Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 137 of 320
Found at i:44921362 original size:15 final size:15
Alignment explanation
Indices: 44921313--44921368 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
44921303 AAACCACTAA
44921313 AAACCCTAAACTACT
1 AAACCCTAAACTACT
44921328 AAAAACCCTAAA--ACCTT
1 --AAACCCTAAACTA-C-T
44921345 AAACCCTAAACTACT
1 AAACCCTAAACTACT
44921360 AAACCCTAA
1 AAACCCTAA
44921369 TTTAATTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 21 0.60
16 2 0.06
17 12 0.34
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (15 bp):
AAACCCTAAACTACT
Found at i:44921403 original size:161 final size:159
Alignment explanation
Indices: 44921185--44921662 Score: 617
Period size: 161 Copynumber: 3.0 Consensus size: 159
44921175 TTAATTAATA
44921185 AACCCTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAAT
1 AACCCTAAAAAA-CCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAAT
* * *
44921250 TAACCCTCAAATCTAA-TTAAATTAATTTTTCCCTT-AAAAACACTAAAAATCCTAAACCACTAA
65 TAACCCTCAACTCTAAGTTTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACT-A
*
44921313 AAACCCTAAACTACTAAAAACCCTAAAACCTT
129 AAACCCTAAAC-ACTAAAAACCCTAAAACCCT
** * *
44921345 AAACCCTAAACTA-CTAAACCCTAATTTAATTGATTTTTTCTTATTTTCATAATTAATTTAATTA
1 -AACCCTAAAAAACCTAAACCCTAATTTAATT-AATTTTT-TTATTTTCATAGTTAATTTAATTA
* * * * *
44921409 ATTAACCCTCAACTCTAAGTGTTTATTAATTTTTCTCTTAAAAAATACTAAAAACCCTACACCAG
63 ATTAACCCTCAACTCTAAGT-TTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCAC
**
44921474 TAAAACCCT-AAC-CGTAAAATA-ATTAGAAACCCT
127 TAAAACCCTAAACAC-TAAAA-ACCCTA-AAACCCT
* *
44921507 AACCTTAAAAAACCCTAAACCCTAATTTAATTAATTTTTTTATTGTCATAGTTAATTTAATTAAT
1 AACCCTAAAAAA-CCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAAT
* *
44921572 TAACCCTCAACTCTAAGTTTTCATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACCA
65 TAACCCTCAACTCTAAG-TTTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACTA
*
44921637 AAACTCTAAACCACTAAAAACCCTAA
129 AAACCCTAAA-CACTAAAAACCCTAA
44921663 CCCTAAAAAA
Statistics
Matches: 272, Mismatches: 30, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
159 18 0.07
160 7 0.03
161 153 0.56
162 22 0.08
163 49 0.18
164 23 0.08
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (159 bp):
AACCCTAAAAAACCTAAACCCTAATTTAATTAATTTTTTTATTTTCATAGTTAATTTAATTAATT
AACCCTCAACTCTAAGTTTAATTAATTTTTCCCTTAAAAAACACTAAAAACCCTAAACCACTAAA
ACCCTAAACACTAAAAACCCTAAAACCCT
Found at i:44921480 original size:16 final size:14
Alignment explanation
Indices: 44921459--44921492 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
44921449 AAAAATACTA
44921459 AAAACCCTACACCAGT
1 AAAACCCTA-ACC-GT
44921475 AAAACCCTAACCGT
1 AAAACCCTAACCGT
44921489 AAAA
1 AAAA
44921493 TAATTAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 3 0.17
16 9 0.50
ACGTcount: A:0.50, C:0.32, G:0.06, T:0.12
Consensus pattern (14 bp):
AAAACCCTAACCGT
Found at i:44921639 original size:16 final size:17
Alignment explanation
Indices: 44921615--44921671 Score: 75
Period size: 16 Copynumber: 3.5 Consensus size: 17
44921605 CCTTAAAAAA
44921615 CACTAAAAACCCTAAAC
1 CACTAAAAACCCTAAAC
* *
44921632 CAC-CAAAACTCTAAAC
1 CACTAAAAACCCTAAAC
44921648 CACTAAAAACCCT-AAC
1 CACTAAAAACCCTAAAC
44921664 C-CTAAAAA
1 CACTAAAAA
44921672 ACCCCAACCC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.20
16 18 0.51
17 10 0.29
ACGTcount: A:0.53, C:0.35, G:0.00, T:0.12
Consensus pattern (17 bp):
CACTAAAAACCCTAAAC
Found at i:44921672 original size:16 final size:17
Alignment explanation
Indices: 44921652--44921689 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
44921642 CTAAACCACT
*
44921652 AAAAACCCTAACCCTA-
1 AAAAACCCCAACCCTAC
44921668 AAAAACCCCAACCCTAC
1 AAAAACCCCAACCCTAC
44921685 AAAAA
1 AAAAA
44921690 GGGGCAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.55, C:0.37, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAAACCCCAACCCTAC
Found at i:44922657 original size:26 final size:26
Alignment explanation
Indices: 44922624--44922676 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
44922614 ATGAACACTC
44922624 TTTTAAACCACTGCAGCTTGAGTTTT
1 TTTTAAACCACTGCAGCTTGAGTTTT
44922650 TTTTAAACCACTGCAGCTTGAGTTTT
1 TTTTAAACCACTGCAGCTTGAGTTTT
44922676 T
1 T
44922677 CTTGCATGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (26 bp):
TTTTAAACCACTGCAGCTTGAGTTTT
Found at i:44927254 original size:20 final size:20
Alignment explanation
Indices: 44927231--44927278 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
44927221 AAATCTAAAT
44927231 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
44927251 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
44927271 TAAGAATA
1 TAA-AATA
44927279 ATGATGTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:44929222 original size:16 final size:16
Alignment explanation
Indices: 44929191--44929224 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44929181 TAGAATTGGG
* *
44929191 TTGAGAAATTATTTAA
1 TTGAGAAATAAATTAA
44929207 TTGAGAAATAAATTAA
1 TTGAGAAATAAATTAA
44929223 TT
1 TT
44929225 TAAGATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
TTGAGAAATAAATTAA
Found at i:44933136 original size:17 final size:17
Alignment explanation
Indices: 44933114--44933148 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
44933104 AGCCCGGTTT
44933114 TAGATAAATCAGAACAG
1 TAGATAAATCAGAACAG
44933131 TAGATAAATCAGAACAG
1 TAGATAAATCAGAACAG
44933148 T
1 T
44933149 GGTTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.20
Consensus pattern (17 bp):
TAGATAAATCAGAACAG
Found at i:44940665 original size:39 final size:40
Alignment explanation
Indices: 44940518--44940779 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
44940508 TTGAATGCTG
* * * * * *
44940518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
44940558 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
44940598 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
44940638 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
44940677 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44940717 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
44940756 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44940780 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
39 74 0.37
40 117 0.59
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:44940682 original size:79 final size:78
Alignment explanation
Indices: 44940518--44940779 Score: 319
Period size: 79 Copynumber: 3.3 Consensus size: 78
44940508 TTGAATGCTG
* * * * * ** *
44940518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCGAAGG-CAT
*
44940582 TGTGCGAGATACTAAA
63 TGTGCGAGTTACTAAA
*
44940598 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATT-G
*
44940663 TGCGAGTTATTAAA
65 TGCGAGTTACTAAA
* * *
44940677 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGT-CCGAAGGCATTG
*
44940742 TGTGAGTTACTAAA
65 TGCGAGTTACTAAA
* *
44940756 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44940780 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
78 3 0.02
79 105 0.65
80 47 0.29
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCATTGT
GCGAGTTACTAAA
Found at i:44940799 original size:79 final size:80
Alignment explanation
Indices: 44940571--44940814 Score: 244
Period size: 79 Copynumber: 3.1 Consensus size: 80
44940561 GGACTAAGAT
* * * * * ** * *
44940571 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
44940635 AAATCCGGGTTAAGT-
65 AAATCCGGGTTAAGTC
* * * ** ** *
44940650 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
44940715 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
44940730 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
44940794 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
44940808 CCGAAGG
1 CCGAAGG
44940815 TACGTGATTT
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
78 15 0.10
79 117 0.82
80 11 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:44946933 original size:40 final size:40
Alignment explanation
Indices: 44946903--44947112 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
44946893 GGACTAAGAT
* * * *
44946903 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
44946943 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
44946983 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
44947023 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
44947063 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
44947102 CCGAAGGCATT
1 CCGAAGGCATT
44947113 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:44946987 original size:80 final size:80
Alignment explanation
Indices: 44946850--44947112 Score: 316
Period size: 80 Copynumber: 3.3 Consensus size: 80
44946840 TTGAATGCTG
* * * * * **
44946850 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
44946913 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
44946930 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
44946995 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
44947010 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
44947074 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
44947089 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44947113 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 36 0.23
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:44947064 original size:120 final size:120
Alignment explanation
Indices: 44946850--44947112 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
44946840 TTGAATGCTG
* * *
44946850 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
44946914 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
44946970 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
44947033 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
44947089 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
44947113 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
119 35 0.29
120 81 0.66
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:44947132 original size:79 final size:80
Alignment explanation
Indices: 44946903--44947147 Score: 253
