Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 91 of 425
Found at i:26307207 original size:81 final size:81
Alignment explanation
Indices: 26307098--26307253 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
26307088 AAAAGTCAAG
* ** * *
26307098 GGTATTTATGTAATTTTTTAAATTAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTTGG
1 GGTATTTAGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGG
*
26307162 TAATTTCACAAACCATT
65 TAATTTAACAAACCATT
* *
26307179 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGTTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTAGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
26307244 AATTTAACAA
66 AATTTAACAA
26307254 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
81 64 0.97
82 2 0.03
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (81 bp):
GGTATTTAGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
AATTTAACAAACCATT
Found at i:26307297 original size:27 final size:27
Alignment explanation
Indices: 26307252--26307392 Score: 176
Period size: 27 Copynumber: 5.2 Consensus size: 27
26307242 GTAATTTAAC
* *
26307252 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
26307279 AA-CTGAAGGTAAAATGGTAATTTTTTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
26307306 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * *
26307333 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
26307360 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
26307387 AATCGA
1 AATCGA
26307393 AGGCATTTCA
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 98 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:26309230 original size:43 final size:42
Alignment explanation
Indices: 26309182--26309310 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 42
26309172 TAGGATTTCT
* * *
26309182 GATATGTGTTCTCGTGTAAGACCACGTCTGGGACATTGGGATC
1 GATATGTGTT-TCGTGTAAGACCATGTCTGGGACATCGGCATC
* *
26309225 GATATGTGATTTCGAGTAAGACCATGTTTGGGACATCGGCATC
1 GATATGTG-TTTCGTGTAAGACCATGTCTGGGACATCGGCATC
* *
26309268 G-TAATTGTGATTCGTGTAAGACCTTGTCTGGGACAGT-GGCATC
1 GAT-A-TGTGTTTCGTGTAAGACCATGTCTGGGACA-TCGGCATC
26309311 AACATGTGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
42 1 0.01
43 65 0.89
44 7 0.10
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (42 bp):
GATATGTGTTTCGTGTAAGACCATGTCTGGGACATCGGCATC
Found at i:26309340 original size:43 final size:40
Alignment explanation
Indices: 26309196--26309341 Score: 114
Period size: 43 Copynumber: 3.4 Consensus size: 40
26309186 TGTGTTCTCG
* *
26309196 TGTAAGACCACGTCTGGGACATTGGGATCGATATGTGATTTCGA
1 TGTAAGACCACGTCTGGGACA-TGGCATC-AAATGTGA-TTC-A
* * * *
26309240 -GTAAGACCATGTTTGGGACATCGGCATCGTAATTGTGATTCG
1 TGTAAGACCACGTCTGGGACAT-GGCATC--AAATGTGATTCA
**
26309282 TGTAAGACCTTGTCTGGGACAGTGGCATCAACATGTGATTACA
1 TGTAAGACCACGTCTGGGACA-TGGCATCAA-ATGTGATT-CA
*
26309325 TGCAAGACCACGTCTGG
1 TGTAAGACCACGTCTGG
26309342 AACGTTGGCA
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 8 0.10
43 65 0.79
44 7 0.09
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (40 bp):
TGTAAGACCACGTCTGGGACATGGCATCAAATGTGATTCA
Found at i:26310599 original size:15 final size:16
Alignment explanation
Indices: 26310572--26310601 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26310562 ATGGTTATGT
26310572 TTAATTGTGGTTTTGA
1 TTAATTGTGGTTTTGA
26310588 TTAATT-TGGTTTTG
1 TTAATTGTGGTTTTG
26310602 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (16 bp):
TTAATTGTGGTTTTGA
Found at i:26311984 original size:2 final size:2
Alignment explanation
Indices: 26311977--26312002 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26311967 GTTTGAATGA
26311977 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26312003 GTGATGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26317727 original size:20 final size:20
Alignment explanation
Indices: 26317684--26317731 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
26317674 ACTATTTTGT
26317684 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
26317704 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
26317723 TAT-GGCCAA
1 TATGGGCCAA
26317732 GGCCCAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 9 0.36
20 12 0.48
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:26320000 original size:43 final size:43
Alignment explanation
Indices: 26319952--26320122 Score: 161
Period size: 43 Copynumber: 4.0 Consensus size: 43
26319942 TAGGATTTCT
26319952 GATATGTG-TTCTCGTGTAAGACCACGTCTGGGACATTGGCATC
1 GATATGTGATT-TCGTGTAAGACCACGTCTGGGACATTGGCATC
* * * *
26319995 GATATGTAATTTCGAGTAAGACCATGTCTGGGACATCGGCATC
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
* * * *
26320038 G-TAATTGTGATTT-GTGTAAGACC-CTGTTTAGGATAGTGGCATC
1 GAT-A-TGTGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATC
* * * * *
26320081 GACATGTGATTACATGTAAGACCACTTCTGGGACGTTGGCAT
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
26320123 TGTACGATAT
Statistics
Matches: 100, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
42 8 0.08
43 82 0.82
44 10 0.10
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
GATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
Found at i:26321117 original size:22 final size:22
Alignment explanation
Indices: 26321092--26321136 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
26321082 TAAGCTAAGA
*
26321092 TAGCTTACTCTGTGTGTGTATT
1 TAGCTTACTCTGTATGTGTATT
26321114 TAGCTTACTCTGTATGTGTATT
1 TAGCTTACTCTGTATGTGTATT
26321136 T
1 T
26321137 TTACTTCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.13, G:0.20, T:0.51
Consensus pattern (22 bp):
TAGCTTACTCTGTATGTGTATT
Found at i:26322651 original size:53 final size:53
Alignment explanation
Indices: 26322539--26322680 Score: 133
Period size: 53 Copynumber: 2.6 Consensus size: 53
26322529 CAGAAATCAT
* * * * * * * *
26322539 GTAAGACCATGTCAAGACATGGCATTGATAAACTACAATAAGGCAAAGATCCCAT
1 GTAAGACCATGGCAAGACATTGCAATGGT-AAGTTC-ATAAGGCAAAGATACCAC
* * *
26322594 GTAAGACCATGGCAAGGCA-TGACAATGGTGAGTTCATAAGGCAAGGATACCAC
1 GTAAGACCATGGCAAGACATTG-CAATGGTAAGTTCATAAGGCAAAGATACCAC
* *
26322647 GTAAGACCGTGTCAAGACATTGCAATGGTAAGTT
1 GTAAGACCATGGCAAGACATTGCAATGGTAAGTT
26322681 TAAAAAGGAA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
53 42 0.60
54 6 0.09
55 22 0.31
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
GTAAGACCATGGCAAGACATTGCAATGGTAAGTTCATAAGGCAAAGATACCAC
Found at i:26331141 original size:53 final size:53
Alignment explanation
Indices: 26330964--26331170 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
26330954 ATTAGGGTTT
* * * * * *
26330964 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
26331018 AAGGAAATCATGTAAGACTATGTCAAGACATAGCATTGATAAAGTATGATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGT-TCATAAGGC
* * * *
26331073 AAAGATCCCATGTAAGACCATG-CTAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATGGTAAGTTCATAAGGC
*
26331126 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
26331171 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 26, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
53 46 0.37
54 38 0.31
55 39 0.32
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:26339666 original size:43 final size:42
Alignment explanation
Indices: 26339590--26339749 Score: 164
Period size: 42 Copynumber: 3.8 Consensus size: 42
26339580 CACACCAATT
* * *
26339590 CCATATCCCAGATATGGTCTTATATG-GGATCTCTTATCGATG
1 CCATATCCCAGATATGGTCTTACACGAAG-TCTCTTATCGATG
* * *
26339632 CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCTTTTCGATG
1 CC-ATATCCCAGATATGGTCTTACACGAAGTCTCTTATCGATG
* ** * *
26339675 CCATATCCTAGATATGGTCTTACACGTAA-TCTAATATTGATT
1 CCATATCCCAGATATGGTCTTACACG-AAGTCTCTTATCGATG
26339717 CCATATCCCAGATATGGTCTTACAC-ATAGTCTC
1 CCATATCCCAGATATGGTCTTACACGA-AGTCTC
26339750 AGTAACCCTA
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 58 0.60
43 36 0.37
44 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACGAAGTCTCTTATCGATG
Found at i:26341446 original size:46 final size:46
Alignment explanation
Indices: 26341379--26341550 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
26341369 AACCCGCCGC
* * * *
26341379 TAAGTGAACTTGGAATCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * * *
26341425 TAAGTGAAATCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* * * * * *
26341473 TCA-CGAACTCGAACTCAACTCAACGAGTTAGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
26341518 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
26341551 ATGCTCAACC
Statistics
Matches: 97, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 55 0.57
47 25 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:26342006 original size:30 final size:30
Alignment explanation
Indices: 26341972--26342031 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
26341962 ATTTAATATG
