Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 85 of 316
Found at i:25759455 original size:46 final size:46
Alignment explanation
Indices: 25759273--25759771 Score: 472
Period size: 48 Copynumber: 10.6 Consensus size: 46
25759263 ACATGTAGCT
* ** *
25759273 AGTGTAAGACCATGTCTGGACATGGCATCGGCCACATT-TCGTA-TGCC
1 AGTGTAAGACCATGT-TGGACATGGCATCGGCTATGTTAT-G-AGAGCC
* * * *
25759320 AGTGTAAGACCATGTTTGGAACATAGAATTGGCTATGTTATGAGAGTC
1 AGTGTAAGACCATG-TTGG-ACATGGCATCGGCTATGTTATGAGAGCC
*
25759368 AGTGTAAGACCATGTTTGGAACATGGCATCGGCTCTGTTATGAGAGCC
1 AGTGTAAGACCATG-TTGG-ACATGGCATCGGCTATGTTATGAGAGCC
* * *
25759416 AGTGTAAGACTATGTTGGACATGACATCGACTATGTTATGAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCTATGTTATGAGAGCC
* *
25759462 AGTGTAAGACCATGTTGGACATGGCATCGACTATGTTATGAGAGCT
1 AGTGTAAGACCATGTTGGACATGGCATCGGCTATGTTATGAGAGCC
* * *
25759508 AGTGTAGGACCATGTTTGGAACATGACATCGACTATGTTATGAGAGCC
1 AGTGTAAGACCATG-TTGG-ACATGGCATCGGCTATGTTATGAGAGCC
* *
25759556 AGTGTAAGACCATGTTGGACCTGGCATCGGC-ATTGACTAT-A-AGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCTA-TG-TTATGAGAGCC
* * * ***
25759601 TGTGTAAGACCATGTTGGAAATGGCATCGGCCACCATATGAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCGGCTATGTTATGAGAGCC
* * * ** * *
25759647 AGTGTAAGTCCATGTTGGACATGGCCTCTGC-ATTGAGACGAGAGCT
1 AGTGTAAGACCATGTTGGACATGGCATCGGCTA-TGTTATGAGAGCC
* ** *
25759693 AGTGTAAGACCATGTCTGGGACATGGCATCGGTCT-CGGCATGCGAGCC
1 AGTGTAAGACCATGT-T-GGACATGGCATCGG-CTATGTTATGAGAGCC
25759741 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATG-TT-GGACATGGCATCG
25759772 ACAATTCACC
Statistics
Matches: 382, Mismatches: 53, Indels: 33
0.82 0.11 0.07
Matches are distributed among these distances:
44 3 0.01
45 35 0.09
46 147 0.38
47 34 0.09
48 160 0.42
49 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCTATGTTATGAGAGCC
Found at i:25759477 original size:94 final size:92
Alignment explanation
Indices: 25759273--25759771 Score: 467
Period size: 94 Copynumber: 5.3 Consensus size: 92
25759263 ACATGTAGCT
* * *
25759273 AGTGTAAGACCATGTCTGGACATGGCATCGGCCACAT-TT-CGTA-TGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGT-TGGACATGGCATCGG-CA-TTGTTATG-AGAGCCAGTGTAAGACCATG-
* * *
25759335 TTGGAACATAGA-ATTGGCTATGTTATGAGAGTC
61 TTGG-ACAT-GACATCGACTATGTTATGAGAGCC
*
25759368 AGTGTAAGACCATGTTTGGAACATGGCATCGGC-TCTGTTATGAGAGCCAGTGTAAGACTATGTT
1 AGTGTAAGACCATG-TTGG-ACATGGCATCGGCAT-TGTTATGAGAGCCAGTGTAAGACCATGTT
25759432 GGACATGACATCGACTATGTTATGAGAGCC
63 GGACATGACATCGACTATGTTATGAGAGCC
* * *
25759462 AGTGTAAGACCATGTTGGACATGGCATCGAC-TATGTTATGAGAGCTAGTGTAGGACCATGTTTG
1 AGTGTAAGACCATGTTGGACATGGCATCGGCAT-TGTTATGAGAGCCAGTGTAAGACCATG-TTG
25759526 GAACATGACATCGACTATGTTATGAGAGCC
64 G-ACATGACATCGACTATGTTATGAGAGCC
* * *
25759556 AGTGTAAGACCATGTTGGACCTGGCATCGGCATTGACTAT-A-AGCCTGTGTAAGACCATGTTGG
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTG-TTATGAGAGCCAGTGTAAGACCATGTTGG
* * * * ***
25759619 AAATGGCATCGGCCACCATATGAGAGCC
65 ACATGACATCGACTATGTTATGAGAGCC
* * * ** * *
25759647 AGTGTAAGTCCATGTTGGACATGGCCTCTGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACCATGTTGGACATGGCATCGGCATTGTTATGAGAGCCAGTGTAAGACCATGT-T-G
* * * ** *
25759712 GACATGGCATCGGTCT-CGGCATGCGAGCC
64 GACATGACATC-GACTATGTTATGAGAGCC
25759741 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATG-TT-GGACATGGCATCG
25759772 ACAATTCACC
Statistics
Matches: 342, Mismatches: 44, Indels: 35
0.81 0.10 0.08
Matches are distributed among these distances:
90 1 0.00
91 53 0.15
92 58 0.17
93 26 0.08
94 130 0.38
95 33 0.10
96 41 0.12
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (92 bp):
AGTGTAAGACCATGTTGGACATGGCATCGGCATTGTTATGAGAGCCAGTGTAAGACCATGTTGGA
CATGACATCGACTATGTTATGAGAGCC
Found at i:25762104 original size:233 final size:233
Alignment explanation
Indices: 25761697--25762398 Score: 1271
Period size: 233 Copynumber: 3.0 Consensus size: 233
25761687 TCAATCCTCA
*
25761697 ACTTCCTTTTAGTATTTCTTCCTGTTAATACAAAATTTCAGTGAGGAAAATCTTGAACATACGAA
1 ACTTCCTTTTAGTATTTCTTCCTGTTAATACAAAATTTCAGTGAGGAAAATCTTGAACATATGAA
25761762 CAACAACTATAACAGAAAACAAAGAAATAGGACAAGACTCCAATGCATGTATCAAACCACTATCT
66 CAACAACTATAACAGAAAACAAAGAAATAGGACAAGACTCCAATGCATGTATCAAACCACTATCT
25761827 TAATGATTATATTCACCCCTAGCTATACTCAGTGCACAAATGAACCTCAAGGATACAATGAAGCC
131 TAATGATTATATTCACCCCTAGCTATACTCAGTGCACAAATGAACCTCAAGGATACAATGAAGCC
*
25761892 TGATGACTATTTGTGTTTTGCATTAATGAAAACAGTCC
196 TGATGACTATTTGTGTTTTGCATTAATGAAAATAGTCC
25761930 ACTTCCTTTTAGTATTTCTTCCTGTTAATACAAAATTTCAGTGAGGAAAATCTTGAACATATGAA
1 ACTTCCTTTTAGTATTTCTTCCTGTTAATACAAAATTTCAGTGAGGAAAATCTTGAACATATGAA
25761995 CAACAACTATAACAGAAAACAAAGAAATAGGACAAGACTCCAATGCATGTATCAAACCACTATCT
66 CAACAACTATAACAGAAAACAAAGAAATAGGACAAGACTCCAATGCATGTATCAAACCACTATCT
25762060 TAATGATTATATTCACCCCTAGCTATACTCAGTGCACAAATGAACCTCAAGGATACAATGAAGCC
131 TAATGATTATATTCACCCCTAGCTATACTCAGTGCACAAATGAACCTCAAGGATACAATGAAGCC
25762125 TGATGACTATTTGTGTTTTGCATTAATGAAAATAGTCC
196 TGATGACTATTTGTGTTTTGCATTAATGAAAATAGTCC
* * * *
25762163 ACTTCCATTTAGTATTTCTTCCTGTTAATTCAAAATTTCAGTGAAGAAAATCTAGAACATATGAA
1 ACTTCCTTTTAGTATTTCTTCCTGTTAATACAAAATTTCAGTGAGGAAAATCTTGAACATATGAA
* *
25762228 CAA-AAGCTATAACAAAAAACAAAGAAATAGGACAAGACTCCAATGCATGTATCAAGCCACTATC
66 CAACAA-CTATAACAGAAAACAAAGAAATAGGACAAGACTCCAATGCATGTATCAAACCACTATC
* * * *
25762292 TTAATGGTTATATTCACCCGTACCTATACTCAATGCACAAATGAACCTCAAGGATACAATGAAGC
130 TTAATGATTATATTCACCCCTAGCTATACTCAGTGCACAAATGAACCTCAAGGATACAATGAAGC
*
25762357 CTGATGACTATTTGTGTTTTGCATTAATGAAAATAGTTC
195 CTGATGACTATTTGTGTTTTGCATTAATGAAAATAGTCC
25762396 ACT
1 ACT
25762399 AAGCATCGTA
Statistics
Matches: 455, Mismatches: 13, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
232 2 0.00
233 453 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (233 bp):
ACTTCCTTTTAGTATTTCTTCCTGTTAATACAAAATTTCAGTGAGGAAAATCTTGAACATATGAA
CAACAACTATAACAGAAAACAAAGAAATAGGACAAGACTCCAATGCATGTATCAAACCACTATCT
TAATGATTATATTCACCCCTAGCTATACTCAGTGCACAAATGAACCTCAAGGATACAATGAAGCC
TGATGACTATTTGTGTTTTGCATTAATGAAAATAGTCC
Found at i:25762561 original size:207 final size:207
Alignment explanation
Indices: 25762296--25762708 Score: 826
Period size: 207 Copynumber: 2.0 Consensus size: 207
25762286 ACTATCTTAA
25762296 TGGTTATATTCACCCGTACCTATACTCAATGCACAAATGAACCTCAAGGATACAATGAAGCCTGA
1 TGGTTATATTCACCCGTACCTATACTCAATGCACAAATGAACCTCAAGGATACAATGAAGCCTGA
25762361 TGACTATTTGTGTTTTGCATTAATGAAAATAGTTCACTAAGCATCGTATAACAAGAAAATCAATT
66 TGACTATTTGTGTTTTGCATTAATGAAAATAGTTCACTAAGCATCGTATAACAAGAAAATCAATT
25762426 TCTATAAAGATTTTTTGCAATAACTCTTTATTGAACAATCTAGTAATATTAGACGATAGAGGAAA
131 TCTATAAAGATTTTTTGCAATAACTCTTTATTGAACAATCTAGTAATATTAGACGATAGAGGAAA
25762491 GATGGAAAGAAG
196 GATGGAAAGAAG
25762503 TGGTTATATTCACCCGTACCTATACTCAATGCACAAATGAACCTCAAGGATACAATGAAGCCTGA
1 TGGTTATATTCACCCGTACCTATACTCAATGCACAAATGAACCTCAAGGATACAATGAAGCCTGA
25762568 TGACTATTTGTGTTTTGCATTAATGAAAATAGTTCACTAAGCATCGTATAACAAGAAAATCAATT
66 TGACTATTTGTGTTTTGCATTAATGAAAATAGTTCACTAAGCATCGTATAACAAGAAAATCAATT
25762633 TCTATAAAGATTTTTTGCAATAACTCTTTATTGAACAATCTAGTAATATTAGACGATAGAGGAAA
131 TCTATAAAGATTTTTTGCAATAACTCTTTATTGAACAATCTAGTAATATTAGACGATAGAGGAAA
25762698 GATGGAAAGAA
196 GATGGAAAGAA
25762709 CTTTTAGAAC
Statistics
Matches: 206, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 206 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (207 bp):
TGGTTATATTCACCCGTACCTATACTCAATGCACAAATGAACCTCAAGGATACAATGAAGCCTGA
TGACTATTTGTGTTTTGCATTAATGAAAATAGTTCACTAAGCATCGTATAACAAGAAAATCAATT
TCTATAAAGATTTTTTGCAATAACTCTTTATTGAACAATCTAGTAATATTAGACGATAGAGGAAA
GATGGAAAGAAG
Found at i:25764383 original size:18 final size:18
Alignment explanation
Indices: 25764360--25764395 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25764350 CAAAATAGTT
* *
25764360 TATGCATATGTATGTATG
1 TATGCAAATGTACGTATG
25764378 TATGCAAATGTACGTATG
1 TATGCAAATGTACGTATG
25764396 CAGATGTACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (18 bp):
TATGCAAATGTACGTATG
Found at i:25764388 original size:14 final size:14
Alignment explanation
Indices: 25764371--25764404 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25764361 ATGCATATGT
*
25764371 ATGTATGTATGCAA
1 ATGTACGTATGCAA
*
25764385 ATGTACGTATGCAG
1 ATGTACGTATGCAA
25764399 ATGTAC
1 ATGTAC
25764405 CAATTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (14 bp):
ATGTACGTATGCAA
Found at i:25764775 original size:21 final size:21
Alignment explanation
Indices: 25764722--25764776 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
25764712 GTGAAAGGTA
* * *
25764722 GCACACAGTCGTGTGACAGAG
1 GCACACAGCCGTGTGAAACAG
25764743 GCACAC-GCCCGTGTGAAACAG
1 GCACACAG-CCGTGTGAAACAG
*
25764764 GGACACAGCCGTG
1 GCACACAGCCGTG
25764777 CGAATAGGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.27, C:0.29, G:0.33, T:0.11
Consensus pattern (21 bp):
GCACACAGCCGTGTGAAACAG
Found at i:25765371 original size:6 final size:6
Alignment explanation
Indices: 25765360--25765424 Score: 94
Period size: 6 Copynumber: 10.5 Consensus size: 6
25765350 AAGATGAATA
*
25765360 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAGT AAAAAT AAATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT
*
25765409 AATAAT AATAAAT AAA
1 AAAAAT AA-AAAT AAA
25765425 CTAAATAACT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
6 43 0.81
7 10 0.19
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:25765431 original size:16 final size:16
Alignment explanation
Indices: 25765361--25765432 Score: 66
Period size: 16 Copynumber: 4.7 Consensus size: 16
25765351 AGATGAATAA
25765361 AAAATAAA-AATAAA-
1 AAAATAAATAATAAAT
25765375 AATAA-AAATAA-AAAT
1 AA-AATAAATAATAAAT
25765390 AAAAGTAAA-AATAAAT
1 AAAA-TAAATAATAAAT
25765406 AATAAT-AATAATAAAT
1 AA-AATAAATAATAAAT
*
25765422 AAACTAAATAA
1 AAAATAAATAA
25765433 CTATTTTAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
14 10 0.21
15 12 0.25
16 24 0.50
17 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (16 bp):
AAAATAAATAATAAAT
Found at i:25772500 original size:29 final size:29
Alignment explanation
Indices: 25772475--25772532 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25772465 TCTGGCCTAG
* * * *
25772475 TTCATATTCATATGGTCTATTAGGCCCAA
1 TTCACATTCATAAGGCCCATTAGGCCCAA
25772504 TTCACATTCATAAGGCCCATTAGGCCCAA
1 TTCACATTCATAAGGCCCATTAGGCCCAA
25772533 ATCATATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
TTCACATTCATAAGGCCCATTAGGCCCAA
Found at i:25775361 original size:20 final size:20
Alignment explanation
Indices: 25775336--25775378 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
25775326 CACCCATGTG
* *
25775336 GAAGAAGCATAGGCCCGTGT
1 GAAGAAACACAGGCCCGTGT
25775356 GAAGAAACACAGGCCCGTGT
1 GAAGAAACACAGGCCCGTGT
25775376 GAA
1 GAA
25775379 TGCGTGACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.33, T:0.12
Consensus pattern (20 bp):
GAAGAAACACAGGCCCGTGT
Found at i:25777468 original size:93 final size:93
Alignment explanation
Indices: 25777309--25777478 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 93
25777299 CGCCCATAAG
* *** *
25777309 CGAACTCAGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATGAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