Period size: 80 Copynumber: 3.1 Consensus size: 80
44946893 GGACTAAGAT
* * * * * ** * *
44946903 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
44946967 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
44946983 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
44947048 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
44947063 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
44947127 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
44947141 CCGAAGG
1 CCGAAGG
44947148 TACGTGATTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.10
79 47 0.33
80 83 0.58
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:44951391 original size:48 final size:46
Alignment explanation
Indices: 44951279--44951399 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
44951269 TGATATGTGT
* *
44951279 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGAAA
* * * *
44951325 GCCAGTGTAAGACATGTCTTGGACATGCATCGGCCTCGAGATAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-A-ATATGA-AA
*
44951373 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
44951400 GCGTCAGCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
47 2 0.03
48 28 0.44
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCACAATATGAAA
Found at i:44951486 original size:49 final size:49
Alignment explanation
Indices: 44951282--44951549 Score: 198
Period size: 49 Copynumber: 5.7 Consensus size: 49
44951272 TATGTGTGCT
* * * *
44951282 AGTGTAAGACATGTCTGGGACATG-CATCGACCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
* * * * * *
44951328 AGTGTAAGACATGTCTTGGACATG-CATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGA-AAGCC
* * * * * *
44951376 AGTGTAAGACCTGTCTGGGACATGGCGTC-AGCTTG-TTG-TG--TGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
* * **
44951420 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGGGAGCC
1 AGTGTAAGACCTGTCTGGGACATGACATCGAC-CTCGATAGATGAAAGCC
* * * * **
44951469 AATGTAAGACCTGTCTGGGACACGACATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
*
44951518 AGTGTAAGACCTGTCTAGGACATGACATCGAC
1 AGTGTAAGACCTGTCTGGGACATGACATCGAC
44951550 TATGATGTGC
Statistics
Matches: 173, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
44 29 0.17
45 2 0.01
46 35 0.20
47 4 0.02
48 32 0.18
49 71 0.41
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATAGATGAAAGCC
Found at i:44951532 original size:142 final size:140
Alignment explanation
Indices: 44951273--44951591 Score: 369
Period size: 142 Copynumber: 2.2 Consensus size: 140
44951263 ATTGGGTGAT
* * * * *
44951273 ATGTGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACCACATTATGAGAGCCAGTGTAAGA
1 ATGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGACCACATGATGAGAGCCAATGTAAGA
* * * *
44951337 CATGTCTTGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGC
66 CATGTCTGGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTAGGACATGAC
*
44951402 GTC-AGCT-TG
131 ATCGA-CTATG
* *
44951411 TTGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGA-CACCGATAGATGGGAGCCAATGTA
1 ATGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGACCA-C-AT-GATGAGAGCCAATGTA
* * *
44951475 AGACCTGTCTGGGACACGACATCGGCCTCGATATATGA-AAGTTAGTGTAAGACCTGTCTAGGAC
63 AGACATGTCTGGGACACG-CATCGGCCTCGAGATAT-ACAAGCTAGTGTAAGACCTGTCTAGGAC
44951539 ATGACATCGACTATG
126 ATGACATCGACTATG
* *
44951554 ATGTGCTAGCCAGTGTATGACCATTTCTGGGACATGGC
1 ATGTG-T-GCCAGTGTAAGACC-TATCTGGGACATGGC
44951592 GTTGGCATCT
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
138 30 0.20
139 8 0.05
140 2 0.01
141 28 0.18
142 48 0.32
143 8 0.05
144 1 0.01
145 13 0.09
146 14 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (140 bp):
ATGTGTGCCAGTGTAAGACCTATCTGGGACATGGCATCGACCACATGATGAGAGCCAATGTAAGA
CATGTCTGGGACACGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCTAGGACATGAC
ATCGACTATG
Found at i:44953674 original size:61 final size:61
Alignment explanation
Indices: 44953576--44953750 Score: 191
Period size: 60 Copynumber: 2.9 Consensus size: 61
44953566 TCAAGCTTTA
* *
44953576 CTGGGCC-TAAGCCCTATTTAGAAATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTA-TTACAAATCAGAGTAT-ACTGGGCCTTAGCCCATATCAATATCAAT
* * *
44953638 CTGGGCCATAGCCC-CTTACAATATCAGAGTATACTGGGCC-TAGCTCATATCAGTATCAAT
1 CTGGGCCATAGCCCTATTACAA-ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
* * *
44953698 CTGGGCCGTAGCCCTATTACAAGTC-GAGATATATTGGGCCTT-GCCCATATCAA
1 CTGGGCCATAGCCCTATTACAAATCAGAG-TATACTGGGCCTTAGCCCATATCAA
44953751 CATAGTTGGG
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
59 3 0.03
60 56 0.58
61 23 0.24
62 13 0.14
63 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (61 bp):
CTGGGCCATAGCCCTATTACAAATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:44953783 original size:19 final size:20
Alignment explanation
Indices: 44953740--44953795 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
44953730 ATTGGGCCTT
*
44953740 GCCCATATCAACATAGTTGG
1 GCCCATATCAACACAGTTGG
* *
44953760 GCCCATTTCAATACAGTT-G
1 GCCCATATCAACACAGTTGG
* *
44953779 GCCCATAACAAAACAGT
1 GCCCATATCAACACAGT
44953796 ATCATATGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:44971255 original size:19 final size:19
Alignment explanation
Indices: 44971223--44971262 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
44971213 TGTTTTTTAC
*
44971223 AAAATAAATCAACTTAAAT
1 AAAATAAATCAACTCAAAT
* *
44971242 AAAATCAATGAACTCAAAT
1 AAAATAAATCAACTCAAAT
44971261 AA
1 AA
44971263 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAATAAATCAACTCAAAT
Found at i:44971821 original size:16 final size:17
Alignment explanation
Indices: 44971800--44971831 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44971790 AAGAAATCAG
44971800 AAAAAACA-AATAACAC
1 AAAAAACATAATAACAC
44971816 AAAAAACATAATAACA
1 AAAAAACATAATAACA
44971832 AACGTTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.16, G:0.00, T:0.09
Consensus pattern (17 bp):
AAAAAACATAATAACAC
Found at i:44973646 original size:22 final size:23
Alignment explanation
Indices: 44973613--44973658 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
44973603 TTAAAATGTT
* *
44973613 AAATAAAATTAAGTTTGAAGTAA
1 AAATAAAATTAAATTTGAAATAA
44973636 AAAT-AAATTAAATTTGAAATAA
1 AAATAAAATTAAATTTGAAATAA
44973658 A
1 A
44973659 TTTAGGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
AAATAAAATTAAATTTGAAATAA
Found at i:44974332 original size:21 final size:21
Alignment explanation
Indices: 44974308--44974350 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
44974298 CTCTCTATGA
44974308 GTACATTGTAAGGTCTGCGAG
1 GTACATTGTAAGGTCTGCGAG
44974329 GTACATTGTAAGGTCTGCGAG
1 GTACATTGTAAGGTCTGCGAG
44974350 G
1 G
44974351 CTCGCTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (21 bp):
GTACATTGTAAGGTCTGCGAG
Found at i:44976466 original size:41 final size:42
Alignment explanation
Indices: 44976390--44976468 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
44976380 AGCAGGATAT
* * *
44976390 AATGCCGGTGAAATGATATCGGGCTTCAAGCCTAGCAGCCGA
1 AATGCCGGTGAAATGATATCAGACTTAAAGCCTAGCAGCCGA
*
44976432 AATGCCGGTG-AATGAGT-TCAGACTTAAAGTCTAGCAG
1 AATGCCGGTGAAATGA-TATCAGACTTAAAGCCTAGCAG
44976469 GCTTCGTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 21 0.66
42 11 0.34
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (42 bp):
AATGCCGGTGAAATGATATCAGACTTAAAGCCTAGCAGCCGA
Found at i:44976524 original size:40 final size:41
Alignment explanation
Indices: 44976376--44976523 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 41
44976366 AGGGCTTCGG
* *
44976376 GCCTAGCAGGATATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * * *
44976419 GCCTAGCAGCCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
* *** *
44976460 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
44976500 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
44976524 TTTGATAAAA
Statistics
Matches: 81, Mismatches: 22, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
40 31 0.38
41 29 0.36
42 11 0.14
43 10 0.12
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:44978637 original size:93 final size:93
Alignment explanation
Indices: 44978507--44978677 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
44978497 CCCATAAGTG
* * * *
44978507 AACTTGGACTTAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
44978572 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * *
44978600 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
*
44978665 GAGTTCGGATGCC
66 GAGCTCGGATGCC
44978678 CAAACATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:44978673 original size:46 final size:46
Alignment explanation
Indices: 44978498--44978673 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
44978488 TGTAACCCGC
* * * * *
44978498 CCATAAGTGAACTTGGACTTAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
44978544 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
44978594 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
44978637 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44978674 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 1 0.01
43 9 0.08
44 1 0.01
46 61 0.57
47 26 0.24
49 1 0.01
50 7 0.07
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:44981975 original size:27 final size:27
Alignment explanation
Indices: 44981936--44982113 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
44981926 ATTTTGAGCC
* * *
44981936 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
44981963 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
44981990 CGCACACTTAGTGCTACATAGTCAACCT
1 CGCACACTTAGTGCTACATAGTCAA-CT
** * * *
44982018 CGCACACTTAGTGCCGCATGGCCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
44982045 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
44982072 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
44982099 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44982114 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:44982075 original size:82 final size:81
Alignment explanation
Indices: 44981962--44982112 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 81
