGCCTAAATTGTACTTAAATTT
1 CACTGGTGCCAGCAATCAGTGCTCCAAAAAAA-TTGCATTGGGAGCCAAAATTGTAC---AATTT
*
90693055 TTTTTAAATA
62 TTTTAAAATA
* * *
90693065 CACTGGTGCCGATC-ATTAGTGCTCCAAAAAAA-TGCATTGGGAGCCAAAATTTTACAATTTTTT
1 CACTGGTGCC-AGCAATCAGTGCTCCAAAAAAATTGCATTGGGAGCCAAAATTGTACAATTTTTT
90693128 TAAAATA
65 TAAAATA
90693135 CACTGGTG
1 CACTGGTG
90693143 TCGACCATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
70 22 0.31
73 21 0.30
75 26 0.37
76 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (71 bp):
CACTGGTGCCAGCAATCAGTGCTCCAAAAAAATTGCATTGGGAGCCAAAATTGTACAATTTTTTT
AAAATA
Found at i:90693161 original size:70 final size:72
Alignment explanation
Indices: 90692990--90693162 Score: 208
Period size: 70 Copynumber: 2.4 Consensus size: 72
90692980 AATTTATATG
* *
90692990 CACTGGTGCC-AGCAATCAGTGTTCCAAAAAAATTTGCATTGGGAGCCTAAATTGTACTTAAATT
1 CACTGGTGCCGA-CCATCAGTGTTCCAAAAAAA-TTGCATTGGGAGCCAAAATTGTAC-T-AATT
*
90693054 TTTTTTAAATA
62 TTTTTAAAATA
* * * *
90693065 CACTGGTGCCGATCATTAGTGCTCCAAAAAAA-TGCATTGGGAGCCAAAATTTTAC-AATTTTTT
1 CACTGGTGCCGACCATCAGTGTTCCAAAAAAATTGCATTGGGAGCCAAAATTGTACTAATTTTTT
90693128 TAAAATA
66 TAAAATA
* *
90693135 CACTGGTGTCGACCATCAATGTTCCAAA
1 CACTGGTGCCGACCATCAGTGTTCCAAA
90693163 GTAAAAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
70 37 0.44
73 21 0.25
75 26 0.31
76 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
CACTGGTGCCGACCATCAGTGTTCCAAAAAAATTGCATTGGGAGCCAAAATTGTACTAATTTTTT
TAAAATA
Found at i:90695259 original size:22 final size:23
Alignment explanation
Indices: 90695217--90695259 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
90695207 AAGCCTCTGT
* *
90695217 ACGCCAGCATGGCTCCCGTACAC
1 ACGCCAGCATCGCACCCGTACAC
90695240 ACGCCAGCA-CGCACCCGTAC
1 ACGCCAGCATCGCACCCGTAC
90695260 CTGCAAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.23, C:0.47, G:0.21, T:0.09
Consensus pattern (23 bp):
ACGCCAGCATCGCACCCGTACAC
Found at i:90696691 original size:24 final size:24
Alignment explanation
Indices: 90696647--90696697 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
90696637 TTAAAATACC
* *
90696647 TTTCTTTGTGATTTATCAAAT-AT
1 TTTCTTTATGATATATCAAATAAT
*
90696670 TTTCTTTATGTATATATGAAATAAT
1 TTTCTTTATG-ATATATCAAATAAT
90696695 TTT
1 TTT
90696698 AGAAACTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCTTTATGATATATCAAATAAT
Found at i:90697694 original size:132 final size:131
Alignment explanation
Indices: 90697455--90697741 Score: 378
Period size: 132 Copynumber: 2.2 Consensus size: 131
90697445 TAAGTATCCA
*
90697455 TTTAAAAATTCTTTAAAACGAAGGCGAAATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCGAAATCCGATATTTAGCAATTCGCGGAATAGTGCCCTAAC
* * * *
90697520 GTGTTGGGTTGTAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAGA-TTTCACTCATG
66 GTGCTGGGTTGCAATTTCGCGATTGCTCAAAATAATCAAATATCCCTTCAA-ATTTTCACTCATG
90697584 CC
130 CC
* ** * *
90697586 TTTTAAAAATTCTTTAAAACGAAGGTGACGTGCGATATTTAGCAATTCGCGGAATCGTGCCCTAA
1 -TTTAAAAATTCTTTAAAACGAAGGCGAAATCCGATATTTAGCAATTCGCGGAATAGTGCCCTAA
* * * *
90697651 CGTGCTGGGTTGCAATTTCTCGATTGCTTAAAATAATCAAATATTCCTTCAAATTTTCATTCATG
65 CGTGCTGGGTTGCAATTTCGCGATTGCTCAAAATAATCAAATATCCCTTCAAATTTTCACTCATG
*
90697716 TC
130 CC
* *
90697718 TTCAAAAATTTTTTTTAAAACGAA
1 TTTAAAAA--TTCTTTAAAACGAA
90697742 AGCAATATTC
Statistics
Matches: 135, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
131 8 0.06
132 114 0.84
133 13 0.10
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCGAAATCCGATATTTAGCAATTCGCGGAATAGTGCCCTAAC
GTGCTGGGTTGCAATTTCGCGATTGCTCAAAATAATCAAATATCCCTTCAAATTTTCACTCATGC
C
Found at i:90697773 original size:132 final size:132
Alignment explanation
Indices: 90697458--90697793 Score: 349
Period size: 132 Copynumber: 2.5 Consensus size: 132
90697448 GTATCCATTT
* * * * *
90697458 AAAAATTCTTTAAAACGAAGGCGAA-ATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAACGT
1 AAAAATTCTTTAAAACGAAAGC-AACATGCGACATTTGACAATTCGCGGAATCGTGCCCTAACGT
* * * *
90697522 GTTGGGTTGTAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAGATTTCACTCATGCCT
65 GCTGGGTTGCAATTTCGCGATTGCTCAAAATAATCAAATATCCCTTCAAGATTTCACTCATGCCT
*
90697587 TTT
130 TTC
* ** * *
90697590 AAAAATTCTTTAAAACGAAGGTGACGTGCGATATTT-AGCAATTCGCGGAATCGTGCCCTAACGT
1 AAAAATTCTTTAAAACGAAAGCAACATGCGACATTTGA-CAATTCGCGGAATCGTGCCCTAACGT
* * * * *
90697654 GCTGGGTTGCAATTTCTCGATTGCTTAAAATAATCAAATATTCCTTCAA-ATTTTCATTCATGTC
65 GCTGGGTTGCAATTTCGCGATTGCTCAAAATAATCAAATATCCCTTCAAGA-TTTCACTCATGCC
90697718 -TTC
129 TTTC
* * * * * * *
90697721 AAAAATTTTTTTTAAAACGAAAGCAATATTCGGCATTTGACAATTCG-AGAATCATGCCCTATCG
1 AAAAA--TTCTTTAAAACGAAAGCAACATGCGACATTTGACAATTCGCGGAATCGTGCCCTAACG
90697785 TGCTGGGTT
64 TGCTGGGTT
90697794 ATGATCTCTC
Statistics
Matches: 170, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
131 9 0.05
132 131 0.77
133 29 0.17
134 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (132 bp):
AAAAATTCTTTAAAACGAAAGCAACATGCGACATTTGACAATTCGCGGAATCGTGCCCTAACGTG
CTGGGTTGCAATTTCGCGATTGCTCAAAATAATCAAATATCCCTTCAAGATTTCACTCATGCCTT
TC
Found at i:90709686 original size:44 final size:44
Alignment explanation
Indices: 90709614--90710328 Score: 804
Period size: 44 Copynumber: 15.9 Consensus size: 44
90709604 CGAATCCTGT
** *
90709614 AGATTTGGCGTCTCTGTATTTTCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
90709658 ATATTTGGCGTCTCTGTATTGGCGGAGGGCAGATCGAATATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * * *
90709702 AGATTCGGTGTCTCTATATTGGCAGAGAGCAGATCAAAGATAGT
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
90709746 AGATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * *
90709790 AGATTTGGCATCTCTGTATTGGCGGAGGGCAGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
*
90709834 AGATTTGGCGTCTCTGTATTGGC-GAAAGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGA-GCAGATCGAAGATAGC
* * * *
90709878 AGATTTGGCATCTCTGTATTGGCCGCGTCTCTGTATTGGCGGAAGGAAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGG-C-AG----AG-A---GCAG-A------TCGAAGATAGC
*
90709939 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* *
90709983 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
90710027 AGATTTGGCATCTCTGTATTGTCAGAGGGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
90710071 AGATTTGGCGTCTCTGTATTGGCGGAGGGCAAATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
90710115 AGATTTGGCGTCTCTGTGTTGGCAGAGGGTAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
90710159 AGATTTGGCTTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * *
90710203 AGATTTGACATCTCTGTATTGGCGGAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
* * * * * *
90710247 AGATTTGACATCTCTGTGTTGACAGAGAGCAAATCGAAGAT-GAT
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG-C
*
90710291 AGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAA
1 AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAA
90710329 AATAACATAT
Statistics
Matches: 580, Mismatches: 72, Indels: 38
0.84 0.10 0.06
Matches are distributed among these distances:
43 3 0.01
44 529 0.91
45 1 0.00
47 1 0.00
50 1 0.00
51 3 0.01
52 1 0.00
54 5 0.01
55 2 0.00
59 1 0.00
60 1 0.00
61 32 0.06
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGC
Found at i:90709914 original size:61 final size:61
Alignment explanation
Indices: 90709841--90709961 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
90709831 AGAAGATTTG
*
90709841 GCGTCTCTGTATTGGCGAAAGGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCC
1 GCGTCTCTGTATTGGCGAAAGGAAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCC
* *
90709902 GCGTCTCTGTATTGGCGGAAGGAAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGC
1 GCGTCTCTGTATTGGCGAAAGGAAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGC
90709962 AGAGAGCAGA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (61 bp):
GCGTCTCTGTATTGGCGAAAGGAAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCC
Found at i:90709929 original size:105 final size:105
Alignment explanation
Indices: 90709800--90710005 Score: 351
Period size: 105 Copynumber: 2.0 Consensus size: 105
90709790 AGATTTGGCA
* *
90709800 TCTCTGTATTGGCGGAGGGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGCGAAAG-GC
1 TCTCTGTATTGGCGGAAGGAAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGC-AAAGAGC
*
90709864 AGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCCGCG
65 AGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCCGCG
* *
90709905 TCTCTGTATTGGCGGAAGGAAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCA
1 TCTCTGTATTGGCGGAAGGAAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGCAAAGAGCA
90709970 GATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
66 GATCGAAGATAACAGATTTGGCATCTCTGTATTGGC
90710006 AGAGAGCAGA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 3 0.03
105 92 0.97
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (105 bp):
TCTCTGTATTGGCGGAAGGAAGATCGAAGATAGAAGATTTGGCGTCTCTGTATTGGCAAAGAGCA
GATCGAAGATAACAGATTTGGCATCTCTGTATTGGCCGCG
Found at i:90709956 original size:149 final size:149
Alignment explanation
Indices: 90709776--90710047 Score: 449
Period size: 149 Copynumber: 1.8 Consensus size: 149
90709766 GACAGAGAGC
* *
90709776 AGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCGGAGGGCAGATCGAAGATAGA-AGATTT
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA-ACAGATTT
* *
90709840 GGCGTCTCTGTATTGGCGAAAG-GCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGGCCGC
65 GGCATCTCTGTATTGGC-AAAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCCGC
90709904 GTCTCTGTATTGGCGGAAGGA
129 GTCTCTGTATTGGCGGAAGGA
* *
90709925 AGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTG
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTG
*
90709990 GCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTG
66 GCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTG
90710048 TCAGAGGGCA
Statistics
Matches: 114, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
148 4 0.04
149 110 0.96
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (149 bp):
AGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAACAGATTTG
GCATCTCTGTATTGGCAAAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGGCCGCGT
CTCTGTATTGGCGGAAGGA
Found at i:90712290 original size:24 final size:24
Alignment explanation
Indices: 90712246--90712296 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
90712236 TTAAAATACC
* *
90712246 TTTCTTTGTGATTTATCAAAT-AT
1 TTTCTTTATGATATATCAAATAAT
*
90712269 TTTCTTTATGTATATATGAAATAAT
1 TTTCTTTATG-ATATATCAAATAAT
90712294 TTT
1 TTT
90712297 AGAAACTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTCTTTATGATATATCAAATAAT
Found at i:90713371 original size:132 final size:132
Alignment explanation
Indices: 90713056--90713430 Score: 396
Period size: 132 Copynumber: 2.8 Consensus size: 132
90713046 AGTATCCATT
* * * * *
90713056 TAAAAATTCTTTAAAACGAAGGCGAA-ATCCGATATTTGGCAATTCGCGGAATAGTGCCCTAACG
1 TAAAAATTCTTTAAAACGAAGGC-AACATGCGACATTTGACAATTCGCAGAATCGTGCCCTAACG
* * * *
90713120 TGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAGATTTCACTCATGCC
65 TGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATTCCTTCAAAATTTCACTCATGCC
*
90713185 TTT
130 TTC
** * *
90713188 TAAAAATTCTTTAAAACGAAGGTGACGTGCGATATTT-AGCAATTCGCAGAATCGTGCCCTAACG
1 TAAAAATTCTTTAAAACGAAGGCAACATGCGACATTTGA-CAATTCGCAGAATCGTGCCCTAACG
* * * * *
90713252 TGCTGGGTTGCAATTTCTCGGTTGCTTAAAATAATCAAATATTCCTTCAAAATTTCATTCATGTC
65 TGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATTCCTTCAAAATTTCACTCATGCC
90713317 TTC
130 TTC
*** * * * * * * * *
90713320 TAATTTTTTTTTTAAAACGAAGGCAATATTCGGCGTTTGACAATTCG-AGAATCATGGCCTATCG
1 TAA-AAATTCTTTAAAACGAAGGCAACATGCGACATTTGACAATTCGCAGAATCGTGCCCTAACG
** * *
90713384 TGTTGGGTTGTGATCTCTCGTTTGCTCAAAACAATCAAATATTCCTT
65 TGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATTCCTT
90713431 TATATTCTCA
Statistics
Matches: 200, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
131 1 0.00
132 169 0.85
133 29 0.14
134 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (132 bp):
TAAAAATTCTTTAAAACGAAGGCAACATGCGACATTTGACAATTCGCAGAATCGTGCCCTAACGT
GTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAATATTCCTTCAAAATTTCACTCATGCCT
TC
Found at i:90719556 original size:19 final size:19
Alignment explanation
Indices: 90719513--90719576 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
90719503 TAAACTTTAA
*
90719513 TAAAAAATATTAAAAATTAG
1 TAAAAAATATAAAAAATT-G
*
90719533 GAAAAAATATAAAAAATTG
1 TAAAAAATATAAAAAATTG
** * *
90719552 TAAAATTTATAAAAACTTA
1 TAAAAAATATAAAAAATTG
90719571 TAAAAA
1 TAAAAA
90719577 CTTATAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 20 0.56
20 16 0.44
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAAAATATAAAAAATTG
Found at i:90719572 original size:29 final size:28
Alignment explanation
Indices: 90719493--90719586 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 28
90719483 ATAAGATTTA
*
90719493 TAAAATTTAT-TAAACTTTAATAAAAAATAT
1 TAAAATTTATAAAAAC-TT-ATAAAAAAT-T
* * *
90719523 TAAAAATTAGGAAAAA-ATATAAAAAATT
1 TAAAATTTA-TAAAAACTTATAAAAAATT
*
90719551 GTAAAATTTATAAAAACTTATAAAAACTT
1 -TAAAATTTATAAAAACTTATAAAAAATT
90719580 ATAAAAT
1 -TAAAAT
90719587 GCATCAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
28 6 0.12
29 33 0.65
30 9 0.18
32 3 0.06
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
TAAAATTTATAAAAACTTATAAAAAATT
Found at i:90719585 original size:19 final size:20
Alignment explanation
Indices: 90719540--90719585 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
90719530 TAGGAAAAAA
* *
90719540 TATAAAAAATTGT-AAAATT
1 TATAAAAAATTATAAAAACT
*
90719559 TATAAAAACTTATAAAAACT
1 TATAAAAAATTATAAAAACT
90719579 TATAAAA
1 TATAAAA
90719586 TGCATCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
TATAAAAAATTATAAAAACT
Found at i:90719595 original size:29 final size:29
Alignment explanation
Indices: 90719540--90719596 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
90719530 TAGGAAAAAA
* **
90719540 TATAAAAAATTGTAAAATTTATAAAAACT
1 TATAAAAAATTATAAAATGCATAAAAACT
*
90719569 TATAAAAACTTATAAAATGCATCAAAAA
1 TATAAAAAATTATAAAATGCAT-AAAAA
90719597 GGCCCTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 18 0.78
30 5 0.22
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.30
Consensus pattern (29 bp):
TATAAAAAATTATAAAATGCATAAAAACT
Found at i:90719825 original size:21 final size:21
Alignment explanation
Indices: 90719769--90719825 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
90719759 TTGGTACGAT
90719769 AATTTTTATAATTTT-TTTATG
1 AATTTTTATAATTTTCTTTA-G
90719790 AA-TTTTAT-A-TTTCTTTA-
1 AATTTTTATAATTTTCTTTAG
90719807 AATTTATTATAATTTTCTT
1 AATTT-TTATAATTTTCTT
90719826 ACGACTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 2 0.06
18 5 0.16
19 9 0.29
20 7 0.23
21 8 0.26
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
AATTTTTATAATTTTCTTTAG
Found at i:90720850 original size:51 final size:51
Alignment explanation
Indices: 90720787--90720909 Score: 165
Period size: 51 Copynumber: 2.4 Consensus size: 51
90720777 CAATCAAATC
* * * *
90720787 TCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTAAGATA
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
* ** * *
90720838 TGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTAAGATC
1 TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
90720889 TCTAAGATTATAAAATCATAT
1 TCTAAGATTATAAAATCATAT
90720910 ATTTCAAGAT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (51 bp):
TCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTAAGATA
Found at i:90725921 original size:51 final size:51
Alignment explanation
Indices: 90725853--90725990 Score: 168
Period size: 51 Copynumber: 2.7 Consensus size: 51
90725843 ATCTACAATC
* * * * *
90725853 AAATCTCTAAGAATATAAAATCATATCTTCTAAGATTACCTATCTTATCTA
1 AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
* * ** *
90725904 AGATATGTAATCTTATAAAATAATATCTTATAAGATTACATATCATATCTA
1 AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
* *
90725955 AAATCTCTAAGATTATAAAATCATATCTTTTAAGAT
1 AAATATCTAAGATTATAAAATCATATCTTATAAGAT
90725991 CATGTTTCCA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (51 bp):
AAATATCTAAGATTATAAAATCATATCTTATAAGATTACATATCATATCTA
Found at i:90729371 original size:20 final size:20
Alignment explanation
Indices: 90729328--90729374 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
90729318 ATTTTATTAA
*
90729328 AAAATACATTTTTTATATTT
1 AAAATATATTTTTTATATTT
90729348 --AATATATTTTTTA-ATTT
1 AAAATATATTTTTTATATTT
90729365 CAAAATATAT
1 -AAAATATAT
90729375 AGTGATAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 4 0.17
18 12 0.52
20 7 0.30
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAATATATTTTTTATATTT
Found at i:90730062 original size:20 final size:20
Alignment explanation
Indices: 90730039--90730077 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
90730029 GAATTATTTT
90730039 TATTCAAAT-TTAATTATAAA
1 TATTCAAATATTAA-TATAAA
*
90730059 TATTTAAATATTAATATAA
1 TATTCAAATATTAATATAA
90730078 TTATATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTCAAATATTAATATAAA
Found at i:90730653 original size:11 final size:11
Alignment explanation
Indices: 90730637--90730671 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
90730627 CCTGCTCGTA
*
90730637 TTAATATTTTT
1 TTAATATTATT
90730648 TTAATATTATT
1 TTAATATTATT
*
90730659 TTAATATAATT
1 TTAATATTATT
90730670 TT
1 TT
90730672 TAAATACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTAATATTATT
Found at i:90738836 original size:28 final size:28
Alignment explanation
Indices: 90738796--90738858 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
90738786 GTCATTATCA
90738796 ACCCCATAAGTTATAAAACTCTTCATAT
1 ACCCCATAAGTTATAAAACTCTTCATAT
* * * *
90738824 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCATAT
90738852 ACCCCAT
1 ACCCCAT
90738859 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCATAT
Found at i:90744888 original size:2 final size:2
Alignment explanation
Indices: 90744881--90744905 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90744871 AATCTATACT
90744881 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
90744906 GAATTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90748599 original size:22 final size:23
Alignment explanation
Indices: 90748574--90748617 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
90748564 ACCAAACCAA
90748574 TTCA-ACATATTT-TCAAGATAAT
1 TTCATACATATTTAT-AAGATAAT
*
90748596 TTCATGCATATTTATAAGATAA
1 TTCATACATATTTATAAGATAA
90748618 CGTCATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (23 bp):
TTCATACATATTTATAAGATAAT
Found at i:90748623 original size:23 final size:23
Alignment explanation
Indices: 90748579--90748623 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
90748569 ACCAATTCAA
**
90748579 CATATTTTCAAGATAATTTCATG
1 CATATTTTCAAGATAACGTCATG
90748602 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAACGTCAT
90748624 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTTCAAGATAACGTCATG
Found at i:90756388 original size:22 final size:23
Alignment explanation
Indices: 90756363--90756408 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
90756353 CAACCAAACC
90756363 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
90756385 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
90756408 A
1 A
90756409 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:90758524 original size:21 final size:22
Alignment explanation
Indices: 90758494--90758536 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
90758484 CATTAAAGCT
90758494 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
90758516 AAATT-AAAAATATAAAAAATG
1 AAATTAAAAAATATAAAAAATG
90758537 CAAGAAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:90759919 original size:87 final size:88
Alignment explanation
Indices: 90759807--90760723 Score: 357
Period size: 87 Copynumber: 10.5 Consensus size: 88
90759797 ACAATGCAAA
* * * * * *
90759807 GATGCCAAACCATCTTAGATTTGCTTCAGCATAAA-CA-CGTGAAACCCAAATCTGCTGTGTTTT
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATC-TGAAACCCAAATCTGCTATGTATT
*
90759870 CGATTTGCTCCTTGTGAACACAAG