26341972 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
26342002 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
26342032 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:26347850 original size:3 final size:3
Alignment explanation
Indices: 26347839--26347893 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
26347829 TTAAAAAAAT
26347839 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26347886 TTA TTA TT
1 TTA TTA TT
26347894 TTAATGTCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:26349377 original size:49 final size:48
Alignment explanation
Indices: 26349214--26349481 Score: 192
Period size: 49 Copynumber: 5.6 Consensus size: 48
26349204 TATGTGTGCT
* * * * * *
26349214 AGTGTAAGACATGTCTGGGACAT-GCATCGGTCTCGAGATATACA-AGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GACCCGATAGATA-AGAGCC
* ** * * *
26349262 AGTGTAAGACCTGTCTGGGACATGGCATC-AGCTTATTG-T--GTGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATAAGAGCC
26349306 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATAAGAGCC
* * * *
26349355 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATAAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-CGATAGATAAGAGCC
* * * * ** ***
26349404 ACTGTAAGACCTGTCTAGGACATGGCCTTGACTTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CCGATAGATAAGAGCC
*
26349451 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
26349482 GCATCTTATT
Statistics
Matches: 173, Mismatches: 37, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
44 30 0.17
45 1 0.01
46 5 0.03
47 16 0.09
48 40 0.23
49 81 0.47
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCCGATAGATAAGAGCC
Found at i:26349377 original size:93 final size:92
Alignment explanation
Indices: 26349206--26349383 Score: 245
Period size: 93 Copynumber: 1.9 Consensus size: 92
26349196 TTGGGTGATA
* * * *
26349206 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGTCTCGAGATATACAAGCTAGTGTAAGA
1 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGACCCGAGAGATACAAGCCAGTGTAAGA
26349271 CCTGTCTGGGACATGGCATCAGCTTAT
66 CCTGTCTGGGACATGGCATCAGCTTAT
* *
26349298 TGTGTG-TCAGTGTAAGACCTGTCTGGGACATGGCATC-GACACCGATAGATA-AGAGCCAGTGT
1 TGTGTGCT-AGTGTAAGACATGTCTGGGACAT-GCATCGGAC-CCGAGAGATACA-AGCCAGTGT
26349360 AAGACCTGTCTGGGACATGGCATC
62 AAGACCTGTCTGGGACATGGCATC
26349384 GGCCTCGATA
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
91 1 0.01
92 31 0.41
93 44 0.58
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (92 bp):
TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGACCCGAGAGATACAAGCCAGTGTAAGA
CCTGTCTGGGACATGGCATCAGCTTAT
Found at i:26352400 original size:68 final size:67
Alignment explanation
Indices: 26352287--26352422 Score: 254
Period size: 68 Copynumber: 2.0 Consensus size: 67
26352277 ATTGCATTCA
*
26352287 TAAATAATTCTTTTCACAGTCCCGTGGGTATGATAACTCGACATTTACTTGTGACTTTATTACTT
1 TAAATAATTCTTTTCACAGTCCCGTGGGTATGATAACTCGACATTTACTTGTCACTTTATTACTT
26352352 GC
66 GC
26352354 TAAATAATTCTTTTCACAGTCCCTGTGGGTATGATAACTCGACATTTACTTGTCACTTTATTACT
1 TAAATAATTCTTTTCACAGTCCC-GTGGGTATGATAACTCGACATTTACTTGTCACTTTATTACT
26352419 TGC
65 TGC
26352422 T
1 T
26352423 GCGATTGTGT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
67 23 0.34
68 44 0.66
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (67 bp):
TAAATAATTCTTTTCACAGTCCCGTGGGTATGATAACTCGACATTTACTTGTCACTTTATTACTT
GC
Found at i:26353897 original size:39 final size:39
Alignment explanation
Indices: 26353843--26353922 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
26353833 GGTATACCTG
* *
26353843 CTTAAGTCCATAAATGAATCTTAGCAATTTGTAAGCTTT
1 CTTAAGTCCATAAATGAATATTAGCAATTTGCAAGCTTT
26353882 CTTAAGTCCATAAATGAATATTAGCAATTTGCAAGCTTT
1 CTTAAGTCCATAAATGAATATTAGCAATTTGCAAGCTTT
26353921 CT
1 CT
26353923 ACTCTTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (39 bp):
CTTAAGTCCATAAATGAATATTAGCAATTTGCAAGCTTT
Found at i:26370451 original size:4 final size:4
Alignment explanation
Indices: 26370442--26370481 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
26370432 ACACCAACTT
26370442 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
26370482 GAAATATGGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:26374952 original size:31 final size:31
Alignment explanation
Indices: 26374914--26374975 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
26374904 TGTAAGCCAA
26374914 GACAAAACTTTATTTTTCCAATATCTTTCAT
1 GACAAAACTTTATTTTTCCAATATCTTTCAT
26374945 GACAAAACTTTATTTTTCCAATATCTTTCAT
1 GACAAAACTTTATTTTTCCAATATCTTTCAT
26374976 CTCAAATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.03, T:0.45
Consensus pattern (31 bp):
GACAAAACTTTATTTTTCCAATATCTTTCAT
Found at i:26379088 original size:22 final size:22
Alignment explanation
Indices: 26379063--26379104 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
26379053 TTCATAACAA
26379063 TTATATATATATATATATTTGT
1 TTATATATATATATATATTTGT
* *
26379085 TTATTTATATTTATATATTT
1 TTATATATATATATATATTT
26379105 ATTTGCTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATATATATATATATATTTGT
Found at i:26379095 original size:14 final size:14
Alignment explanation
Indices: 26379068--26379106 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
26379058 AACAATTATA
*
26379068 TATATATATATATT
1 TATATATTTATATT
* *
26379082 TGTTTATTTATATT
1 TATATATTTATATT
26379096 TATATATTTAT
1 TATATATTTAT
26379107 TTGCTAACGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TATATATTTATATT
Found at i:26379211 original size:6 final size:6
Alignment explanation
Indices: 26379202--26379236 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
26379192 TTTTTATTTG
26379202 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
26379237 TAAATTAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:26379344 original size:86 final size:85
Alignment explanation
Indices: 26379232--26379394 Score: 254
Period size: 86 Copynumber: 1.9 Consensus size: 85
26379222 AATAAAAATA
* * *
26379232 AAAATTAAATTAAATCTATTTCGGGATTTATCCCCGCCGTTCAACAGATTTTATTCCATCTTTGA
1 AAAATTAAATAAAATCTATTTCGGGATTTATCCCCGCCATTCAACAGATTTTATTCAAT-TTTGA
26379297 TTTTGTTTCCAAACGAGTATT
65 TTTTGTTTCCAAACGAGTATT
* * * *
26379318 AAAATTAAATAAAATCTATTTTGGGATTTATTCCCGCCATTTAATAGATTTTATTCAATTTTGAT
1 AAAATTAAATAAAATCTATTTCGGGATTTATCCCCGCCATTCAACAGATTTTATTCAATTTTGAT
26379383 TTTGTTTCCAAA
66 TTTGTTTCCAAA
26379395 TGAGAAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 18 0.26
86 52 0.74
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (85 bp):
AAAATTAAATAAAATCTATTTCGGGATTTATCCCCGCCATTCAACAGATTTTATTCAATTTTGAT
TTTGTTTCCAAACGAGTATT
Found at i:26383033 original size:20 final size:20
Alignment explanation
Indices: 26383010--26383047 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
26383000 ATTTGATTCC
26383010 AATCAAATTGATTTAATTTT
1 AATCAAATTGATTTAATTTT
26383030 AATCAAATTGATTTAATT
1 AATCAAATTGATTTAATT
26383048 GCTCATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
AATCAAATTGATTTAATTTT
Found at i:26383502 original size:22 final size:22
Alignment explanation
Indices: 26383477--26383527 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
26383467 TTATTCAATT
26383477 TATTTTATTT-TATATATATAAA
1 TATTTT-TTTATATATATATAAA
* * *
26383499 TATTTTTTTATTTATATTTATA
1 TATTTTTTTATATATATATAAA
26383521 TATTTTT
1 TATTTTT
26383528 CACTAACGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTTTATATATATATAAA
Found at i:26383521 original size:20 final size:20
Alignment explanation
Indices: 26383474--26383527 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
26383464 AAATTATTCA
26383474 ATTTAT-TTTATTTTATATAT
1 ATTTATATTT-TTTTATATAT
** *
26383494 ATAAATATTTTTTTATTTAT
1 ATTTATATTTTTTTATATAT
26383514 ATTTATATATTTTT
1 ATTTATAT-TTTTT
26383528 CACTAACGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTATATTTTTTTATATAT
Found at i:26387527 original size:48 final size:46
Alignment explanation
Indices: 26387467--26387685 Score: 181
Period size: 48 Copynumber: 4.6 Consensus size: 46
26387457 AGATATGTGT
*
26387467 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAA
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATA--TAA
* * * * * * *
26387515 GCCAATGTAAGACATGTCTAGGACATGCATTGGCGTTGAGACGA-GA
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-TATAA
* * *
26387561 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGATAGACAA
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAT--ATAA
* * * *
26387609 GCTAGTGTAAGACCTATCTGGGACATGGCATCGGCCTC-ACTATATGAAA
1 GCTAATGTAAGACATGTCTGGGACAT-GCATCGGCCTCGA-GATAT--AA
* *
26387658 GCGAATGTAAGACCATGTTTGGGACATG
1 GCTAATGTAAGA-CATGTCTGGGACATG
26387686 GCGTTAGTAT
Statistics
Matches: 135, Mismatches: 27, Indels: 17
0.75 0.15 0.09
Matches are distributed among these distances:
46 35 0.26
47 2 0.01
48 60 0.44
49 27 0.20
50 11 0.08