25777374 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
25777402 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
25777467 ACGAGTTCGGAT
66 ACGAGCTCGGAT
25777479 ACCCAAATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:25777477 original size:46 final size:46
Alignment explanation
Indices: 25777302--25777477 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
25777292 TGTAACCCGC
* *** *
25777302 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
25777348 CCATGAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * *
25777398 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
25777441 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
25777478 TACCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 62 0.58
47 27 0.25
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:25783506 original size:18 final size:18
Alignment explanation
Indices: 25783483--25783524 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
25783473 CCATACAAAA
*
25783483 TCAGATTCAAATTTAGAT
1 TCAGATCCAAATTTAGAT
25783501 TCAGATCCAAATTTAGAT
1 TCAGATCCAAATTTAGAT
25783519 TACAGA
1 T-CAGA
25783525 AACAGATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (18 bp):
TCAGATCCAAATTTAGAT
Found at i:25790124 original size:42 final size:42
Alignment explanation
Indices: 25790055--25790210 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 42
25790045 GTACGTGTTA
* * * * *
25790055 TCATGTAAGACCATATCTGGGATATGGCGTTGATATAAGATT
1 TCATGTAAGACCACATCTGGGACATGGCATCGAAATAAGATT
* * * *
25790097 TCGTGTAAGACCACATTTGGGGCATGGCATCGAAATGAGATT
1 TCATGTAAGACCACATCTGGGACATGGCATCGAAATAAGATT
* * * ** * *
25790139 TCATATAAGACCATATCTGGGATATGGCATCGATGTGAGATC
1 TCATGTAAGACCACATCTGGGACATGGCATCGAAATAAGATT
* * *
25790181 CCATGTAAGACCACGTCTGGAACATGGCAT
1 TCATGTAAGACCACATCTGGGACATGGCAT
25790211 TGGCATCTTA
Statistics
Matches: 90, Mismatches: 24, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (42 bp):
TCATGTAAGACCACATCTGGGACATGGCATCGAAATAAGATT
Found at i:25790207 original size:84 final size:84
Alignment explanation
Indices: 25790055--25790210 Score: 204
Period size: 84 Copynumber: 1.9 Consensus size: 84
25790045 GTACGTGTTA
* * * ** * * **
25790055 TCATGTAAGACCATATCTGGGATATGGCGTTGATATAAGATTTCGTGTAAGACCACATTTGGGGC
1 TCATATAAGACCATATCTGGGATATGGCATCGATATAAGATCCCATGTAAGACCACATCTGGAAC
25790120 ATGGCATCGAAATGAGATT
66 ATGGCATCGAAATGAGATT
* * *
25790139 TCATATAAGACCATATCTGGGATATGGCATCGATGTGAGATCCCATGTAAGACCACGTCTGGAAC
1 TCATATAAGACCATATCTGGGATATGGCATCGATATAAGATCCCATGTAAGACCACATCTGGAAC
25790204 ATGGCAT
66 ATGGCAT
25790211 TGGCATCTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (84 bp):
TCATATAAGACCATATCTGGGATATGGCATCGATATAAGATCCCATGTAAGACCACATCTGGAAC
ATGGCATCGAAATGAGATT
Found at i:25796387 original size:42 final size:40
Alignment explanation
Indices: 25796335--25796452 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 40
25796325 GGACTACCGA
*
25796335 GATTCCGTATAAGACCATATCTGGGATATGGCATCAGTATAT
1 GATTTCGTATAAGACCATATCTGGGATATGGCATC-G-ATAT
* *
25796377 GATTTCGTATAAGACCATGT-TAGGGACATGGCATCGATAT
1 GATTTCGTATAAGACCATATCT-GGGATATGGCATCGATAT
* * * *
25796417 GATATTTCATGTATGACCATATCCGGGATATGGCAT
1 G--ATTTCGTATAAGACCATATCTGGGATATGGCAT
25796453 TGACACGGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
40 5 0.08
41 2 0.03
42 56 0.89
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (40 bp):
GATTTCGTATAAGACCATATCTGGGATATGGCATCGATAT
Found at i:25805111 original size:35 final size:35
Alignment explanation
Indices: 25805053--25805216 Score: 177
Period size: 35 Copynumber: 4.7 Consensus size: 35
25805043 CGAATACTCA
*
25805053 AAGTTCATTATATCATCACATATGACCAAATATAC
1 AAGTTCAATATATCATCACATATGACCAAATATAC
* * * *
25805088 AAGTACAATATATCATCATATATGACCGATTATAC
1 AAGTTCAATATATCATCACATATGACCAAATATAC
* * * * * *
25805123 AAGCTCAATATAACATCACATGT-AGTCATATATTC
1 AAGTTCAATATATCATCACATATGA-CCAAATATAC
* * * *
25805158 AAGTTTAATATAACATCACATGTGGCCAAATATAC
1 AAGTTCAATATATCATCACATATGACCAAATATAC
25805193 AAGTTCAATATATCATCACATATG
1 AAGTTCAATATATCATCACATATG
25805217 TACATACCTA
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
34 1 0.01
35 102 0.99
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (35 bp):
AAGTTCAATATATCATCACATATGACCAAATATAC
Found at i:25805458 original size:37 final size:38
Alignment explanation
Indices: 25805400--25805472 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
25805390 CCTGACACCC
* *
25805400 TAAACTAACCCAATAATCCG-TTACACCCATGACCCAGT
1 TAAACTAACCCAAAAACCCGTTTACACCCA-GACCCAGT
*
25805438 TAAACT-ACCCAAAAACCCGTTTATACCCAGACCCA
1 TAAACTAACCCAAAAACCCGTTTACACCCAGACCCA
25805473 AAAAACGAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.38, C:0.36, G:0.07, T:0.19
Consensus pattern (38 bp):
TAAACTAACCCAAAAACCCGTTTACACCCAGACCCAGT
Found at i:25809575 original size:14 final size:14
Alignment explanation
Indices: 25809556--25809585 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25809546 AAGATATTCT
25809556 TTTTCTAAATAAAG
1 TTTTCTAAATAAAG
*
25809570 TTTTCTAAATGAAG
1 TTTTCTAAATAAAG
25809584 TT
1 TT
25809586 GAACCAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTTCTAAATAAAG
Found at i:25818069 original size:205 final size:205
Alignment explanation
Indices: 25817591--25818369 Score: 1161
Period size: 205 Copynumber: 3.8 Consensus size: 205
25817581 TTGGCCGCAG
* * * * *
25817591 CATAGCAGATCTCACCTTCAGATATTTATGCTGAAGCAGATCC-AGAATGGTTTGGTATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAG-ATGATTTAGCATCCTTGT
* *
25817655 GCTTACAAGGA-ACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGCTAAAGCAAAT
65 GCTTACAAGGAGA-AAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAAT
* * * * *
25817719 CTAAGATGATTTGGCATCTCTATATTGTCAGAAAACAAATCGAA-TCTGGCATCTCCCTTTCAAC
129 CTAAGATGATTTGACATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCCCTTCAAC
25817783 GGGGAACAGATA
194 GGGGAACAGATA
*
25817795 CATAGCAGATCTCACCTTCAGATGTTTATACTGAGGCAGATCCAAGATGATTTAGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTG
*
25817860 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCT
*
25817925 AAGATGATTTGACATCTCTGTATTGTAAGAGAGCAAATCGAAGTCTGGCATCTCCCCTTCAACGG
131 AAGATGATTTGACATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCCCTTCAACGG
25817990 GGAACAGATA
196 GGAACAGATA
* * *
25818000 CATAGTAGATCTCACCTTCAGATGTTTATACTGAGGCAGATCCGAA-ATGATTTAGCATCCTTCT
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCC-AAGATGATTTAGCATCCTTGT
* *
25818064 GCTTACAATGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATC
65 GCTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATC
* * * *
25818129 CAAGATGATTTCACATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAACA
130 TAAGATGATTTGACATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCCCTTCAACG
**
25818194 GGGAGTAGATA
195 GGGAACAGATA
* * * *
25818205 CATAGCAGATTTCACCTTCAGATGTTTATACTGAATCAGATCCAAGATGATTTAGTATCTTTGTG
1 CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTG
* * * *
25818270 CTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACATGTTTATGTTAAAGCAAATCT
66 CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCT
* * * *
25818335 AAGATGATTTGGCATCTTTGTATTGGCGGAGAGCA
131 AAGATGATTTGACATCTCTGTATTGTCAGAGAGCA
25818370 GATCAAAGAT
Statistics
Matches: 526, Mismatches: 44, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
204 155 0.29
205 369 0.70
206 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGCATCCTTGTG
CTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCT
AAGATGATTTGACATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCCCTTCAACGG
GGAACAGATA
Found at i:25819102 original size:13 final size:13
Alignment explanation
Indices: 25819084--25819109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25819074 GCCATCAGCA
25819084 CCGTGATTCCAAG
1 CCGTGATTCCAAG
25819097 CCGTGATTCCAAG
1 CCGTGATTCCAAG
25819110 TTTCGAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CCGTGATTCCAAG
Found at i:25820366 original size:42 final size:41
Alignment explanation
Indices: 25820287--25820381 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 41
25820277 ATATATTATT
*
25820287 TTATATATATTATTAGTATTATTTTAAAACTTGTATAC-TA
1 TTATATATATTATTAGTATTATTTTAAAACTTATATACGTA
* **
25820327 TTATCATATATTATTAGGTATTATTTTACATTTTATATACGTA
1 TTAT-ATATATTATTA-GTATTATTTTAAAACTTATATACGTA
*
25820370 TTGTATGATATT
1 TTATAT-ATATT
25820382 TCAAAATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 4 0.09
41 11 0.24
42 21 0.46
43 10 0.22
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (41 bp):
TTATATATATTATTAGTATTATTTTAAAACTTATATACGTA
Found at i:25823981 original size:28 final size:28
Alignment explanation
Indices: 25823929--25823983 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
25823919 TAGAGTGCCC
*
25823929 CTATGTATACAAAATTACCATTATACCA
1 CTATGTATACAAAATAACCATTATACCA
*
25823957 CTATGTATGCAAAATAACC-TCTATACC
1 CTATGTATACAAAATAACCAT-TATACC
25823984 TCTGGGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (28 bp):
CTATGTATACAAAATAACCATTATACCA
Found at i:25824135 original size:28 final size:27
Alignment explanation
Indices: 25824094--25824183 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
25824084 AGGAAGCGTC
*
25824094 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* **
25824122 CTGGTGGCCCTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
25824149 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
25824178 CTGGTG
1 CTGGTG
25824184 ACTCTATCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.42
28 23 0.44
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:25824152 original size:27 final size:28
Alignment explanation
Indices: 25824094--25824183 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
25824084 AGGAAGCGTC
* *
25824094 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
25824122 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
25824149 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
25824178 CTGGTG
1 CTGGTG
25824184 ACTCTATCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:25824194 original size:29 final size:28
Alignment explanation
Indices: 25824140--25824194 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
25824130 CCTGCCACGT
* *
25824140 ATATCTGTTCTGGTGGCACTGCCACAAA
1 ATATCTGTTCTGGTGACACTACCACAAA
* *
25824168 ATATCTGTATCTGGTGACTCTATCACA
1 ATATCTGT-TCTGGTGACACTACCACA
25824195 TTTTCTGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (28 bp):
ATATCTGTTCTGGTGACACTACCACAAA
Found at i:25825298 original size:11 final size:10
Alignment explanation
Indices: 25825270--25825303 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
25825260 AGCCTATAAG
25825270 TATTCTGAAT
1 TATTCTGAAT
*
25825280 TTTTCTGAAT
1 TATTCTGAAT
25825290 ATATTCTGAAT
1 -TATTCTGAAT
25825301 TAT
1 TAT
25825304 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:25836380 original size:40 final size:40
Alignment explanation
Indices: 25836325--25836402 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
25836315 ACACACCTTG
* * *