44981952 TATAATCAAC
* *
44981962 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTC-AACCTCGCACACT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAA--TCGCACACT
44982026 TAGTGCCGCATGGCCAAT
64 TAGTGCCGCATGGCCAAT
* **
44982044 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCACACTT
44982108 AGTGC
65 AGTGC
44982113 TGTACAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
81 16 0.26
82 44 0.71
83 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCACACTTA
GTGCCGCATGGCCAAT
Found at i:44985519 original size:22 final size:19
Alignment explanation
Indices: 44985493--44985535 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 19
44985483 CTTTATCTCT
44985493 TTTGGTCTTGGATTGTTGTTCA
1 TTTGG-CTT-GATT-TTGTTCA
*
44985515 TTTGGCTTTATTTTGTTCA
1 TTTGGCTTGATTTTGTTCA
44985534 TT
1 TT
44985536 CGTTTGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 3 0.15
21 3 0.15
22 5 0.25
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.60
Consensus pattern (19 bp):
TTTGGCTTGATTTTGTTCA
Found at i:44993818 original size:30 final size:30
Alignment explanation
Indices: 44993746--44993820 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
44993736 GTTTTTGACC
* *
44993746 CACACGGCCTGGACACAAAGGTGTTTGGAG
1 CACACGGCCTGGCCACAAAGGTGTGTGGAG
** *
44993776 CACACGGCCTGGCCACATGGGTGTGTGGAT
1 CACACGGCCTGGCCACAAAGGTGTGTGGAG
44993806 CACACGGCCTGGCCA
1 CACACGGCCTGGCCA
44993821 TACGGGCGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.16
Consensus pattern (30 bp):
CACACGGCCTGGCCACAAAGGTGTGTGGAG
Found at i:44993832 original size:30 final size:30
Alignment explanation
Indices: 44993746--44993833 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
44993736 GTTTTTGACC
* ** * *
44993746 CACACGGCCTGGACACAAAGGTGTTTGGAG
1 CACACGGCCTGGCCACACGGGCGTGTGGAG
* * *
44993776 CACACGGCCTGGCCACATGGGTGTGTGGAT
1 CACACGGCCTGGCCACACGGGCGTGTGGAG
*
44993806 CACACGGCCTGGCCATACGGGCGTGTGG
1 CACACGGCCTGGCCACACGGGCGTGTGG
44993834 GATCTCACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.17
Consensus pattern (30 bp):
CACACGGCCTGGCCACACGGGCGTGTGGAG
Found at i:44994213 original size:8 final size:8
Alignment explanation
Indices: 44994194--44994231 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
44994184 ATTCTTATAC
44994194 TTATATTTT
1 TTATA-TTT
44994203 TTATATTT
1 TTATATTT
44994211 TTATATTT
1 TTATATTT
*
44994219 TAAT-TTT
1 TTATATTT
44994226 TTATAT
1 TTATAT
44994232 ATATTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 15 0.58
9 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATATTT
Found at i:44994214 original size:23 final size:23
Alignment explanation
Indices: 44994183--44994231 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
44994173 TTAATTAATT
44994183 TATTCTTATACTTAT-ATTTTTTA
1 TATTCTTATA-TTATAATTTTTTA
* *
44994206 TATTTTTATATTTTAATTTTTTA
1 TATTCTTATATTATAATTTTTTA
44994229 TAT
1 TAT
44994232 ATATTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTCTTATATTATAATTTTTTA
Found at i:44994216 original size:17 final size:17
Alignment explanation
Indices: 44994194--44994244 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
44994184 ATTCTTATAC
44994194 TTATATTTTTTATATTT
1 TTATATTTTTTATATTT
*
44994211 TTATA-TTTTAAT-TTT
1 TTATATTTTTTATATTT
44994226 TTATATATATTTTA-ATTT
1 TTATAT-T-TTTTATATTT
44994244 T
1 T
44994245 AATTTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 8 0.29
16 6 0.21
17 6 0.21
18 8 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTTTTTATATTT
Found at i:44994233 original size:25 final size:24
Alignment explanation
Indices: 44994199--44994250 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 24
44994189 TATACTTATA
44994199 TTTTTTATAT-TTTTATATTTTAAT
1 TTTTTTATATATTTTA-ATTTTAAT
44994223 TTTTTATATATATTTTAATTTTAAT
1 TTTTT-TATATATTTTAATTTTAAT
44994248 TTT
1 TTT
44994251 AATTTTGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 5 0.19
25 16 0.62
26 5 0.19
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTATATATTTTAATTTTAAT
Found at i:44995919 original size:26 final size:26
Alignment explanation
Indices: 44995883--44995936 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
44995873 TAAATGTGTG
44995883 ATTATTTTTGAATTATGACAAAACAT
1 ATTATTTTTGAATTATGACAAAACAT
44995909 ATTATTTTTGAATTATGACAAAACAT
1 ATTATTTTTGAATTATGACAAAACAT
44995935 AT
1 AT
44995937 AAGAATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (26 bp):
ATTATTTTTGAATTATGACAAAACAT
Found at i:44997299 original size:48 final size:48
Alignment explanation
Indices: 44997188--44997550 Score: 223
Period size: 48 Copynumber: 7.6 Consensus size: 48
44997178 TATGTGTGCT
* * *
44997188 AGTGTAAGATATGTCTGGGACATGCATCAGCCAT--AG-TATATGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGAGATATATAAGCC
* * *
44997234 TGTGTAAGACATGTCTGGGATATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
* * * * ** *
44997282 AGTGTAAGATATGTCTGGGACATGCATCGACATTGAGA-CGAT-AGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
* * * *
44997328 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
* * * * * * *
44997376 AGTGTAAGACCTGTCTGGGACATGGCGTCAG-CT--TG-T-TGT-GGTTC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATATAAG-CC
* * *
44997420 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-C-A-ATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGAGATATAT-A-AGCC
* * ** **
44997469 AGTGTAAGACCTGTCTGGGACATATCATCGGCCTCGCTATATGGAAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATATAAGCC
* *
44997518 AGTGTAAGACCATGTATGGGATATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
44997551 ATCTTAACCC
Statistics
Matches: 243, Mismatches: 55, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
43 1 0.00
44 29 0.12
45 2 0.01
46 66 0.27
47 5 0.02
48 68 0.28
49 49 0.20
50 20 0.08
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATATAAGCC
Found at i:44997337 original size:94 final size:94
Alignment explanation
Indices: 44997188--44997399 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 94
44997178 TATGTGTGCT
* * *
44997188 AGTGTAAGATATGTCTGGGACATGCATCAGCCATAGTATATGAGCCTGTGTAAGACATGTCTGGG
1 AGTGTAAGATATGTCTGGGACATGCATCAGACATAGTAGATGAGCCTGTGTAAGACATGTCTAGG
* **
44997253 ATATGCATCGGCCTCGAGATATTTAAGCC
66 ACATGCATCGGCCTCGAGATATACAAGCC
44997282 AGTGTAAGATATGTCTGGGACATGCATC-GACATTGAG-ACGAT-AG-CTAGTGTAAGACATGTC
1 AGTGTAAGATATGTCTGGGACATGCATCAGACA-T-AGTA-GATGAGCCT-GTGTAAGACATGTC
* *
44997343 TAGGACATGCATCGGCCTCGCGATATACAAGCT
62 TAGGACATGCATCGGCCTCGAGATATACAAGCC
**
44997376 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGATATGTCTGGGACATG
44997400 GCGTCAGCTT
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
93 5 0.05
94 95 0.91
95 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (94 bp):
AGTGTAAGATATGTCTGGGACATGCATCAGACATAGTAGATGAGCCTGTGTAAGACATGTCTAGG
ACATGCATCGGCCTCGAGATATACAAGCC
Found at i:44997491 original size:49 final size:49
Alignment explanation
Indices: 44997419--44997548 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 49
44997409 TGTTGTGGTT
44997419 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGAT-GAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGGA-AGC
** * ** *
44997468 CAGTGTAAGACCTGTCTGGGACATATCATCGGCCTCGCTATATGGAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGGAAGC
* *
44997517 CAGTGTAAGACCATGTATGGGATATGGCATCG
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCG
44997549 GCATCTTAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 50 0.74
50 17 0.25
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGGAAGC
Found at i:44998441 original size:83 final size:83
Alignment explanation
Indices: 44998302--44998472 Score: 288
Period size: 83 Copynumber: 2.1 Consensus size: 83
44998292 CAGGTAGATA
* *
44998302 CACGGTCAGTTCCACGGGCGTGTGGTTCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
1 CACGGTCAGTTCCACGGGCGAGTGGATCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
44998367 AATGCATGGTAGTAAACG
66 AATGCATGGTAGTAAACG
* * * *
44998385 CACGGTTAGTTCCACGGGTGAGTGGATCGGCCGTGTGTCCCCTGCATGTAAAAATTGCAAGTCAG
1 CACGGTCAGTTCCACGGGCGAGTGGATCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
44998450 AATGCATGGTAGTAAACG
66 AATGCATGGTAGTAAACG
44998468 CACGG
1 CACGG
44998473 GCAGAGACAC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (83 bp):
CACGGTCAGTTCCACGGGCGAGTGGATCGACCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAG
AATGCATGGTAGTAAACG
Found at i:44998501 original size:83 final size:83
Alignment explanation
Indices: 44998332--44998504 Score: 222
Period size: 83 Copynumber: 2.1 Consensus size: 83
44998322 TGTGGTTCGA
** ***
44998332 CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGTTAGTTC
1 CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
* ** *
44998397 CACGGGTGAGTGGATCGG
66 CACGAGCCAGTGGATCAG
*
44998415 CCGTGTGTCCCCTGCATGTAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
1 CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
**
44998480 CAC-AGCCATGTGTCTCAG
66 CACGAGCCA-GTGGATCAG
44998498 CCGTGTG
1 CCGTGTG
44998505 GAGGACACGG
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
82 2 0.03
83 75 0.97
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (83 bp):
CCGTGTGTCCCCTGCATATAAAAATTGCAAGTCAGAATGCATGGTAGTAAACGCACGGGCAGAGA
CACGAGCCAGTGGATCAG
Found at i:45006114 original size:39 final size:40
Alignment explanation
Indices: 45005870--45006132 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
45005860 TTGAATGCTG
* * * * * *
45005870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * * *
45005910 TCCGGATTAAGAT-CCAAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
45005950 TTCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
45005990 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
45006030 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
45006070 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
45006109 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45006133 TGAACGAGGA
Statistics
Matches: 197, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.18