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAA
Found at i:26392805 original size:15 final size:13
Alignment explanation
Indices: 26392776--26392802 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26392766 GCTCGGCAGG
26392776 GACACGCCCGTGT
1 GACACGCCCGTGT
26392789 GACACGCCCGTGT
1 GACACGCCCGTGT
26392802 G
1 G
26392803 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:26394922 original size:48 final size:48
Alignment explanation
Indices: 26394803--26395028 Score: 230
Period size: 46 Copynumber: 4.8 Consensus size: 48
26394793 TAGATATTGG
* * * * * *
26394803 GAGATATGTGTGCTAGTGTAAGACATGTCCGAGACATGAATCGGCCAC
1 GAGATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
* *
26394851 -A-ATATGAGAGCTAGTGTGAGACATGTCTGGGACATGCATTGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
* * * *
26394897 GAGATATTTA-AGCTAGTGTAAGACATGTCTAGGACATGCATC-G-ATG
1 GAGATA-TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
* * *
26394943 GTGAGATGAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
* * *
26394991 GAGATA-GACAAGCTAGAGTAAGACCTGTCTGGGACATG
1 GAGATATGA-GAGCTAGTGTAAGACATGTCTGGGACATG
26395029 GCGTCAGCTT
Statistics
Matches: 144, Mismatches: 27, Indels: 14
0.78 0.15 0.08
Matches are distributed among these distances:
45 2 0.01
46 72 0.50
47 6 0.04
48 62 0.43
49 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (48 bp):
GAGATATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC
Found at i:26394967 original size:94 final size:94
Alignment explanation
Indices: 26394854--26395028 Score: 269
Period size: 94 Copynumber: 1.9 Consensus size: 94
26394844 CGGCCACAAT
* * *** *
26394854 ATGAGAGCTAGTGTGAGACATGTCTGGGACATGCATTGGCCTCGAGATATTTAAGCTAGTGTAAG
1 ATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAGACAAGCTAGAGTAAG
26394919 ACATGTCTAGGACATGCATCGATGGTGAG
66 ACATGTCTAGGACATGCATCGATGGTGAG
*
26394948 ATGAGAGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATAGACAAGCTAGAGTAAG
1 ATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAGACAAGCTAGAGTAAG
* *
26395013 ACCTGTCTGGGACATG
66 ACATGTCTAGGACATG
26395029 GCGTCAGCTT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.25
Consensus pattern (94 bp):
ATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAGACAAGCTAGAGTAAG
ACATGTCTAGGACATGCATCGATGGTGAG
Found at i:26395117 original size:49 final size:49
Alignment explanation
Indices: 26395054--26395175 Score: 147
Period size: 49 Copynumber: 2.5 Consensus size: 49
26395044 GTGTCAGTGC
*
26395054 AAGACCTGTTTGGGACATGGCATCGACAC-CAGTAGATGAAAGCCAATGT
1 AAGACCTGTCTGGGACATGGCATCGAC-CTCAGTAGATGAAAGCCAATGT
* * * * *
26395103 AAGACCTGTCTGGGACATGGTATCGGCCTCATTATATGAAAGCCAGTGT
1 AAGACCTGTCTGGGACATGGCATCGACCTCAGTAGATGAAAGCCAATGT
* *
26395152 AAGACCATGTCTGAGACATTGCAT
1 AAGACC-TGTCTGGGACATGGCAT
26395176 AGGCATCTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 47 0.76
50 14 0.23
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (49 bp):
AAGACCTGTCTGGGACATGGCATCGACCTCAGTAGATGAAAGCCAATGT
Found at i:26397161 original size:61 final size:61
Alignment explanation
Indices: 26397081--26397197 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
26397071 TATTAGTCTC
*
26397081 AATATTGACTGATTTAGTCTTTTCTTCTTCTGCAGGTTCCTCTGCTTCTTGTCTTTCACTA
1 AATACTGACTGATTTAGTCTTTTCTTCTTCTGCAGGTTCCTCTGCTTCTTGTCTTTCACTA
* * *
26397142 AATACTGACTGATTTAGTCTTTTCTTCTTCTGCGGGTTCCTCTTCTTTTTGTCTTT
1 AATACTGACTGATTTAGTCTTTTCTTCTTCTGCAGGTTCCTCTGCTTCTTGTCTTT
26397198 TAGTTGTAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.13, C:0.22, G:0.14, T:0.51
Consensus pattern (61 bp):
AATACTGACTGATTTAGTCTTTTCTTCTTCTGCAGGTTCCTCTGCTTCTTGTCTTTCACTA
Found at i:26399676 original size:43 final size:43
Alignment explanation
Indices: 26399628--26399714 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
26399618 CATAAGATAA
*
26399628 TGATTCATTCCATTTGCATACTTACCATTACAGTTCTTTTTCT
1 TGATTCATTCCATTTGCATACTTACCATTACACTTCTTTTTCT
26399671 TGATTCATTCCATTTGCATACTTACCATTACACTTCTTTTTCT
1 TGATTCATTCCATTTGCATACTTACCATTACACTTCTTTTTCT
26399714 T
1 T
26399715 ACCCGTTGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.24, G:0.06, T:0.49
Consensus pattern (43 bp):
TGATTCATTCCATTTGCATACTTACCATTACACTTCTTTTTCT
Found at i:26406216 original size:41 final size:42
Alignment explanation
Indices: 26406153--26406256 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 42
26406143 GATTAGTCCC
* * * *
26406153 TGCCCGTGT-CCAGACCCATGTAACTCACTGAGTTGCC-CACA
1 TGCCCGTGTGCCAG-GCCGTGTAACACACTAAGTTGCCACACA
*
26406194 TGCCCGTGTGCCAGGCCGTGTAACACTCTAAGTTGCCACACA
1 TGCCCGTGTGCCAGGCCGTGTAACACACTAAGTTGCCACACA
* * *
26406236 CGCCTGTATGCCAGGCCGTGT
1 TGCCCGTGTGCCAGGCCGTGT
26406257 GGTAGGTCGT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 27 0.51
42 26 0.49
ACGTcount: A:0.19, C:0.35, G:0.24, T:0.22
Consensus pattern (42 bp):
TGCCCGTGTGCCAGGCCGTGTAACACACTAAGTTGCCACACA
Found at i:26412500 original size:35 final size:35
Alignment explanation
Indices: 26412453--26412535 Score: 157
Period size: 35 Copynumber: 2.3 Consensus size: 35
26412443 ACATTATGCT
26412453 CAAAATATGTACATAAGCCATTTTCGCATGGCTATC
1 CAAAAT-TGTACATAAGCCATTTTCGCATGGCTATC
26412489 CAAAATTGTACATAAGCCATTTTCGCATGGCTATC
1 CAAAATTGTACATAAGCCATTTTCGCATGGCTATC
26412524 CAAAATTGTACA
1 CAAAATTGTACA
26412536 ATACCGAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 41 0.87
36 6 0.13
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (35 bp):
CAAAATTGTACATAAGCCATTTTCGCATGGCTATC
Found at i:26413106 original size:40 final size:40
Alignment explanation
Indices: 26413027--26413244 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
26413017 AAGCCAAGTA
* * * * *
26413027 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
26413066 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
26413106 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
26413146 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
26413186 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCGAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
26413226 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
26413245 TTATCATCCA
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 149 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:26418458 original size:20 final size:20
Alignment explanation
Indices: 26418422--26418459 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
26418412 GAAACCCTTG
*
26418422 GTAAATAAGAATCTTTAATA
1 GTAAATAAGAATATTTAATA
*
26418442 GTAAATAAGGATATTTAA
1 GTAAATAAGAATATTTAA
26418460 AATGCTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.13, T:0.34
Consensus pattern (20 bp):
GTAAATAAGAATATTTAATA
Found at i:26426883 original size:19 final size:19
Alignment explanation
Indices: 26426844--26426883 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
26426834 AAGTAGTCTT
*
26426844 AACATAAAATAAAAGTAAA
1 AACATAAAATAAAAATAAA
26426863 AACATAAAATAATAAATAAA
1 AACATAAAATAA-AAATAAA
26426883 A
1 A
26426884 TTTTTTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (19 bp):
AACATAAAATAAAAATAAA
Found at i:26428991 original size:55 final size:55
Alignment explanation
Indices: 26428891--26429020 Score: 152
Period size: 55 Copynumber: 2.4 Consensus size: 55
26428881 CCCGTGTTGT
* * *
26428891 TTTGGCAGGTTCGCCCAAGGTTGCTAGGCACGGGCGTGTCACACGCCCATGTTAA
1 TTTGGCAGGTTCGCCCACGGTTGCAAGGCACAGGCGTGTCACACGCCCATGTTAA
* * * * * * * **
26428946 TTTGACAGGTTCGGCCACGGTTTCAATGCACAGGCGTGTCGCACGCTCGTGTTGT
1 TTTGGCAGGTTCGCCCACGGTTGCAAGGCACAGGCGTGTCACACGCCCATGTTAA
26429001 TTTGGCAGGTTCGCCCACGG
1 TTTGGCAGGTTCGCCCACGG
26429021 CCATGTCACA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.26
Consensus pattern (55 bp):
TTTGGCAGGTTCGCCCACGGTTGCAAGGCACAGGCGTGTCACACGCCCATGTTAA
Found at i:26433800 original size:43 final size:42
Alignment explanation
Indices: 26433734--26433891 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
26433724 AGCTCGTACA
* ***
26433734 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAAATCAAATAT-G
*
26433777 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATCAAATATG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAAATCAAATATG
* * * * * * *
26433819 ATGTCGATGTTCTAGACATGGTATTACACATAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACA-AAATCA-AA-TATG
**
26433863 ATGCCAACATCCCAGAC-GTGGTCTTACAC
1 ATGCCAATGTCCCAGACAG-GGTCTTACAC
26433892 GAGAACACAT
Statistics
Matches: 90, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 24 0.27
43 42 0.47
44 23 0.26
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAAATCAAATATG
Found at i:26434279 original size:8 final size:8
Alignment explanation
Indices: 26434266--26434299 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
26434256 CAAATTAGCC
26434266 TTCACATT
1 TTCACATT
26434274 TTCACATT
1 TTCACATT
26434282 TTCACATT
1 TTCACATT