25836325 TGGGGATAATATCGACCCACCCATCCCTGCAAACCATATA
1 TGGGGATAAAATCGACCCACCCAACCCTACAAACCATATA
* *
25836365 TGGGGATAAAATCGACCCATCCAACCCTACACACCATA
1 TGGGGATAAAATCGACCCACCCAACCCTACAAACCATA
25836403 AAGTACTGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACAAACCATATA
Found at i:25838640 original size:26 final size:26
Alignment explanation
Indices: 25838611--25838718 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
25838601 TGGTACAAAT
25838611 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
25838637 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
25838663 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
25838689 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
25838715 TGAT
1 TGAT
25838719 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:25840230 original size:26 final size:26
Alignment explanation
Indices: 25840200--25840252 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25840190 TTTTCAGTTT
*
25840200 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
25840226 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
25840252 T
1 T
25840253 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:25843386 original size:40 final size:39
Alignment explanation
Indices: 25843199--25843394 Score: 225
Period size: 39 Copynumber: 5.0 Consensus size: 39
25843189 ATAATAGAGA
* * * *
25843199 ATTATATTCGGGCT-AAGTCCTGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGT
* * * * *
25843238 GTTATATCCGGG-TTAAGCCCCGAAGGCATTCGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGT
* *
25843277 ATTATATTCGGGCTAAAGTCCTGCAGGCTTTGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
25843316 ATTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
* * *
25843355 ATTATATCTGGGCTTAAAGTCCCGCATGCTTTGTGTTGGT
1 ATTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGT
25843395 GATTGGATTT
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 102 0.74
40 35 0.25
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (39 bp):
ATTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
Found at i:25850488 original size:40 final size:40
Alignment explanation
Indices: 25850438--25850515 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
25850428 ACACACCTTG
* * * * *
25850438 TGGGGATAAAATTAACCCAACTATCCCTGCACACCATATA
1 TGGGAATAAAATCAACCCAACCAACCCTACACACCATATA
*
25850478 TGGGAATAAAATCAACCCATCCAACCCTACACACCATA
1 TGGGAATAAAATCAACCCAACCAACCCTACACACCATA
25850516 AGGTACTGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.40, C:0.31, G:0.10, T:0.19
Consensus pattern (40 bp):
TGGGAATAAAATCAACCCAACCAACCCTACACACCATATA
Found at i:25859714 original size:17 final size:19
Alignment explanation
Indices: 25859692--25859731 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25859682 TTTCTTTTCT
25859692 TTTTAT-AAAT-TTATATA
1 TTTTATAAAATCTTATATA
*
25859709 TTTTATAAAATCTTATGTA
1 TTTTATAAAATCTTATATA
25859728 TTTT
1 TTTT
25859732 TTATTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 4 0.20
19 10 0.50
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATCTTATATA
Found at i:25860570 original size:16 final size:16
Alignment explanation
Indices: 25860549--25860581 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25860539 GAGTGAAATG
25860549 AAAATTGGAA-AGATAA
1 AAAATT-GAATAGATAA
25860565 AAAATTGAATAGATAA
1 AAAATTGAATAGATAA
25860581 A
1 A
25860582 TACTAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.64, C:0.00, G:0.15, T:0.21
Consensus pattern (16 bp):
AAAATTGAATAGATAA
Found at i:25863356 original size:22 final size:22
Alignment explanation
Indices: 25863314--25863354 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
25863304 TGCCATTAGG
25863314 GTTCAAATGGAAAAAGGAAATT
1 GTTCAAATGGAAAAAGGAAATT
*
25863336 GTTC-AATTGAAAAAGGAAA
1 GTTCAAATGGAAAAAGGAAA
25863355 ATGAGTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (22 bp):
GTTCAAATGGAAAAAGGAAATT
Found at i:25867999 original size:31 final size:32
Alignment explanation
Indices: 25867941--25868009 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
25867931 AATATTATAT
25867941 ATAAAAAATATTTCAAAAAATTAAATATAAGA
1 ATAAAAAATATTTCAAAAAATTAAATATAAGA
* *
25867973 ATAAATAAAT-TTT-AAATAATTTAATATAA-A
1 ATAAA-AAATATTTCAAAAAATTAAATATAAGA
*
25868003 ACAAAAA
1 ATAAAAA
25868010 TCAATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 5 0.15
31 14 0.42
32 8 0.24
33 4 0.12
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (32 bp):
ATAAAAAATATTTCAAAAAATTAAATATAAGA
Found at i:25869861 original size:50 final size:50
Alignment explanation
Indices: 25869716--25869849 Score: 214
Period size: 50 Copynumber: 2.7 Consensus size: 50
25869706 ATCTATTGTG
* *
25869716 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTT
**
25869766 AGGTCACGTGTGTAGTACTAAGTGCAGGAAACTACATGTACCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTT
* *
25869816 TGGTCACCTGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
25869850 TTCGTACCAG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTT
Found at i:25874911 original size:47 final size:47
Alignment explanation
Indices: 25874854--25875265 Score: 445
Period size: 47 Copynumber: 8.4 Consensus size: 47
25874844 ATTGATGTAC
* * *
25874854 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25874901 AAGTATATATATGCGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25874950 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATATGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25874999 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGAT-------AA-GG-C---CGAATGGCCAATGTGATGAATGTGA
* *
25875058 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25875105 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
25875152 ACA-TGCATATATGAGATAAGGCTGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25875199 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
25875246 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
25875266 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 18, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
46 1 0.00
47 190 0.57
49 88 0.27
50 2 0.01
51 2 0.01
52 2 0.01
54 2 0.01
55 2 0.01
56 1 0.00
59 41 0.12
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:25874938 original size:40 final size:41
Alignment explanation
Indices: 25874894--25874989 Score: 104
Period size: 49 Copynumber: 2.2 Consensus size: 41
25874884 CAATGTGATG
*
25874894 AATGTGAAAGTATATATATGCGTGATAAGGCCGAGTGGCCAATGTGA
1 AATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCC------A
25874941 TGAATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCC-
1 --AATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCA
25874983 AATGTGA
1 AATGTGA
25874990 TGAATATGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
40 7 0.15
49 39 0.85
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.26
Consensus pattern (41 bp):
AATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCA
Found at i:25879475 original size:50 final size:51
Alignment explanation
Indices: 25879341--25879488 Score: 172
Period size: 50 Copynumber: 2.9 Consensus size: 51
25879331 ATCTATTGTG
* ** *
25879341 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTTATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACGT
* * * * * * **
25879392 CGATCACCTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGAT-GGGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACGT
*
25879442 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
25879489 GCTTTGGCTA
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
50 40 0.52
51 37 0.48
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAACGT
Found at i:25883176 original size:27 final size:27
Alignment explanation
Indices: 25883146--25883197 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
25883136 ATTTTTAGGG
* *
25883146 TCCCAATGGACTATCCCATGTTTACCA
1 TCCCAATAGACTATCACATGTTTACCA
* *
25883173 TCCCAGTAGACTATCACGTGTTTAC
1 TCCCAATAGACTATCACATGTTTAC
25883198 TGTCCCGACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (27 bp):
TCCCAATAGACTATCACATGTTTACCA
Found at i:25883203 original size:27 final size:27
Alignment explanation
Indices: 25883126--25883203 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 27
25883116 TCATCCTAGC
* * **
25883126 AGACTATCTCATTTTTAGGGTCCCAAT
1 AGACTATCACATGTTTACCGTCCCAAT
* * * *
25883153 GGACTATCCCATGTTTACCATCCCAGT
1 AGACTATCACATGTTTACCGTCCCAAT
* *
25883180 AGACTATCACGTGTTTACTGTCCC
1 AGACTATCACATGTTTACCGTCCC
25883204 GACGAAATAT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.33
Consensus pattern (27 bp):
AGACTATCACATGTTTACCGTCCCAAT
Found at i:25883964 original size:19 final size:19
Alignment explanation
Indices: 25883940--25884020 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
25883930 AATCTTTAAG
25883940 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25883959 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25883978 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
25883997 GATATACAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
25884018 GAT
1 GAT
25884021 CTTGTAATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 50 0.85
21 9 0.15
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25891748 original size:44 final size:44
Alignment explanation
Indices: 25891606--25891924 Score: 234
Period size: 44 Copynumber: 7.2 Consensus size: 44
25891596 CAAAGAAACA
* * *
25891606 AGATTTGGCACCCCTGTGTTTATAGGGAACAAATTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * ** * * * ** **
25891650 AGATCTGACATTCCAATGCTTACAGCGAAGTAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
* *
25891695 AGCA--TGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
25891738 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
25891782 AGATCTGACATTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
*
25891827 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * *
25891870 AGATTTGGCATCCTTGTGCTTACAAGGATCAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG--ATAGC
*
25891916 TGATTTGGC
1 AGATTTGGC
25891925 TTTCACGGTT
Statistics
Matches: 207, Mismatches: 56, Indels: 22
0.73 0.20 0.08
Matches are distributed among these distances:
42 2 0.01
43 21 0.10
44 147 0.71
45 22 0.11
46 15 0.07
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:25891844 original size:132 final size:132
Alignment explanation
Indices: 25891606--25891909 Score: 509
Period size: 132 Copynumber: 2.3 Consensus size: 132
25891596 CAAAGAAACA
* *
25891606 AGATTTGGCACCCCTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCAATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCAATGCTT
* *
25891671 ACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCTTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
25891736 GC
131 GC
**
25891738 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCAATGCTT
25891803 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
25891868 GC
131 GC
* * * * *
25891870 AGATTTGGCATCCTTGTGCTTACAAGGATCAAATCGAAGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA
25891910 CATAGCTGAT
