Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 61 of 109
Found at i:19930115 original size:32 final size:31
Alignment explanation
Indices: 19930060--19930123 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
19930050 TATTTTAGAA
*
19930060 AGTTTTTAGAATTTTAACTTTTTTTAAAAAT
1 AGTTTTTAGAATTTTAACATTTTTTAAAAAT
*
19930091 AGTTTTTAGAATTTTTATA-ATTTTTTTAAAAT
1 AGTTTTTAGAA-TTTTA-ACATTTTTTAAAAAT
19930123 A
1 A
19930124 AAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 11 0.38
32 17 0.59
33 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (31 bp):
AGTTTTTAGAATTTTAACATTTTTTAAAAAT
Found at i:19933750 original size:24 final size:24
Alignment explanation
Indices: 19933694--19933829 Score: 80
Period size: 25 Copynumber: 5.5 Consensus size: 24
19933684 GGAGCACATA
*
19933694 AACGGGAAGCT-CATGTGAACCATGT
1 AACGGGAAGCTCCA-GAGAACCAT-T
* *
19933719 AACAGGAAGCTCCAGAGATCCATT
1 AACGGGAAGCTCCAGAGAACCATT
* * *
19933743 AACGGGAAGCT-CATACGAGCCAAT
1 AACGGGAAGCTCCAGA-GAACCATT
* * * *
19933767 ATCGGGAAGGTTCA-AGCCAACCAAT
1 AACGGGAAGCTCCAGAG--AACCATT
* *
19933792 ATCGGGAAGCTCCAGAGAGCCAATT
1 AACGGGAAGCTCCAGAGAACC-ATT
19933817 AATCGGGAAGCTC
1 AA-CGGGAAGCTC
19933830 ATGAAAGAGC
Statistics
Matches: 88, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
23 4 0.05
24 30 0.34
25 40 0.45
26 14 0.16
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.16
Consensus pattern (24 bp):
AACGGGAAGCTCCAGAGAACCATT
Found at i:19933998 original size:25 final size:26
Alignment explanation
Indices: 19933949--19934018 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 26
19933939 GGAGAGCTAT
**
19933949 TAACGGGAAGCTCGCAAGA-ACCATA
1 TAACGGGAAGCTCGTGAGAGACCATA
19933974 TAACGGGAAGCTCGTGAGAGA-CATA
1 TAACGGGAAGCTCGTGAGAGACCATA
* * *
19933999 TATCGGGATGCTCATGAGAG
1 TAACGGGAAGCTCGTGAGAG
19934019 CTAATAATGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 38 0.97
26 1 0.03
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (26 bp):
TAACGGGAAGCTCGTGAGAGACCATA
Found at i:19934232 original size:22 final size:23
Alignment explanation
Indices: 19934180--19934232 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 23
19934170 ACATGGCACT
*
19934180 TATAC-ATTTCAAATACATAACA
1 TATACAATTTAAAATACATAACA
*
19934202 T-T-CAATTTAAAATATATAA-A
1 TATACAATTTAAAATACATAACA
19934222 TATACAATTTA
1 TATACAATTTA
19934233 GTTACACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 8 0.31
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
TATACAATTTAAAATACATAACA
Found at i:19935982 original size:15 final size:14
Alignment explanation
Indices: 19935958--19935996 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
19935948 TTTACCTTGT
19935958 TTATTAGTATTATTA
1 TTATT-GTATTATTA
19935973 TTATTGGTATTATTA
1 TTATT-GTATTATTA
19935988 -TATTGTATT
1 TTATTGTATT
19935997 TAGCTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 5 0.22
14 4 0.17
15 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (14 bp):
TTATTGTATTATTA
Found at i:19938236 original size:20 final size:20
Alignment explanation
Indices: 19938211--19938248 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
19938201 GACAAGATGT
*
19938211 ATGGGTAGAAGTGGACTTGA
1 ATGGGTAGAAGTGAACTTGA
19938231 ATGGGTAGAAGTGAACTT
1 ATGGGTAGAAGTGAACTT
19938249 TTACAGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.37, T:0.26
Consensus pattern (20 bp):
ATGGGTAGAAGTGAACTTGA
Found at i:19944468 original size:30 final size:29
Alignment explanation
Indices: 19944402--19944482 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
19944392 ATCAATTTTT
*
19944402 GTTAGGGTTTTTAATTAAATTAGGTTATG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
19944431 GTTAGGGTTGTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
19944460 GTTTAGGGTTTTTAATTTAATTA
1 G-TTAGGGTTTTTAATTAAATTA
19944483 AATTAGCCGG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
29 28 0.60
30 19 0.40
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:19947656 original size:22 final size:22
Alignment explanation
Indices: 19947599--19947656 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
19947589 ATTTGAGAGT
*
19947599 TTAAGAGAATTTTGGAAGGAAA
1 TTAAGAGAATTTTTGAAGGAAA
*
19947621 TTAAGAGAATTTTTGAAGGAAT
1 TTAAGAGAATTTTTGAAGGAAA
*
19947643 TTGAGAGAATTTTT
1 TTAAGAGAATTTTT
19947657 TAGTGAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (22 bp):
TTAAGAGAATTTTTGAAGGAAA
Found at i:19947668 original size:22 final size:22
Alignment explanation
Indices: 19947602--19947670 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
19947592 TGAGAGTTTA
* *
19947602 AGAGAATTTTGGAAGGAAATTA
1 AGAGAATTTTTGAAGGAAATTG
*
19947624 AGAGAATTTTTGAAGGAATTTG
1 AGAGAATTTTTGAAGGAAATTG
*
19947646 AGAGAATTTTT-TAGTGAAATTG
1 AGAGAATTTTTGAAG-GAAATTG
19947668 AGA
1 AGA
19947671 TGGGATTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
21 2 0.05
22 39 0.95
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (22 bp):
AGAGAATTTTTGAAGGAAATTG
Found at i:19949111 original size:31 final size:31
Alignment explanation
Indices: 19949076--19949139 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
19949066 GAATACTCTA
* *
19949076 AAGTTCAGACCCCAATATGTA-AATAATTGTC
1 AAGTTCAAACCACAATATG-AGAATAATTGTC
* *
19949107 AAGTTCAAATCATAATATGAGAATAATTGTC
1 AAGTTCAAACCACAATATGAGAATAATTGTC
19949138 AA
1 AA
19949140 ATTTAAGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (31 bp):
AAGTTCAAACCACAATATGAGAATAATTGTC
Found at i:19957642 original size:31 final size:31
Alignment explanation
Indices: 19957601--19957661 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