65 CGATTTGCTCCTTGTAAACACAAG
* **** *
90759894 GATGCCAAATCATTTTGGATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATTC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATCTGAAACCCAAATCTGCTATGTATTC
*
90759958 GATTTGTTCCTTGTAAACACAAG
66 GATTTGCTCCTTGTAAACACAAG
* **** *
90759981 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAAT-ATCTGAAGGTTAGATCTGCTATGTA-TC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATCTGAAACCCAAATCTGCTATGTATTC
* ***
90760044 ----TGCTCCCCATCG-AAA-TGGA-
66 GATTTGCT--CC-TTGTAAACACAAG
* ** * * **
90760063 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAA-CATCCGAAAGTCAAATCTGCTAT
1 GATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AATCATCTGAAACCCAAATCTGCTAT
*
90760127 GTCTTCGATTTGCTCCTTGTAAACACAAG
60 GTATTCGATTTGCTCCTTGTAAACACAAG
* **** * * *
90760156 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATATGTTATGTA-TC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATCTGAAACCCAAATCTGCTATGTATTC
* **
90760219 ----TGCT-CTCCGTCAAA-A-TGG
66 GATTTGCTCCT-TGT-AAACACAAG
* * * * * **
90760237 AGATGCTAGATCTGTTATCTTGGATCTGCTTTAGTGTGAGAA-CATCCGAAAGTCAAATCTGCTA
1 -GATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AATCATCTGAAACCCAAATCTGCTA
* * *
90760301 TGTCTTCGATTTGTTCCTTATAAACACAAG
59 TGTATTCGATTTGCTCCTTGTAAACACAAG
* **** *
90760331 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTA-TC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATCTGAAACCCAAATCTGCTATGTATTC
* * * * * *
90760394 TA-CT-CTTCGTCG-AAATA-GA-
66 GATTTGC-TCCTTGTAAACACAAG
* * ** * * **
90760413 GATGCCAGATCTGTTATCTTGGATCTACTTTGGTGTGAGAA-CATCCGAAAGTCAAATCTGCTAT
1 GATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AATCATCTGAAACCCAAATCTGCTAT
* *
90760477 GTCTTCGATTTGTTCCTTGTAAACACAAG
60 GTATTCGATTTGCTCCTTGTAAACACAAG
* * **** *
90760506 AATGCCAAATCATCTTGGATCTGCTTCAGTATAAA-CATATGAAGGTTAGATCTGCTATGTA-TC
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATCTGAAACCCAAATCTGCTATGTATTC
* * * ***
90760569 TGCTTT-C-CGTCG-AAA-TGGA-
66 -GATTTGCTCCTTGTAAACACAAG
* ** * * **
90760588 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAA-CATCCGAAAGTCAAATCTGCTAT
1 GATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AATCATCTGAAACCCAAATCTGCTAT
* *
90760652 GTCTTCGATTTGTTCCTTGTAAACACAAG
60 GTATTCGATTTGCTCCTTGTAAACACAAG
* * *
90760681 AATGCCAAATCATCTTTGATCTGCTTCAGTATAAA-CATTTGAA
1 GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATCTGAA
90760724 GGTTAGATCT
Statistics
Matches: 618, Mismatches: 148, Indels: 128
0.69 0.17 0.14
Matches are distributed among these distances:
81 3 0.00
82 45 0.07
83 6 0.01
84 12 0.02
85 9 0.01
86 84 0.14
87 203 0.33
88 101 0.16
89 80 0.13
90 10 0.02
91 12 0.02
92 6 0.01
93 44 0.07
94 3 0.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (88 bp):
GATGCCAAATCATCTTGGATCTGCTTCAGTATAAATCATCTGAAACCCAAATCTGCTATGTATTC
GATTTGCTCCTTGTAAACACAAG
Found at i:90760146 original size:175 final size:175
Alignment explanation
Indices: 90759943--90760838 Score: 1549
Period size: 175 Copynumber: 5.1 Consensus size: 175
90759933 TGAAGGTTAG
*
90759943 ATCTGCTATGTATTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * *
90760008 AGTATAAATATCTGAAGGTTAGATCTGCTATGTATCTGCTCCCCATCGAAATGGAGATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
90760073 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
*
90760118 ATCTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * * *
90760183 AGTATAAACATCTGAAGGTTAGATATGTTATGTATCTGCTCTCCGTCAAAATGGAGATGCTAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
*
90760248 CTGTTATCTTGGATCTGCTTTAGTGTGAGAACATCCGAAAGTCAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
*
90760293 ATCTGCTATGTCTTCGATTTGTTCCTTATAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * *
90760358 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTTCGTCGAAATAGAGATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
*
90760423 CTGTTATCTTGGATCTACTTTGGTGTGAGAACATCCGAAAGTCAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
90760468 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* *
90760533 AGTATAAACATATGAAGGTTAGATCTGCTATGTATCTGCTTTCCGTCGAAATGGAGATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
90760598 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
*
90760643 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTTGATCTGCTTC
1 ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
* * * *
90760708 AGTATAAACATTTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCAAAATGAAGATGCCAGAT
66 AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
* * *
90760773 CTGTTATCTTGGATCTACTTTGATGTGAGAACATCCGAAAGTCAG
131 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
*
90760818 ATCTGCTATGGTCTTTGATTT
1 ATCTGCTAT-GTCTTCGATTT
90760839 TCTTTCTGTC
Statistics
Matches: 682, Mismatches: 38, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
175 672 0.99
176 10 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
ATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTC
AGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGAT
CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAA
Found at i:90773090 original size:14 final size:15
Alignment explanation
Indices: 90773067--90773200 Score: 64
Period size: 14 Copynumber: 8.9 Consensus size: 15
90773057 AAAAAGATAT
*
90773067 ATATACATAATAA-A
1 ATATATATAATAAGA
90773081 ATATATATAA-AAGA
1 ATATATATAATAAGA
90773095 ATATATA-AGA-AA-A
1 ATATATATA-ATAAGA
* *
90773108 ATAAATATTATAAGGA
1 ATATATATAATAA-GA
*
90773124 ATGTTATATAATAAGA
1 AT-ATATATAATAAGA
*
90773140 TATAGTATGTAATAA-A
1 -ATA-TATATAATAAGA
* * *
90773156 ATATAAATAATTATA
1 ATATATATAATAAGA
* * *
90773171 ATGAAATATAATATGGT
1 AT-ATATATAATA-AGA
90773188 ATATATATAATAA
1 ATATATATAATAA
90773201 TAGTAATAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 23
0.68 0.15 0.18
Matches are distributed among these distances:
13 11 0.12
14 29 0.33
15 6 0.07
16 22 0.25
17 21 0.24
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (15 bp):
ATATATATAATAAGA
Found at i:90773570 original size:21 final size:22
Alignment explanation
Indices: 90773540--90773582 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
90773530 CATTAAAGCT
90773540 AAATTAAAAAATA-AATAAAATG
1 AAATTAAAAAATATAA-AAAATG
90773562 AAATT-AAAAATATAAAAAATG
1 AAATTAAAAAATATAAAAAATG
90773583 CAAGAGGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTAAAAAATATAAAAAATG
Found at i:90774597 original size:4 final size:4
Alignment explanation
Indices: 90774590--90774617 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
90774580 ATAAATAAAC
90774590 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
90774618 GGTTTTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:90776175 original size:20 final size:20
Alignment explanation
Indices: 90776147--90776185 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
90776137 AAAATATTTT
90776147 TATTCAAAT-TTAATTATAAA
1 TATTCAAATATTAA-TATAAA
*
90776167 TATTTAAATATTAATATAA
1 TATTCAAATATTAATATAA
90776186 TTTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TATTCAAATATTAATATAAA
Found at i:90777342 original size:20 final size:20
Alignment explanation
Indices: 90777282--90777342 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
90777272 TTAATCCAAA
*
90777282 TATATGTAATATTTTAATTTGT
1 TATAT-TAATA-TTTAATATGT
* **
90777304 TA-AGTTTATATTTTTTATGT
1 TATA-TTAATATTTAATATGT
90777324 TATATTAATATTTAATATG
1 TATATTAATATTTAATATG
90777343 AGTTATATAT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 21 0.70
21 6 0.20
22 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TATATTAATATTTAATATGT
Found at i:90783228 original size:35 final size:36
Alignment explanation
Indices: 90783182--90783325 Score: 238
Period size: 35 Copynumber: 4.0 Consensus size: 36
90783172 ATAATCTTCA
*
90783182 ATGATATGCAATCTTAGATATG-ATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGAATACAATCTTAGAT
90783218 ATGATTGCAATCTTAGATATG-ATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGAATACAATCTTAGAT
90783253 ATGATTGCAATCTTAGATATGATATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGA-ATACAATCTTAGAT
90783290 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATGA-ATACAATCTTAGA
90783326 AGATATTATT
Statistics
Matches: 105, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
35 50 0.48
36 5 0.05
37 50 0.48
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (36 bp):
ATGATTGCAATCTTAGATATGAATACAATCTTAGAT
Found at i:90783230 original size:18 final size:18
Alignment explanation
Indices: 90783190--90783325 Score: 204
Period size: 18 Copynumber: 7.6 Consensus size: 18
90783180 CAATGATATG
90783190 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
* *
90783207 CAATCTTAAATATGATTG
1 CAATCTTAGATATGATTA
90783225 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
90783242 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
90783260 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
*
90783279 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
90783297 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
90783316 CAATCTTAGA
1 CAATCTTAGA
90783326 AGATATTATT
Statistics
Matches: 107, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 30 0.28
18 49 0.46
19 28 0.26
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:90792515 original size:58 final size:58
Alignment explanation
Indices: 90792393--90792561 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
90792383 GTGCCCACTG
* *
90792393 ACCGATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
90792450 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
* *
90792508 ACTGATCTCGCACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC
90792562 TAATCATTCG
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
57 30 0.28
58 77 0.72
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (58 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATT
Found at i:90792549 original size:29 final size:29
Alignment explanation
Indices: 90792400--90792558 Score: 121