40 154 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:45006152 original size:79 final size:80
Alignment explanation
Indices: 45005909--45006167 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
45005899 AAGTGAATAT
* * * * * ** *
45005909 ATCCGGATTAAGAT-CCAAAGGCCTTTGTGCGAGATACTAAATTCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
45005973 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
45005989 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
45006054 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
45006069 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
45006133 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
45006148 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
45006168 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 92 0.60
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:45013900 original size:40 final size:40
Alignment explanation
Indices: 45013817--45014078 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
45013807 TTGAATGCTG
* * * * * *
45013817 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
45013857 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
45013897 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
45013937 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
45013977 TCCGGGTTAAGTCCCGAAGGAATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
45014017 TCCGGGTTATGTCCCCAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
45014056 ACCGGGCTATGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
45014079 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 10 0.05
39 23 0.12
40 155 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:45036584 original size:27 final size:27
Alignment explanation
Indices: 45036554--45036644 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 27
45036544 GGCGAACTAA
45036554 TATACGCCAATAGGTCTGGCAAGATGG
1 TATACGCCAATAGGTCTGGCAAGATGG
** * * * *
45036581 TATAATCCAACAAGTCAGGCAAGATAG
1 TATACGCCAATAGGTCTGGCAAGATGG
* ** *
45036608 TATATGCCAATAGGTCTACCGAGATGG
1 TATACGCCAATAGGTCTGGCAAGATGG
45036635 TATACGCCAA
1 TATACGCCAA
45036645 CAAGATTGAC
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
TATACGCCAATAGGTCTGGCAAGATGG
Found at i:45041351 original size:40 final size:40
Alignment explanation
Indices: 45041286--45041472 Score: 257
Period size: 40 Copynumber: 4.7 Consensus size: 40
45041276 CAATTGAAAA
* *
45041286 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* *
45041326 TTATTTTCAAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
45041366 TTATTTCCGAGTTACGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
45041406 CTATTTCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * * *
45041446 TTACATCCGGGCTAAATCCCGAAGGCA
1 TTATTTCCGAGTTAAGTCCCGAAGGCA
45041473 ATTGGGTTGG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (40 bp):
TTATTTCCGAGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:45046843 original size:6 final size:6
Alignment explanation
Indices: 45046832--45046868 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
45046822 AGTCTTCAAT
45046832 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA A
45046869 GGACTCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:45052314 original size:27 final size:27
Alignment explanation
Indices: 45052284--45052461 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45052274 ATATTGAGTC
* * * *
45052284 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45052311 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45052338 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45052366 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45052393 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45052420 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45052447 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45052462 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45052423 original size:82 final size:81
Alignment explanation
Indices: 45052305--45052460 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45052295 TGCTATATAA
* *
45052305 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45052370 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45052387 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45052451 CACTTAGTGC
65 CACTTAGTGC
45052461 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45052473 original size:82 final size:83
Alignment explanation
Indices: 45052284--45052473 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
45052274 ATATTGAGTC
* * * * *
45052284 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
45052348 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
45052366 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
45052427 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
45052447 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
45052474 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:45069873 original size:20 final size:20
Alignment explanation
Indices: 45069848--45069902 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
45069838 TGTGGTTCAA
*
45069848 CTCATTCGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
45069868 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
45069888 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
45069903 TTTAACTCGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:45071796 original size:13 final size:13
Alignment explanation
Indices: 45071770--45071826 Score: 82
Period size: 12 Copynumber: 4.5 Consensus size: 13
45071760 AAAAAAAAGG
45071770 AAAAAATTCG-AA
1 AAAAAATTCGAAA
45071782 AAAAAATTCGAAAA
1 AAAAAATTCG-AAA
*
45071796 AAAAAATTCAAAA
1 AAAAAATTCGAAA
45071809 AAAAAATTC-AAA
1 AAAAAATTCGAAA
45071821 AAAAAA
1 AAAAAA
45071827 AATTTGTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
12 19 0.45
13 12 0.29
14 11 0.26
ACGTcount: A:0.75, C:0.07, G:0.04, T:0.14
Consensus pattern (13 bp):
AAAAAATTCGAAA
Found at i:45071797 original size:14 final size:14
Alignment explanation
Indices: 45071770--45071830 Score: 92
Period size: 14 Copynumber: 4.6 Consensus size: 14
45071760 AAAAAAAAGG
45071770 AAAAAATTCG--AA
1 AAAAAATTCGAAAA
45071782 AAAAAATTCGAAAA
1 AAAAAATTCGAAAA
45071796 AAAAAATTC-AAAA
1 AAAAAATTCGAAAA
*
45071809 AAAAAATTCAAAAA
1 AAAAAATTCGAAAA
45071823 AAAAAATT
1 AAAAAATT
45071831 TGTATTCAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.22
13 13 0.28
14 23 0.50
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (14 bp):
AAAAAATTCGAAAA
Found at i:45071827 original size:13 final size:13
Alignment explanation
Indices: 45071770--45071827 Score: 91
Period size: 13 Copynumber: 4.5 Consensus size: 13
45071760 AAAAAAAAGG
*
45071770 AAAAAATTC-GAA
1 AAAAAATTCAAAA
45071782 AAAAAATTCGAAAA
1 AAAAAATTC-AAAA
45071796 AAAAAATTCAAAA
1 AAAAAATTCAAAA
45071809 AAAAAATTCAAAA
1 AAAAAATTCAAAA
45071822 AAAAAA
1 AAAAAA
45071828 ATTTGTATTC
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
12 9 0.21
13 23 0.53
14 11 0.26
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAAATTCAAAA
Found at i:45071919 original size:19 final size:19
Alignment explanation
Indices: 45071879--45071919 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45071869 TCAGTATTGG
* **
45071879 AAAAAAAAAAGAGGAATTA
1 AAAAAAAAAAGAAGAAAAA
45071898 AAAAAAAAAAGAAGAAAAA
1 AAAAAAAAAAGAAGAAAAA
45071917 AAA
1 AAA
45071920 TGTTTCAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAGAAGAAAAA
Found at i:45075096 original size:27 final size:27
Alignment explanation
Indices: 45075066--45075243 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45075056 ATATTGAGTC
* * * *
45075066 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45075093 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45075120 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45075148 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45075175 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45075202 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45075229 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45075244 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45075205 original size:82 final size:81
Alignment explanation
Indices: 45075087--45075242 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45075077 TGCTATATAA
* *
45075087 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45075152 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45075169 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45075233 CACTTAGTGC
65 CACTTAGTGC
45075243 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45083180 original size:27 final size:27
Alignment explanation
Indices: 45083150--45083327 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
45083140 ATATTGAGTC
* * * *
45083150 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
45083177 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45083204 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
45083232 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
45083259 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
45083286 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
45083313 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45083328 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:45083289 original size:82 final size:81
Alignment explanation
Indices: 45083171--45083326 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
45083161 TGCTATATAA
* *
45083171 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
45083236 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
45083253 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
45083317 CACTTAGTGC
65 CACTTAGTGC
45083327 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45083339 original size:82 final size:83
Alignment explanation
Indices: 45083150--45083339 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
45083140 ATATTGAGTC
* * * * *