19957591 CCAGGCCCGG
*
19957601 CCCGGGAAAAAA-TTCTTAAGCCCGAGCTCGA
1 CCCGGAAAAAAATTTC-TAAGCCCGAGCTCGA
19957632 CCCGGAAAAAAATTTCTAAGCCCGAGCTCG
1 CCCGGAAAAAAATTTCTAAGCCCGAGCTCG
19957662 GCTTGACCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.16
Consensus pattern (31 bp):
CCCGGAAAAAAATTTCTAAGCCCGAGCTCGA
Found at i:19958085 original size:20 final size:22
Alignment explanation
Indices: 19958035--19958076 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19958025 TGCCCAACTA
19958035 TATTT-ATTTTTTTTATTTTGG
1 TATTTAATTTTTTTTATTTTGG
19958056 TATTTAATTTTTTTTATTTTG
1 TATTTAATTTTTTTTATTTTG
19958077 CTTTAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (22 bp):
TATTTAATTTTTTTTATTTTGG
Found at i:19966532 original size:56 final size:56
Alignment explanation
Indices: 19966469--19966577 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 56
19966459 ACTTTGCTGC
* *
19966469 TGTTTGGGATCAACTTCCATCTTCAGGCTACTGGCTTGAATGTTGTGATTTTGTTA
1 TGTTTGGGATCAACTTCCATCTTCAAGCTACTGGCTTGAATGTTGTGACTTTGTTA
*
19966525 TGTTTGGGATCAACTTCCATCTTCAAGCTATTGGCTTGAATGTTGTGACTTTG
1 TGTTTGGGATCAACTTCCATCTTCAAGCTACTGGCTTGAATGTTGTGACTTTG
19966578 GTGAGTGGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (56 bp):
TGTTTGGGATCAACTTCCATCTTCAAGCTACTGGCTTGAATGTTGTGACTTTGTTA
Found at i:19966615 original size:21 final size:22
Alignment explanation
Indices: 19966586--19966642 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
19966576 TGGTGAGTGG
* *
19966586 ATGTCGCGACTTTG-TAGGCTA
1 ATGTTGCGACTTTGATAGGCCA
* *
19966607 ATGTTGCGACTTTGATCGTCCA
1 ATGTTGCGACTTTGATAGGCCA
19966629 ATGTTGCGACTTTG
1 ATGTTGCGACTTTG
19966643 GGTCCAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 13 0.42
22 18 0.58
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (22 bp):
ATGTTGCGACTTTGATAGGCCA
Found at i:19966649 original size:20 final size:21
Alignment explanation
Indices: 19966606--19966650 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
19966596 TTTGTAGGCT
19966606 AATGTTGCGACTTTGATCGTCC
1 AATGTTGCGACTTTGA-CGTCC
*
19966628 AATGTTGCGACTTTG-GGTCC
1 AATGTTGCGACTTTGACGTCC
19966648 AAT
1 AAT
19966651 AAGCTTGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (21 bp):
AATGTTGCGACTTTGACGTCC
Found at i:19967151 original size:12 final size:12
Alignment explanation
Indices: 19967134--19967159 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19967124 AAGAGTAGAG
19967134 AAAGAAAAACAT
1 AAAGAAAAACAT
19967146 AAAGAAAAACAT
1 AAAGAAAAACAT
19967158 AA
1 AA
19967160 CACAAGACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAGAAAAACAT
Found at i:19969219 original size:62 final size:60
Alignment explanation
Indices: 19969143--19969290 Score: 169
Period size: 57 Copynumber: 2.5 Consensus size: 60
19969133 AATTGATGGT
19969143 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCTTGATATAGCCCTCCCAAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-ATCTTGATATAGCCCTCCCAAAGAATATGTG-G
* * *
19969206 AAAAAGATCTAGCCCGGACGGGTG----ATCTTGATATAGTCCTCTCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTTGATATAGCCCTCCCAAAGAATATGTGG
* * * *
19969262 AAAATGGATTTAGTCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
19969291 GAATTAGGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
56 5 0.07
57 44 0.60
62 19 0.26
63 5 0.07
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (60 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:19971415 original size:26 final size:26
Alignment explanation
Indices: 19971367--19971417 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
19971357 TTTTGACATC
**
19971367 TTGCTGAGCTTGTAACTTACACATTT
1 TTGCTGAGCTTACAACTTACACATTT
* *
19971393 TTGCTGAGCTTACAGCTTGCACATT
1 TTGCTGAGCTTACAACTTACACATT
19971418 GGAAAGCTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (26 bp):
TTGCTGAGCTTACAACTTACACATTT
Found at i:19988778 original size:27 final size:27
Alignment explanation
Indices: 19988748--19988954 Score: 143
Period size: 27 Copynumber: 8.0 Consensus size: 27
19988738 AGGGATATAA
*
19988748 CAGTTATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
19988775 CAGTCATTTTAACCTAT-A-AGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
19988800 CAGTCATTTTA-CCTTTTAGGGGTATTT
1 CAGTCATTTTACCCTATGA-GGGTATTT
* *
19988827 C-GATCATTTTACCCTGTGGGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
* * *
19988854 CGGTCATTTTACCTTGTGAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
* *
19988881 -TGACGATTTTACCC-------GTATTT
1 CAGTC-ATTTTACCCTATGAGGGTATTT
* * *
19988901 CGGTTATTTTACCCTATAAGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTT
*
19988928 C-GATCATTCTACCCTATGAGGGTATTT
1 CAG-TCATTTTACCCTATGAGGGTATTT
19988955 AGGTCATAAC
Statistics
Matches: 145, Mismatches: 19, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
20 15 0.10
21 1 0.01
24 4 0.03
25 18 0.12
26 5 0.03
27 97 0.67
28 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGAGGGTATTT
Found at i:19988941 original size:47 final size:47
Alignment explanation
Indices: 19988848--19988941 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 47
19988838 CCCTGTGGGG
* * * * *
19988848 GTATTTCGGTCATTTTACCTTGTGAGGGTATTTTGACGATTTTACCC
1 GTATTTCGGTCATTTTACCCTATAAGGGTATTTCGACGATTCTACCC
*
19988895 GTATTTCGGTTATTTTACCCTATAAGGGTATTTCGATC-ATTCTACCC
1 GTATTTCGGTCATTTTACCCTATAAGGGTATTTCGA-CGATTCTACCC
19988942 TATGAGGGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
47 39 0.98
48 1 0.03
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (47 bp):
GTATTTCGGTCATTTTACCCTATAAGGGTATTTCGACGATTCTACCC