Period size: 29 Copynumber: 5.5 Consensus size: 29
90792390 CTGACCGATC
* * *
90792400 TCGCACACATAGTGCTCGGTTGAA-GAAC
1 TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
90792428 TCGCACACACAGTGCCTCAATT-ACCG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
90792456 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
90792486 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
*
90792514 CTCGCACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
*
90792544 TTGCACACACAGTGC
1 TCGCACACACAGTGC
90792559 CTCTAATCAT
Statistics
Matches: 100, Mismatches: 22, Indels: 17
0.72 0.16 0.12
Matches are distributed among these distances:
28 27 0.27
29 64 0.64
30 9 0.09
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAAAGGAAT
Found at i:90792776 original size:43 final size:43
Alignment explanation
Indices: 90792715--90792858 Score: 182
Period size: 43 Copynumber: 3.3 Consensus size: 43
90792705 CCTTGCTCGA
**
90792715 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCTGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCTGAATACAC
90792758 ATCACCGGCACGAAGCCTGCTAGGCACGAA-AGCCTGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGA-CCTGAATACAC
* * * * * ** *
90792801 ATCACTGACACAAAGCCTGCTAGGCAAGAAGGCCCAAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCTGAATACAC
90792844 ATCACCGGCACGAAG
1 ATCACCGGCACGAAG
90792859 GCCCAAATAC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.01
43 85 0.99
ACGTcount: A:0.35, C:0.31, G:0.22, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGACCTGAATACAC
Found at i:90792853 original size:27 final size:27
Alignment explanation
Indices: 90792823--90792885 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
90792813 AAGCCTGCTA
* *
90792823 GGCAAGAAGGCCCAAATACATATCACC
1 GGCACGAAGGCCCAAATACACATCACC
*
90792850 GGCACGAAGGCCCAAATACACATCATC
1 GGCACGAAGGCCCAAATACACATCACC
90792877 GGCACGAAG
1 GGCACGAAG
90792886 CCTGCTAGGC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.30, G:0.22, T:0.10
Consensus pattern (27 bp):
GGCACGAAGGCCCAAATACACATCACC
Found at i:90794303 original size:24 final size:24
Alignment explanation
Indices: 90794276--90794458 Score: 276
Period size: 24 Copynumber: 7.6 Consensus size: 24
90794266 CTTATTATGT
* * *
90794276 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
90794300 TCGCACACGTAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90794324 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90794348 TCGCACACTTAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90794372 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
90794396 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
90794420 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
90794444 TCGCACACATAGTGC
1 TCGCACACATAGTGC
90794459 ATTTGAGATA
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 152 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:90794313 original size:48 final size:47
Alignment explanation
Indices: 90794254--90794458 Score: 248
Period size: 48 Copynumber: 4.3 Consensus size: 47
90794244 ACCGAATGTG
* ** * * *
90794254 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTAGTA-AATCGCACACATAGTGCCATAGTAAATC
* *
90794302 GCACACGTAGTGCTATAGTAAATCGCACACTTAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATCGCACACATAGTGCCATAGTAAATC
* * *
90794350 GCACACTTAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
* * *
90794398 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTGAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
90794446 GCACACATAGTGC
1 GCACACATAGTGC
90794459 ATTTGAGATA
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.01
48 135 0.96
49 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (47 bp):
GCACACATAGTGCTTAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:90794915 original size:2 final size:2
Alignment explanation
Indices: 90794908--90794941 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
90794898 TGGGCATACT
90794908 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90794942 CATACCCGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90802057 original size:24 final size:24
Alignment explanation
Indices: 90802025--90802209 Score: 264
Period size: 24 Copynumber: 7.6 Consensus size: 24
90802015 TTATTATATG
* * *
90802025 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90802049 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90802073 TCGCACAC-TAACTGCCATAGTAAA
1 TCGCACACAT-AGTGCCATAGTAAA
90802097 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
90802121 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
*
90802145 TCGCACACATTAGTGCCATAGTGAA
1 TCGCACACA-TAGTGCCATAGTAAA
*
90802170 TCGCACACATAGTGCCATAAGTGAA
1 TCGCACACATAGTGCCAT-AGTAAA
90802195 TCGCACACATAGTGC
1 TCGCACACATAGTGC
90802210 ATTTGAGATA
Statistics
Matches: 151, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
23 1 0.01
24 104 0.69
25 46 0.30
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:90802667 original size:2 final size:2
Alignment explanation
Indices: 90802660--90802691 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
90802650 TGGGCATACT
90802660 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90802692 CATACCCGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90803634 original size:43 final size:43
Alignment explanation
Indices: 90803573--90803770 Score: 351
Period size: 43 Copynumber: 4.6 Consensus size: 43
90803563 TGGGCTGTTA
*
90803573 CACGAAGGCCCGAATACACATCATCGGCACGAAGCCTGCTAGG
1 CACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGG
*
90803616 CACGAAGGCTCGAATACACATCACCGGCACGAAGCCTGCTAGG
1 CACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGG
* *
90803659 CACGAAGGCCCGAATACACATTATCGGCACGAAGCCTGCTAGG
1 CACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGG
*
90803702 CACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGG
1 CACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGG
90803745 CACGAAGGCCCGAATACACATCACCG
1 CACGAAGGCCCGAATACACATCACCG
90803771 AGATTCATGT
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.11
Consensus pattern (43 bp):
CACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGG
Found at i:90809581 original size:21 final size:22
Alignment explanation
Indices: 90809544--90809584 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
90809534 CGTCTCATTA
90809544 TGAGCAAATATTTCTTTTATCC
1 TGAGCAAATATTTCTTTTATCC
90809566 TGAGCAAATA-TTCTTTTAT
1 TGAGCAAATATTTCTTTTAT
90809585 TCTTGCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (22 bp):
TGAGCAAATATTTCTTTTATCC
Found at i:90816944 original size:27 final size:27
Alignment explanation
Indices: 90816904--90817015 Score: 79
Period size: 27 Copynumber: 4.1 Consensus size: 27
90816894 AGGAAGCGTC
*
90816904 CTGGTGGCTATGCCAGAAT-TATCTGATT
1 CTGGTGGCTCTGCCA-AATATATCTG-TT
* *
90816932 -TGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCAAATATATCTGTT
* *
90816958 CTGGTGGCTCTGCCACGAT-TATTTGTAT
1 CTGGTGGCTCTGCCA-AATATATCTGT-T
* ** *
90816986 CTGGTGACTCTATCACAT-TATCTGTT
1 CTGGTGGCTCTGCCAAATATATCTGTT
90817012 CTGG
1 CTGG
90817016 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
26 9 0.13
27 45 0.65
28 15 0.22
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCAAATATATCTGTT
Found at i:90816996 original size:28 final size:27
Alignment explanation
Indices: 90816923--90817015 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
90816913 ATGCCAGAAT
* *
90816923 TATCTGATT-TGGTGGCCCTGCCACATA
1 TATCTG-TTCTGGTGACTCTGCCACATA
*
90816950 TATCTGTTCTGGTGGCTCTGCCACGAT-
1 TATCTGTTCTGGTGACTCTGCCAC-ATA
* **
90816977 TATTTGTATCTGGTGACTCTATCACAT-
1 TATCTGT-TCTGGTGACTCTGCCACATA
90817004 TATCTGTTCTGG
1 TATCTGTTCTGG
90817016 CAGCCATGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
26 7 0.12
27 34 0.60
28 16 0.28
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.40
Consensus pattern (27 bp):
TATCTGTTCTGGTGACTCTGCCACATA
Found at i:90821169 original size:14 final size:15
Alignment explanation
Indices: 90821150--90821178 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
90821140 TTTATTTATT
90821150 TTTTTATT-TTTTTA
1 TTTTTATTGTTTTTA
90821164 TTTTTATTGTTTTTA
1 TTTTTATTGTTTTTA
90821179 AAACTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATTGTTTTTA
Found at i:90821178 original size:9 final size:8
Alignment explanation
Indices: 90821139--90821168 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
90821129 GTTTAAAGAC
90821139 TTTTATTTA
1 TTTT-TTTA
90821148 TTTTTTTA
1 TTTTTTTA
90821156 TTTTTTTA
1 TTTTTTTA
90821164 TTTTT
1 TTTTT
90821169 ATTGTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:90826791 original size:45 final size:44
Alignment explanation
Indices: 90826717--90826935 Score: 129
Period size: 45 Copynumber: 4.7 Consensus size: 44
90826707 GAATTCATAG
*
90826717 ATCTTATCTCCCTGAGATAGC-AGTAGAGCAGATCGAAGACGGTAA
1 ATCTTATCTCCC-GAGATAGCAAG-GGAGCAGATCGAAGACGGTAA
* ** ****
90826762 ATCTTATCTTCCCGAGATAGTAAGGGAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCGAGATAGCAAGGGAGCAGATCGAAGACGGTAA
** * * ** *
90826806 GCCTTATCTCCTTGAGATAGCAAAGGAGCAGA-CTGAAGATTGTAG
1 ATCTTATCTCC-CGAGATAGCAAGGGAGCAGATC-GAAGACGGTAA
90826851 ATCTTATCTCCCTGAGATAGCAGATAGCAGTGGAGCAGATCGAAGACGGTAA
1 ATCTTATCTCCC-GAGATAGC----A--AG-GGAGCAGATCGAAGACGGTAA
* * *
90826903 ATCTTATCTTGCCGAGGTAGCAGGGGAGCAGAT
1 ATCTTATC-TCCCGAGATAGCAAGGGAGCAGAT
90826936 TTGAGCCACC
Statistics
Matches: 128, Mismatches: 31, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
43 3 0.02
44 28 0.22
45 52 0.41
46 7 0.05
48 1 0.01
49 1 0.01
51 1 0.01
52 31 0.24
53 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (44 bp):
ATCTTATCTCCCGAGATAGCAAGGGAGCAGATCGAAGACGGTAA
Found at i:90827083 original size:134 final size:134
Alignment explanation
Indices: 90826714--90827429 Score: 640
Period size: 134 Copynumber: 5.3 Consensus size: 134
90826704 GGTGAATTCA
* * *
90826714 TAGATCTTATCTCCCTGAGATAGCAGTAGAGCAGATCGAAGACGGTAAATCTTATCTTCCCGAGA
1 TAGATCTTATCTCCCTGAGATAGAAGTGGAGCAGATCGAAGACGGTAAATCTTATCTTCCCGAGG