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 161 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCAATGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:25893040 original size:50 final size:49
Alignment explanation
Indices: 25892866--25893103 Score: 314
Period size: 49 Copynumber: 4.8 Consensus size: 49
25892856 TAGCCAAAGC
* * * * *
25892866 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
25892915 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
25892964 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* ** *
25893014 CATCTGACACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
25893065 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
25893104 TGCGACCTCA
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
49 88 0.53
50 43 0.26
51 34 0.20
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:25893111 original size:101 final size:99
Alignment explanation
Indices: 25892866--25893111 Score: 341
Period size: 101 Copynumber: 2.5 Consensus size: 99
25892856 TAGCCAAAGC
* * ** **
25892866 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGACACACGTA
25892930 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * * *
25892964 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGACACACGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGACACACGTA
*
25893029 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
*
25893065 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
25893112 CACAATAGAT
Statistics
Matches: 128, Mismatches: 17, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
98 41 0.32
99 42 0.33
100 1 0.01
101 44 0.34
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (99 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCGACACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:25895260 original size:27 final size:27
Alignment explanation
Indices: 25895230--25895719 Score: 557
Period size: 27 Copynumber: 18.2 Consensus size: 27
25895220 AAAGTACTCC
25895230 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
25895257 CGATTT-CAAGAATTACCGTTTTACCCT
1 CGATTTAC-AGAATTACCGTTTTACCCT
25895284 CGATTTTA-A-AATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
25895310 TGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
25895337 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
25895364 CGATTTACAGAATTATCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
25895391 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
25895418 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
25895445 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
25895472 CGATTTACAGAATTACCATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
25895499 -AAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
25895526 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
25895553 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
25895580 TGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
25895607 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
25895634 TAATTTATAGAATTACTAG-TTTACCAT
1 CGATTTACAGAATTAC-CGTTTTACCCT
*
25895661 C-AGTTTACAGAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
25895688 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
25895715 TGATT
1 CGATT
25895720 GTGAAATTAC
Statistics
Matches: 392, Mismatches: 54, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.01
26 27 0.07
27 352 0.90
28 9 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:25895754 original size:27 final size:27
Alignment explanation
Indices: 25895724--25895919 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
25895714 TTGATTGTGA
* *
25895724 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
25895751 AATTTCCGAAATATCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
25895778 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
25895805 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
25895832 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
25895859 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
25895886 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
25895913 AATTACC
1 AATTACC
25895920 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:25896161 original size:27 final size:26
Alignment explanation
Indices: 25896119--25896200 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
25896109 GGAGGAAGCA
*
25896119 TTCTGGTGGCTATGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCAC-AATATCTG
25896146 TTCTGGTGGCTCTGCCACAATATCTG
1 TTCTGGTGGCTCTGCCACAATATCTG
* * *
25896172 TATTTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTCTGCCACAATATCTG
25896199 TT
1 TT
25896201 GATCGATCGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TTCTGGTGGCTCTGCCACAATATCTG
Found at i:25896565 original size:27 final size:28
Alignment explanation
Indices: 25896511--25896579 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
25896501 TAGGTGGGTT
* * *
25896511 TGCCACATTATCTG-ATCCTGGTGGCTC
1 TGCCACAATATCTGTATCCTAGTGACTC
25896538 TGCCACAATATCTGTAT-CTAGTGACTC
1 TGCCACAATATCTGTATCCTAGTGACTC
* *
25896565 TGACACGATATCTGT
1 TGCCACAATATCTGT
25896580 TCTGGCAGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (28 bp):
TGCCACAATATCTGTATCCTAGTGACTC
Found at i:25896742 original size:6 final size:6
Alignment explanation
Indices: 25896731--25896888 Score: 166
Period size: 6 Copynumber: 26.2 Consensus size: 6
25896721 CACGTAATTT
* *
25896731 TGATTC TGATTC TGATTC TG-TTAC TAATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC TGATTC
* *
25896779 TG-TTAC TGATTC TGATTC TGATTC TG-TCACC TAATTC TGATTC TGATTC
1 TGATT-C TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
*
25896828 TGATTC TG-TTAC TAATAT- TGATTC TGATTC TGATTC TG-TTAC TGATTC
1 TGATTC TGATT-C TGAT-TC TGATTC TGATTC TGATTC TGATT-C TGATTC
25896876 TGATTC TGATTC T
1 TGATTC TGATTC T
25896889 CATTTTGGTT
Statistics
Matches: 129, Mismatches: 10, Indels: 26
0.78 0.06 0.16
Matches are distributed among these distances:
5 10 0.08
6 109 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:25896767 original size:30 final size:30
Alignment explanation
Indices: 25896709--25896888 Score: 228
Period size: 30 Copynumber: 6.1 Consensus size: 30
25896699 CACATTTTGG
* **
25896709 TTCTGATTCTGTCACGTAATTTTGATTCTGA
1 TTCTGATTCTGTTAC-TAATACTGATTCTGA
25896740 TTCTGATTCTGTTACTAATACTGATTCTGA
1 TTCTGATTCTGTTACTAATACTGATTCTGA
25896770 TTCTGATTCTG----T--TACTGATTCTGA
1 TTCTGATTCTGTTACTAATACTGATTCTGA
* *
25896794 TTCTGATTCTGTCACCTAATTCTGATTCTGA
1 TTCTGATTCTGTTA-CTAATACTGATTCTGA
*
25896825 TTCTGATTCTGTTACTAATATTGATTCTGA
1 TTCTGATTCTGTTACTAATACTGATTCTGA
* *
25896855 TTCTGATTCTGTTACTGATTCTGATTCTGA
1 TTCTGATTCTGTTACTAATACTGATTCTGA
25896885 TTCT
1 TTCT
25896889 CATTTTGGTT
Statistics
Matches: 132, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
24 23 0.17
26 1 0.01
29 1 0.01
30 69 0.52
31 38 0.29
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
TTCTGATTCTGTTACTAATACTGATTCTGA
Found at i:25896850 original size:85 final size:85
Alignment explanation
Indices: 25896709--25896888 Score: 333
Period size: 85 Copynumber: 2.1 Consensus size: 85
25896699 CACATTTTGG
* *
25896709 TTCTGATTCTGTCACGTAATTTTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCT
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCT
25896774 GATTCTGTTACTGATTCTGA
66 GATTCTGTTACTGATTCTGA
*
25896794 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCT
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCT
25896859 GATTCTGTTACTGATTCTGA
66 GATTCTGTTACTGATTCTGA
25896879 TTCTGATTCT
1 TTCTGATTCT
25896889 CATTTTGGTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (85 bp):
TTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCT
GATTCTGTTACTGATTCTGA
Found at i:25896906 original size:30 final size:30
Alignment explanation
Indices: 25896709--25896909 Score: 211
Period size: 30 Copynumber: 6.8 Consensus size: 30
25896699 CACATTTTGG
* * *
25896709 TTCTGATTCTGTCACGTAATTTTGATTCTGA
1 TTCTGATTCTGTTAC-CAATTCTGATTCTGA
* *
25896740 TTCTGATTCTGTTACTAATACTGATTCTGA
1 TTCTGATTCTGTTACCAATTCTGATTCTGA
25896770 TTCTGATTCTGTT----A--CTGATTCTGA
1 TTCTGATTCTGTTACCAATTCTGATTCTGA
*
25896794 TTCTGATTCTGTCACCTAATTCTGATTCTGA
1 TTCTGATTCTGTTACC-AATTCTGATTCTGA
*
25896825 TTCTGATTCTGTTACTAATAT-TGATTCTGA
1 TTCTGATTCTGTTACCAAT-TCTGATTCTGA
**
25896855 TTCTGATTCTGTTACTGATTCTGATTCTGA
1 TTCTGATTCTGTTACCAATTCTGATTCTGA
* *
25896885 TTCTCATTTTGGTT-CCAATTCTGAT
1 TTCTGATTCT-GTTACCAATTCTGAT
25896910 AATGTTTCTT
Statistics
Matches: 149, Mismatches: 11, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
24 22 0.15
26 1 0.01
29 2 0.01
30 82 0.55
31 42 0.28
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
TTCTGATTCTGTTACCAATTCTGATTCTGA
Found at i:25898496 original size:15 final size:15
Alignment explanation
Indices: 25898457--25898516 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
25898447 CAAGAAAATC
*
25898457 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
25898472 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
*
25898487 GAATAAAGAAACCTA
1 GAATAAAGAAACCCA
* *
25898502 GAGTAAAAAAACCCA
1 GAATAAAGAAACCCA
25898517 AGATACGATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:25898514 original size:30 final size:30
Alignment explanation
Indices: 25898457--25898516 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25898447 CAAGAAAATC
* *
25898457 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAAAAACCCA
*
25898487 GAATAAAGAAA-CCTAGAGTAAAAAAACCCA
1 GAATAAAGAAATCCAAGA-TAAAAAAACCCA
25898517 AGATACGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.58, C:0.17, G:0.15, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAAAAACCCA
Found at i:25901557 original size:49 final size:49
Alignment explanation
Indices: 25901504--25901727 Score: 279
Period size: 49 Copynumber: 4.5 Consensus size: 49
25901494 CTGGTACGCA
* * *
25901504 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
25901553 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** ***
25901602 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * * * *
25901651 TAGTAGCCTACACTTAATACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
25901702 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
25901728 TGCGACCTCA
Statistics
Matches: 151, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
49 108 0.72
50 18 0.12
51 25 0.17
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:25903941 original size:205 final size:206
Alignment explanation
Indices: 25903250--25904042 Score: 1210
Period size: 206 Copynumber: 3.9 Consensus size: 206
25903240 GGGATATTAC
* ** * * * *
25903250 ACACATAGCAAATCTGGCCTTCATATGTTTATACTGAAGCAGAGCCAAGGTGATTTGGCATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCGAAGATGATTTGGCATCCTT
25903315 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
25903380 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
25903445 ACGGAGAGCAG
196 ACGGAGAGCAG
** ** * * * *
25903456 ACACATAGTTGATCTGGCCTTCATATGTTTATACTAAAGCAGATCTAAGGTGATTTGGCATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCGAAGATGATTTGGCATCCTT
* *
25903521 GTGCTTACAAGGAATAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
* * *
25903586 TCTAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCG
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
* *
25903651 ACAGAGAGAAG
196 ACGGAGAGCAG
*
25903662 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCGAAGATGATTTGGCATTCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCGAAGATGATTTGGCATCCTT
* * *
25903727 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATAAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
*
25903792 TCTAAGATGATTTGGCATATCTGTATTG-CAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCA
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
*
25903856 ACGGAGGGCAG
196 ACGGAGAGCAG
* * * *
25903867 ACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGGTTTGGTATCCTT
1 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCGAAGATGATTTGGCATCCTT
* * * * * *
25903932 GTGCTTACAAGGAGCAAATTGAAGACATAGTTGATTTGGTTTTCGCGTGCTTATGATGAAGCAAA
66 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
* * *
25903997 TCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAGATCGAAG
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAG
25904043 ATAACAGATT
Statistics
Matches: 535, Mismatches: 51, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
205 185 0.35
206 350 0.65
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (206 bp):
ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCGAAGATGATTTGGCATCCTT
GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
ACGGAGAGCAG
Found at i:25904013 original size:411 final size:412
Alignment explanation
Indices: 25903250--25904034 Score: 1266
Period size: 411 Copynumber: 1.9 Consensus size: 412
25903240 GGGATATTAC
** * *
25903250 ACACATAGCAAATCTGGCCTTCATATGTTTATACTGAAGCAGAGCCAAGGTGATTTGGCATCCTT
1 ACACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGAGCCAAGATGATTTGGCATCCTT
* * *
25903315 GTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAA
66 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATAAAGCAAA
*
25903380 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCG
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCA
** ** * * * * *
25903445 ACGGAGAGCAGACACATAGTTGATCTGGCCTTCATATGTTTATACTAAAGCAGATCTAAGGTGAT
196 ACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTAAAGCAGATCGAAGATGAT
*
25903510 TTGGCATCCTTGTGCTTACAAGGAATAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
261 TTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
* *
25903575 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCAAAGTTTGGCGT
326 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGTTTGGCGT
25903640 CTCCATATTCGACAGAGAGAAG
391 CTCCATATTCGACAGAGAGAAG
* * * *
25903662 ACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCGAAGATGATTTGGCATTCTT
1 ACACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGAGCCAAGATGATTTGGCATCCTT
25903727 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATAAAGCAAA
66 GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATAAAGCAAA
25903792 TCTAAGATGATTTGGCATATCTGTATTG-CAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCA
131 TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCA
* * *
25903856 ACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGCAGATCGAAGATGGT
196 ACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTAAAGCAGATCGAAGATGAT
* * * * * *
25903921 TTGGTATCCTTGTGCTTACAAGGAGCAAATTGAAGACATAGTTGATTTGGTTTTCGCGTGCTTAT
261 TTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
25903986 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACA
326 GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACA
25904035 GATCGAAGAT
Statistics
Matches: 340, Mismatches: 33, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
411 193 0.57
412 147 0.43
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (412 bp):
ACACATAGCAAATCTAACCTTCAGATGTTTATACTGAAGCAGAGCCAAGATGATTTGGCATCCTT
GTACTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTACGATAAAGCAAA
TCTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCA
ACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTAAAGCAGATCGAAGATGAT
TTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTAC
GATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATCAAAGTTTGGCGT
CTCCATATTCGACAGAGAGAAG
Found at i:25904449 original size:19 final size:19
Alignment explanation
Indices: 25904425--25904503 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
25904415 AATCTTTAAG
25904425 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25904444 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25904463 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25904480 GATATGCAATCTTTAAGATAT
1 GATATGCAATC-TT-AGATAT
25904501 GAT
1 GAT
25904504 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 28 0.50
20 2 0.04
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25904455 original size:36 final size:36
Alignment explanation
Indices: 25904415--25904502 Score: 128
Period size: 36 Copynumber: 2.4 Consensus size: 36
25904405 ATGGAAATAT
25904415 AATCTTTAAGGATATG-CAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGACAATCTTAGATATGATATGC
25904451 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG--ACAATCTTAGATATGATATGC
25904487 AATCTTTAAGATATGA
1 AATCTTTAAGATATGA
25904503 TCTTGTAATC
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
33 6 0.13
34 1 0.02
35 2 0.04
36 29 0.62
37 2 0.04
38 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGATATGACAATCTTAGATATGATATGC
Found at i:25907588 original size:20 final size:21
Alignment explanation
Indices: 25907550--25907589 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
25907540 AATGATTGAC
**
25907550 ATTTTCATGAATGTTTGGTTA
1 ATTTTCATGAATGACTGGTTA
25907571 ATTTT-ATGAATGACTGGTT
1 ATTTTCATGAATGACTGGTT
25907590 GTATGTATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (21 bp):
ATTTTCATGAATGACTGGTTA
Found at i:25910507 original size:24 final size:23
Alignment explanation
Indices: 25910470--25910515 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25910460 ATAAATGGTA
25910470 TTTTAGTAATAATATAAGTATATT
1 TTTTAGTAATAATA-AAGTATATT
*
25910494 TTTTA-TAATAAATAAATTATAT
1 TTTTAGTAAT-AATAAAGTATAT
25910516 AAAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAGTAATAATAAAGTATATT
Found at i:25912294 original size:115 final size:116
Alignment explanation
Indices: 25912088--25912398 Score: 444
Period size: 115 Copynumber: 2.6 Consensus size: 116
25912078 TTGAGTCTGT
* * * * *
25912088 TTTGAGAACATTCGAGAGTCATATCTGCTACGTCCTCGATTTGTTCCTTGTAAGTACAAGGATGC
1 TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCG---TGTCCCTTGTAAGCACAAGGATGC
*
25912153 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
63 CAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
*
25912207 TTTGAGAACTTTTGAGAGTCAAATCTGCTATGTCCTCG-GTCCCTTGTAAGCACAAGGATGCCAA
1 TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGTGTCCCTTGTAAGCACAAGGATGCCAA
*
25912271 ACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 ACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
* * * *
25912322 TCTGAGAACGTCTGAGAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCG---TGTCCCTTGTAAGCACAAGGATGC
*
25912387 CAAACCCTCTTG
63 CAAACCATCTTG
25912399 AGTTTGTTTA
Statistics
Matches: 175, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
115 107 0.61
119 68 0.39
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (116 bp):
TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGTGTCCCTTGTAAGCACAAGGATGCCAA
ACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACA
Found at i:25912487 original size:202 final size:198
Alignment explanation
Indices: 25912211--25912592 Score: 530
Period size: 202 Copynumber: 1.9 Consensus size: 198
25912201 GCTACATTTG
* * * * *
25912211 AGAACTTTTGAGAGTCAAATCTGCTATGTCCTCGGTCCCTTGTAAGCACAAGGATGCCAAACCAT
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGGTCCCTTGTAAACACAAGAATACCAAACCAT
* *
25912276 CTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATCTGAGAACGTCTGAGAAT
66 CTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTCTGAGAAT
* * *
25912341 CAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAGCACAAGGATGCCAAACCCTCTTGAGTTTGT
131 CAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAGTTTGT
25912406 TTA
196 TTA
* *
25912409 AGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
1 AGAACATTTGAGAGTCAAATCTGCAATGTCCTCG----GTCCCTTGTAAACACAAGAATACCAAA
** * * * * *
25912474 TGATCTTGGATCTGCTTCAGTATAAATATTTGAAGGTTAGATCTGCTACATTTAAGAACTTTTGA
62 CCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTCTGA
* * *
25912539 GAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAA
127 GAATCAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAA
25912593 TCATCTTGGA
Statistics
Matches: 158, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
198 31 0.20
202 127 0.80
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (198 bp):
AGAACATTTGAGAGTCAAATCTGCAATGTCCTCGGTCCCTTGTAAACACAAGAATACCAAACCAT
CTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTACATCTAAGAACGTCTGAGAAT
CAAATCTGCTATGTCCTCGATTTGTCCCTTGTAAACACAAGAATACCAAACCCTCTTGAGTTTGT
TTA
Found at i:25912760 original size:119 final size:118
Alignment explanation
Indices: 25912405--25912760 Score: 568
Period size: 119 Copynumber: 3.0 Consensus size: 118
25912395 CTTGAGTTTG
*
25912405 TTTAAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
25912470 CAAATGATCTTGGATCTGCTTCAGTATAAATATTTGAAGGTTAGATCTGCTACA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAA-GTTAGATCTGCTATA
*
25912524 TTTAAGAACTTTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
25912589 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTG-AAGTTAGATCTGCTATA
* * * * *
25912643 TTTGAGAACATTTGAGAGTCAAATATGCTATGTCCTCAATTTGTTCCTTGTAAACACAAGAAAAC
1 TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
25912708 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAAGTCTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGT-TAGATCTGCTAT
25912761 CTTCAATTTG
Statistics
Matches: 220, Mismatches: 15, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
118 4 0.02
119 214 0.97
120 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (118 bp):
TTTAAGAACATTTGAGAGTCATATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAATATCTGAAGTTAGATCTGCTATA
Found at i:25923552 original size:19 final size:19
Alignment explanation
Indices: 25923513--25923553 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
25923503 TATATAATAT
*
25923513 ATATAAAAAATAATAAGTA
1 ATATAAAAAATAATAACTA
25923532 ATATAAAAAATAA-AACCTA
1 ATATAAAAAATAATAA-CTA
25923551 ATA
1 ATA
25923554 AATGCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (19 bp):
ATATAAAAAATAATAACTA
Found at i:25926725 original size:29 final size:31
Alignment explanation
Indices: 25926693--25926750 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
25926683 TGTGCATCAT
*
25926693 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
25926722 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