45083150 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
45083214 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
45083232 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
45083293 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
45083313 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
45083340 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:45085369 original size:23 final size:24
Alignment explanation
Indices: 45085328--45085374 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
45085318 TAAGTAGATT
45085328 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAATAAAAGAAGTGAA-TAAAA
*
45085353 AGAAAA-AAAAGGA-TGAATAAAA
1 AGAAAATAAAAGAAGTGAATAAAA
45085375 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 4 0.19
24 6 0.29
25 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (24 bp):
AGAAAATAAAAGAAGTGAATAAAA
Found at i:45086134 original size:13 final size:13
Alignment explanation
Indices: 45086116--45086140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45086106 TAATGGTATA
45086116 TTGAATCCATGAC
1 TTGAATCCATGAC
45086129 TTGAATCCATGA
1 TTGAATCCATGA
45086141 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:45086719 original size:27 final size:27
Alignment explanation
Indices: 45086684--45086862 Score: 184
Period size: 27 Copynumber: 6.6 Consensus size: 27
45086674 TTAAATTGTA
45086684 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
45086711 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
45086738 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
45086765 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
45086793 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* *
45086820 TAGCACTAAGTGTGCGAGT-TGATTATA
1 TAGCACTAAGTGTGCGA-TATGACTATG
*
45086847 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
45086863 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:45086800 original size:82 final size:81
Alignment explanation
Indices: 45086686--45086841 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
45086676 AAATTGTATA
* *
45086686 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
45086750 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
45086767 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
45086832 TGCGAGTTGA
65 TGCGAATTGA
45086842 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:45086853 original size:82 final size:81
Alignment explanation
Indices: 45086682--45086862 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
45086672 GATTAAATTG
* *
45086682 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45086747 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
45086763 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45086827 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
*
45086845 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
45086863 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:45107152 original size:43 final size:43
Alignment explanation
Indices: 45107095--45107209 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
45107085 CAATGCCATA
* * * * **
45107095 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCTCTG
1 TCCCAGACAGGGTCTTACATGTAATCACATATCGACGCCAATG
* * *
45107138 TCCTAGACAGGGTCTTACACGTAATCTCATATCGACGCCAATG
1 TCCCAGACAGGGTCTTACATGTAATCACATATCGACGCCAATG
* * *
45107181 TCCCAGACATGGTGTTACATGAAATCACA
1 TCCCAGACAGGGTCTTACATGTAATCACA
45107210 CCTCGGAAGC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACATGTAATCACATATCGACGCCAATG
Found at i:45116261 original size:25 final size:25
Alignment explanation
Indices: 45116227--45116277 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
45116217 CTTCGCTCAA
*
45116227 TTTCCCTTCAGGAGTTTTGAGTTTT
1 TTTCCCTTCAGGAGTTTTGAGGTTT
45116252 TTTCCCTTCAGGAGTTTTGAGGTTT
1 TTTCCCTTCAGGAGTTTTGAGGTTT
45116277 T
1 T
45116278 CTTTATGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.51
Consensus pattern (25 bp):
TTTCCCTTCAGGAGTTTTGAGGTTT
Found at i:45116565 original size:42 final size:42
Alignment explanation
Indices: 45116505--45116597 Score: 177
Period size: 42 Copynumber: 2.2 Consensus size: 42
45116495 AATAGACCCT
45116505 ATCTAAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
1 ATCT-AGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
45116548 ATCTAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
1 ATCTAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
45116590 ATCTAGAG
1 ATCTAGAG
45116598 ATAGGGTGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 46 0.92
43 4 0.08
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (42 bp):
ATCTAGAGTAAATTTGTCATAATTAAGCGGGGTTGGTTGCAC
Found at i:45129711 original size:7 final size:7
Alignment explanation
Indices: 45129699--45129739 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
45129689 TCTTATGCAT
45129699 CCTAAAG
1 CCTAAAG
45129706 CCTAAAG
1 CCTAAAG
45129713 CCTAAAG
1 CCTAAAG
45129720 CCTAAAG
1 CCTAAAG
45129727 CCTAAAG
1 CCTAAAG
45129734 CCTAAA
1 CCTAAA
45129740 CCCCATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (7 bp):
CCTAAAG
Found at i:45130676 original size:21 final size:21
Alignment explanation
Indices: 45130626--45130669 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
45130616 ATAGGTAAAC
45130626 TTGCCTTCATCATGATAATAG
1 TTGCCTTCATCATGATAATAG
45130647 TTGCCTTCATCATGATAATAG
1 TTGCCTTCATCATGATAATAG
45130668 TT
1 TT
45130670 AGCTTCAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (21 bp):
TTGCCTTCATCATGATAATAG
Found at i:45133661 original size:43 final size:43
Alignment explanation
Indices: 45133598--45133685 Score: 110
Period size: 43 Copynumber: 2.0 Consensus size: 43
45133588 TTTGTGATTC
* *
45133598 TGATATGTGTTTACGAGTAAGGCC-CTGTCTGGGACAG-TGGCAT
1 TGATATGTGGTTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCAT
45133641 TGATATGTGGTTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 TGATATGTGGTTACGA-GTAAGACCACGTCTGGGACGTTGGCAT
45133684 TG
1 TG
45133686 TACAATTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
42 2 0.05
43 37 0.93
44 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.31
Consensus pattern (43 bp):
TGATATGTGGTTACGAGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:45135175 original size:53 final size:53
Alignment explanation
Indices: 45134992--45135199 Score: 231
Period size: 55 Copynumber: 3.8 Consensus size: 53
45134982 ATTAGGGTTT
* * *
45134992 AAGGATACCGTGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
* * * *
45135047 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
45135102 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
* * *
45135155 AAGGATACAATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
45135200 TCAAAAGGAT
Statistics
Matches: 128, Mismatches: 20, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 6 0.05
53 43 0.34
54 8 0.06
55 67 0.52
56 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:45135198 original size:108 final size:110
Alignment explanation
Indices: 45135002--45135199 Score: 305
Period size: 108 Copynumber: 1.8 Consensus size: 110
45134992 AAGGATACCG
*
45135002 TGTAAGACCATGCTAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
*
45135067 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* *
45135112 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATA-CAATGTAAGAC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAATC-ATGTAAGAC
*
45135173 CATGTCAAGACATGGCAATGGTAAGTT
64 CATGTCAAGACATGGCAATGATAAGTT
45135200 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
107 4 0.05
108 47 0.58
109 7 0.09
110 23 0.28
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:45142066 original size:28 final size:26
Alignment explanation
Indices: 45142001--45142074 Score: 116
Period size: 28 Copynumber: 2.8 Consensus size: 26
45141991 GATGTACTAT
45142001 TATA-CCCTATGTATGC-AAATTACA
1 TATACCCCTATGTATGCAAAATTACA
45142025 TATACCCCTATGTATGCAAAATTACCA
1 TATACCCCTATGTATGCAAAATTA-CA
45142052 TAATACCCCTATGTATGCAAAAT
1 T-ATACCCCTATGTATGCAAAAT
45142075 GACCTTTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
24 4 0.09
25 12 0.26
26 6 0.13
27 3 0.07
28 21 0.46
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (26 bp):
TATACCCCTATGTATGCAAAATTACA
Found at i:45142085 original size:28 final size:27
Alignment explanation
Indices: 45142000--45142087 Score: 110
Period size: 28 Copynumber: 3.3 Consensus size: 27
45141990 AGATGTACTA
45142000 TTATA-CCCTATGTATGC-AAATTA-C
1 TTATACCCCTATGTATGCAAAATTACC
*
45142024 ATATACCCCTATGTATGCAAAATTACC
1 TTATACCCCTATGTATGCAAAATTACC
* *
45142051 ATAATACCCCTATGTATGCAAAATGACC
1 -TTATACCCCTATGTATGCAAAATTACC
45142079 TTTATACCC
1 -TTATACCC
45142088 TTAGAGTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
24 4 0.07
25 12 0.22
26 6 0.11
27 1 0.02
28 31 0.57
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (27 bp):
TTATACCCCTATGTATGCAAAATTACC
Found at i:45142236 original size:27 final size:26
Alignment explanation
Indices: 45142196--45142284 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 26
45142186 AGGAAGCGTC
45142196 CTGGTGGCTA-TGCCACAAATTATTGTT
1 CTGGTGGC-ACTGCCACAAA-TATTGTT
* * *
45142223 CTGGTGGCCCTGCCACATATACCTGTT
1 CTGGTGGCACTGCCACAAATA-TTGTT
*
45142250 CTGGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATAT-TGT-T
45142279 CTGGTG
1 CTGGTG
45142285 ACTCTATCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
26 2 0.04
27 34 0.68
28 7 0.14
29 7 0.14
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (26 bp):
CTGGTGGCACTGCCACAAATATTGTT
Found at i:45143398 original size:11 final size:10
Alignment explanation
Indices: 45143370--45143403 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
45143360 AGCCTGTAAG
45143370 TATTCTGAAT
1 TATTCTGAAT
*
45143380 TTTTCTGAAT
1 TATTCTGAAT
45143390 ATATTCTGAAT
1 -TATTCTGAAT
45143401 TAT
1 TAT
45143404 CTGTCTGCAC
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:45149917 original size:28 final size:28
Alignment explanation
Indices: 45149877--45149942 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
45149867 GATGTACTAT