* * * * *
90826779 TAGTAAGGGAGCAGATTTAAGCCACCAGCCTTATCTCCTTGAGATAGCAAAGGAGCAGACTGAAG
66 TAGCAGGGGAGCAGATTTGAGCCACCAGCCTTATCTCCTTGAGATAGCAAAGGAGCAGGCTAAAG
90826844 ATTG
131 ATTG
90826848 TAGATCTTATCTCCCTGAGATAGCAGATAGCAGTGGAGCAGATCGAAGACGGTAAATCTTATCTT
1 TAGATCTTATCTCCCTGAGAT---AG--A--AGTGGAGCAGATCGAAGACGGTAAATCTTATCTT
* *
90826913 GCCGAGGTAGCAGGGGAGCAGATTTGAGCCACCAGCCTTATCTCTTTGAGATAGCAAAGGAGCAG
59 CCCGAGGTAGCAGGGGAGCAGATTTGAGCCACCAGCCTTATCTCCTTGAGATAGCAAAGGAGCAG
90826978 GCTAAAGATTG
124 GCTAAAGATTG
* * ** * **
90826989 TAGATCTCATCTCCTTGAGATAGAAGTGGAGCAGATCGAAGATAGTAAATTTTATCTTTTCGAGG
1 TAGATCTTATCTCCCTGAGATAGAAGTGGAGCAGATCGAAGACGGTAAATCTTATCTTCCCGAGG
* * *
90827054 TAGCAGGGGAGCAGATTTGAGCCATCAGCCTTATCTCCTTGAGGTAGCAAAGGAGCATGCTAAAG
66 TAGCAGGGGAGCAGATTTGAGCCACCAGCCTTATCTCCTTGAGATAGCAAAGGAGCAGGCTAAAG
90827119 ATTG
131 ATTG
* * * * **
90827123 TAGATCTTATCTCCCTGAGATA-ACAGTGGAGTAAATCGGAGATGGTAAATCTTATC-TCTATGA
1 TAGATCTTATCTCCCTGAGATAGA-AGTGGAGCAGATCGAAGACGGTAAATCTTATCTTC-CCGA
* * ** * * * * * ** * * *
90827186 AGCAGCAATGGAGCAGATTTAAGCCACTAGCTTTATCTCCCTGAG-CAGCAGTGGAGTAAGCTGA
64 GGTAGCAGGGGAGCAGATTTGAGCCACCAGCCTTATCTCCTTGAGATAGCAAAGGAGCAGGCTAA
*
90827250 AGATTA
129 AGATTG
** * * * * * *
90827256 CGGATCTTATCTCTCTAAG-TA-ATAGTGGAGCAGATTGAAGAC-ATCGAATCTTATCTTCCCAA
1 TAGATCTTATCTCCCTGAGATAGA-AGTGGAGCAGATCGAAGACGGT-AAATCTTATCTTCCCGA
* * * * * * * * ** * ** *
90827318 GATGGTAGGGAAGCAAATTTAAGCCACCAGTCC-TATCTCCCTGAG-CAGCAGTGGAGTACACTG
64 GGTAGCAGGGGAGCAGATTTGAGCCACCAG-CCTTATCTCCTTGAGATAGCAAAGGAGCAGGCTA
*
90827381 AAGATTA
128 AAGATTG
* * * *
90827388 TACATCTTATCTCCCCGA-AGTAGCAGTGGAGCGGATCGAAGA
1 TAGATCTTATCTCCCTGAGA-TAGAAGTGGAGCAGATCGAAGA
90827430 TGGTGGGTCT
Statistics
Matches: 483, Mismatches: 84, Indels: 31
0.81 0.14 0.05
Matches are distributed among these distances:
131 1 0.00
132 94 0.19
133 56 0.12
134 207 0.43
136 1 0.00
137 2 0.00
138 2 0.00
141 120 0.25
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (134 bp):
TAGATCTTATCTCCCTGAGATAGAAGTGGAGCAGATCGAAGACGGTAAATCTTATCTTCCCGAGG
TAGCAGGGGAGCAGATTTGAGCCACCAGCCTTATCTCCTTGAGATAGCAAAGGAGCAGGCTAAAG
ATTG
Found at i:90827530 original size:44 final size:45
Alignment explanation
Indices: 90827482--90827600 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 45
90827472 AGTCACCAGC
* ** * *
90827482 CTTATCTTCCTAAAGTTGAAGTGGAGCAGGTTGAAGTTA-CTAAT
1 CTTATCTTCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
*
90827526 CTTATC-TCTCTAAGGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTTC-CTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
* *
90827571 CTTATCTCCCTGAAGTTGTAGTGGAGCAGA
1 CTTATCTTCCTAAAGTTGTAGTGGAGCAGA
90827601 TTAAAGCTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.03
44 31 0.49
45 29 0.46
46 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (45 bp):
CTTATCTTCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
Found at i:90827589 original size:45 final size:43
Alignment explanation
Indices: 90827482--90827615 Score: 142
Period size: 44 Copynumber: 3.0 Consensus size: 43
90827472 AGTCACCAGC
* * ** * *
90827482 CTTATCTTCCTAAAGTTGAAGTGGAGCAGGTTGAAGTTACTAAT
1 CTTATCTCCCT-AAGTTGTAGTGGAGCAGACTGAAGATACAAAT
*
90827526 CTTATCTCTCTAAGGTTGTAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTAA-GTTGTAGTGGAGCAGACTGAAGATA-CAAAT
* * *
90827571 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAAAT
1 CTTATCTCCCT-AAGTTGTAGTGGAGCAGACTGAAGATACAAAT
90827615 C
1 C
90827616 ACAAACCTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.03
44 36 0.47
45 36 0.47
46 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
CTTATCTCCCTAAGTTGTAGTGGAGCAGACTGAAGATACAAAT
Found at i:90827754 original size:44 final size:45
Alignment explanation
Indices: 90827685--90827792 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 45
90827675 ACGGCGAATA
* * ** * * * *
90827685 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAG-CCACCAGCC
1 TTATCTCCCTAAAGTTGCAACGGAGCAGACTGAAGACAACAAACC
*
90827729 TTATCTCCCTAAAGTTGCAACGGAGCAGACTGAAGACAACAAATC
1 TTATCTCCCTAAAGTTGCAACGGAGCAGACTGAAGACAACAAACC
*
90827774 TTATTTCCCTAAAGTTGCA
1 TTATCTCCCTAAAGTTGCA
90827793 GTGGAATAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
44 30 0.57
45 23 0.43
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
TTATCTCCCTAAAGTTGCAACGGAGCAGACTGAAGACAACAAACC
Found at i:90827830 original size:202 final size:202
Alignment explanation
Indices: 90827483--90827851 Score: 465
Period size: 202 Copynumber: 1.8 Consensus size: 202
90827473 GTCACCAGCC
* ** * * * * * **
90827483 TTATCTTCCTAAAGTTGAAGTGGAGCAGGTTGAAGTTACTAATCTTATCTCTCTAAGGTTGTAGT
1 TTATCTTCCTAAAGTTGAAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAAC
* * * * * **
90827548 GGAGCAGACTGAAGATAGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTACAA
66 GGAGCAGACTGAAGACAACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGACCAAAGCTACAA
*
90827613 ATCACAAACCTTATCTCTC-TGAAGTTGCAGTGGAGCAGTGGAACAGATTAGAACTACAAATTAC
131 ATCACAAACCTTATCTC-CATGAAGATGCAGTGGAGCAGTGGAACAGATTAGAACTACAAATTAC
90827677 GGCGAATA
195 GGCGAATA
* * *
90827685 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAAC
1 TTATCTTCCTAAAGTTGAAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAAC
* * *
90827750 GGAGCAGACTGAAGACAACAAATCTTATTTCCCTAAAGTTGCAGTGGAATAGACCAAAGTTAC-A
66 GGAGCAGACTGAAGACAACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGACCAAAGCTACAA
*
90827814 AGCTACATAA-CTTATCTCCATGAAGATGCAGTGGAGCA
131 ATC-ACA-AACCTTATCTCCATGAAGATGCAGTGGAGCA
90827852 AATTGAAACA
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
201 4 0.03
202 133 0.96
203 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (202 bp):
TTATCTTCCTAAAGTTGAAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCAAC
GGAGCAGACTGAAGACAACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGACCAAAGCTACAA
ATCACAAACCTTATCTCCATGAAGATGCAGTGGAGCAGTGGAACAGATTAGAACTACAAATTACG
GCGAATA
Found at i:90828469 original size:13 final size:13
Alignment explanation
Indices: 90828447--90828476 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
90828437 ATTTGTTCCT
*
90828447 TTTTTGTTTTTTA
1 TTTTTCTTTTTTA
90828460 TTTTTCTTTTTTA
1 TTTTTCTTTTTTA
90828473 TTTT
1 TTTT
90828477 GAATTTACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.03, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTTCTTTTTTA
Found at i:90830145 original size:45 final size:45
Alignment explanation
Indices: 90830077--90830166 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
90830067 GGAGCCTACT
* *
90830077 TGAATCCATGAATTCCTTAAAATCTATGGATCTTGGGGATTTGAC
1 TGAATCCATGAATTCCTTAAAATCTATGAATCTTGAGGATTTGAC
*
90830122 TGAATCCATGAATTCCTTGAAATCTATGAATCTTGAGGATTTGAC
1 TGAATCCATGAATTCCTTAAAATCTATGAATCTTGAGGATTTGAC
90830167 CTTCCAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (45 bp):
TGAATCCATGAATTCCTTAAAATCTATGAATCTTGAGGATTTGAC
Found at i:90830435 original size:51 final size:51
Alignment explanation
Indices: 90830377--90830479 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
90830367 ATCATAGTAA
90830377 ATAATAACATATAATTATCTTATTATATATGTGATGTTCATATTTTCTGAC
1 ATAATAACATATAATTATCTTATTATATATGTGATGTTCATATTTTCTGAC
*
90830428 ATAATAACATGTAATTATCTTATTATATATGTGATGTTCATATTTTCTGAC
1 ATAATAACATATAATTATCTTATTATATATGTGATGTTCATATTTTCTGAC
90830479 A
1 A
90830480 CTAAAATCCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.47
Consensus pattern (51 bp):
ATAATAACATATAATTATCTTATTATATATGTGATGTTCATATTTTCTGAC
Found at i:90831873 original size:21 final size:23
Alignment explanation
Indices: 90831831--90831883 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
90831821 AACCGAAATT
90831831 AAATTATAAATTATAAGTTTTGA-
1 AAATT-TAAATTATAAGTTTTGAG
90831854 AAATTTAAA-TATAA-TATTTGAG
1 AAATTTAAATTATAAGT-TTTGAG
*
90831876 TAATTTAA
1 AAATTTAA
90831884 TTTTACAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.04
21 10 0.37
22 11 0.41
23 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (23 bp):
AAATTTAAATTATAAGTTTTGAG
Found at i:90837813 original size:15 final size:14
Alignment explanation
Indices: 90837780--90837817 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
90837770 CAGTAATTAT
90837780 TATAATTG-ATGAG
1 TATAATTGAATGAG
*
90837793 TCTAATTGAATTGAG
1 TATAATTGAA-TGAG
90837808 TATAATTGAA
1 TATAATTGAA
90837818 GTATTGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 7 0.33
14 1 0.05
15 13 0.62
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (14 bp):
TATAATTGAATGAG
Found at i:90841484 original size:17 final size:17
Alignment explanation
Indices: 90841465--90841497 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90841455 AATTTTCCCT
90841465 TTTTTTG-TATTTTGTA
1 TTTTTTGATATTTTGTA
90841481 TTTTTTGATATTTTGTA
1 TTTTTTGATATTTTGTA
90841498 ATAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (17 bp):
TTTTTTGATATTTTGTA
Found at i:90842719 original size:20 final size:20
Alignment explanation
Indices: 90842694--90842742 Score: 91
Period size: 19 Copynumber: 2.5 Consensus size: 20
90842684 TAAGCCCCCC
90842694 AAAAAAAACCTAACCCAAAA
1 AAAAAAAACCTAACCCAAAA
90842714 AAAAAAAA-CTAACCCAAAA
1 AAAAAAAACCTAACCCAAAA
90842733 AAAAAAAACC
1 AAAAAAAACC
90842743 AAGAAACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.73, C:0.22, G:0.00, T:0.04
Consensus pattern (20 bp):
AAAAAAAACCTAACCCAAAA
Found at i:90843202 original size:11 final size:11
Alignment explanation
Indices: 90843186--90843225 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
90843176 CCCCCCTCCC
90843186 TTCTCTCTTCT
1 TTCTCTCTTCT
90843197 TTCTCTCTT-T
1 TTCTCTCTTCT
*
90843207 TT-T-TTTTCT
1 TTCTCTCTTCT
90843216 TTCTCTCTTC
1 TTCTCTCTTC
90843226 AAAATGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
8 3 0.12
9 4 0.17
10 4 0.17
11 13 0.54
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
TTCTCTCTTCT
Found at i:90843601 original size:2 final size:2
Alignment explanation
Indices: 90843594--90843624 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
90843584 TAAATACTAT
*