26434290 TTCACATT
1 TTCACATT
26434298 TT
1 TT
26434300 GACACTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (8 bp):
TTCACATT
Found at i:26442567 original size:34 final size:34
Alignment explanation
Indices: 26442528--26442595 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
26442518 ATGTGAAAGA
26442528 TAAAATATCATGTTAGTATATTTTAAAAAGATGG
1 TAAAATATCATGTTAGTATATTTTAAAAAGATGG
26442562 TAAAATATCATGTTAGTATATTTTAAAAAGATGG
1 TAAAATATCATGTTAGTATATTTTAAAAAGATGG
26442596 ACCAAAGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.38
Consensus pattern (34 bp):
TAAAATATCATGTTAGTATATTTTAAAAAGATGG
Found at i:26444516 original size:17 final size:19
Alignment explanation
Indices: 26444486--26444529 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
26444476 TTCCACTTTA
*
26444486 TTCTTTTTTAATTTAT-AT
1 TTCTTATTTAATTTATGAT
26444504 TTCTTATTT-ATTTATGAT
1 TTCTTATTTAATTTATGAT
26444522 TT-TTATTT
1 TTCTTATTT
26444530 GTTTTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (19 bp):
TTCTTATTTAATTTATGAT
Found at i:26444588 original size:21 final size:22
Alignment explanation
Indices: 26444546--26444588 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
26444536 TTATTTTCAA
* **
26444546 ATTTCTTCTTTTACTATTTTTG
1 ATTTCTTCTATTACTAAGTTTG
26444568 ATTTCTT-TATTACTAAGTTTG
1 ATTTCTTCTATTACTAAGTTTG
26444589 TTTATTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.63
Consensus pattern (22 bp):
ATTTCTTCTATTACTAAGTTTG
Found at i:26447863 original size:29 final size:30
Alignment explanation
Indices: 26447828--26447902 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
26447818 ATAATCGATC
**
26447828 TCGCACACTTAGTGCCATGTGATTT-AAG-T
1 TCGCACACTTAGTGCCAT-ACATTTCAAGCT
26447857 TCGCACACTTAGTGCCATACATTTCAAGCT
1 TCGCACACTTAGTGCCATACATTTCAAGCT
26447887 T-GCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
26447903 ATTCTCGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.10
29 36 0.86
30 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (30 bp):
TCGCACACTTAGTGCCATACATTTCAAGCT
Found at i:26447936 original size:15 final size:15
Alignment explanation
Indices: 26447916--26447975 Score: 111
Period size: 15 Copynumber: 4.0 Consensus size: 15
26447906 CTCGTCACCA
*
26447916 CGCACACTTATTGCC
1 CGCACACTTAGTGCC
26447931 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
26447946 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
26447961 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
26447976 GAAACCGAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.22
Consensus pattern (15 bp):
CGCACACTTAGTGCC
Found at i:26455280 original size:21 final size:21
Alignment explanation
Indices: 26455254--26455306 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
26455244 ACGGGCTATT
*
26455254 CACACGGGCGTATGCTCCTTC
1 CACACGGGCGTATACTCCTTC
26455275 CACACGGGCGTATACTCCTTC
1 CACACGGGCGTATACTCCTTC
26455296 CACACGGGCGT
1 CACACGGGCGT
26455307 GTGGGGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.38, G:0.25, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTATACTCCTTC
Found at i:26456892 original size:17 final size:18
Alignment explanation
Indices: 26456867--26456900 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26456857 TTTAATTTCT
26456867 ATTTGTTATTTATTTATG
1 ATTTGTTATTTATTTATG
*
26456885 ATTT-TTATTTGTTTAT
1 ATTTGTTATTTATTTAT
26456901 TTATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.71
Consensus pattern (18 bp):
ATTTGTTATTTATTTATG
Found at i:26457346 original size:2 final size:2
Alignment explanation
Indices: 26457339--26457376 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
26457329 AGTAAAATTC
*
26457339 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26457377 TAAGAATAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26458916 original size:14 final size:15
Alignment explanation
Indices: 26458891--26458921 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
26458881 ATTTTTTTGC
26458891 ATATACATATTTTTA
1 ATATACATATTTTTA
26458906 ATATA-ATATTTTTA
1 ATATACATATTTTTA
26458920 AT
1 AT
26458922 TTTTTGATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATACATATTTTTA
Found at i:26463605 original size:39 final size:40
Alignment explanation
Indices: 26463540--26463736 Score: 265
Period size: 40 Copynumber: 5.0 Consensus size: 40
26463530 ATATATTATA
* *
26463540 TATATCCGGGTTAAATCCTGTAGGCTTTGTGCTGGTAATG
1 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATG
*
26463580 TATATCCGGG-TCAATCCCGCAGGCTTTGTGCTGGTAATG
1 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATG
* *
26463619 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATG
*
26463659 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT-AT-
1 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATG
* * * *
26463697 TATATCCGGGGTTAAAGTTCCGCAGACTTTGAGCTAGTAA
1 TATATCC-GGGTTAAA-TCCCGCAGGCTTTGTGCTGGTAA
26463737 CTAGATTCAG
Statistics
Matches: 140, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 7 0.05
39 46 0.33
40 86 0.61
41 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (40 bp):
TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATG
Found at i:26472201 original size:17 final size:17
Alignment explanation
Indices: 26472172--26472206 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26472162 ACAGTGATAT
26472172 CTCCATCATATCTTTTA
1 CTCCATCATATCTTTTA
26472189 CTCCA-CATCATCTTTTA
1 CTCCATCAT-ATCTTTTA
26472206 C
1 C
26472207 AGATATCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (17 bp):
CTCCATCATATCTTTTA
Found at i:26477595 original size:40 final size:39
Alignment explanation
Indices: 26477430--26477613 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
26477420 AAATTGAATG
* * *
26477430 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
26477470 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
26477510 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
26477550 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
26477589 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
26477614 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:26477638 original size:80 final size:81
Alignment explanation
Indices: 26477470--26477658 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
26477460 GCTGGAAATT
* * * *
26477470 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
26477535 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
26477551 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
26477614 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
26477630 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
26477659 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:26485714 original size:40 final size:39
Alignment explanation
Indices: 26485549--26485732 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
26485539 AAATTGAATG
* * *
26485549 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
26485589 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
26485629 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
26485669 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
26485708 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
26485733 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:26485757 original size:80 final size:81
Alignment explanation
Indices: 26485589--26485777 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
26485579 GCTGGAAATT
* * * *
26485589 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
26485654 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
26485670 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
26485733 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
26485749 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
26485778 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:26488099 original size:26 final size:26
Alignment explanation
Indices: 26488069--26488118 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
26488059 TACAGTAAAA
26488069 ATCACATAGGGGTAAAACAGTCATAC
1 ATCACATAGGGGTAAAACAGTCATAC
26488095 ATCACATAGGGGTAAAACAGTCAT
1 ATCACATAGGGGTAAAACAGTCAT
26488119 CTTACCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (26 bp):
ATCACATAGGGGTAAAACAGTCATAC
Found at i:26490910 original size:20 final size:20
Alignment explanation
Indices: 26490887--26490926 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
26490877 AAATATGGTG
26490887 TGGTATGATTGGTGGTCAAT
1 TGGTATGATTGGTGGTCAAT
*
26490907 TGGTGTGATTGGTGGTCAAT
1 TGGTATGATTGGTGGTCAAT
26490927 AAGGAGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.38, T:0.40
Consensus pattern (20 bp):
TGGTATGATTGGTGGTCAAT
Found at i:26493287 original size:25 final size:24
Alignment explanation
Indices: 26493246--26493293 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
26493236 TCCTTTATAT