Found at i:19988961 original size:27 final size:27
Alignment explanation
Indices: 19988895--19988961 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
19988885 GATTTTACCC
* *
19988895 GTATTTCGGTTATTTTACCCTATAAGG
1 GTATTTCGGTCATTCTACCCTATAAGG
* *
19988922 GTATTTCGATCATTCTACCCTATGAGG
1 GTATTTCGGTCATTCTACCCTATAAGG
*
19988949 GTATTTAGGTCAT
1 GTATTTCGGTCAT
19988962 AACAGTGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.42
Consensus pattern (27 bp):
GTATTTCGGTCATTCTACCCTATAAGG
Found at i:19995642 original size:12 final size:13
Alignment explanation
Indices: 19995625--19995653 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19995615 ATTTAGATAG
19995625 ATTTATT-GTGAT
1 ATTTATTGGTGAT
19995637 ATTTATTGGTGAT
1 ATTTATTGGTGAT
19995650 ATTT
1 ATTT
19995654 TGATATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (13 bp):
ATTTATTGGTGAT
Found at i:19997834 original size:42 final size:41
Alignment explanation
Indices: 19997775--19998024 Score: 283
Period size: 42 Copynumber: 6.0 Consensus size: 41
19997765 CGCTTACAGA
* **
19997775 AAAAAACGCCGCAAAAGATCATGTTCTTTAATGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-G
*
19997817 AAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
19997858 AAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 AAAAAA-CGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
19997900 AAAAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGG
1 AAAAAA-CGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTAG
* * *
19997943 AAGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-G
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG
* * *
19997984 TTCAAAAATGTCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTT
1 --AAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTT
19998025 GTTCACAAAC
Statistics
Matches: 187, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
41 9 0.05
42 142 0.76
43 32 0.17
44 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:20015719 original size:81 final size:82
Alignment explanation
Indices: 20015595--20015746 Score: 179
Period size: 81 Copynumber: 1.9 Consensus size: 82
20015585 ATCCAAACGC
20015595 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACTAATGA-TATTCTTTTA-C
1 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACTAAT-ACTATTC-TTTAGC
20015658 GGCGTTTTTTTAAAAATGG
64 GGCGTTTTTTTAAAAATGG
**** * *
20015677 TGCGTTTTGGTTAA-G-ATCTTTGCGGCGCTT-TTTGTAATACGCCGCTAATACTGTTCTTTAGC
1 TGCGTTTTGGTTAAGGTAT-TTTGCGGCGCTTACAAATAA-ACGCCACTAATACTATTCTTTAGC
20015739 GGCGTTTT
64 GGCGTTTT
20015747 CTCGTAAACG
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
80 10 0.17
81 36 0.60
82 14 0.23
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.41
Consensus pattern (82 bp):
TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACTAATACTATTCTTTAGCGG
CGTTTTTTTAAAAATGG
Found at i:20015821 original size:195 final size:195
Alignment explanation
Indices: 20015489--20015868 Score: 602
Period size: 195 Copynumber: 1.9 Consensus size: 195
20015479 AATCTACCTC
*
20015489 TGGTTAAGATATTTGCAGGGCTTATAGTGATACGCCGCTAATACTATTCTTTAGCGGCGTTTTAT
1 TGGTTAAGATATTTGCAGGGCTTATAGTAATACGCCGCTAATACTATTCTTTAGCGGCGTTTTAT
** *
20015554 AGAAAACGCCACTAATTCTAATATACAATTGATCCAAACGCTGCGTTTTGGTTAAGGTATTTTGC
66 AGAAAACGCCACTAATTCTAATATACAATAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGC
*
20015619 GGCGCTTACAAATAAACGCCACTAATGATATTCTTTTACGGCGTTTTTTTAAAAATGGTGCGTTT
131 GGCGCTTACAAATAAACGCCACTAATGATATTCTTTTACGGCGTTTGTTTAAAAATGGTGCGTTT
* * * * *
20015684 TGGTTAAGATCTTTGC-GGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCGGCGTTTTC
1 TGGTTAAGATATTTGCAGG-GCTTATAGTAATACGCCGCTAATACTATTCTTTAGCGGCGTTTTA
* * *
20015748 TCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTT
65 TAGAAAACGCCACTAATTCTAATATACAAT-AAAACCAAACGCTGCGTTTTGGTTAAGGTATTTT
*
20015812 GCGGCGCTTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGTTTGTTTAAAAA
129 GCGGCGCTTACAAATAAACGCCACTAATGATATTCTTTTACGGCGTTTGTTTAAAAA
20015869 CGCCACTAAT
Statistics
Matches: 169, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
194 3 0.02
195 166 0.98
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (195 bp):
TGGTTAAGATATTTGCAGGGCTTATAGTAATACGCCGCTAATACTATTCTTTAGCGGCGTTTTAT
AGAAAACGCCACTAATTCTAATATACAATAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGC
GGCGCTTACAAATAAACGCCACTAATGATATTCTTTTACGGCGTTTGTTTAAAAATGGTGCGTTT
Found at i:20015991 original size:113 final size:112
Alignment explanation
Indices: 20015677--20016047 Score: 437
Period size: 114 Copynumber: 3.3 Consensus size: 112
20015667 TTAAAAATGG
* *
20015677 TGCGTTTTGGTTAAGAT-CTTTGCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCGG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTGTAAAACGCCGCTAATACTGTTCTTTAGCGG
* *
20015741 CGTTTTCTCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGC
66 CGTTTT-TCGAAAACGCCACTAATTCTAATATACCTC-GAACCAAACGC
* **** *
20015790 TGCGTTTTGGTTAAGGTATTTTGCGGCGC-TTACAAATAAACGCCACTAATGA-TGTTCTTTTA-
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTGTA-AAACGCCGCTAAT-ACTGTTC-TTTAG
** * * *
20015852 CGGCGTTTGTTTAAAAACGCCACTAATACTAATCTACCTCGAGACCAAACGT
63 CGGCGTTT-TTCGAAAACGCCACTAATTCTAATATACCTCGA-ACCAAACGC
* * *
20015904 TGCGTTTTCGTTAAGATA-TTTGCGGCGCTTTTTGTAAAACGCCGCTAATACTATTCTTTAGGGG
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTGTAAAACGCCGCTAATACTGTTCTTTAGCGG
* *
20015968 CGTTTTATCGAAAACGCCACTAATTCTAATATACAATTGAACCAAACGC
66 CGTTTT-TCGAAAACGCCACTAATTCTAATATAC-CTCGAACCAAACGC
*
20016017 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTT
1 TGCGTTTTGGTTAAGATATTTTGCGGCGCTT
20016048 ACAATAAATG
Statistics
Matches: 213, Mismatches: 33, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
112 6 0.03
113 100 0.47
114 101 0.47
115 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (112 bp):
TGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTGTAAAACGCCGCTAATACTGTTCTTTAGCGG
CGTTTTTCGAAAACGCCACTAATTCTAATATACCTCGAACCAAACGC
Found at i:20016065 original size:113 final size:111
Alignment explanation
Indices: 20015677--20016102 Score: 425
Period size: 113 Copynumber: 3.8 Consensus size: 111
20015667 TTAAAAATGG
**** *
20015677 TGCGTTTTGGTTAA-G-ATCTTTGCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCG
1 TGCGTTTTGGTTAAGGTAT-TTTGCGGCGCTTACAATAA-ACGCCACTAATACTGTTCTTTAGCG
* *
20015740 GCGTTTTCTCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGC
64 GCGTTTT-TCGAAAACGCCACTAATTCTAATATACCT-AGAACCAAACGC
20015790 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACTAATGA-TGTTCTTTTA-C
1 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTAC-AATAAACGCCACTAAT-ACTGTTC-TTTAGC
** * * * *
20015853 GGCGTTTGTTTAAAAACGCCACTAATACTAATCTACCTCGAGACCAAACGT
63 GGCGTTT-TTCGAAAACGCCACTAATTCTAATATACCTAGA-ACCAAACGC
* * **** * * *
20015904 TGCGTTTTCGTTAAGATA-TTTGCGGCGCTTTTTGTAAAACGCCGCTAATACTATTCTTTAGGGG
1 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAT-AAACGCCACTAATACTGTTCTTTAGCGG
* *
20015968 CGTTTTATCGAAAACGCCACTAATTCTAATATACAATTGAACCAAACGC
65 CGTTTT-TCGAAAACGCCACTAATTCTAATATAC-CTAGAACCAAACGC
*
20016017 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAATGCCACTAATTA-TGTTCTTTTA-CG
1 TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAA-TACTGTTC-TTTAGCG
**
20016080 GCGTTTTTTTAGAAACGCCACTA
64 GCGTTTTTCGA-AAACGCCACTA
20016103 GTTGTTCAGG
Statistics
Matches: 256, Mismatches: 41, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
112 9 0.04
113 130 0.51
114 106 0.41
115 11 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (111 bp):
TGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAATAAACGCCACTAATACTGTTCTTTAGCGGC
GTTTTTCGAAAACGCCACTAATTCTAATATACCTAGAACCAAACGC
Found at i:20017690 original size:18 final size:19
Alignment explanation
Indices: 20017654--20017690 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20017644 TTTAGCATGT
*
20017654 CAAATTACCAATTACTGAA
1 CAAATTACCAATTAATGAA
20017673 CAAATTACC-ATTAATGAA
1 CAAATTACCAATTAATGAA
20017691 TAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.27
Consensus pattern (19 bp):
CAAATTACCAATTAATGAA
Found at i:20017696 original size:19 final size:19
Alignment explanation
Indices: 20017655--20017696 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20017645 TTAGCATGTC
* *
20017655 AAATTACCAATTACTGAAC
1 AAATTACCAATTAATGAAA
20017674 AAATTACC-ATTAATGAATA
1 AAATTACCAATTAATGAA-A
20017693 AAAT
1 AAAT
20017697 ATTTGTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (19 bp):
AAATTACCAATTAATGAAA
Found at i:20022507 original size:29 final size:29
Alignment explanation
Indices: 20022457--20022516 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
20022447 CCTGTGAATA
* *
20022457 CCTCTAATAGATAGGATTACTTACATGGT
1 CCTCTAATAGATAAGATGACTTACATGGT
20022486 CCTCTAATAGATAAGATGACTTACATGGT
1 CCTCTAATAGATAAGATGACTTACATGGT
20022515 CC
1 CC
20022517 GAAGAGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (29 bp):
CCTCTAATAGATAAGATGACTTACATGGT
Found at i:20026462 original size:34 final size:34
Alignment explanation
Indices: 20026387--20026504 Score: 132
Period size: 34 Copynumber: 3.5 Consensus size: 34
20026377 TTCAATGCGT
* * **
20026387 TGGTGAGGTGTAGTTACTGCTC-GCCAGAGCAA-C
1 TGGTGTGGTGTAGTTACTACTCTAACA-AGCAATC
* *
20026420 TGGTGTGGTTTAGTTATTACTCTAACAAGCAATC
1 TGGTGTGGTGTAGTTACTACTCTAACAAGCAATC
* **
20026454 TGGTGTGGTGTAGTTACTACTGTAAGGAGCAATC
1 TGGTGTGGTGTAGTTACTACTCTAACAAGCAATC
20026488 TGGTGTGGTGTAGTTAC
1 TGGTGTGGTGTAGTTAC
20026505 CCGTGTATCC
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
33 23 0.32
34 49 0.68
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (34 bp):
TGGTGTGGTGTAGTTACTACTCTAACAAGCAATC
Found at i:20037835 original size:17 final size:18
Alignment explanation
Indices: 20037810--20037843 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20037800 GGATTTGAAC
*
20037810 TATATAATTT-ATTTTTT
1 TATACAATTTGATTTTTT
20037827 TATACAATTTGATTTTT
1 TATACAATTTGATTTTT
20037844 CTACTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
TATACAATTTGATTTTTT
Found at i:20040323 original size:21 final size:19
Alignment explanation
Indices: 20040271--20040324 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
20040261 CACATCGTTA
20040271 TTTAAAATTATTATTAACATG
1 TTTAAAA-T-TTATTAACATG
* *
20040292 TTTAGAGTTTATTAACATTG
1 TTTAAAATTTATTAACA-TG
20040312 TTTTAAAATTTAT
1 -TTTAAAATTTAT
20040325 CCTTTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 15 0.56
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTAAAATTTATTAACATG
Found at i:20040415 original size:151 final size:141
Alignment explanation
Indices: 20040251--20040529 Score: 432
Period size: 151 Copynumber: 1.9 Consensus size: 141
20040241 ATTATAATTT
* * *
20040251 TAAGGTACAACACATCGTTATTTAAAATTATTATTAACATGTTTAGAGTTTATTAACATTGTTTT
1 TAAGGTACAACACATCGTTATTTAAAATTATTATTAAAATCTTTAGAGTTTATTAACATCGTTTT
*
20040316 AAAATTTATCCTTTTTATTTTTAAACTTTATCTCATTGTATGTTTCATTATCTATATGTAAAAAT
66 AAAATTTATCCTTTTTA-TTTT--A---TA--TCATTATATGTTTCATTATCTATATGT-AAAAT
20040381 GTTTTTTTTTACAATAGTTTC
122 -TTTTTTTTTACAATAGTTTC
20040402 TAAGGTACAACACATCGTTATTTAAAATTATTATTAAAATCTTTAGAGTTTATTAACATCGTTTT