*
45149877 ATACCCCTATGTATGCAAAATTACCGTA
1 ATACCCCTATGTATGCAAAATGACCGTA
* *
45149905 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCGTA
45149933 ATACCCCTAT
1 ATACCCCTAT
45149943 AGTTAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCGTA
Found at i:45150105 original size:27 final size:27
Alignment explanation
Indices: 45150047--45150136 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
45150037 AGGAAGCGTC
45150047 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
45150075 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
45150102 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
45150131 CTGGTG
1 CTGGTG
45150137 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
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:45150155 original size:55 final size:56
Alignment explanation
Indices: 45150047--45150161 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
45150037 AGGAAGCGTC
* *
45150047 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
45150102 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
45150158 CTGG
1 CTGG
45150162 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:45156692 original size:27 final size:27
Alignment explanation
Indices: 45156649--45156861 Score: 230
Period size: 27 Copynumber: 7.9 Consensus size: 27
45156639 AACATGTCAA
*
45156649 GAAAGAAAAAGCCTTTGTGATGAACTCT
1 GAAAG-AAAAGCCTTTGTGGTGAACTCT
* **
45156677 GAAAGAAAAACCTTTGTGGCAAACTCT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* *
45156704 AAAAGAAAAGTCC-TTGTGGCGAACTCT
1 GAAAGAAAAG-CCTTTGTGGTGAACTCT
* * * *
45156731 AAAAGAAAAGCCTTTTTGATGAACTTT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* * *
45156758 AAAAGAAAAGCCTTTGTGCTGAATTCT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* * *
45156785 GAAAGAAGAGCCTTTATGGTGAACTTT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
* *
45156812 GAAAGAAAAGCCTTTGTGGCGAACTTT
1 GAAAGAAAAGCCTTTGTGGTGAACTCT
*
45156839 GAAAGAAGAGCCTTTGTGGTGAA
1 GAAAGAAAAGCCTTTGTGGTGAA
45156862 ATTTGGATGG
Statistics
Matches: 157, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 148 0.94
28 7 0.04
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGTGAACTCT
Found at i:45160048 original size:39 final size:39
Alignment explanation
Indices: 45159999--45160149 Score: 208
Period size: 39 Copynumber: 4.0 Consensus size: 39
45159989 TATGTTACCG
*
45159999 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
45160038 GCACGAAGCCTGC---A----AGTCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAG-CCCGGATACATTTCCA
* *
45160071 GCATGAAGCCTGCGGGACTTTAGCCCAGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
*
45160110 GCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
45160149 G
1 G
45160150 TGTCTTGCTT
Statistics
Matches: 98, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
32 2 0.02
33 28 0.29
36 2 0.02
39 64 0.65
40 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (39 bp):
GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
Found at i:45166789 original size:39 final size:39
Alignment explanation
Indices: 45166740--45166890 Score: 226
Period size: 39 Copynumber: 4.0 Consensus size: 39
45166730 TATGTTACCG
*
45166740 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
45166779 GCACGAAGCCTGC---A----AGTCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAG-CCCGGATACATTTCCA
45166812 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
*
45166851 GCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTTCCA
1 GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
45166890 G
1 G
45166891 TGTCTTGCTT
Statistics
Matches: 102, Mismatches: 2, Indels: 16
0.85 0.02 0.13
Matches are distributed among these distances:
32 2 0.02
33 29 0.28
36 2 0.02
39 67 0.66
40 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
GCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCA
Found at i:45166805 original size:33 final size:34
Alignment explanation
Indices: 45166760--45166864 Score: 142
Period size: 33 Copynumber: 3.0 Consensus size: 34
45166750 TGCGGGACTT
45166760 TAGCCCGGATACATTTCCAGCACGAAGCCTGC-A
1 TAGCCCGGATACATTTCCAGCACGAAGCCTGCGA
45166793 -AGTCCCGGATACATTTCCAGCACGAAGCCTGCGGGA
1 TAG-CCCGGATACATTTCCAGCACGAAGCCTGC--GA
45166829 CTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCG
1 ---TAGCCCGGATACATTTCCAGCACGAAGCCTGCG
45166865 GGTCTTTAGC
Statistics
Matches: 64, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
32 2 0.03
33 29 0.45
36 1 0.02
37 1 0.02
39 29 0.45
40 2 0.03
ACGTcount: A:0.25, C:0.32, G:0.24, T:0.19
Consensus pattern (34 bp):
TAGCCCGGATACATTTCCAGCACGAAGCCTGCGA
Found at i:45173098 original size:40 final size:40
Alignment explanation
Indices: 45173017--45173316 Score: 304
Period size: 40 Copynumber: 7.5 Consensus size: 40
45173007 CTCAAGTAAT
* *
45173017 CTTCGGGT-TTAG-CCGGATATAA-CTACTTGCAC-AAGGC
1 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** *
45173054 CTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* **
45173094 CTTCGGGACTTAGCCCGGATATAATCGTTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
45173134 CTTCGAGTTTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * * **
45173174 CTTTGAGTTTTAGCCCGGATATAATTGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * *
45173214 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* * * * *
45173254 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAATCA-CTAGCACAAATGC
*
45173295 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
45173317 CATTCGAATA
Statistics
Matches: 217, Mismatches: 39, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
37 8 0.04
38 4 0.02
39 14 0.06
40 162 0.75
41 29 0.13
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:45180720 original size:40 final size:40
Alignment explanation
Indices: 45180648--45180939 Score: 295
Period size: 40 Copynumber: 7.3 Consensus size: 40
45180638 TCTTTGGGAT
* *
45180648 TTAG-CCGGATATAA-CTACTTGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* ** * *
45180686 TTAGCCCGGATGTGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
** * *
45180726 TTAGCCCGGATATAATCGTTAGCACAAATGCCTTCGAGTT
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * *
45180766 TTAGCCCGGATATAATCGCTAGCACAAATGCCTTTGAGTT
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
**
45180806 TTAGCCCGGATATAATTGCTAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * *
45180846 TTAGCCCGGATAT-AGCAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
45180886 TTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAATCA-CTAGCACAAATGCCTTCGGGTC
45180927 TTAGCCCGGATAT
1 TTAGCCCGGATAT
45180940 CATTCGAATA
Statistics
Matches: 209, Mismatches: 39, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
38 4 0.02
39 14 0.07
40 162 0.78
41 29 0.14
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:45182597 original size:15 final size:16
Alignment explanation
Indices: 45182579--45182608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45182569 TTGTGCCTTA
45182579 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
45182594 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
45182609 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:45186235 original size:13 final size:13
Alignment explanation
Indices: 45186217--45186241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45186207 TATGGTCTAG
45186217 GATTTCATGAAAT
1 GATTTCATGAAAT
45186230 GATTTCATGAAA
1 GATTTCATGAAA
45186242 ATTTTGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
GATTTCATGAAAT
Found at i:45189198 original size:27 final size:27
Alignment explanation
Indices: 45189050--45189180 Score: 217
Period size: 28 Copynumber: 4.8 Consensus size: 27
45189040 TAAATTGTGC
* *
45189050 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45189077 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45189105 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45189132 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
45189160 AGCACTAAGTGTGCGAGTTGA
1 AGCACTAAGTGTGCGAGTTGA
45189181 TTATATAGAC
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
27 47 0.47
28 52 0.53
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45189198 original size:55 final size:55
Alignment explanation
Indices: 45189050--45189180 Score: 226
Period size: 55 Copynumber: 2.4 Consensus size: 55
45189040 TAAATTGTGC
* *
45189050 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
45189105 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
45189160 AGCACTAAGTGTGCGAGTTGA
1 AGCACTAAGTGTGCGAGTTGA
45189181 TTATATAGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:45196658 original size:28 final size:27
Alignment explanation
Indices: 45196601--45196749 Score: 217
Period size: 27 Copynumber: 5.4 Consensus size: 27
45196591 TAAATTGTGC
* * *
45196601 AGCACTAACTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
45196628 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
45196656 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45196683 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
45196711 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
45196738 AGCACTGAGTGT
1 AGCACTAAGTGT
45196750 CCGGACTTAA
Statistics
Matches: 114, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 62 0.54
28 52 0.46
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:45196669 original size:55 final size:55
Alignment explanation
Indices: 45196601--45196749 Score: 226
Period size: 55 Copynumber: 2.7 Consensus size: 55
45196591 TAAATTGTGC
* * *
45196601 AGCACTAACTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
45196656 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
45196711 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGT
45196750 CCGGACTTAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 86 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:45199359 original size:6 final size:6
Alignment explanation
Indices: 45199348--45199504 Score: 121
Period size: 6 Copynumber: 25.8 Consensus size: 6