26493246 ATATTTTTATATAATTTATTTTAA
1 ATATTTTTATATAATTTATTTTAA
*
26493270 ATATTTTGTATATTATTTATTTTA
1 ATATTTT-TATATAATTTATTTTA
26493294 CTTTAAACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
ATATTTTTATATAATTTATTTTAA
Found at i:26493361 original size:12 final size:12
Alignment explanation
Indices: 26493325--26493394 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 12
26493315 AAAAAAATAG
*
26493325 TTATTTTATTATT
1 TTATTATATTA-T
* *
26493338 TTTTTGTATTAT
1 TTATTATATTAT
26493350 TTATTATATTAT
1 TTATTATATTAT
*
26493362 TTA-TATTTTA-
1 TTATTATATTAT
*
26493372 TT-GTATATTAT
1 TTATTATATTAT
26493383 TTATTATATTAT
1 TTATTATATTAT
26493395 GTATAATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
10 8 0.17
11 8 0.17
12 22 0.47
13 9 0.19
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:26493363 original size:33 final size:34
Alignment explanation
Indices: 26493325--26493394 Score: 101
Period size: 33 Copynumber: 2.1 Consensus size: 34
26493315 AAAAAAATAG
*
26493325 TTATTTTATTATTTT-TT-TGTATTATTTATTATA
1 TTATTTTA-TATTTTATTGTATATTATTTATTATA
26493358 TTA-TTTATATTTTATTGTATATTATTTATTATA
1 TTATTTTATATTTTATTGTATATTATTTATTATA
26493391 TTAT
1 TTAT
26493395 GTATAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 6 0.18
32 6 0.18
33 21 0.64
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (34 bp):
TTATTTTATATTTTATTGTATATTATTTATTATA
Found at i:26493403 original size:19 final size:19
Alignment explanation
Indices: 26493342--26493403 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
26493332 ATTATTTTTT
*
26493342 TGTATTATTTATTATATTA
1 TGTATAATTTATTATATTA
* * *
26493361 TTTATATTTTATTGTA-TA
1 TGTATAATTTATTATATTA
26493379 --T-T-ATTTATTATATTA
1 TGTATAATTTATTATATTA
26493394 TGTATAATTT
1 TGTATAATTT
26493404 TAAAATTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
14 8 0.25
15 3 0.09
16 1 0.03
17 1 0.03
18 3 0.09
19 16 0.50
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.65
Consensus pattern (19 bp):
TGTATAATTTATTATATTA
Found at i:26493458 original size:15 final size:15
Alignment explanation
Indices: 26493419--26493459 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
26493409 TTTGTAAATT
26493419 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
26493434 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
26493447 ATTATTAAATATT
1 ATTATTAAATATT
26493460 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:26493812 original size:18 final size:18
Alignment explanation
Indices: 26493771--26493812 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
26493761 TATCTCATAA
26493771 ATTATTTATTATTCTTAT
1 ATTATTTATTATTCTTAT
* *
26493789 GTTATTTATT-TTTTTAT
1 ATTATTTATTATTCTTAT
26493806 ATATATT
1 AT-TATT
26493813 GCATGAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
ATTATTTATTATTCTTAT
Found at i:26493928 original size:71 final size:64
Alignment explanation
Indices: 26493876--26494009 Score: 160
Period size: 67 Copynumber: 2.0 Consensus size: 64
26493866 TTATCGTACA
* ** * * *
26493876 TATATTATGTAATTTATATTGTTATATTCATTGTTTTCTATGTTGTATTTTGCATGAAATGTTAA
1 TATATTATGTAATTCATATTGTTAT-TT-ATCATTTTCTATATTATA-TTTGCATGAAATATTAA
26493941 TG
63 TG
* * *
26493943 TATATTATGTAATTCATGTTGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAG
1 TATATTATGTAATTCATATTGTTATTTATCATTTTCTATATTATATTTGCATGAAATATTAATG
26494007 TAT
1 TAT
26494010 GTATCATGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 21 0.35
65 14 0.23
66 2 0.03
67 23 0.38
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (64 bp):
TATATTATGTAATTCATATTGTTATTTATCATTTTCTATATTATATTTGCATGAAATATTAATG
Found at i:26503094 original size:93 final size:93
Alignment explanation
Indices: 26502981--26503152 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
26502971 CGCCCATAAG
* * *
26502981 CGAACTCGGACTGAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
26503046 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
26503074 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
26503139 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
26503153 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:26503149 original size:46 final size:46
Alignment explanation
Indices: 26502974--26503149 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
26502964 TGTAACCCGC
* * * *
26502974 CCATAAGCGAACTCGGACTGAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
26503020 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
26503070 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
26503113 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
26503150 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:26503168 original size:46 final size:46
Alignment explanation
Indices: 26503023--26503161 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
26503013 TTCGCATCCA
26503023 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
26503071 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
26503116 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
26503162 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:26510654 original size:93 final size:93
Alignment explanation
Indices: 26510542--26510713 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
26510532 CGCCCATAAG
* *
26510542 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
26510607 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
26510635 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
26510700 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
26510714 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:26510710 original size:46 final size:46
Alignment explanation
Indices: 26510535--26510710 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
26510525 TGTAACCCGC
* * *
26510535 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
26510581 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
26510631 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
26510674 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
26510711 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:26515926 original size:90 final size:89
Alignment explanation
Indices: 26515811--26516402 Score: 871
Period size: 90 Copynumber: 6.6 Consensus size: 89
26515801 CGGGGAACAA
* * *
26515811 ATCGAAGAAG-CAGATTTGGCATCTCTGTATTAGACGGGTAGCAGATCGAAGATAGTAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGG-AGCAGATCGAAGATAGCAGATCTGA
* * *
26515875 CATTCATATGTTTATATCGAAGCAG
65 CATTCGTGTGTTTACATCGAAGCAG
* * *
26515900 ATCGAAGATGACAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAGCAGATCTAA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAGCAGATCTGA
* *
26515965 CATTCGTGTGTTTACATTGAAGCAA
65 CATTCGTGTGTTTACATCGAAGCAG
* *
26515990 ATCAAAGATGACAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAGCAGATCTGA
26516055 CATTCGTGTGTTTACATCGAAGCAG
65 CATTCGTGTGTTTACATCGAAGCAG
* *
26516080 ATCGAAGATGACAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAGTAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAGCAGATCTGA
* *
26516145 AATTTGTGTGTTTACATCGAAGCAG
65 CATTCGTGTGTTTACATCGAAGCAG
* * * *
26516170 ATCGAAGATGACAGATTTAGCGTCTTTGTATTAGACGGGGAGCAGATTGAAGATAGCAGACCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGATAGCAGATCTGA
*
26516235 CATGCGTGTGTTTACATCGAAGCAG
65 CATTCGTGTGTTTACATCGAAGCAG
* * *
26516260 ATCGAAGATGACAGATTTGGCGTCTCTGTATCAGACGGGAGTAGATCGAAGGTAGCAGATCTGAC
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGAGCAGATCGAAGATAGCAGATCTGAC
26516325 ATTCGTGTGTTTACATCGAAGCAG
66 ATTCGTGTGTTTACATCGAAGCAG
* * *
26516349 ATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACAGGGAGTAGATCAAAGAT
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGAC-GGGAGCAGATCGAAGAT
26516403 TTCAGCATGG
Statistics
Matches: 455, Mismatches: 45, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
89 91 0.20
90 361 0.79
91 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (89 bp):
ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGAGCAGATCGAAGATAGCAGATCTGAC
ATTCGTGTGTTTACATCGAAGCAG
Found at i:26516396 original size:45 final size:45
Alignment explanation
Indices: 26515778--26516402 Score: 324
Period size: 45 Copynumber: 14.0 Consensus size: 45
26515768 TCATTGATAG
* * * *
26515778 CAGATTTGGCATCTCTGTATT-GACGGGGAACAAATCGAAGAAG-
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATGA
26515821 CAGATTTGGCATCTCTGTATTAGAC-GGGTAGCAGATCGAAGAT-A
1 CAGATTTGGCATCTCTGTATTAGACAGGG-AGCAGATCGAAGATGA
* * * * * *
26515865 GTAGATCTGACATTCATATGT-TTATATC--GAAGCAGATCGAAGATGA
1 -CAGATTTGGCA-TC-TCTGTATTAGA-CAGGGAGCAGATCGAAGATGA
* *
26515911 CAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGAT-A
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATGA
* ** * * * * * *
26515955 GCAGATCTAACAT-TCGTGTGTT-TACATTGAAGCAAATCAAAGATGA
1 -CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATGA
** *
26516001 CAGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGAT-A
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATGA
* * * * * *
26516045 GCAGATCTGACAT-TCGTGTGTT-TACATCGAAGCAGATCGAAGATGA
1 -CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATGA
26516091 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGAT-A
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATGA
* * ** * * * * * *
26516135 GTAGATCTGAAATTTGTGTGTT-TACATCGAAGCAGATCGAAGATGA
1 -CAGATTTGGCATCTCTGTATTAGACA-GGGAGCAGATCGAAGATGA
* * * * *
26516181 CAGATTTAGCGTCTTTGTATTAGACGGGGAGCAGATTGAAGAT-A
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATGA
** * * * *
26516225 GCAGACCTGACATGCGTGTGT-TT--ACATCGAAGCAGATCGAAGATGA
1 -CAGATTTGGCAT-C-TCTGTATTAGACA-GGGAGCAGATCGAAGATGA
* * * *
26516271 CAGATTTGGCGTCTCTGTATCAGAC-GGGAGTAGATCGAAGGT-A
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATGA
* * * * * *
26516314 GCAGATCTGACAT-TCGTGTGTT-TACATCGAAGCAGATCGAAGATGA
1 -CAGATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATGA
* * * *
26516360 TAGATTTGGCGTCTCTGTATTAGACAGGGAGTAGATCAAAGAT
1 CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGAT
26516403 TTCAGCATGG
Statistics
Matches: 422, Mismatches: 118, Indels: 82
0.68 0.19 0.13
Matches are distributed among these distances:
43 37 0.09
44 65 0.15
45 277 0.66
46 34 0.08
47 9 0.02
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (45 bp):
CAGATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATGA
Found at i:26517033 original size:18 final size:19
Alignment explanation
Indices: 26517001--26517037 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
26516991 AAGGAAAGAA
26517001 ATAGCAGAGACAATACAAAT
1 ATAGCAGAGACAATA-AAAT
26517021 ATAGCA-AGA-AATAAAAT
1 ATAGCAGAGACAATAAAAT
26517038 CAAATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 3 0.18
20 6 0.35
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (19 bp):
ATAGCAGAGACAATAAAAT
Found at i:26517998 original size:25 final size:25
Alignment explanation
Indices: 26517970--26518018 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
26517960 TCCTTTATAT
*
26517970 ATATTTTTTATATAATTTATTTTAA
1 ATATTTTGTATATAATTTATTTTAA
*
26517995 ATATTTTGTATATTATTTATTTTA
1 ATATTTTGTATATAATTTATTTTA
26518019 CTTTAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATATTTTGTATATAATTTATTTTAA
Found at i:26518063 original size:8 final size:8
Alignment explanation
Indices: 26518050--26518100 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
26518040 AAAAAAATAG
26518050 TTATTTTA
1 TTATTTTA
26518058 TTATTTTA
1 TTATTTTA
*
26518066 TTATTTTT
1 TTATTTTA
* *
26518074 TTGTATTA
1 TTATTTTA
*
26518082 TTTATTATA
1 -TTATTTTA
26518091 TTATTTTA
1 TTATTTTA
26518099 TT
1 TT
26518101 TTATTGTATA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
8 29 0.85
9 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:26518080 original size:13 final size:13
Alignment explanation
Indices: 26518050--26518126 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
26518040 AAAAAAATAG
*
26518050 TTATTTTATTATT
1 TTATTATATTATT
*
26518063 TTATTAT-TTTTT
1 TTATTATATTATT
26518075 TGTATTAT-TTATT
1 T-TATTATATTATT
* *
26518088 ATATTATTTTATT
1 TTATTATATTATT
26518101 TTATTGTATATTA-T
1 TTA-T-TATATTATT
26518115 TTATTATATTAT
1 TTATTATATTAT
26518127 GTATAATTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
12 18 0.34
13 24 0.45
14 5 0.09
15 6 0.11
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (13 bp):
TTATTATATTATT
Found at i:26518087 original size:25 final size:25
Alignment explanation
Indices: 26518058--26518124 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
26518048 AGTTATTTTA
*
26518058 TTATTTTATTATTTT-TTTGTATTAT
1 TTATTATATTATTTTATTT-TATTAT
*
26518083 TTATTATATTATTTTATTTTATTGT
1 TTATTATATTATTTTATTTTATTAT
* *
26518108 ATATTAT-TTATTATATT
1 TTATTATATTATTTTATT
26518125 ATGTATAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 9 0.24
25 25 0.68
26 3 0.08
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (25 bp):
TTATTATATTATTTTATTTTATTAT
Found at i:26518118 original size:32 final size:33
Alignment explanation
Indices: 26518050--26518126 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 33
26518040 AAAAAAATAG
* * * *
26518050 TTATTTTATTATTTTATTATTTTTTTGTATTAT
1 TTATTATATTATTTTATTATTATTGTATATTAT
26518083 TTATTATATTATTTTATT-TTATTGTATATTAT
1 TTATTATATTATTTTATTATTATTGTATATTAT
26518115 TTATTATATTAT
1 TTATTATATTAT
26518127 GTATAATTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 23 0.57
33 17 0.43
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (33 bp):
TTATTATATTATTTTATTATTATTGTATATTAT
Found at i:26518190 original size:15 final size:15
Alignment explanation
Indices: 26518151--26518191 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
26518141 TTTGTAAATT
26518151 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
26518166 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
26518179 ATTATTAAATATT
1 ATTATTAAATATT
26518192 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:26518529 original size:18 final size:18
Alignment explanation
Indices: 26518506--26518540 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
26518496 ATCTCATAAA
26518506 TTATTTATTATTTTTATG
1 TTATTTATTATTTTTATG
*
26518524 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
26518541 ATATATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:26520350 original size:13 final size:13
Alignment explanation
Indices: 26520332--26520375 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
26520322 CTTGATATTC
26520332 AAACAATATGTTT
1 AAACAATATGTTT
*
26520345 AAACAATATGTTC
1 AAACAATATGTTT
*
26520358 AAACTA-ATGTTT
1 AAACAATATGTTT
*
26520370 GAACAA
1 AAACAA
26520376 AGTTTGAGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (13 bp):
AAACAATATGTTT
Found at i:26522234 original size:21 final size:21
Alignment explanation
Indices: 26522210--26522249 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
26522200 TTTCAATAAG
26522210 TTAAATAATTAATTCATTCGT
1 TTAAATAATTAATTCATTCGT
26522231 TTAAATAATTAATTCATTC
1 TTAAATAATTAATTCATTC
26522250 ATTACTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
TTAAATAATTAATTCATTCGT
Found at i:26538818 original size:15 final size:15
Alignment explanation
Indices: 26538798--26538842 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
26538788 GTTCGGTTTC
26538798 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
26538813 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
*
26538828 GGCAATAAGTGTGCG
1 GGCACTAAGTGTGCG
26538843 TGGTGACGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.40, T:0.20
Consensus pattern (15 bp):
GGCACTAAGTGTGCG
Found at i:26538888 original size:29 final size:29
Alignment explanation
Indices: 26538856--26538930 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
26538846 TGACGAGAAT
**
26538856 TGGCACTAAGTGTGC-AAGCTTGAAAT-GTA
1 TGGCACTAAGTGTGCGAA-CTT-AAATCACA
26538885 TGGCACTAAGTGTGCGAACTTAAATCACA
1 TGGCACTAAGTGTGCGAACTTAAATCACA
26538914 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
26538931 GATCGATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.10
29 36 0.86
30 2 0.05
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAACTTAAATCACA
Found at i:26548485 original size:51 final size:51
Alignment explanation
Indices: 26548408--26548606 Score: 299
Period size: 51 Copynumber: 3.9 Consensus size: 51
26548398 CGGATACATG
* **
26548408 GTGGCCTTCACATAGTACCACCCTTGTAACCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
26548459 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTAGTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
26548510 GTGGCCTTCATATAGTAGCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * * *
26548561 GTGGCCTTCACATAGTACCACATTTCTGTCTAAAGTTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
26548607 CTAAGGTTCA
Statistics
Matches: 133, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 133 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:26548686 original size:52 final size:52
Alignment explanation
Indices: 26548630--26548752 Score: 185
Period size: 52 Copynumber: 2.4 Consensus size: 52
26548620 GGGAAATTTC
* *
26548630 TCACTTAGCAC-TATGGCATGGACTTATTTCAGTTAGATGCCATGGACTTATT
1 TCACTTAGCACAT-TGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* *
26548682 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCTTGGTCTTATT
1 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
*
26548734 TCACTTAGCACAATGCCAT
1 TCACTTAGCACATTGCCAT
26548753 ATCCTAGATA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 64 0.98
53 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (52 bp):
TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:26548699 original size:28 final size:27