1 TAAGGTACAACACATCGTTATTTAAAATTATTATTAAAATCTTTAGAGTTTATTAACATCGTTTT
20040467 AAAATTTATCCTTTTTATTTTATATCATTATATGTTTCATTATCTATATGTAAAATTTTTTTT
66 AAAATTTATCCTTTTTATTTTATATCATTATATGTTTCATTATCTATATGTAAAATTTTTTTT
20040530 ATAATAATTT
Statistics
Matches: 124, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
141 7 0.06
142 5 0.04
143 26 0.21
145 2 0.02
148 1 0.01
150 4 0.03
151 79 0.64
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.51
Consensus pattern (141 bp):
TAAGGTACAACACATCGTTATTTAAAATTATTATTAAAATCTTTAGAGTTTATTAACATCGTTTT
AAAATTTATCCTTTTTATTTTATATCATTATATGTTTCATTATCTATATGTAAAATTTTTTTTTT
ACAATAGTTTC
Found at i:20042707 original size:15 final size:15
Alignment explanation
Indices: 20042687--20042716 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20042677 AAAAGGAGAG
20042687 TAATAGTGCGATTAA
1 TAATAGTGCGATTAA
20042702 TAATAGTGCGATTAA
1 TAATAGTGCGATTAA
20042717 GAGTCAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
TAATAGTGCGATTAA
Found at i:20042950 original size:2 final size:2
Alignment explanation
Indices: 20042943--20042971 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20042933 AGTGCAGCTT
20042943 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20042972 GCAGAAAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20048816 original size:27 final size:27
Alignment explanation
Indices: 20048785--20048939 Score: 147
Period size: 27 Copynumber: 5.7 Consensus size: 27
20048775 AAAGGTCAAT
*
20048785 AAATGATTGAAATACCCCTATAGGGTA
1 AAATGACTGAAATACCCCTATAGGGTA
*
20048812 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACTGAAATACCCCTATAGGGTA
* * *
20048839 AGATGA-TCAAGATACCCCCATAGGGTA
1 AAATGACTGAA-ATACCCCTATAGGGTA
*
20048866 AAATCA-TCGAAATA-CCCTCATAGGGTA
1 AAATGACT-GAAATACCCCT-ATAGGGTA
* * *
20048893 AGATGGCCGAAAT-CCCCTCATAGGGTA
1 AAATGACTGAAATACCCCT-ATAGGGTA
**
20048920 AAATGACTGTTATACCCCTA
1 AAATGACTGAAATACCCCTA
20048940 AGAGATGAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
26 5 0.05
27 91 0.88
28 7 0.07
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (27 bp):
AAATGACTGAAATACCCCTATAGGGTA
Found at i:20048869 original size:54 final size:54
Alignment explanation
Indices: 20048793--20048926 Score: 175
Period size: 54 Copynumber: 2.5 Consensus size: 54
20048783 ATAAATGATT
* *
20048793 GAAATACCCCTATAGGGTAAAATGACCGAAATACCC-CTATAGGGTAAGATGATC
1 GAAATACCCCCATAGGGTAAAATGACCGAAATACCCTC-ATAGGGTAAGATGACC
* * *
20048847 -AAGATACCCCCATAGGGTAAAATCATCGAAATACCCTCATAGGGTAAGATGGCC
1 GAA-ATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAGATGACC
20048901 GAAAT-CCCCTCATAGGGTAAAATGAC
1 GAAATACCCC-CATAGGGTAAAATGAC
20048927 TGTTATACCC
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
53 6 0.09
54 60 0.87
55 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (54 bp):
GAAATACCCCCATAGGGTAAAATGACCGAAATACCCTCATAGGGTAAGATGACC
Found at i:20049126 original size:26 final size:26
Alignment explanation
Indices: 20049090--20049196 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
20049080 TGAAGGAAGT
*
20049090 ATACTGTTACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
20049116 ATACTGTTACTGGCAGCTTTGCTGTG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * *
20049142 ATACTGTTACTCGCAGCTTTGTTACG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* ** *
20049168 ATACTATTACCAGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
20049194 ATA
1 ATA
20049197 TTGGTGTATT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:20051252 original size:21 final size:20
Alignment explanation
Indices: 20051214--20051253 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
20051204 AATTTTAAAA
*
20051214 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
20051234 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
20051254 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:20053099 original size:19 final size:18
Alignment explanation
Indices: 20053061--20053100 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20053051 ACTACATATT
*
20053061 GGATTCCTCAATCCTAAA
1 GGATTCCTCAATACTAAA
*
20053079 GGATTCCTCAATGATTAAA
1 GGATTCCTCAAT-ACTAAA
20053098 GGA
1 GGA
20053101 CCCACGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (18 bp):
GGATTCCTCAATACTAAA
Found at i:20053907 original size:24 final size:24
Alignment explanation
Indices: 20053880--20053927 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
20053870 AAGATTTAGT
20053880 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
20053904 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
20053928 TTATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:20055648 original size:24 final size:24
Alignment explanation
Indices: 20055621--20055668 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
20055611 AAGATTTAGT
20055621 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* *
20055645 ATTTATTAGTATAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
20055669 TTACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:20057612 original size:70 final size:69
Alignment explanation
Indices: 20057530--20057662 Score: 203
Period size: 70 Copynumber: 1.9 Consensus size: 69
20057520 CAGATTTAAA
* ** *
20057530 AAAAAGGGTCATGCCTAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAATT
1 AAAAAGGGTCATGCCCAGTAAGTTAGGACACGATCTCCTCATAATTCCCGAGATCGTTTAAAATT
20057595 TGGG
66 TGGG
* *
20057599 AAAAAGGGATCATGCCCAGTAAGTTAGGACATGATCTCCTCATAATTCTCGAGATCGTTTAAAA
1 AAAAAGGG-TCATGCCCAGTAAGTTAGGACACGATCTCCTCATAATTCCCGAGATCGTTTAAAA
20057663 CTTGAGTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 8 0.14