90843594 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
90843625 TTTAAATACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:90845324 original size:2 final size:2
Alignment explanation
Indices: 90845317--90845341 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
90845307 TATAATGTTG
90845317 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
90845342 CTATTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90855925 original size:46 final size:46
Alignment explanation
Indices: 90855875--90856050 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
90855865 TGGTTGAGCA
90855875 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90855921 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
90855966 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
90856014 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90856051 GTGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:90856031 original size:93 final size:93
Alignment explanation
Indices: 90855872--90856043 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
90855862 GGATGGTTGA
* *
90855872 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90855937 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90855965 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90856030 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
90856044 CTTATGGGTG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90860323 original size:44 final size:43
Alignment explanation
Indices: 90860138--90860594 Score: 225
Period size: 44 Copynumber: 10.6 Consensus size: 43
90860128 GCAGATCTTG
* * * * * *
90860138 ACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGA-AGACCTTA
* * * **
90860182 ACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACG-AG-CCTTA
1 ACCCCCTAAGCAGTAGGGAAAC-AGATCAA-AGACGAAGACCTTA
* * ** ** * *
90860225 A-CCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAGATCTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGACCTTA
* * *
90860266 TCTCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGAACCTTA
1 ACCCCCTAAGCAGTAG-GGAAACAGATCAAAGACGAAG-ACCTTA
* * * * * *** *
90860310 AACCCCTAAGCAGTAGAGTAACAGGTTAAA-TTTATAGATCTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGA-AGACCTTA
*
90860353 ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGCCTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAA-GACCTTA
* * * * **
90860397 ACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTAC-AA-ATATTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCAAA--GACGAAGACCTTA
* * *
90860440 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGA-AGACCTTA
* * * **
90860484 ACCCCCTAAGCAGTAGGGTAACAG-GCTAAATTTAC--AGATATTA
1 ACCCCCTAAGCAGTAGGGAAACAGATC-AAA--GACGAAGACCTTA
* * * * *
90860527 ACCCCCTAAGCAATAAGGAAACAGATCGAAGATGATAGGCCTTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGA-AGACCTTA
* * *
90860571 ACCCCCTAAGTAGTACGGTAACAG
1 ACCCCCTAAGCAGTAGGGAAACAG
90860595 GCTGAAAATC
Statistics
Matches: 305, Mismatches: 84, Indels: 48
0.70 0.19 0.11
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 10 0.03
42 43 0.14
43 102 0.33
44 136 0.45
45 6 0.02
46 5 0.02
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (43 bp):
ACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGACCTTA
Found at i:90860356 original size:128 final size:130
Alignment explanation
Indices: 90860121--90860376 Score: 317
Period size: 128 Copynumber: 2.0 Consensus size: 130
90860111 GCAATATCGG
* * ** * *
90860121 TGAATTCGCAGATCTTGACCCCTTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCC
1 TGAATTCGCAGATCTTGACCCCTTAAGCAGTAGGGAAACAGATCGAAGACGAAGAACCTTAAACC
* * * *
90860186 CCTAAGCAGTAGGGTAACAAGCTGAATTTACGAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGT
66 CCTAAGCAGTAGAGTAACAAGCTAAATTTAAGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGT
90860250 TGAATT-GCAGATCTT-ATCTCCC-TAAGCAGTAGTGG-AACAGATCGAAGACGAAGAACCTTAA
1 TGAATTCGCAGATCTTGA-C-CCCTTAAGCAGTAG-GGAAACAGATCGAAGACGAAGAACCTTAA
* * *
90860311 ACCCCTAAGCAGTAGAGTAACAGGTTAAATTTATAGA-TCTTAACCCCCTAAGCAGTAGGGAAAC
63 ACCCCTAAGCAGTAGAGTAACAAGCTAAATTTA-AGAGCCTTAACCCCCTAAGCAGTAGGGAAAC
90860375 AG
127 AG
90860377 ATCAAAGACG
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
127 1 0.01
128 74 0.68
129 34 0.31
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (130 bp):
TGAATTCGCAGATCTTGACCCCTTAAGCAGTAGGGAAACAGATCGAAGACGAAGAACCTTAAACC
CCTAAGCAGTAGAGTAACAAGCTAAATTTAAGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGT
Found at i:90860367 original size:43 final size:42
Alignment explanation
Indices: 90860179--90860538 Score: 260
Period size: 43 Copynumber: 8.4 Consensus size: 42
90860169 ATGATGGGCT
* * * *
90860179 TTAACCCCCTAAGCAGTAGGGTAACAAGCTGAATTTACGAGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTAAGA-CC
* ** *
90860222 TTAA-CCCCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTAAGACC
* * * * **
90860263 TTATCTCCCTAAGCAGTAGTGG-AACAGATCGAAGA-CGAAGAACC
1 TTAACCCCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTAAG-ACC
* * *
90860307 TTAAACCCCTAAGCAGTAGAGTAACAGGTTAAATTTATAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTA-AGACC
* * * *** *
90860350 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA-TTTAA-GACC
* **
90860394 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAAATA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTA-AGACC
* * * * *
90860437 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGA-TGATAGGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGGT-TAA-ATTTA-AGACC
* **
90860481 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATA
1 TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTA-AGACC
90860524 TTAACCCCCTAAGCA
1 TTAACCCCCTAAGCA
90860539 ATAAGGAAAC
Statistics
Matches: 242, Mismatches: 61, Indels: 28
0.73 0.18 0.08
Matches are distributed among these distances:
41 4 0.02
42 51 0.21
43 94 0.39
44 92 0.38
45 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (42 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGTTAAATTTAAGACC
Found at i:90860376 original size:87 final size:86
Alignment explanation
Indices: 90860179--90860595 Score: 522
Period size: 87 Copynumber: 4.8 Consensus size: 86
90860169 ATGATGGGCT
* * *
90860179 TTAACCCCCTAAGCAGTAGGGTAACA-AGCTGAATTTACG-A-GCCTTAA-CCCCTAAGCAGTAG
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAA--GACGAAGGCCTTAACCCCCTAAGCAGTAG
* * *
90860240 GGTAACAGGTTGAA-TTGCAGATC
63 GGTAACAGGTTAAATTTACAGATA
* * * * *
90860263 TTATCTCCCTAAGCAGTAGTGG-AACAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTAGA
1 TTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAG-GCCTTAACCCCCTAAGCAGTAGG
* *
90860327 GTAACAGGTTAAATTTATAGATC
64 GTAACAGGTTAAATTTACAGATA
*
90860350 TTAACCCCCTAAGCAGTAGGGAAACAGATCAAAGACGAAGGGCCTTAACCCCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGCCTTAACCCCCTAAGCAGTAGGG
*
90860415 TAACAGGTTAAATTTACAAATA
65 TAACAGGTTAAATTTACAGATA
*
90860437 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATAGGCCTTAACCCCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGCCTTAACCCCCTAAGCAGTAGGG
*
90860502 TAACAGGCTAAATTTACAGATA
65 TAACAGGTTAAATTTACAGATA
* * * * *
90860524 TTAACCCCCTAAGCAATAAGGAAACAGATCGAAGATGATAGGCCTTAACCCCCTAAGTAGTACGG
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGCCTTAACCCCCTAAGCAGTAGGG
90860589 TAACAGG
65 TAACAGG
90860596 CTGAAAATCA
Statistics
Matches: 297, Mismatches: 26, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
82 3 0.01
83 1 0.00
84 24 0.08
85 10 0.03
86 28 0.09
87 229 0.77
88 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (86 bp):
TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGCCTTAACCCCCTAAGCAGTAGGGT
AACAGGTTAAATTTACAGATA
Found at i:90872597 original size:17 final size:17
Alignment explanation
Indices: 90872575--90872610 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
90872565 AGAATGGAGA
90872575 AATAGCTGCGTATTTCT
1 AATAGCTGCGTATTTCT
90872592 AATAGCTGCGTATTTCT
1 AATAGCTGCGTATTTCT
90872609 AA
1 AA
90872611 GTATAGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (17 bp):
AATAGCTGCGTATTTCT
Found at i:90876488 original size:22 final size:22
Alignment explanation
Indices: 90876460--90876502 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
90876450 TATAGCTGAA
90876460 CTAGTAAAATTCTTGAAACTAT
1 CTAGTAAAATTCTTGAAACTAT
90876482 CTAGTAAAATTCTTGAAACTA
1 CTAGTAAAATTCTTGAAACTA
90876503 GTTCTGATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (22 bp):
CTAGTAAAATTCTTGAAACTAT
Found at i:90876744 original size:5 final size:5
Alignment explanation
Indices: 90876734--90876761 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
90876724 AAGTTCTATA
90876734 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
90876762 TGTTTCCAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:90882427 original size:21 final size:22
Alignment explanation
Indices: 90882401--90882442 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
90882391 TTTGAGTACT
*
90882401 TGGATGATAAG-GAATCGAATC
1 TGGATGATAAGAGAAACGAATC
*
90882422 TGGATGCTAAGAGAAACGAAT
1 TGGATGATAAGAGAAACGAAT
90882443 AAATGACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.40, C:0.10, G:0.29, T:0.21
Consensus pattern (22 bp):
TGGATGATAAGAGAAACGAATC
Found at i:90886065 original size:12 final size:12
Alignment explanation
Indices: 90886048--90886088 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
90886038 GGAGATAGGA
90886048 AAAACAGGTTCC
1 AAAACAGGTTCC
*
90886060 AAAACAGG---A
1 AAAACAGGTTCC
90886069 AAAACAGGTTCC
1 AAAACAGGTTCC
90886081 AAAACAGG
1 AAAACAGG
90886089 AAAACAGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (12 bp):
AAAACAGGTTCC
Found at i:90886095 original size:20 final size:21
Alignment explanation
Indices: 90886044--90886092 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
90886034 CAGTGGAGAT
90886044 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
90886065 AGGAAAAACAGGTTCCAAAAC
1 AGGAAAAACAGGTTCCAAAAC
90886086 AGGAAAA
1 AGGAAAA
90886093 CAGTGGCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.55, C:0.16, G:0.20, T:0.08