Alignment explanation
Indices: 26548630--26548752 Score: 141
Period size: 24 Copynumber: 4.7 Consensus size: 27
26548620 GGGAAATTTC
*
26548630 TCACTTAGCACTATGGCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
26548658 TCAGTTAG---ATGCCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
26548682 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
26548710 TCACTTAG---ATGCCTTGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
26548734 TCACTTAGCACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
26548753 ATCCTAGATA
Statistics
Matches: 81, Mismatches: 6, Indels: 16
0.79 0.06 0.16
Matches are distributed among these distances:
24 43 0.53
25 1 0.01
27 1 0.01
28 36 0.44
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:26552320 original size:6 final size:6
Alignment explanation
Indices: 26552309--26552342 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
26552299 CAAACAAATT
*
26552309 ATTTCC ATTTCC ATTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
26552343 TGGAAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:26552332 original size:18 final size:18
Alignment explanation
Indices: 26552309--26552343 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
26552299 CAAACAAATT
26552309 ATTTCCATTTCCATTTTC
1 ATTTCCATTTCCATTTTC
26552327 ATTTCCATTTCCATTTT
1 ATTTCCATTTCCATTTT
26552344 GGAAACCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.26, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:26558582 original size:40 final size:40
Alignment explanation
Indices: 26558537--26558703 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
26558527 CGGAATATAA
26558537 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
26558577 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
26558617 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
26558657 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
26558696 CCGGATAT
1 CCGGATAT
26558704 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:26558687 original size:80 final size:79
Alignment explanation
Indices: 26558553--26558703 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
26558543 ATAATCACGT
*
26558553 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
26558618 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
26558633 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
26558696 CCGGATAT
64 CCGGATAT
26558704 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:26559552 original size:17 final size:19
Alignment explanation
Indices: 26559529--26559574 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
26559519 AAGAAGCATG
26559529 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
26559547 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
26559565 AATCATGCTC
1 AATCATGCTC
26559575 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:26566571 original size:40 final size:40
Alignment explanation
Indices: 26566526--26566692 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
26566516 CGGAATATAA
26566526 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
26566566 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
26566606 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
26566646 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
26566685 CCGGATAT
1 CCGGATAT
26566693 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:26566676 original size:80 final size:79
Alignment explanation
Indices: 26566542--26566692 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
26566532 ATAATCACGT
*
26566542 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
26566607 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
26566622 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
26566685 CCGGATAT
64 CCGGATAT
26566693 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:26567540 original size:17 final size:19
Alignment explanation
Indices: 26567517--26567562 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
26567507 AAGAAGCATG
26567517 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
26567535 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
26567553 AATCATGCTC
1 AATCATGCTC
26567563 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:26569047 original size:21 final size:20
Alignment explanation
Indices: 26569019--26569057 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
26569009 CAAAACTTGT
*
26569019 ATAACTATCATCAAACATTC
1 ATAACTATCATAAAACATTC
26569039 ATAATCTATCATAAAACAT
1 ATAA-CTATCATAAAACAT
26569058 CAAAATACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATAAAACATTC
Found at i:26578789 original size:38 final size:38
Alignment explanation
Indices: 26578730--26578823 Score: 161
Period size: 38 Copynumber: 2.4 Consensus size: 38
26578720 TCAATCATGC
*
26578730 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
26578769 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
26578807 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
26578824 ACTGTAAACG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
38 42 0.79
39 11 0.21
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:26579061 original size:24 final size:24
Alignment explanation
Indices: 26579015--26579109 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
26579005 GCTTTATCAT
*
26579015 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
26579040 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
26579064 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
26579087 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
26579110 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:26579094 original size:47 final size:49
Alignment explanation
Indices: 26579015--26579108 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
26579005 GCTTTATCAT
*
26579015 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
26579064 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
26579109 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:26579185 original size:20 final size:20
Alignment explanation
Indices: 26579160--26579219 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
26579150 TATGATTACC
26579160 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
26579180 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
26579200 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
26579220 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:26587068 original size:38 final size:38
Alignment explanation
Indices: 26587003--26587096 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
26586993 TCAATCATGC
* *
26587003 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
26587042 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
26587080 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
26587097 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:26587334 original size:24 final size:24
Alignment explanation
Indices: 26587288--26587382 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
26587278 GCTTTATCAT
*
26587288 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
26587313 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
26587337 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
26587360 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
26587383 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:26587367 original size:47 final size:49
Alignment explanation
Indices: 26587288--26587381 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
26587278 GCTTTATCAT
*
26587288 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
26587337 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
26587382 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:26587458 original size:20 final size:20
Alignment explanation
Indices: 26587433--26587492 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
26587423 TATGATTACC
26587433 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
26587453 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
26587473 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
26587493 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:26587567 original size:25 final size:25
Alignment explanation
Indices: 26587535--26587582 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
26587525 ATACATAAAC
* * *
26587535 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
26587560 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
26587583 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:26591885 original size:40 final size:40
Alignment explanation
Indices: 26591822--26592041 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
26591812 ATTCGGATTG
26591822 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26591861 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