45199338 AACCAAAATG
*
45199348 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
45199396 AGTAA-C AGAATC AGAATT AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
45199445 AGTATT AGTAA-C AGAATC AGAATC AGAATT AGAATTAC ATG-A-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAA-T-C A-GAATC AGAATC
45199494 AGAATC AGAAT
1 AGAATC AGAAT
45199505 GTGAATGCAA
Statistics
Matches: 121, Mismatches: 14, Indels: 32
0.72 0.08 0.19
Matches are distributed among these distances:
4 1 0.01
5 11 0.09
6 97 0.80
7 7 0.06
8 4 0.03
9 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:45199363 original size:30 final size:29
Alignment explanation
Indices: 45199327--45199504 Score: 150
Period size: 30 Copynumber: 6.1 Consensus size: 29
45199317 AAGAAACATT
* * *
45199327 ATCAGAATTGGAACCAAAATGAGAATCAGA
1 ATCAGAATTGTAA-CAGAATCAGAATCAGA
*
45199357 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAAT-TGTAACAGAATCAGAATCAGA
*
45199387 ATCA-ATATTAGTAACAGAATCAGAATTAGA
1 ATCAGA-ATT-GTAACAGAATCAGAATCAGA
***
45199417 ATCAGAA-T-TAGGTG-A-CAGAATCAGA
1 ATCAGAATTGTAACAGAATCAGAATCAGA
*
45199442 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATT-GTAACAGAATCAGAATCAGA
* * *
45199472 ATTAGAATTACATGACAGAATCAGAATCAGA
1 ATCAGAATT--GTAACAGAATCAGAATCAGA
45199503 AT
1 AT
45199505 GTGAATGCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
25 15 0.13
26 2 0.02
27 3 0.03
28 3 0.03
29 3 0.03
30 69 0.58
31 24 0.20
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.21
Consensus pattern (29 bp):
ATCAGAATTGTAACAGAATCAGAATCAGA
Found at i:45199491 original size:49 final size:53
Alignment explanation
Indices: 45199348--45199501 Score: 184
Period size: 55 Copynumber: 2.8 Consensus size: 53
45199338 AACCAAAATG
** * *
45199348 AGAATCAGAATCAGAATCAGTAACAG-AATCAGAATCAGAATCAATATTAGTAAC
1 AGAATCAGAATCAGAATCAG-AATTGTGA-CAGAATCAGAATCAGTATTAGTAAC
*
45199402 AGAATCAGAATTAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGAATT--GTGACAGAATCAGAATCAGTATTAGTAAC
* *
45199457 AGAATCAGAATCAGAATTAGAATTACATGACAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAGAATT--GTGACAGAATCAGAATCAG
45199502 AATGTGAATG
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.02
54 19 0.22
55 66 0.75
56 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (53 bp):
AGAATCAGAATCAGAATCAGAATTGTGACAGAATCAGAATCAGTATTAGTAAC
Found at i:45199659 original size:27 final size:26
Alignment explanation
Indices: 45199622--45199687 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
45199612 AGCATGGCTG
*
45199622 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
45199648 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
45199675 CCAGAATCAGATA
1 CCAGAA-CAGATA
45199688 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:45199692 original size:27 final size:27
Alignment explanation
Indices: 45199622--45199695 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
45199612 AGCATGGCTG
* *
45199622 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
45199648 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
45199675 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
45199696 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:45199702 original size:27 final size:27
Alignment explanation
Indices: 45199646--45199703 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
45199636 GTGACAGAGT
* * *
45199646 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
45199673 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
45199700 CACC
1 CACC
45199704 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:45200071 original size:27 final size:26
Alignment explanation
Indices: 45200006--45200088 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
45199996 TCGATCGGTC
* ** *
45200006 AACAGATATTGTGACAGAGTAACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
45200032 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
45200059 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
45200086 AAC
1 AAC
45200089 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:45200317 original size:27 final size:27
Alignment explanation
Indices: 45200287--45200481 Score: 205
Period size: 27 Copynumber: 7.3 Consensus size: 27
45200277 GGGGCAAAAT
* * * *
45200287 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
45200314 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45200341 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
45200368 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
45200395 TGTAATTCTATCCTATAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
45200422 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
45200449 -AAAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
*
45200475 AGTAATT
1 GGTAATT
45200482 TCACAATCAA
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
25 1 0.01
26 20 0.14
27 119 0.85
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:45200391 original size:81 final size:80
Alignment explanation
Indices: 45200305--45200481 Score: 228
Period size: 81 Copynumber: 2.2 Consensus size: 80
45200295 TACCCCATAA
* * * * *
45200305 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAAGGGTATTTC-A
*
45200370 TAATTCTACCCTACAG
65 AAATTCTACCCTACAG
** * * * *
45200386 GGGTATTTTTGTAATTCTATCCTATAAAGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
1 GGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
45200451 AATTCTACCCTACAG
66 AATTCTACCCTACAG
*
45200466 AGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
45200482 TCACAATCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 29 0.35
81 53 0.65
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (80 bp):
GGGTATTTCAGTAATTCTACCCTACAAAGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAA
AATTCTACCCTACAG
Found at i:45200522 original size:27 final size:27
Alignment explanation
Indices: 45200486--45201026 Score: 598
Period size: 27 Copynumber: 20.2 Consensus size: 27
45200476 GTAATTTCAC
*
45200486 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
45200513 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
** * * *
45200540 AA-CTGAGATTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * * *
45200567 AATCAAGGGTAAAACGGTGATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45200594 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
**
45200621 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45200648 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
45200675 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45200702 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
45200729 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45200756 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
45200783 AA-CTAAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
45200810 AATCGAGGATAAATA--GT-ATT-TAGA
1 AATCGAGGGTAAA-ACGGTAATTCTATA
45200834 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45200861 AATTGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45200888 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
45200915 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45200942 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45200969 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
45200996 AAT-GAGGGTAGAACGGTAATTGTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
45201022 AATCG
1 AATCG
45201027 GGAGTACTTT
Statistics
Matches: 433, Mismatches: 67, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.00
24 14 0.03
25 5 0.01
26 30 0.07
27 378 0.87
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:45203053 original size:6 final size:6
Alignment explanation
Indices: 45203042--45203228 Score: 165
Period size: 6 Copynumber: 30.8 Consensus size: 6
45203032 AACCAAAATG
*
45203042 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
45203090 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATT AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* *
45203139 AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
45203187 AGAATC AGAATT AGAATTAC ATG-A-C AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAA-T-C A-GAATC AGAATC AGAATC AGAAT
45203229 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 14, Indels: 36
0.75 0.07 0.18
Matches are distributed among these distances:
4 1 0.01
5 13 0.09
6 121 0.81
7 9 0.06
8 4 0.03
9 1 0.01
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:45203057 original size:30 final size:30
Alignment explanation
Indices: 45203021--45203228 Score: 209
Period size: 30 Copynumber: 7.1 Consensus size: 30
45203011 AAGAAACATT
* *
45203021 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
45203051 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
45203081 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
* *
45203111 ATCAGAATTAGGTGACAGAATTAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
45203142 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
45203166 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
45203196 ATTAGAATTA-CATGACAGAATCAGAATCAGA
1 ATCAGAATTAGGA--ACAGAATCAGAATCAGA
45203227 AT
1 AT
45203229 GTGAATGCAA
Statistics
Matches: 153, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
24 21 0.14
27 1 0.01
28 1 0.01
29 2 0.01
30 84 0.55
31 44 0.29
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:45203143 original size:85 final size:85
Alignment explanation
Indices: 45203042--45203228 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
45203032 AACCAAAATG
45203042 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
**
45203107 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTACATGAC
* *
45203127 AGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
45203192 CAGAATTAGAATTACATGAC
66 CAGAATCAGAATTACATGAC
45203212 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
45203229 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTACATGAC
Found at i:45203383 original size:27 final size:26
Alignment explanation
Indices: 45203346--45203411 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