Consensus pattern (21 bp):
AGGAAAAACAGGTTCCAAAAC
Found at i:90891690 original size:10 final size:10
Alignment explanation
Indices: 90891675--90891700 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
90891665 AGTACACGTG
90891675 AAACGTGTGC
1 AAACGTGTGC
90891685 AAACGTGTGC
1 AAACGTGTGC
90891695 AAACGT
1 AAACGT
90891701 CTAAACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (10 bp):
AAACGTGTGC
Found at i:90892956 original size:1 final size:1
Alignment explanation
Indices: 90892950--90892977 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
90892940 TTGCAAGAAT
90892950 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
90892978 CAGAGATGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:90895632 original size:11 final size:11
Alignment explanation
Indices: 90895576--90895646 Score: 67
Period size: 11 Copynumber: 6.5 Consensus size: 11
90895566 ATAGCTTAAG
*
90895576 AAAATTAATAT
1 AAAATTAAAAT
90895587 AAAATCTAAAAT
1 AAAAT-TAAAAT
90895599 AATAA-T-AAAT
1 AA-AATTAAAAT
*
90895609 AAAAAT-AAAT
1 AAAATTAAAAT
90895619 AAAATTAAAAT
1 AAAATTAAAAT
*
90895630 AAACTTAAAAT
1 AAAATTAAAAT
*
90895641 AGAATT
1 AAAATT
90895647 TCCTATTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 2 0.04
10 16 0.31
11 24 0.47
12 7 0.14
13 2 0.04
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:90895632 original size:15 final size:15
Alignment explanation
Indices: 90895585--90895632 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
90895575 GAAAATTAAT
90895585 ATAAAATCTAAAAT-A
1 ATAAAAT-TAAAATAA
*
90895600 ATAATAAATAAAAATAA
1 AT-A-AAATTAAAATAA
90895617 ATAAAATTAAAATAA
1 ATAAAATTAAAATAA
90895632 A
1 A
90895633 CTTAAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 14 0.50
16 7 0.25
17 7 0.25
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
ATAAAATTAAAATAA
Found at i:90899277 original size:30 final size:30
Alignment explanation
Indices: 90899241--90899300 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
90899231 TTCCCAAGCC
90899241 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
90899271 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
90899301 CATATTAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:90899773 original size:47 final size:45
Alignment explanation
Indices: 90899721--90899898 Score: 187
Period size: 47 Copynumber: 3.8 Consensus size: 45
90899711 ATGGTTGAGC
*
90899721 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGGA
* * * ** *
90899766 ATGTCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAGGC
1 A--TCCGAACTCATTGAGTTGAGTCCGAGTTCACT--TATGGATGT-GGA
* * *
90899815 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGGA
* *
90899860 CACCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
90899899 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.02
46 40 0.37
47 56 0.52
48 6 0.06
49 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
ATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGGA
Found at i:90913029 original size:30 final size:30
Alignment explanation
Indices: 90912993--90913054 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
90912983 TTCCCGAGCC
90912993 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
90913023 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
90913053 TA
1 TA
90913055 TATTAAGGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:90913525 original size:47 final size:46
Alignment explanation
Indices: 90913474--90913603 Score: 215
Period size: 47 Copynumber: 2.8 Consensus size: 46
90913464 TGGTTGAGCA
* *
90913474 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAACG
90913521 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
90913567 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90913604 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 39 0.49
47 40 0.51
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:90913594 original size:46 final size:47
Alignment explanation
Indices: 90913475--90913603 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 47
90913465 GGTTGAGCAT
* * *
90913475 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCGAACGC
90913522 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-CGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCGAACGC
*
90913568 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90913604 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 39 0.50
47 39 0.50
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTCGAACGC
Found at i:90919200 original size:29 final size:29
Alignment explanation
Indices: 90919167--90919297 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
90919157 TGACGAGATC
*
90919167 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
90919196 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
90919225 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
90919254 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
90919283 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
90919298 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:90927305 original size:29 final size:29
Alignment explanation
Indices: 90927272--90927402 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
90927262 TGACGAGATC
*
90927272 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
90927301 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
90927330 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
90927359 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
90927388 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
90927403 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:90932921 original size:19 final size:18
Alignment explanation
Indices: 90932897--90932944 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
90932887 ACGTAAAAAG
90932897 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
*
90932916 TAAAAATAAAAATATGAAA
1 TAAAAAT-AAAAGATGAAA
90932935 TAAAAATAAA
1 TAAAAATAAA
90932945 TAACAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:90933861 original size:16 final size:16
Alignment explanation
Indices: 90933831--90933878 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
90933821 GAAAATTAAT
90933831 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
90933846 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
90933863 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
90933878 A
1 A
90933879 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:90933877 original size:11 final size:11
Alignment explanation
Indices: 90933822--90933892 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
90933812 ATAGCTTAAG
*
90933822 AAAATTAATAT
1 AAAATTAAAAT
90933833 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
90933845 AATAA-T-AATT
1 AA-AATTAAAAT
*
90933855 AAAAAT-AAAT
1 AAAATTAAAAT
90933865 AAAATTAAAAT
1 AAAATTAAAAT
*
90933876 AAACTTAAAAT
1 AAAATTAAAAT
*
90933887 AGAATT
1 AAAATT
90933893 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:90935729 original size:19 final size:20
Alignment explanation
Indices: 90935681--90935736 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
90935671 TGGTACATCT
90935681 TCATAATTTTTAGTATTCCC
1 TCATAATTTTTAGTATTCCC
** **
90935701 TCATTTTTTTTA-TATTTTC
1 TCATAATTTTTAGTATTCCC
*
90935720 TCATAATTTTTGGTATT
1 TCATAATTTTTAGTATT
90935737 GTTTTGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.21, C:0.12, G:0.05, T:0.61
Consensus pattern (20 bp):
TCATAATTTTTAGTATTCCC
Found at i:90935944 original size:57 final size:57
Alignment explanation
Indices: 90935880--90935989 Score: 177
Period size: 57 Copynumber: 1.9 Consensus size: 57
90935870 AATTTGGTAT
*
90935880 TGAAAAATTATATTTCATCATAA-TTTTTTAAAAAATGTGAATAATTAAATAAAGGAC
1 TGAAAAATTATATTTCATCATAACTTTTTT-AAAAATGTGAAAAATTAAATAAAGGAC
* *
90935937 TGAAAAATTATATTTCATGATAACTTTTTTTAAAATGTGAAAAATTAAATAAA
1 TGAAAAATTATATTTCATCATAACTTTTTTAAAAATGTGAAAAATTAAATAAA
90935990 AGAAAAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
57 43 0.88
58 6 0.12
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (57 bp):
TGAAAAATTATATTTCATCATAACTTTTTTAAAAATGTGAAAAATTAAATAAAGGAC
Found at i:90936049 original size:17 final size:17
Alignment explanation
Indices: 90936027--90936060 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90936017 ATTGGTATCC
*
90936027 CTCATAGTTTTTGGTAT
1 CTCATAATTTTTGGTAT
90936044 CTCATAATTTTTGGTAT
1 CTCATAATTTTTGGTAT
90936061 TCCTTCCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (17 bp):
CTCATAATTTTTGGTAT
Found at i:90936092 original size:19 final size:20
Alignment explanation
Indices: 90936049--90936100 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
90936039 GGTATCTCAT
90936049 AATTTTTGGTA-TTCCTTCCA
1 AATTTTTGGTATTTCCTT-CA
90936069 AATTTTTGGTATTTCCTT-A
1 AATTTTTGGTATTTCCTTCA
* *
90936088 TATTTTTTGTATT
1 AATTTTTGGTATT
90936101 CTTTCGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
20 11 0.38
21 6 0.21
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (20 bp):
AATTTTTGGTATTTCCTTCA
Found at i:90936114 original size:21 final size:22
Alignment explanation
Indices: 90936090--90936163 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 22
90936080 TTTCCTTATA
** *
90936090 TTTTTTGTATTCTTTCGTAAT-
1 TTTTTTGTATTCCCTCATAATC
*
90936111 TTTTTTATATTCCCTCATAATC
1 TTTTTTGTATTCCCTCATAATC
* *
90936133 TTTTTTGTACTCCCTCA-CAT-
1 TTTTTTGTATTCCCTCATAATC
90936153 TTTTTTGTATT
1 TTTTTTGTATT
90936164 ATTGCGAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 10 0.23
21 19 0.43
22 15 0.34
ACGTcount: A:0.16, C:0.18, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTTTGTATTCCCTCATAATC
Found at i:90936136 original size:22 final size:21
Alignment explanation
Indices: 90936107--90936158 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
90936097 TATTCTTTCG
*
90936107 TAATTTTTTTATATTCCCTCA
1 TAATTTTTTTATACTCCCTCA
*
90936128 TAATCTTTTTTGTACTCCCTCA
1 TAAT-TTTTTTATACTCCCTCA
*
90936150 -CATTTTTTT
1 TAATTTTTTT
90936159 GTATTATTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 6 0.22