26591901 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26591941 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26591981 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
26592021 ATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
26592042 TACTTGGTTT
Statistics
Matches: 170, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
38 8 0.05
39 21 0.12
40 141 0.83
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:26600049 original size:79 final size:79
Alignment explanation
Indices: 26599934--26600161 Score: 361
Period size: 79 Copynumber: 2.9 Consensus size: 79
26599924 GCTAAGCCCA
*
26599934 AAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
26599999 CCGGCCAAGTCCCG
66 CCGGCCAAGTCCCG
* *
26600013 AAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
26600078 CCGGGCTAAGTCCCG
66 CC-GGCCAAGTCCCG
* *
26600093 AAGGCAATTGTGC-AGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATA
1 AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
*
26600156 TCCGGC
65 ACCGGC
26600162 TAAACCCGAA
Statistics
Matches: 138, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
78 5 0.04
79 110 0.80
80 23 0.17
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
CCGGCCAAGTCCCG
Found at i:26600163 original size:39 final size:40
Alignment explanation
Indices: 26599916--26600173 Score: 375
Period size: 40 Copynumber: 6.6 Consensus size: 40
26599906 ATTCGGATTG
* *
26599916 ATAACTGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26599955 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26599995 ATAACC-GGCCAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
26600034 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26600074 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGC-AGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
26600113 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
26600153 ATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
26600174 TACTTGGTTT
Statistics
Matches: 204, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
38 8 0.04
39 95 0.47
40 101 0.50
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:26605903 original size:39 final size:38
Alignment explanation
Indices: 26605789--26606012 Score: 225
Period size: 40 Copynumber: 5.7 Consensus size: 38
26605779 GCTACTCGTT
* *
26605789 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCA
* * *
26605829 TAAATGCCTTCGGGACTTAACCCGGATTTCGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGA-TTAGTAACTCGCA
26605869 CAAATGCCTTCGGGCTTAGCCCGGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCC-GGATTAGTAACTCGCA
* * *
26605908 CAAATGCCTTCGGATCTTAGTCCGGATTAGTAACTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTAGTAACTCGCA
* * * * *
26605947 CAAATGCCTTCGGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAT-TAGTAAC-TCGCA
*
26605988 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCG-GGCTTAGCCCGGA
26606013 CATCATTCGA
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 73 0.45
40 78 0.48
41 11 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (38 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTAGTAACTCGCA
Found at i:26605906 original size:79 final size:79
Alignment explanation
Indices: 26605789--26606012 Score: 235
Period size: 79 Copynumber: 2.8 Consensus size: 79
26605779 GCTACTCGTT
* *
26605789 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
26605853 GATTTCGTAACTCGCA
65 GA-TTAGTAACTAGCA
* **
26605869 CAAATGCCTTCGGG-CTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACATAGCCC-GGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
26605932 GATTAGTAACTAGCA
65 GATTAGTAACTAGCA
* * * * * *
26605947 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCACAAA-GCCTTCGAGA-CTTAGCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCG-GATCTTAACC
26606009 CGGA
63 CGGA
26606013 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
77 2 0.02
78 28 0.22
79 68 0.54
80 27 0.22
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATTAGTAACTAGCA
Found at i:26615884 original size:28 final size:28
Alignment explanation
Indices: 26615817--26615917 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
26615807 ATAGTGAATC
* *
26615817 CGCACACTTAGTGCTATATACGTTC-AGCT
1 CGCACACTTAGTGCTATATA--ATCAAACT
26615846 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
26615874 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
26615904 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26615918 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.35
29 20 0.32
30 19 0.30
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26619405 original size:40 final size:39
Alignment explanation
Indices: 26619223--26619405 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
26619213 ACGACTCGCT
** * **
26619223 CAAATGCCTTCGGGACGAAGCCCGGTTATAGCGACTTGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * *
26619263 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
26619303 CAAAGCCTTCGGGA-TTAGCCCGGATTTATTAACTCG-A
1 CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * * * *
26619340 CGAATGCCTTC-GGATCCTGGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
26619381 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
26619406 CATCATTCGA
Statistics
Matches: 111, Mismatches: 25, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
37 5 0.05
38 26 0.23
39 26 0.23
40 47 0.42
41 7 0.06
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:26627255 original size:19 final size:18
Alignment explanation
Indices: 26627216--26627258 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
26627206 CTTTATTATG
*
26627216 TTTTTGTATTTTAGCATA
1 TTTTTGTATTGTAGCATA
26627234 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATTGTAGCAT-A
26627253 TTTTTG
1 TTTTTG
26627259 AATCATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (18 bp):
TTTTTGTATTGTAGCATA
Found at i:26627473 original size:67 final size:63
Alignment explanation
Indices: 26627397--26627603 Score: 211
Period size: 67 Copynumber: 3.2 Consensus size: 63
26627387 CATCACGTGT
*
26627397 ACAAGAGAGCTACGAGACATTATGATGTGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTACGAG--A-TAT-ATGTGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
26627462 AG
62 AG
* * * * * *
26627464 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGT-GCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
26627529 AG
62 AG
* * * *
26627531 ACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATA-TGTGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
26627593 TACAAGAGAGC
1 -ACAAGAGAGC
26627604 CAAAATTATG
Statistics
Matches: 117, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 23 0.20
64 23 0.20
65 1 0.01
66 21 0.18
67 46 0.39
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ACAAGAGAGCTACGAGATATATGTGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:26635597 original size:34 final size:33
Alignment explanation
Indices: 26635552--26635616 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
26635542 TATCAAACAT
*
26635552 ATAATTCAAGCCAACT-TACATGGCTATAATCCA
1 ATAATTCAAGCCAAATCT-CATGGCTATAATCCA
26635585 ATAATTACAAGCCAAATCTCATGGCTATAATC
1 ATAATT-CAAGCCAAATCTCATGGCTATAATC
26635617 ACAGCTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.21
34 22 0.76
35 1 0.03
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (33 bp):
ATAATTCAAGCCAAATCTCATGGCTATAATCCA
Found at i:26646693 original size:18 final size:18
Alignment explanation
Indices: 26646670--26646726 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
26646660 CATATGGCTT
26646670 GCCCGTGTGGACCCACAC
1 GCCCGTGTGGACCCACAC
*
26646688 GCCCGTGTGGACCCACAT
1 GCCCGTGTGGACCCACAC
26646706 GCCCGTGTGG-CCCACAC
1 GCCCGTGTGGACCCACAC
26646723 GCCC
1 GCCC
26646727 AGATTGGCCT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
17 10 0.27
18 27 0.73
ACGTcount: A:0.14, C:0.46, G:0.28, T:0.12
Consensus pattern (18 bp):
GCCCGTGTGGACCCACAC
Found at i:26658740 original size:25 final size:25
Alignment explanation
Indices: 26658701--26658767 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
26658691 GAGCAGAGCC
** **
26658701 ATATTCACAGTTCGTGTAAGTAATT
1 ATATTCACAACTCGTGTAAACAATT
*
26658726 ATATTCACAACTCGTGTAAACATTT
1 ATATTCACAACTCGTGTAAACAATT
26658751 ATATTCACAACTCGTGT
1 ATATTCACAACTCGTGT
26658768 GAGCAACTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (25 bp):
ATATTCACAACTCGTGTAAACAATT
Found at i:26660152 original size:7 final size:7
Alignment explanation
Indices: 26660140--26660169 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
26660130 AGTTTAGGAA
26660140 AATTAAT
1 AATTAAT
26660147 AATTAAT
1 AATTAAT
26660154 AATTAAT
1 AATTAAT
26660161 AATGTAAT
1 AAT-TAAT
26660169 A
1 A
26660170 TTTATTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (7 bp):
AATTAAT
Done.