45203336 AGCATGGCTG
*
45203346 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
45203372 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
45203399 CCAGAATCAGATA
1 CCAGAA-CAGATA
45203412 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:45203416 original size:27 final size:27
Alignment explanation
Indices: 45203346--45203419 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
45203336 AGCATGGCTG
* *
45203346 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
45203372 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
45203399 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
45203420 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:45203426 original size:27 final size:27
Alignment explanation
Indices: 45203370--45203427 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
45203360 GTGACAGAGT
* * *
45203370 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
45203397 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
45203424 CACC
1 CACC
45203428 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:45203794 original size:27 final size:27
Alignment explanation
Indices: 45203731--45203809 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
45203721 TGATCGATCA
* *
45203731 ACAGATATTGTGACAGAG-CACCAAAT
1 ACAGATATTGTGGCAGAGCCACCAGAT
45203757 ACAGATATTGTGGCAGAGCCACCAGA-
1 ACAGATATTGTGGCAGAGCCACCAGAT
* *
45203783 GCAGATATTTGTGGCATAGCCACCAGA
1 ACAGATA-TTGTGGCAGAGCCACCAGA
45203810 ACGCTTCCTC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 23 0.49
27 24 0.51
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
ACAGATATTGTGGCAGAGCCACCAGAT
Found at i:45204040 original size:27 final size:27
Alignment explanation
Indices: 45204010--45204151 Score: 194
Period size: 27 Copynumber: 5.3 Consensus size: 27
45204000 GGGGCAAAAT
* * * *
45204010 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
45204037 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
45204064 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
45204091 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
45204118 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
45204145 AGTAATT
1 GGTAATT
45204152 TCACAATCAA
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:45204749 original size:27 final size:27
Alignment explanation
Indices: 45204161--45204741 Score: 623
Period size: 27 Copynumber: 21.6 Consensus size: 27
45204151 TTCACAATCA
* *
45204161 AGGGTAAAACGGTAATTCAATAAATTT
1 AGGGTAAAACGGTAATTCTATAAATTG
** * * * *
45204188 TTGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATTG
* ** **
45204215 AGGGTAAACCAATAATTCTATAAATCA
1 AGGGTAAAACGGTAATTCTATAAATTG
* * * *
45204242 AGGGTAAAACGGTGATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTATAAATTG
* * *
45204269 AGGGTAAAACGGCAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATTG
*
45204296 AGGGTAAATA--GTAATTCTATAAACTG
1 AGGGTAAA-ACGGTAATTCTATAAATTG
* *
45204322 AGGGTAAAACGGTAATTCTGTAAA-TC
1 AGGGTAAAACGGTAATTCTATAAATTG
* ** * *
45204348 AAGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATTG
* *
45204375 AGGGTAAAACGGTAATTCTGTAAATTA
1 AGGGTAAAACGGTAATTCTATAAATTG
*
45204402 AGGGTAAAACGGTAATT-T-TACAATCG
1 AGGGTAAAACGGTAATTCTATA-AATTG
*
45204428 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATTG
* *
45204455 AGGGTAAAACAGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTATAAATTG
*
45204482 AGGGTAAAACGGTAATTCTATAAACTG
1 AGGGTAAAACGGTAATTCTATAAATTG
*
45204509 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATTG
* ** * * *
45204536 AGGATAAAATAGTAATTTTACAAATCG
1 AGGGTAAAACGGTAATTCTATAAATTG
*
45204563 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATTG
*
45204590 AGGGTAAAACAGTAATTCTATAAATTG
1 AGGGTAAAACGGTAATTCTATAAATTG
* * **
45204617 AGGGTAAAACGATAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTATAAATTG
* *
45204644 AGGGTAAAACGGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATTG
* *
45204671 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATTG
* *
45204698 AGGGTAAGACGGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTATAAATTG
45204725 AGGGTAAAACGGTAATT
1 AGGGTAAAACGGTAATT
45204742 TTGTAAATCG
Statistics
Matches: 469, Mismatches: 78, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
25 3 0.01
26 63 0.13
27 400 0.85
28 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTATAAATTG
Found at i:45206922 original size:43 final size:43
Alignment explanation
Indices: 45206834--45207087 Score: 287
Period size: 43 Copynumber: 5.9 Consensus size: 43
45206824 TTGAAGCTAC
*
45206834 TATACTAGCACACACAGTGCATCATCAGATAAAACCAAAGAAAA
1 TATACTAGCACACACAGTGCATCATCGGAT-AAACCAAAGAAAA
* * * * * *
45206878 TATACTGGCAGACATAGTGTATCATCGGATATACCAAAGCAAA
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
* * *
45206921 TATACTAGCACACACAGTGTATCATCAGATATACCAAAGAAAA
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
* * *
45206964 TATA-TTG-ACACACTAGTGCATCATCGGATAAACTAAAAAAAA
1 TATACTAGCACACAC-AGTGCATCATCGGATAAACCAAAGAAAA
* * * * * * *
45207006 TATACTGGCACACGCAATGCATCATCGGATATATCGAAGCAAA
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
*
45207049 TATATTAGCACACACAGTGCATCATCGGATAAACCAAAG
1 TATACTAGCACACACAGTGCATCATCGGATAAACCAAAG
45207088 TATAACCTAT
Statistics
Matches: 173, Mismatches: 34, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
41 6 0.03
42 29 0.17
43 108 0.62
44 30 0.17
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (43 bp):
TATACTAGCACACACAGTGCATCATCGGATAAACCAAAGAAAA
Found at i:45207010 original size:85 final size:85
Alignment explanation
Indices: 45206834--45207086 Score: 310
Period size: 85 Copynumber: 2.9 Consensus size: 85
45206824 TTGAAGCTAC
* * * * *
45206834 TATACTAGCACACACAGTGCATCATCAGATAAAACCAAAGAAAATATACTGGCAGACATAGTGTA
1 TATACTAGCACACACAGTGCATCATCAGAT-ATACCAAAGAAAATATATTGACACAC-TAGTGCA
* **
45206899 TCATCGGATATACCAAAGCAAA
64 TCATCGGATAAACCAAAAAAAA
*
45206921 TATACTAGCACACACAGTGTATCATCAGATATACCAAAGAAAATATATTGACACACTAGTGCATC
1 TATACTAGCACACACAGTGCATCATCAGATATACCAAAGAAAATATATTGACACACTAGTGCATC
*
45206986 ATCGGATAAACTAAAAAAAA
66 ATCGGATAAACCAAAAAAAA
* * * * * * *
45207006 TATACTGGCACACGCAATGCATCATCGGATATATCGAAGCAAATATATTAGCACACAC-AGTGCA
1 TATACTAGCACACACAGTGCATCATCAGATATACCAAAGAAAATATATT-G-ACACACTAGTGCA
45207070 TCATCGGATAAACCAAA
64 TCATCGGATAAACCAAA
45207087 GTATAACCTA
Statistics
Matches: 145, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 65 0.45
86 45 0.31
87 35 0.24
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (85 bp):
TATACTAGCACACACAGTGCATCATCAGATATACCAAAGAAAATATATTGACACACTAGTGCATC
ATCGGATAAACCAAAAAAAA
Found at i:45207030 original size:128 final size:128
Alignment explanation
Indices: 45206843--45207087 Score: 348
Period size: 128 Copynumber: 1.9 Consensus size: 128
45206833 CTATACTAGC
* * * * *
45206843 ACACACAGTGCATCATCAGATAAAACCAAAGAAAATATACTGGCAGACATAGTGTATCATCGGAT
1 ACACACAGTGCATCATCAGATAAAACCAAAAAAAATATACTGGCACACACAATGCATCATCGGAT
* *
45206908 ATACCAAAGCAAATATACTAGCACACACAGTGTATCATCAGATATACCAAAGAAAATATATTG
66 ATACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACCAAAGAAAATATATTG
* * *
45206971 ACACACTAGTGCATCATCGGAT-AAACTAAAAAAAATATACTGGCACACGCAATGCATCATCGGA
1 ACACAC-AGTGCATCATCAGATAAAACCAAAAAAAATATACTGGCACACACAATGCATCATCGGA
* * * *
45207035 TATATCGAAGCAAATATATTAGCACACACAGTGCATCATCGGATAAACCAAAG
65 TATACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACCAAAG
45207088 TATAACCTAT
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 88 0.86
129 14 0.14
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (128 bp):
ACACACAGTGCATCATCAGATAAAACCAAAAAAAATATACTGGCACACACAATGCATCATCGGAT
ATACCAAAGCAAATATACTAGCACACACAGTGCATCATCAGATAAACCAAAGAAAATATATTG
Found at i:45213079 original size:40 final size:40
Alignment explanation
Indices: 45213004--45213214 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
45212994 TCTTCAGAAT
* * * * *
45213004 TTAG-CCGGATATAACCACAAGCACAATTGCTTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
45213043 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
45213083 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
45213123 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
45213163 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
45213203 TTAGCCCGGATA
1 TTAGCCCGGATA
45213215 TCATTCAAAT
Statistics
Matches: 153, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 5 0.03
40 144 0.94
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:45231814 original size:40 final size:40
Alignment explanation
Indices: 45231723--45231932 Score: 269
Period size: 40 Copynumber: 5.3 Consensus size: 40
45231713 TCCTCGTTCA
* * * ** *
45231723 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
45231762 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * *
45231802 ATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
45231842 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* ** * *
45231882 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
45231922 AAGGCCTTCGG
1 AATGCCTTCGG
45231933 ATCTTAGTCC
Statistics
Matches: 151, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 33 0.22
40 118 0.78
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:45231946 original size:80 final size:79
Alignment explanation
Indices: 45231723--45231932 Score: 321
Period size: 80 Copynumber: 2.6 Consensus size: 79
45231713 TCCTCGTTCA
* * * * *
45231723 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACGTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
45231788 TAACAACTCGCACG
66 TAACAACTCGCACG
* *
45231802 ATTGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
45231867 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* *
45231882 AATGCCTTCGGGACTTAACCCGGCTTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCAC-AATGCCTTCGG
45231933 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 33 0.28
80 85 0.72
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGCTTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Done.