22 15 0.56
ACGTcount: A:0.19, C:0.21, G:0.02, T:0.58
Consensus pattern (21 bp):
TAATTTTTTTATACTCCCTCA
Found at i:90936337 original size:20 final size:20
Alignment explanation
Indices: 90936314--90936358 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
90936304 TTTCGCATAT
*
90936314 TTTTTTGTATTCCCTCAAAA
1 TTTTTGGTATTCCCTCAAAA
* *
90936334 TTTTTGGTATTTCCTCATAA
1 TTTTTGGTATTCCCTCAAAA
90936354 TTTTT
1 TTTTT
90936359 AATGTTTCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTTTGGTATTCCCTCAAAA
Found at i:90936929 original size:21 final size:19
Alignment explanation
Indices: 90936922--90936973 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
90936912 ATAATCTCTT
*
90936922 ATAATTTTTGTATTCCTTC
1 ATAATTTTTTTATTCCTTC
90936941 ATAATTTTTTATATTTCC-TC
1 ATAATTTTTT-TA-TTCCTTC
90936961 AT-ATGTTTTTTAT
1 ATAAT-TTTTTTAT
90936974 ATTCTCTCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 1 0.03
19 13 0.45
20 11 0.38
21 4 0.14
ACGTcount: A:0.23, C:0.12, G:0.04, T:0.62
Consensus pattern (19 bp):
ATAATTTTTTTATTCCTTC
Found at i:90936949 original size:20 final size:19
Alignment explanation
Indices: 90936906--90936982 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 19
90936896 CTCGTGTTTT
* *
90936906 TTTTTTATAATCTCTTATAA
1 TTTTTTATATTC-CTCATAA
*
90936926 -TTTTTGTATTCCTTCATAA
1 TTTTTTATATTCC-TCATAA
*
90936945 TTTTTTATATTTCCTCATATG
1 TTTTTTATA-TTCCTCATA-A
90936966 TTTTTTATATTCTCTCA
1 TTTTTTATATTC-CTCA
90936983 GAAATTTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.02
19 14 0.30
20 15 0.32
21 17 0.36
ACGTcount: A:0.22, C:0.14, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTTATATTCCTCATAA
Found at i:90936949 original size:43 final size:43
Alignment explanation
Indices: 90936863--90936950 Score: 99
Period size: 43 Copynumber: 2.1 Consensus size: 43
90936853 TTACTTCTAA
* * * *
90936863 TTTTTTATAGTCCCTTATAATTTTTGGTACTTTCTCGTGTTTT
1 TTTTTTATAATCCCTTATAATTTTTGGTACTTCCTCATATTTT
* *
90936906 TTTTTTATAATCTCTTATAATTTTT-GTA-TTCCTTCATAATTT
1 TTTTTTATAATCCCTTATAATTTTTGGTACTTCC-TCATATTTT
90936948 TTT
1 TTT
90936951 ATATTTCCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 3 0.08
42 12 0.32
43 23 0.61
ACGTcount: A:0.18, C:0.12, G:0.07, T:0.62
Consensus pattern (43 bp):
TTTTTTATAATCCCTTATAATTTTTGGTACTTCCTCATATTTT
Found at i:90936990 original size:21 final size:21
Alignment explanation
Indices: 90936943--90936990 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
90936933 ATTCCTTCAT
*
90936943 AATTTTTTATATTTCCTCATA
1 AATTTTTTATATTTCCTCAGA
**
90936964 TGTTTTTTATA-TTCTCTCAGA
1 AATTTTTTATATTTC-CTCAGA
90936985 AATTTT
1 AATTTT
90936991 GGTATTCCCT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (21 bp):
AATTTTTTATATTTCCTCAGA
Found at i:90938653 original size:34 final size:33
Alignment explanation
Indices: 90938578--90938655 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
90938568 ATGTATTGTC
* **
90938578 ATGGTCTTACATTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACATTCAGAGTGCCATAACCCAACT
* *
90938611 ATGATCTTATCATTCAG-GATGCCATAGCCCAACT
1 ATGGTCTTA-CATTCAGAG-TGCCATAACCCAACT
90938645 ATGGTCTTACA
1 ATGGTCTTACA
90938656 CATATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
33 11 0.30
34 26 0.70
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACATTCAGAGTGCCATAACCCAACT
Found at i:90942862 original size:50 final size:50
Alignment explanation
Indices: 90942787--90942884 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
90942777 CATTTTGTAC
90942787 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
*
90942837 GGTGTTATTAATATCAGAGTTGTTCTCGGAATCACATCAATCACAAAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAAT
90942885 TCAACTTCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (50 bp):
GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
Found at i:90944665 original size:50 final size:50
Alignment explanation
Indices: 90944590--90944687 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
90944580 CATTTTGTAC
90944590 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
*
90944640 GGTGTTATTAATATCAGAGTTGTTCTCGGAATCACATCAATCACAAAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAAT
90944688 TCAACTTCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (50 bp):
GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
Found at i:90946469 original size:50 final size:50
Alignment explanation
Indices: 90946394--90946491 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
90946384 CATTTTGTAC
90946394 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
*
90946444 GGTGTTATTAATATCAGAGTTGTTCTCGGAATCACATCAATCACAAAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAAT
90946492 TCAACTTCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (50 bp):
GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
Found at i:90948273 original size:50 final size:50
Alignment explanation
Indices: 90948198--90948295 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
90948188 CATTTTGTAC
90948198 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
*
90948248 GGTGTTATTAATATCAGAGTTGTTCTCGGAATCACATCAATCACAAAT
1 GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAAT
90948296 TCAACTTCAC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (50 bp):
GGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAATAT
Found at i:90950089 original size:49 final size:50
Alignment explanation
Indices: 90949999--90950098 Score: 193
Period size: 49 Copynumber: 2.0 Consensus size: 50
90949989 TGCCATTTTG
90949999 TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
1 TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
90950049 TACGGTGTTATTAATATCAG-ATTGTTCTCGGAATCACATCAATCACAAA
1 TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
90950098 T
1 T
90950099 TCAACTTCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
49 30 0.60
50 20 0.40
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (50 bp):
TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
Found at i:90951880 original size:50 final size:50
Alignment explanation
Indices: 90951804--90951904 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
90951794 TGCCATTTTG
90951804 TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
1 TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
*
90951854 TACGGTGTTATTAATATCAGAGTTGTTCTCGGAATCACATCAATCACAAA
1 TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
90951904 T
1 T
90951905 TCAACTTCAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.33
Consensus pattern (50 bp):
TACGGTGTTATTAATATCAGAATTGTTCTCGGAATCACATCAATCACAAA
Found at i:90954157 original size:18 final size:18
Alignment explanation
Indices: 90954127--90954168 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
90954117 GAAGCTTACG
90954127 AAAACATTGTATTCTTAGA
1 AAAACATTGTATT-TTAGA
90954146 AAAACATT-TATTTTAGA
1 AAAACATTGTATTTTAGA
90954163 AGAAAC
1 A-AAAC
90954169 CATAGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (18 bp):
AAAACATTGTATTTTAGA
Found at i:90957123 original size:34 final size:33
Alignment explanation
Indices: 90957048--90957125 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 33
90957038 ATGTATTGTC
* *
90957048 ATGGTCTTACATTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACATTCAGAGTGCCATAACCCAGCT
* * *
90957081 ATGATCTTATCATTCAG-GATGCCATAGCCTAGCT
1 ATGGTCTTA-CATTCAGAG-TGCCATAACCCAGCT
90957115 ATGGTCTTACA
1 ATGGTCTTACA
90957126 CATATATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
33 11 0.30
34 26 0.70
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (33 bp):
ATGGTCTTACATTCAGAGTGCCATAACCCAGCT
Found at i:90958513 original size:7 final size:7
Alignment explanation
Indices: 90958501--90958525 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
90958491 ATTTAACTAC
90958501 TAAATAA
1 TAAATAA
90958508 TAAATAA
1 TAAATAA
90958515 TAAATAA
1 TAAATAA
90958522 TAAA
1 TAAA
90958526 ATTTTCGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAATAA
Found at i:90958686 original size:2 final size:2
Alignment explanation
Indices: 90958679--90958983 Score: 225
Period size: 2 Copynumber: 157.5 Consensus size: 2
90958669 TTAAACACAA
90958679 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
90958721 AG AG AG AG AG AG AG AG AG GG AG AG GG AG AG AG GG AG AG GG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
90958763 AG GG GG AG -G AG AG -G GG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
90958803 AG AG AG AG AG AG AG A- AG AG GG AG AG GG GG AG GG AG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * * * *
90958844 AG AG -G GG A- AG -G GG AG -G GG AG GG AT AG GG CG AG AG GG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * * * *
90958882 AG GG AG AG AG GG AG AG GG AT AG GG CG GG AG -G GG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
90958923 AG AG AG AG GG AG A- AG -G AG AG GG AG AG GG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
90958963 AG AA AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG A
90958984 TTCGTAAGCC
Statistics
Matches: 239, Mismatches: 54, Indels: 20
0.76 0.17 0.06
Matches are distributed among these distances:
1 10 0.04
2 229 0.96
ACGTcount: A:0.39, C:0.01, G:0.59, T:0.01
Consensus pattern (2 bp):
AG
Found at i:90959225 original size:5 final size:6
Alignment explanation
Indices: 90959209--90959349 Score: 79
Period size: 6 Copynumber: 22.8 Consensus size: 6
90959199 CACCCTCGTA
** * ** *
90959209 AGGGGG AGGGGG AGGGGG AGGGGG AGAGAGAGAG ACAGAG AGGAAG AGGGAG
1 AGGGGG AGGGGG AGGGGG AGGGGG AG-G-G-G-G AGGGGG AGGGGG AGGGGG
* * * * * *
90959261 AGGGGG A--GGG AGAGGG AGGGGG AGAGGG AGAGGG AGAGAG AGAGGG
1 AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG AGGGGG
* * *
90959307 AGAGAG AGGGGG AGGGGG AGGGGAG AGGGGGG AAGGGG AGGGG
1 AGGGGG AGGGGG AGGGGG AGGGG-G A-GGGGG AGGGGG AGGGG
90959350 AGAGAGAGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
4 4 0.04
6 92 0.84
7 5 0.05
8 6 0.05
9 1 0.01
10 2 0.02
ACGTcount: A:0.30, C:0.01, G:0.70, T:0.00
Consensus pattern (6 bp):
AGGGGG
Done.