25926751 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:25926954 original size:43 final size:42
Alignment explanation
Indices: 25926842--25926956 Score: 126
Period size: 44 Copynumber: 2.6 Consensus size: 42
25926832 TAACAGCATT
* *
25926842 GGCTAAGTAAATGGCACTATGTGTGCGATACTGATATGAGTTC
1 GGCTAA-TAAATGGCACTAAGTGTGCGATACTAATATGAGTTC
* *
25926885 GGTTTACTATAATGGCACTAAGTGTGCGATA-TAATTAT-AGCTTC
1 GG-CTAATA-AATGGCACTAAGTGTGCGATACTAA-TATGAG-TTC
25926929 GGCTAATAAATTGGCACTAAGTGTGCGA
1 GGCTAATAAA-TGGCACTAAGTGTGCGA
25926957 GTTCATTGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.03
43 29 0.48
44 30 0.49
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
GGCTAATAAATGGCACTAAGTGTGCGATACTAATATGAGTTC
Found at i:25929195 original size:91 final size:91
Alignment explanation
Indices: 25929020--25929198 Score: 209
Period size: 91 Copynumber: 2.0 Consensus size: 91
25929010 AGATCCCATG
* * *
25929020 TAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGATCTCGTATAAGACCGTGTATGGGA
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGAGCTCGTATAAGACCATATATGGGA
* *
25929085 CATGGCATAAGCGTTGATATGTGTGC
66 CATGGCATAAGCATCGATATGTGTGC
* * * * * *
25929111 TAAGACCATGTCTGGGACATGGCATTGGCCTTGACG-TGTGAGC-CAGTGTAAGACCATATTTGG
1 TAAGACCATGTCTAGGACATGGCATTGGCATCGA-GATGAGAGCTC-GTATAAGACCATATATGG
**
25929174 GACATGGCATCGGCATCGATATGTG
64 GACATGGCATAAGCATCGATATGTG
25929199 ATTTCGTGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
90 1 0.01
91 71 0.97
92 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (91 bp):
TAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGAGCTCGTATAAGACCATATATGGGA
CATGGCATAAGCATCGATATGTGTGC
Found at i:25929208 original size:48 final size:46
Alignment explanation
Indices: 25929018--25929323 Score: 165
Period size: 48 Copynumber: 6.7 Consensus size: 46
25929008 TGAGATCCCA
* * *
25929018 TGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGATCTCG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGA--TCG
* * * ** * *
25929066 TATAAGACCGTGTATGGGACATGGCATAAGCGTTGATATGTG-T-G
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCG
* * * ** *
25929110 -CTAAGACCATGTCTGGGACATGGCATTGGCCTTGACGTGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGA-TC-G
* * *
25929157 TGTAAGACCATATTTGGGACATGGCATCGGCATCGATATGTGATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGA--TCG
* * *
25929205 TGTAAGACCATGTCTGGGGCATAGCA-T--CAT---TATGAGACATCG
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG--ATCG
* * *
25929247 TGTAAGAGCATAG-CTGGG-C-T---ATTGGCATCGATACGTGATCCCA
1 TGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGTGAT--CG
* *
25929290 TGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATTGGCATC
25929324 TTATTATGTG
Statistics
Matches: 193, Mismatches: 42, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 4 0.02
41 3 0.02
42 23 0.12
43 54 0.28
44 2 0.01
45 5 0.03
47 1 0.01
48 98 0.51
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCG
Found at i:25932356 original size:7 final size:7
Alignment explanation
Indices: 25932346--25932409 Score: 51
Period size: 7 Copynumber: 9.1 Consensus size: 7
25932336 ACCTTATTTT
25932346 TATATTA
1 TATATTA
25932353 TATATTA
1 TATATTA
*
25932360 TAAAATTA
1 T-ATATTA
*
25932368 TTTTATTA
1 -TATATTA
25932376 TATATTA
1 TATATTA
*
25932383 TTTA-TA
1 TATATTA
25932389 T-TATTA
1 TATATTA
*
25932395 TTTATTA
1 TATATTA
*
25932402 TATTTTA
1 TATATTA
25932409 T
1 T
25932410 TTTTCACAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
5 2 0.04
6 6 0.13
7 28 0.61
8 9 0.20
9 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTA
Found at i:25932376 original size:16 final size:16
Alignment explanation
Indices: 25932348--25932405 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 16
25932338 CTTATTTTTA
25932348 TATTATATATTATAAAAT
1 TATT-TATATTAT-AAAT
*
25932366 TATTT-TATTATATAT
1 TATTTATATTATAAAT
* *
25932381 TATTTATATTATTATT
1 TATTTATATTATAAAT
25932397 TA-TTATATT
1 TATTTATATT
25932406 TTATTTTTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 15 0.43
16 15 0.43
17 1 0.03
18 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTATATTATAAAT
Found at i:25932392 original size:19 final size:18
Alignment explanation
Indices: 25932287--25932412 Score: 61
Period size: 18 Copynumber: 7.2 Consensus size: 18
25932277 ATATGTTTAT
25932287 TTTTATTA-TATATATATA
1 TTTTATTATTATATAT-TA
* *
25932305 TTTTATATATTGT-TAATTG
1 TTTTAT-TATTATAT-ATTA
* **
25932324 TTTTATTTTTATACCTTA
1 TTTTATTATTATATATTA
25932342 TTTT-TATATTATATATTA
1 TTTTAT-TATTATATATTA
***
25932360 TAAAATTATT-T-TATTA
1 TTTTATTATTATATATTA
*
25932376 -TATATTATT-TATATTA
1 TTTTATTATTATATATTA
* *
25932392 TTAT-TTATTATATTTTA
1 TTTTATTATTATATATTA
25932409 TTTT
1 TTTT
25932413 TCACAAATTA
Statistics
Matches: 82, Mismatches: 17, Indels: 19
0.69 0.14 0.16
Matches are distributed among these distances:
15 8 0.10
16 15 0.18
17 14 0.17
18 30 0.37
19 11 0.13
20 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATTATTATATATTA
Found at i:25932411 original size:26 final size:26
Alignment explanation
Indices: 25932339--25932429 Score: 87
Period size: 26 Copynumber: 3.4 Consensus size: 26
25932329 TTTTTATACC
*
25932339 TTATTT-TTATATTATATATTATAAAA
1 TTATTTATTATATTTTAT-TTATAAAA
* **
25932365 TTATTTTATTATATATTATTTATATTA
1 TTA-TTTATTATATTTTATTTATAAAA
*
25932392 TTATTTATTATATTTTATTTTTCACAAA
1 TTATTTATTATATTTTATTTAT-A-AAA
25932420 TTA-TTATTAT
1 TTATTTATTAT
25932430 TTTACATTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
26 20 0.38
27 20 0.38
28 13 0.25
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTTATTATATTTTATTTATAAAA
Found at i:25932623 original size:31 final size:29
Alignment explanation
Indices: 25932587--25932646 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
25932577 TTAAAATATA
25932587 TTTTATTATATAACATTTATTATGTTTTTAT
1 TTTTATTATATAACATTTATT-T-TTTTTAT
* **
25932618 TTTTATTCTATATTATTTATTTTTTTTAT
1 TTTTATTATATAACATTTATTTTTTTTAT
25932647 AGGTTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 7 0.27
30 1 0.04
31 18 0.69
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (29 bp):
TTTTATTATATAACATTTATTTTTTTTAT
Found at i:25932784 original size:15 final size:15
Alignment explanation
Indices: 25932764--25932797 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
25932754 ATTATACATA
*
25932764 TATTTAATTATTATT
1 TATTTAATTATTATG
*
25932779 TATTTATTTATTATG
1 TATTTAATTATTATG
25932794 TATT
1 TATT
25932798 ATTTCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTTAATTATTATG
Found at i:25936357 original size:29 final size:31
Alignment explanation
Indices: 25936325--25936382 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
25936315 TGTGCATCAT
*
25936325 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
25936354 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
25936383 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:25941387 original size:45 final size:45
Alignment explanation
Indices: 25941280--25941406 Score: 131
Period size: 45 Copynumber: 2.9 Consensus size: 45
25941270 TTTTCTCAAA
* * *
25941280 TCACCGGCATT-TCGCCTGCTAGGCTCG-AGGCCCG-ATATCATT
1 TCACCGACATTATAGCCTGCTAGGCTCGAAAGCCCGAATATCATT
*
25941322 TCACCGACTTTATAGCCTGCTAGGCTCGAAAGCCCGAATAGT-ATCT
1 TCACCGACATTATAGCCTGCTAGGCTCGAAAGCCCGAATA-TCAT-T
* *
25941368 T-ACCGACATTATAGTCTGCTAAGCTC-AAAGGCCCGAATA
1 TCACCGACATTATAGCCTGCTAGGCTCGAAA-GCCCGAATA
25941407 ATCAAATCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 9 0.12
43 15 0.21
44 9 0.12
45 36 0.50
46 3 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGACATTATAGCCTGCTAGGCTCGAAAGCCCGAATATCATT
Found at i:25941786 original size:43 final size:43
Alignment explanation
Indices: 25941738--25941932 Score: 354
Period size: 43 Copynumber: 4.5 Consensus size: 43
25941728 CCAGCATTAC
*
25941738 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
25941781 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAG
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
25941824 GCCTGCTAGGCGCGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
25941867 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
25941910 GCTTGCTAGGCACGAAGGCCCGA
1 GCCTGCTAGGCACGAAGGCCCGA
25941933 TTATAATACC
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.28, C:0.34, G:0.28, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:25941985 original size:38 final size:38
Alignment explanation
Indices: 25941934--25942035 Score: 150
Period size: 38 Copynumber: 2.7 Consensus size: 38
25941924 AAGGCCCGAT
* * * *
25941934 TATAATACCAGCACTAGGCCTGCGGGATTTATCTTGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCTGGA
25941972 TATAATACCAGCACGAAGCCTGCGGGATTTAACCTGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCTGGA
**
25942010 TATTTTACCAGCACGAAGCCTGCGGG
1 TATAATACCAGCACGAAGCCTGCGGG
25942036 TCTTTAAGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (38 bp):
TATAATACCAGCACGAAGCCTGCGGGATTTAACCTGGA
Found at i:25945489 original size:18 final size:18
Alignment explanation
Indices: 25945468--25945538 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
25945458 AATTTGGCAA
25945468 ATTAATATAATTCACCAT
1 ATTAATATAATTCACCAT
* * * *
25945486 ATTAATACAGTTCACTAA
1 ATTAATATAATTCACCAT
* * *
25945504 ATTAACATAGTTCGCCAT
1 ATTAATATAATTCACCAT
*
25945522 AATAATATAATTCACCA
1 ATTAATATAATTCACCA
25945539 AGTTAACATG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (18 bp):
ATTAATATAATTCACCAT
Found at i:25945536 original size:36 final size:36
Alignment explanation
Indices: 25945465--25945547 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
25945455 CACAATTTGG
* * *
25945465 CAAATTAATATAATTCACCATATTAATACAGTTCAC
1 CAAATTAACATAATTCACCATAATAATACAATTCAC
* * * *
25945501 TAAATTAACATAGTTCGCCATAATAATATAATTCAC
1 CAAATTAACATAATTCACCATAATAATACAATTCAC
*
25945537 CAAGTTAACAT
1 CAAATTAACAT
25945548 GGTTTACAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.33
Consensus pattern (36 bp):
CAAATTAACATAATTCACCATAATAATACAATTCAC
Found at i:25946070 original size:22 final size:22
Alignment explanation
Indices: 25946045--25946088 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
25946035 TTACAGCTAC
25946045 GGCCTGTCTATTTTATTCCTAT
1 GGCCTGTCTATTTTATTCCTAT
25946067 GGCCTGTCTATTTTATTCCTAT
1 GGCCTGTCTATTTTATTCCTAT
25946089 AACTACATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.50
Consensus pattern (22 bp):
GGCCTGTCTATTTTATTCCTAT
Found at i:25950209 original size:28 final size:28
Alignment explanation
Indices: 25950177--25950233 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
25950167 CGGACATCGC
25950177 TGTTTTATTTTATATCTTTTTGTTGCAG
1 TGTTTTATTTTATATCTTTTTGTTGCAG
25950205 TGTTTTATTTTATATCTTTTTGTTGCAG
1 TGTTTTATTTTATATCTTTTTGTTGCAG
25950233 T
1 T
25950234 ATTTCCAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.65
Consensus pattern (28 bp):
TGTTTTATTTTATATCTTTTTGTTGCAG
Found at i:25961979 original size:26 final size:26
Alignment explanation
Indices: 25961950--25962002 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
25961940 AAAAACTTCA
25961950 AAAATTAATAAAATATATTTAAAATT
1 AAAATTAATAAAATATATTTAAAATT
*
25961976 AAAATTAATAAAATATATTTAACATT
1 AAAATTAATAAAATATATTTAAAATT
25962002 A
1 A
25962003 TTAATAGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATTAATAAAATATATTTAAAATT
Found at i:25962780 original size:20 final size:21
Alignment explanation
Indices: 25962740--25962786 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
25962730 TTTGTAATAT
*
25962740 TTTTATTAATTTTTTAAATAAC
1 TTTTATTAA-TTTTAAAATAAC
*
25962762 TTTTATTAA-TTTAAAATAAT
1 TTTTATTAATTTTAAAATAAC
25962782 TTTTA
1 TTTTA
25962787 AATTTCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
22 9 0.39
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTATTAATTTTAAAATAAC
Found at i:25963853 original size:50 final size:50
Alignment explanation
Indices: 25963745--25963868 Score: 205
Period size: 49 Copynumber: 2.5 Consensus size: 50
25963735 GAAAGAATGT
* *
25963745 TTTATTTTTTTATGAAATTTATTTGTCTTGTGTGTTTTAGGTTTATTAAA
1 TTTATTTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAAA
* *
25963795 TTTA-TTTTTTATGTAAGTTATTTGTCATGTGTGTTTTAGGTTTATTAGA
1 TTTATTTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAAA
25963844 TTTATTTTTTTATGTAATTTATTTG
1 TTTATTTTTTTATGTAATTTATTTG
25963869 GAATTTGTGA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
49 45 0.66
50 23 0.34
ACGTcount: A:0.21, C:0.02, G:0.15, T:0.63
Consensus pattern (50 bp):
TTTATTTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAAA
Found at i:25965407 original size:14 final size:14
Alignment explanation
Indices: 25965388--25965415 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25965378 TTTTTCCAAT
25965388 GATACTATTCTAAC
1 GATACTATTCTAAC
25965402 GATACTATTCTAAC
1 GATACTATTCTAAC
25965416 ATGTAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
GATACTATTCTAAC
Found at i:25966620 original size:36 final size:36
Alignment explanation
Indices: 25966580--25966656 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
25966570 CTGTGTATGT
* *
25966580 ATTAAGAGAAGATAAGTTACAATTTCACATTAAAAC
1 ATTAAGAAAAGATAAGTTACAATTTCACACTAAAAC
*
25966616 ATTAAGAAAAGATAAGTTACAATTTCGCACTAAAAC
1 ATTAAGAAAAGATAAGTTACAATTTCACACTAAAAC
25966652 ATTAA
1 ATTAA
25966657 AACATATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (36 bp):
ATTAAGAAAAGATAAGTTACAATTTCACACTAAAAC
Found at i:25970523 original size:26 final size:26
Alignment explanation
Indices: 25970505--25970562 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
25970495 CCCGATATAT
25970505 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* ** *
25970531 GGCTCTTTGTGAGCTTCCTAATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
25970557 GGCTCT
1 GGCTCT
25970563 CTAGAGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:25972510 original size:47 final size:45
Alignment explanation
Indices: 25972409--25972579 Score: 202
Period size: 47 Copynumber: 3.7 Consensus size: 45
25972399 TATACGTGCT
* * *
25972409 GATGCATGTCCCAGACATGTCTTACACTAGCA-CAACTCTTAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTGAGCC
* * *
25972453 GATGCGTGTCCCAAACACGTCTTACACTGGCTATCATCGTC-GAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ATCATC-TCTGA-GCC
* *
25972500 GATGCATGTCCCAGACATGTCTTACACTGGCACTCGTCTCTGTGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCA-TCATCTCTGAGCC
25972546 GATGCCATGTCCCAGACATGGTCTTACACTGGCA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCA
25972580 CATAAGAAGT
Statistics
Matches: 108, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
44 27 0.25
45 1 0.01
46 14 0.13
47 52 0.48
48 14 0.13
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.25
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCATCATCTCTGAGCC
Found at i:25973720 original size:50 final size:50
Alignment explanation
Indices: 25973661--25973765 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
25973651 TTACATGACT
*
25973661 AATACTACCTTAATAATAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
25973711 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
1 AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
25973761 -ATACT
1 AATACT
25973766 CACATTAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 5 0.09
50 49 0.91
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (50 bp):
AATACTACCTTAATAACAAGCCAATGCCTTTGGCTAAATCATAATATTAC
Found at i:25974834 original size:114 final size:114
Alignment explanation
Indices: 25974634--25974868 Score: 461
Period size: 114 Copynumber: 2.1 Consensus size: 114
25974624 GTGAAAATAG
25974634 ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
1 ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
25974699 TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
66 TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
*
25974748 ACTCATTAAGCTTTAATCCCATATTTTATTCTGCCTCTAACTCATTTTCCACTATTTTTAGTGTA
1 ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
25974813 TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
66 TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
25974862 ACTCATT
1 ACTCATT
25974869 CATGGTCATT
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 120 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (114 bp):
ACTCATTAAGCTTTAATCCCATATTTTATTCTACCTCTAACTCATTTTCCACTATTTTTAGTGTA
TTTTCAAAGTTACACTACTGCAGTAACTCAAATCTGTCAAGGCTAAGTT
Found at i:25975705 original size:20 final size:18
Alignment explanation
Indices: 25975671--25975707 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25975661 GCAACTCATA
25975671 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
25975689 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
25975708 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:25976523 original size:164 final size:164
Alignment explanation
Indices: 25976252--25976575 Score: 603
Period size: 164 Copynumber: 2.0 Consensus size: 164
25976242 AGTCCTTTTT
*
25976252 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACAAAAATTTACATGCACTTATAAAATTATAT
1 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACAAAAATTTACATACACTTATAAAATTATAT
25976317 TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTAT
66 TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTAT
*
25976382 TCTGACTAGGCCCAAAATCGGGCTGTTACATTTA
131 TCTAACTAGGCCCAAAATCGGGCTGTTACATTTA
*
25976416 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACCAAAATTTACATACACTTATAAAATTATAT
1 CGAAATTGGACTAGAAATCGCTAAAATTAACTTACAAAAATTTACATACACTTATAAAATTATAT
* *
25976481 TATAACACAAAATAATACTAAAATAATTTTCTCTGGCCTCGAAATAGTGGTCCCGAAACTACTGT
66 TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTAT
25976546 TCTAACTAGGCCCAAAATCGGGCTGTTACA
131 TCTAACTAGGCCCAAAATCGGGCTGTTACA
25976576 GGCAATCATA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 155 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (164 bp):
CGAAATTGGACTAGAAATCGCTAAAATTAACTTACAAAAATTTACATACACTTATAAAATTATAT
TATAACACAAAATAATACTAAAATAATTTTATCTGGCCTCGAAATAGTGGTCCCGAAACTACTAT
TCTAACTAGGCCCAAAATCGGGCTGTTACATTTA
Found at i:25978853 original size:18 final size:19
Alignment explanation
Indices: 25978827--25978862 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
25978817 TAAACTAAAT
*
25978827 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
25978845 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
25978863 AAATTTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:25979163 original size:12 final size:11
Alignment explanation
Indices: 25979141--25979179 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
25979131 GTTTTCTTTC
25979141 TTTCTTTTCTA
1 TTTCTTTTCTA
25979152 TTTCTATTTCTA
1 TTTCT-TTTCTA
25979164 TTTC-TTT-TA
1 TTTCTTTTCTA
25979173 TTTCTTT
1 TTTCTTT
25979180 GTTTTATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 6 0.23
10 5 0.19
11 5 0.19
12 10 0.38
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTTCTA
Found at i:25984548 original size:56 final size:56
Alignment explanation
Indices: 25984462--25984572 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
25984452 GGGCTCAAAG
*
25984462 GCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTGCAGAA
1 GCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTACAGAA
25984518 GCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTACAGA
1 GCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTACAGA
25984573 GGATGTTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (56 bp):
GCAATTAAGTTGGCTAGGGTGTTGAAATGGCCAGAAAGAAAATACTCCCTACAGAA
Found at i:25985679 original size:17 final size:19
Alignment explanation
Indices: 25985647--25985681 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25985637 AATTTGTTGA
25985647 TTTTAAAATATATTTTATT
1 TTTTAAAATATATTTTATT
25985666 TTTTAAAA-AT-TTTTAT
1 TTTTAAAATATATTTTAT
25985682 GAATTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAAAATATATTTTATT
Found at i:25994273 original size:680 final size:680
Alignment explanation
Indices: 25992973--25994336 Score: 2692
Period size: 680 Copynumber: 2.0 Consensus size: 680
25992963 CTAGGCTCGT
25992973 ATGATGAAATGCATGAATTTTATACATTACCCAAGCCTAGTCGAATGTTCTTTCCTCTTATGGCA
1 ATGATGAAATGCATGAATTTTATACATTACCCAAGCCTAGTCGAATGTTCTTTCCTCTTATGGCA
25993038 GCTCATATTTTTCCCTTATTTCACATTTCTACCACATATTTTTACACCTTTTGCAAAAAGGTCTT
66 GCTCATATTTTTCCCTTATTTCACATTTCTACCACATATTTTTACACCTTTTGCAAAAAGGTCTT
*
25993103 TTTAGGGGTTTTTCATGAAAATCACCTAGGACAAGATGTTTATCACACATCCAACTTTCATATTC
131 TTTAGGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTATCACACATCCAACTTTCATATTC
25993168 CTCCATAAAACATCAAAGAATAAGCATGTCACACATGGGTTACTTTGAAAACATGAACCTTAACT
196 CTCCATAAAACATCAAAGAATAAGCATGTCACACATGGGTTACTTTGAAAACATGAACCTTAACT
*
25993233 CAAAATATGGGTAGAAATGGAGAGAGTAAGCTACCGGGATTTCAAAAATACGAAGAACATTAAAA
261 CAAAATATGGGTAAAAATGGAGAGAGTAAGCTACCGGGATTTCAAAAATACGAAGAACATTAAAA
*
25993298 ACGGGGCTAGGGAGCACTTACTATTGAGCTTGAAAAATGAAGAAACCCTAGCTATGGTGGCTCTC
326 ACAGGGCTAGGGAGCACTTACTATTGAGCTTGAAAAATGAAGAAACCCTAGCTATGGTGGCTCTC
*
25993363 AAATTTTGGAAGCTAGGTGGAAAAGATGAGCTGGTTTTTGTCTTCATTTTCTCATTTTATTTCAT
391 AAATTTTGGAAGCTAGGTGGAAAAGATGAGCTGGTTTTTGTCTTCATTTTCCCATTTTATTTCAT
25993428 TAATTAGCCAAATGACCAAAATGCCCTTAAGCCCTTTCTTTGAAATTTTATCCATACATGCCCAT
456 TAATTAGCCAAATGACCAAAATGCCCTTAAGCCCTTTCTTTGAAATTTTATCCATACATGCCCAT
25993493 TTTTGTCCAAAACTTAGAAATTGGGAAAATTGCTCTTTAAGATCTTTTAATTAATAATCTAAAGC
521 TTTTGTCCAAAACTTAGAAATTGGGAAAATTGCTCTTTAAGATCTTTTAATTAATAATCTAAAGC
25993558 AACTTCATGCAAATTACTTCTAGAATCCAAGTTTTGCAATTTATTCAATTTGGTCCTTATTTTCC
586 AACTTCATGCAAATTACTTCTAGAATCCAAGTTTTGCAATTTATTCAATTTGGTCCTTATTTTCC
25993623 AATTGGACACCTTATTCATAGAATTTCTTC
651 AATTGGACACCTTATTCATAGAATTTCTTC
25993653 ATGATGAAATGCATGAATTTTATACATTACCCAAGCCTAGTCGAATGTTCTTTCCTCTTATGGCA
1 ATGATGAAATGCATGAATTTTATACATTACCCAAGCCTAGTCGAATGTTCTTTCCTCTTATGGCA
25993718 GCTCATATTTTTCCCTTATTTCACATTTCTACCACATATTTTTACACCTTTTGCAAAAAGGTCTT
66 GCTCATATTTTTCCCTTATTTCACATTTCTACCACATATTTTTACACCTTTTGCAAAAAGGTCTT
25993783 TTTAGGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTATCACACATCCAACTTTCATATTC
131 TTTAGGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTATCACACATCCAACTTTCATATTC
25993848 CTCCATAAAACATCAAAGAATAAGCATGTCACACATGGGTTACTTTGAAAACATGAACCTTAACT
196 CTCCATAAAACATCAAAGAATAAGCATGTCACACATGGGTTACTTTGAAAACATGAACCTTAACT
25993913 CAAAATATGGGTAAAAATGGAGAGAGTAAGCTACCGGGATTTCAAAAATACGAAGAACATTAAAA
261 CAAAATATGGGTAAAAATGGAGAGAGTAAGCTACCGGGATTTCAAAAATACGAAGAACATTAAAA
25993978 ACAGGGCTAGGGAGCACTTACTATTGAGCTTGAAAAATGAAGAAACCCTAGCTATGGTGGCTCTC
326 ACAGGGCTAGGGAGCACTTACTATTGAGCTTGAAAAATGAAGAAACCCTAGCTATGGTGGCTCTC
25994043 AAATTTTGGAAGCTAGGTGGAAAAGATGAGCTGGTTTTTGTCTTCATTTTCCCATTTTATTTCAT
391 AAATTTTGGAAGCTAGGTGGAAAAGATGAGCTGGTTTTTGTCTTCATTTTCCCATTTTATTTCAT
25994108 TAATTAGCCAAATGACCAAAATGCCCTTAAGCCCTTTCTTTGAAATTTTATCCATACATGCCCAT
456 TAATTAGCCAAATGACCAAAATGCCCTTAAGCCCTTTCTTTGAAATTTTATCCATACATGCCCAT
25994173 TTTTGTCCAAAACTTAGAAATTGGGAAAATTGCTCTTTAAGATCTTTTAATTAATAATCTAAAGC
521 TTTTGTCCAAAACTTAGAAATTGGGAAAATTGCTCTTTAAGATCTTTTAATTAATAATCTAAAGC
25994238 AACTTCATGCAAATTACTTCTAGAATCCAAGTTTTGCAATTTATTCAATTTGGTCCTTATTTTCC
586 AACTTCATGCAAATTACTTCTAGAATCCAAGTTTTGCAATTTATTCAATTTGGTCCTTATTTTCC
25994303 AATTGGACACCTTATTCATAGAATTTCTTC
651 AATTGGACACCTTATTCATAGAATTTCTTC
25994333 ATGA
1 ATGA
25994337 AACTTTAACA
Statistics
Matches: 680, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
680 680 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (680 bp):
ATGATGAAATGCATGAATTTTATACATTACCCAAGCCTAGTCGAATGTTCTTTCCTCTTATGGCA
GCTCATATTTTTCCCTTATTTCACATTTCTACCACATATTTTTACACCTTTTGCAAAAAGGTCTT
TTTAGGGGTTTTTCATGAAAATCACCTAGGAAAAGATGTTTATCACACATCCAACTTTCATATTC
CTCCATAAAACATCAAAGAATAAGCATGTCACACATGGGTTACTTTGAAAACATGAACCTTAACT
CAAAATATGGGTAAAAATGGAGAGAGTAAGCTACCGGGATTTCAAAAATACGAAGAACATTAAAA
ACAGGGCTAGGGAGCACTTACTATTGAGCTTGAAAAATGAAGAAACCCTAGCTATGGTGGCTCTC
AAATTTTGGAAGCTAGGTGGAAAAGATGAGCTGGTTTTTGTCTTCATTTTCCCATTTTATTTCAT
TAATTAGCCAAATGACCAAAATGCCCTTAAGCCCTTTCTTTGAAATTTTATCCATACATGCCCAT
TTTTGTCCAAAACTTAGAAATTGGGAAAATTGCTCTTTAAGATCTTTTAATTAATAATCTAAAGC
AACTTCATGCAAATTACTTCTAGAATCCAAGTTTTGCAATTTATTCAATTTGGTCCTTATTTTCC
AATTGGACACCTTATTCATAGAATTTCTTC
Found at i:25996585 original size:10 final size:10
Alignment explanation
Indices: 25996559--25996588 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
25996549 CATTCCGAAG
*
25996559 TATATATATA
1 TATATACATA
25996569 TATATACATA
1 TATATACATA
25996579 TATATACATA
1 TATATACATA
25996589 AGTATGCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TATATACATA
Found at i:25997103 original size:28 final size:28
Alignment explanation
Indices: 25997063--25997214 Score: 261
Period size: 28 Copynumber: 5.5 Consensus size: 28
25997053 TAAATTGTAC
25997063 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
25997091 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
25997119 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
25997147 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
25997175 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
25997202 AGCACTGAGTGTG
1 AGCACTAAGTGTG
25997215 TGGACTTAAT
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 98 0.82
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:26004960 original size:12 final size:12
Alignment explanation
Indices: 26004943--26004968 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26004933 TATTCCGAAG
26004943 TATATATATACA
1 TATATATATACA
26004955 TATATATATACA
1 TATATATATACA
26004967 TA
1 TA
26004969 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:26005483 original size:28 final size:28
Alignment explanation
Indices: 26005443--26005596 Score: 258
Period size: 28 Copynumber: 5.5 Consensus size: 28
26005433 TAAATTGTAC
26005443 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
26005471 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
26005499 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
26005527 AGCACTAAGTGTGCGAGTTTGATTAAT-T
1 AGCACTAAGTGTGCGAGTTTGATT-ATGT
*
26005555 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
26005582 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26005597 GACTTAATAT
Statistics
Matches: 121, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
26 2 0.02
27 21 0.17
28 96 0.79
29 2 0.02
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:26008798 original size:17 final size:17
Alignment explanation
Indices: 26008764--26008806 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
26008754 TTTATTTTTT
**
26008764 CTTCTTTCATTTTTTTC
1 CTTCTTTCATTTCCTTC
*
26008781 CTTCTTTCCTTTCCTTC
1 CTTCTTTCATTTCCTTC
26008798 CTCTCTTTC
1 CT-TCTTTC
26008807 TCCCTCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (17 bp):
CTTCTTTCATTTCCTTC
Found at i:26010538 original size:29 final size:28
Alignment explanation
Indices: 26010483--26010546 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
26010473 ATATTACATA
* *
26010483 AATTTATAATTTTATAATTTTATATTTT
1 AATTTATAATTATATAATTTGATATTTT
26010511 AATTCTATAATTATATATATTTGA-A-TTT
1 AATT-TATAATTATATA-ATTTGATATTTT
*
26010539 ATTTTATA
1 AATTTATA
26010547 TAAATAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 4 0.13
28 10 0.32
29 12 0.39
30 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (28 bp):
AATTTATAATTATATAATTTGATATTTT
Found at i:26010548 original size:21 final size:23
Alignment explanation
Indices: 26010490--26010537 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
26010480 ATAAATTTAT
* *
26010490 AATTTTATAATT-T-TATATTTT
1 AATTCTATAATTATATATATTTG
26010511 AATTCTATAATTATATATATTTG
1 AATTCTATAATTATATATATTTG
26010534 AATT
1 AATT
26010538 TATTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 1 0.04
23 11 0.48
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
AATTCTATAATTATATATATTTG
Found at i:26020504 original size:26 final size:26
Alignment explanation
Indices: 26020475--26020553 Score: 140
Period size: 26 Copynumber: 3.0 Consensus size: 26
26020465 TACAAATTGG
26020475 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
* *
26020501 TAATGAGTTAGGTAAATGTTTCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
26020527 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
26020553 T
1 T
26020554 GGGAATTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TAATGGGTTAGGTAAATGTTCCATGA
Found at i:26022228 original size:27 final size:26
Alignment explanation
Indices: 26022170--26022301 Score: 126
Period size: 27 Copynumber: 4.9 Consensus size: 26
26022160 AGGAAGCGTC
* *
26022170 CTGGTGGATATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC-AA-TATCTGAT
*
26022198 CTGGTGGCTCTACCACATATATCT-AT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
26022224 CCTGGTGGC-ATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAA-TATCTGAT
26022251 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* *
26022278 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
26022302 GCAGCCTCTC
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
25 1 0.01
26 28 0.31
27 46 0.52
28 14 0.16
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:26022246 original size:26 final size:27
Alignment explanation
Indices: 26022170--26022283 Score: 128
Period size: 27 Copynumber: 4.2 Consensus size: 27
26022160 AGGAAGCGTC
*
26022170 CTGGTGGATATGCCACAAATTATCTGAT
1 CTGGTGGCTATGCCAC-AATTATCTGAT
* *
26022198 CTGGTGGCTCTACCAC-ATATATCT-AT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
26022224 CCTGGTGGC-ATGCCACAATTATCTGAT
1 -CTGGTGGCTATGCCACAATTATCTGAT
*
26022251 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
26022278 CTGGTG
1 CTGGTG
26022284 ACTTCGTCAC
Statistics
Matches: 74, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
26 28 0.38
27 33 0.45
28 13 0.18
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:26022283 original size:53 final size:55
Alignment explanation
Indices: 26022168--26022273 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 55
26022158 GGAGGAAGCG
*
26022168 TCCTGGTGGATATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTA
1 TCCTGGTGGACATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTA
*
26022223 TCCTGGTGG-CATGCCAC-AATTATCTGATCTGGTGGCTCTGCCACA-ATATCT
1 TCCTGGTGGACATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCT
26022274 GTATCTGGTG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
52 6 0.12
53 27 0.55
54 7 0.14
55 9 0.18
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (55 bp):
TCCTGGTGGACATGCCACAAATTATCTGATCTGGTGGCTCTACCACATATATCTA
Found at i:26023779 original size:29 final size:29
Alignment explanation
Indices: 26023734--26023792 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
26023724 GAAATGTATG
26023734 CGCAAAAACTTACGTAACTCTACTAGTGC
1 CGCAAAAACTTACGTAACTCTACTAGTGC
*
26023763 CGCAAAAACTTATGTAACTCTACTAGTGC
1 CGCAAAAACTTACGTAACTCTACTAGTGC
26023792 C
1 C
26023793 ATCTATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (29 bp):
CGCAAAAACTTACGTAACTCTACTAGTGC
Found at i:26027311 original size:16 final size:18
Alignment explanation
Indices: 26027276--26027312 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
26027266 TTTTCTTTTT
*
26027276 TTTATATAAAATTTAAAA
1 TTTATATAAAATTGAAAA
26027294 TTTA-ATAAAA-TGAAAA
1 TTTATATAAAATTGAAAA
26027310 TTT
1 TTT
26027313 CACCTATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTATATAAAATTGAAAA
Found at i:26031678 original size:26 final size:26
Alignment explanation
Indices: 26031579--26031665 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
26031569 TTTTAGTAGG
* *
26031579 ATTATTATTAAAAATAATTTAATAAAA
1 ATTATTATTAAATATAATTTAAT-ATA
* * ** *
26031606 ATAAATAATTTAACCATATTTTAATATA
1 AT-TATTA-TTAAATATAATTTAATATA
26031634 ATTATTATTAAATATAATTTAATATA
1 ATTATTATTAAATATAATTTAATATA
26031660 ATTATT
1 ATTATT
26031666 TTTATATTAA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
26 22 0.47
27 5 0.11
28 7 0.15
29 13 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTATTATTAAATATAATTTAATATA
Found at i:26031754 original size:34 final size:34
Alignment explanation
Indices: 26031665--26031741 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
26031655 ATATAATTAT
* *
26031665 TTTTATATTAAATTATATTAAAATGTTTAAAATA
1 TTTTATTTTAAATTATATTAAAATATTTAAAATA
*
26031699 TTTTATTTTAAATTATATTAAAATATTTTAAATA
1 TTTTATTTTAAATTATATTAAAATATTTAAAATA
26031733 TTTTATTTT
1 TTTTATTTT
26031742 TATATTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (34 bp):
TTTTATTTTAAATTATATTAAAATATTTAAAATA
Found at i:26033798 original size:17 final size:18
Alignment explanation
Indices: 26033776--26033809 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26033766 GTAATTGTAA
26033776 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
26033793 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
26033810 CACAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:26039824 original size:22 final size:21
Alignment explanation
Indices: 26039783--26039839 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
26039773 ATAAAATTGG
* *
26039783 AATATTAAATAATTTTATTAA
1 AATAATAAATTATTTTATTAA
*
26039804 AATAATAAATTATATTTATTAT
1 AATAATAAATTAT-TTTATTAA
* *
26039826 ATTAATAATTTATT
1 AATAATAAATTATT
26039840 ATATGACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATAAATTATTTTATTAA
Done.