70 49 0.86
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (69 bp):
AAAAAGGGTCATGCCCAGTAAGTTAGGACACGATCTCCTCATAATTCCCGAGATCGTTTAAAATT
TGGG
Found at i:20061268 original size:9 final size:9
Alignment explanation
Indices: 20061254--20061278 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20061244 ACTTTAAATC
20061254 ATTTTTAAT
1 ATTTTTAAT
20061263 ATTTTTAAT
1 ATTTTTAAT
20061272 ATTTTTA
1 ATTTTTA
20061279 TAAAAACTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:20062765 original size:64 final size:64
Alignment explanation
Indices: 20062675--20062821 Score: 181
Period size: 64 Copynumber: 2.3 Consensus size: 64
20062665 AGTGCAGGGT
* * *
20062675 TCACACGGGCCAAGGAGACAGACGTGTGT-TCAGGCCATGTAACTCACTGATTACAAGATAAGGA
1 TCACACGGGCCAAGGACACAGACGTGTATCT-AGGCCATGTAACTCACTAATTACAAGATAAGGA
* * * * * *
20062739 TCTCACGGGCTAAGGACACA-AGCGTGTATCTAGGTCGTGTAACTCACTAATTATAAGATAATGA
1 TCACACGGGCCAAGGACACAGA-CGTGTATCTAGGCCATGTAACTCACTAATTACAAGATAAGGA
20062803 TCACACGGGCCAAGGACAC
1 TCACACGGGCCAAGGACAC
20062822 GGGCATGTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 68 0.97
65 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (64 bp):
TCACACGGGCCAAGGACACAGACGTGTATCTAGGCCATGTAACTCACTAATTACAAGATAAGGA
Found at i:20064140 original size:17 final size:16
Alignment explanation
Indices: 20064118--20064159 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
20064108 TTGGGAACCA
20064118 ATTTTAAATAATTTAAT
1 ATTTTAAATAATTT-AT
*
20064135 ATTTTAAATTATTTAT
1 ATTTTAAATAATTTAT
20064151 -TTTTAAATA
1 ATTTTAAATA
20064160 TAAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 2 0.09
17 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAAATAATTTAT
Found at i:20066844 original size:18 final size:16
Alignment explanation
Indices: 20066803--20066841 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
20066793 AAAAGAATTA
20066803 ATATAAAAA--ATAAT
1 ATATAAAAACTATAAT
20066817 ATATAAAAACTATAAT
1 ATATAAAAACTATAAT
20066833 ATATAAAAA
1 ATATAAAAA
20066842 AACAAACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.39
16 14 0.61
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
ATATAAAAACTATAAT
Found at i:20073931 original size:20 final size:20
Alignment explanation
Indices: 20073908--20073945 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20073898 ATGGCTAGGC
20073908 AGTTATTAAGTTTGTTTAGT
1 AGTTATTAAGTTTGTTTAGT
*
20073928 AGTTCTTAAGTTTGTTTA
1 AGTTATTAAGTTTGTTTA
20073946 ATAAGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.18, T:0.55
Consensus pattern (20 bp):
AGTTATTAAGTTTGTTTAGT
Found at i:20074056 original size:20 final size:20
Alignment explanation
Indices: 20074031--20074083 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
20074021 ATCTTTTTAC
*
20074031 TCTTGGTTTTAATCAATTGT
1 TCTTGGTTTCAATCAATTGT
*
20074051 TCTTGGTTTCAATCATTTGT
1 TCTTGGTTTCAATCAATTGT
*
20074071 TCTTAGTTTCAAT
1 TCTTGGTTTCAAT
20074084 TGATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (20 bp):
TCTTGGTTTCAATCAATTGT
Found at i:20075158 original size:11 final size:11
Alignment explanation
Indices: 20075144--20075219 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
20075134 GATAATCACT
20075144 TTAATATTAAA
1 TTAATATTAAA
20075155 TTAATA--AAA
1 TTAATATTAAA
* *
20075164 -TACTACTAAGA
1 TTAATATTAA-A
20075175 -TAAGTATTAAA
1 TTAA-TATTAAA
20075186 TTAATATTAATA
1 TTAATATTAA-A
20075198 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
20075211 ATAATATTA
1 TTAATATTA
20075220 TATTTAGAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 21 0.40
12 13 0.25
13 4 0.08
14 6 0.11
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:20077375 original size:33 final size:34
Alignment explanation
Indices: 20077324--20077456 Score: 135
Period size: 33 Copynumber: 3.7 Consensus size: 34
20077314 TTATCCGTTA
* *
20077324 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
20077358 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* *
20077399 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
20077433 TCGG-GGAATCAGCACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
20077457 CCCTTTATAT
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
33 40 0.48
34 9 0.11
36 3 0.04
38 1 0.01
39 3 0.04
41 6 0.07
42 21 0.25
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:20077448 original size:75 final size:75
Alignment explanation
Indices: 20077325--20077537 Score: 311
Period size: 75 Copynumber: 2.8 Consensus size: 75
20077315 TATCCGTTAT
* * *
20077325 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTT-AC
*
20077390 ATT-TAAGATA
65 ATTCCAAGATA
*
20077400 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTTAT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAA-CCCCTTTAC
20077465 ATTCCAAGATA
65 ATTCCAAGATA
* * * * *
20077476 TGGTGGAATTAGCACTTAGCAACCACCAATGAATCAGGAAATTAGCACTTAGCAACCCCTTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTT
20077538 TATATTCAAT
Statistics
Matches: 126, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
75 63 0.50
76 63 0.50
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTACA
TTCCAAGATA
Found at i:20077502 original size:76 final size:76
Alignment explanation
Indices: 20077325--20077544 Score: 311
Period size: 76 Copynumber: 2.9 Consensus size: 76
20077315 TATCCGTTAT
* *
20077325 CGGTGG-ATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAA-CCCCTTTC
1 CGGTGGAATT-AGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTT-
* *
20077388 ACATT-TAAGATA
64 ATATTCCAAGATA
*
20077400 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTTAT
1 CGGTGGAATTAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTTAT
20077465 ATTCCAAGATA
66 ATTCCAAGATA
* * * * *
20077476 TGGTGGAATTAGCACTTAGCAACCACCAATGAATCAGGAAATTAGCACTTAGCAACCCCTTTTAT
1 CGGTGGAATTAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTTAT
20077541 ATTC
66 ATTC
20077545 AATATACTCC
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
75 53 0.40
76 78 0.60
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (76 bp):
CGGTGGAATTAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCCTTTAT
ATTCCAAGATA
Found at i:20085847 original size:5 final size:5
Alignment explanation
Indices: 20085837--20085862 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20085827 TGTACAATAT
20085837 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
20085863 CTATTTACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:20088843 original size:24 final size:24
Alignment explanation
Indices: 20088811--20088860 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
20088801 GATTCATATA
*
20088811 TTTCTATTGCTTTTGGACTACTTT
1 TTTCTATTGATTTTGGACTACTTT
*
20088835 TTTCTATTGATTTTGGACTGCTTT
1 TTTCTATTGATTTTGGACTACTTT
20088859 TT
1 TT
20088861 CTTTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTCTATTGATTTTGGACTACTTT
Found at i:20090234 original size:20 final size:20
Alignment explanation
Indices: 20090211--20090248 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
20090201 TAAACATAAT
20090211 TTTTAATATTTTTTATAAAA
1 TTTTAATATTTTTTATAAAA
20090231 TTTTAATATTTTTTATAA
1 TTTTAATATTTTTTATAA
20090249 TTTTAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAATATTTTTTATAAAA
Found at i:20090263 original size:20 final size:18
Alignment explanation
Indices: 20090206--20090255 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 18
20090196 ATACTTAAAC
20090206 ATAATTTTTAATATTTTTT
1 ATAA-TTTTAATATTTTTT
20090225 ATAAAATTTTAATATTTTTT
1 AT--AATTTTAATATTTTTT
20090245 ATAATTTTAAT
1 ATAATTTTAAT
20090256 GATATTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.31
19 2 0.07
20 16 0.55
21 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATAATTTTAATATTTTTT
Found at i:20093051 original size:105 final size:105
Alignment explanation
Indices: 20092923--20093381 Score: 467
Period size: 105 Copynumber: 4.4 Consensus size: 105
20092913 TCTTCTTCGA
* * *
20092923 AATGATAAAGCAAGGCATTAAGCCTAATGTCGTCACATATAGTATATTGATCGATGCGCTTTGCA
1 AATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATTCGCTTTGCA
* * *
20092988 AGCAA-GGAATGATATCTAAAGCCGAAGATATTGTTGGCAT
66 AG-AATGGTATGGTTTCTAAAGCCGAAGATATTGTTGGCAT
* * * * *
20093028 AATGACAAAGCAAGGCATTAAGCCTAATGTTGTCACATATGGTATATTCATCGATACTCTTTGCA
1 AATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATTCGCTTTGCA
* * * * *
20093093 AG-ATGGGGGA-GGTTTCTAAAGCCGAAGTTGTTGTTGACGT
66 AGAAT--GGTATGGTTTCTAAAGCCGAAGATATTGTTGGCAT
* * * ** * *
20093133 GATGAGAAAGCAAGGCATCAAACCTAATGTTGTCATGTATAGTACATTGATAGATTCGCTTTGCA
1 AATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATTCGCTTTGCA
* * ** *
20093198 AGAATGGTATGGTTTCTGAAGCTGAATTTATTGTTGGCAC
66 AGAATGGTATGGTTTCTAAAGCCGAAGATATTGTTGGCAT
* * * * * * * *
20093238 GATGAGAAAGCAAGGCGCTGAA-CCTAATGTTATCACGTATAATATATTGATGGATTCACTTTGC
1 AATGAGAAAGCAAGGC-ATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATTCGCTTTGC
* * * * *
20093302 AAGAATAGTATGGTTTCTGAAGCTGAAGATATTTTTGGCAG
65 AAGAATGGTATGGTTTCTAAAGCCGAAGATATTGTTGGCAT
* *
20093343 AATGAGAAAGCAAGGCATTGAGCCTGATGTTGTCACATA
1 AATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATA
20093382 CAACACTCTG
Statistics
Matches: 294, Mismatches: 53, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
103 1 0.00
104 5 0.02
105 280 0.95
106 8 0.03
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (105 bp):
AATGAGAAAGCAAGGCATTAAGCCTAATGTTGTCACATATAGTATATTGATCGATTCGCTTTGCA
AGAATGGTATGGTTTCTAAAGCCGAAGATATTGTTGGCAT
Found at i:20095111 original size:22 final size:22
Alignment explanation
Indices: 20095083--20095126 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20095073 TTCCAAATTG
20095083 GGTGAGGTAGAATATGAGAATA
1 GGTGAGGTAGAATATGAGAATA
20095105 GGTGAGGTAGAATATGAGAATA
1 GGTGAGGTAGAATATGAGAATA
20095127 TGTATTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.36, T:0.23
Consensus pattern (22 bp):
GGTGAGGTAGAATATGAGAATA
Found at i:20098429 original size:108 final size:108
Alignment explanation
Indices: 20098258--20098581 Score: 436
Period size: 108 Copynumber: 3.0 Consensus size: 108
20098248 TAAATTCAAT
* * *
20098258 AGGATATTTGGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCAATTTGGTTGAACGAGAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAA
* *
20098323 TTTCCAAACGCAAAACATTGCCTTATTTTG-TAA-TTTTTGAA
66 TTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTTTAAA
*
20098364 AGGATATTTAGCTATTTGGTTGAACGAGAAATCTCGACACCCAGCACCTTAGGGCACGTTCCTCG
1 AGGATATTTAGCAATTTGGTTGAACGAGAAA--TCGACACCCAGCACCTTAGGGCACGTTCCTCG
20098429 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTTTTAAA
64 AATTTCCAAACGCAAAACATTGCCTTATTTTGAAAA-TTTTTTAAA
* * * *
20098475 AGAATATTAAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAG--AAATCGACACCCAGCACCTTAGGGCACG-TTCCTC
* * * * * *
20098540 GAATTTCCAAAAGCTAAATATTGCCTCATTTAGAAAAATTTT
63 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTT
20098582 CTTTTTTTTG
Statistics
Matches: 193, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
106 28 0.15
108 63 0.33
109 2 0.01
111 60 0.31
112 37 0.19
113 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (108 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAATCGACACCCAGCACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTTTAAA
Found at i:20098715 original size:4 final size:4
Alignment explanation
Indices: 20098706--20098830 Score: 89
Period size: 4 Copynumber: 30.8 Consensus size: 4
20098696 ATACAACAAC
* * ** * *
20098706 AAAT AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAAA AAAT GGAC ATAT
1 AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT
*
20098754 AAAT AAAT AAAT GAACAT AAAGT --AT AAAT AAAT AAAT AAAT AAACG
1 AAAT AAAT AAAT -AA-AT AAA-T AAAT AAAT AAAT AAAT AAAT AAA-T
20098800 AACAT AAAGT --AT AAAT AAAT AAAT AAAT AAA
1 AA-AT AAA-T AAAT AAAT AAAT AAAT AAAT AAA
20098831 ATAACAATAA
Statistics
Matches: 96, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
2 2 0.02
3 4 0.04
4 73 0.76
5 14 0.15
6 3 0.03
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:20098780 original size:25 final size:23
Alignment explanation
Indices: 20098708--20098797 Score: 80
Period size: 25 Copynumber: 3.9 Consensus size: 23
20098698 ACAACAACAA
20098708 ATAAATAAATAAATAAATAAA--
1 ATAAATAAATAAATAAATAAAGT
* * * *
20098729 CTAAA-ACATAAAAAAATGGACA-T
1 ATAAATAAATAAATAAAT--AAAGT
20098752 ATAAATAAATAAATGAACATAAAGT
1 ATAAATAAATAAAT-AA-ATAAAGT
20098777 ATAAATAAATAAATAAATAAA
1 ATAAATAAATAAATAAATAAA
20098798 CGAACATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
20 10 0.19
21 4 0.07
22 2 0.04
23 9 0.17
24 10 0.19
25 17 0.31
26 2 0.04
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
ATAAATAAATAAATAAATAAAGT
Found at i:20098794 original size:33 final size:33
Alignment explanation
Indices: 20098708--20098855 Score: 153
Period size: 33 Copynumber: 4.4 Consensus size: 33
20098698 ACAACAACAA
*
20098708 ATAAATAAATAAATAAATAAACTAAAACATAAA--
1 ATAAATAAATAAATAAATAAA-T-GAACATAAAGT
20098741 A-AAATGGACATATAAATAAATAAATGAACATAAAGT
1 ATAAAT--A-A-ATAAATAAATAAATGAACATAAAGT
*
20098777 ATAAATAAATAAATAAATAAACGAACATAAAGT
1 ATAAATAAATAAATAAATAAATGAACATAAAGT
*
20098810 ATAAATAAATAAATAAATAAAAT-AACAATAAAGG
1 ATAAATAAATAAATAAAT-AAATGAAC-ATAAAGT
*
20098844 A-AAATAGATAAA
1 ATAAATAAATAAA
20098856 AATCATAAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
32 4 0.04
33 56 0.55
34 20 0.20
35 3 0.03
36 14 0.14
37 4 0.04
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (33 bp):
ATAAATAAATAAATAAATAAATGAACATAAAGT
Found at i:20099067 original size:3 final size:3
Alignment explanation
Indices: 20099059--20099093 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
20099049 AAAATAAAAC
* *
20099059 TAA TAA TAA TAA TAG TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
20099094 TGAAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:20099077 original size:12 final size:12
Alignment explanation
Indices: 20099062--20099093 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
20099052 ATAAAACTAA
20099062 TAATAATAATAG
1 TAATAATAATAG
20099074 TAATAATAATAG
1 TAATAATAATAG
20099086 TAATAATA
1 TAATAATA
20099094 TGAAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:20104739 original size:35 final size:35
Alignment explanation
Indices: 20104700--20104768 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
20104690 ACCCAAATTT
20104700 TAAGACATTCCTTGCAAGTCAAGTTAAACAAAATC
1 TAAGACATTCCTTGCAAGTCAAGTTAAACAAAATC
* *
20104735 TAAGAGATTGCTTGCAAGTCAAGTTAAACAAAAT
1 TAAGACATTCCTTGCAAGTCAAGTTAAACAAAAT
20104769 ATATTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (35 bp):
TAAGACATTCCTTGCAAGTCAAGTTAAACAAAATC
Found at i:20111525 original size:60 final size:60
Alignment explanation
Indices: 20111443--20111575 Score: 203
Period size: 60 Copynumber: 2.2 Consensus size: 60
20111433 TGTAACCTTA
* * * *
20111443 TCTTGTGAGTTGGCTTTACGAGCTGTGCCTGCGATCCTGCCTTATGAGCTCACGTAAGGT
1 TCTTGTGAGTTGGCTCTACGAGCTGTACCTGCGATCCTACCTTATGAGCTCACGCAAGGT
* * *
20111503 TCTTGTGAGTTGGCTCTGCGAGCTGTACCTGGGATCCTACCTTATGAGCTCGCGCAAGGT
1 TCTTGTGAGTTGGCTCTACGAGCTGTACCTGCGATCCTACCTTATGAGCTCACGCAAGGT
20111563 TCTTGTGAGTTGG
1 TCTTGTGAGTTGG
20111576 GTTTGTAGCC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.14, C:0.23, G:0.30, T:0.33
Consensus pattern (60 bp):
TCTTGTGAGTTGGCTCTACGAGCTGTACCTGCGATCCTACCTTATGAGCTCACGCAAGGT
Found at i:20112131 original size:15 final size:16
Alignment explanation
Indices: 20112104--20112133 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20112094 AAAATTATAA
20112104 CTTAAAAACTTTCATT
1 CTTAAAAACTTTCATT
20112120 CTTAAAAA-TTTCAT
1 CTTAAAAACTTTCAT
20112134 ATATCATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (16 bp):
CTTAAAAACTTTCATT
Found at i:20113337 original size:71 final size:70
Alignment explanation
Indices: 20113189--20113345 Score: 192
Period size: 71 Copynumber: 2.2 Consensus size: 70
20113179 CAACTCTTAA
* * *
20113189 AACCGAATGTATATTCACTATAAACATGAATAGCCGAATGCTTATATACATATATGCTTAACAGA
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATA-GCTTAACAAA
20113254 TATTAG
65 TATTAG
** * *
20113260 CTCCAAATGTATATACACTTTGAACATGAATAGCCGAATGCATATATATACATATA-C-TAACAA
1 AACCAAATGTATATACACTATAAACATGAATAGCCGAATGC-T-TATATACATATAGCTTAACAA
*
20113323 ATATTTAT
64 ATA-TTAG
20113331 AACCAAATGTATATA
1 AACCAAATGTATATA
20113346 TGTATTTATC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
70 8 0.11
71 52 0.71
72 1 0.01
73 12 0.16
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (70 bp):
AACCAAATGTATATACACTATAAACATGAATAGCCGAATGCTTATATACATATAGCTTAACAAAT
ATTAG
Found at i:20113400 original size:35 final size:35
Alignment explanation
Indices: 20113328--20113407 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
20113318 AACAAATATT
* * * *
20113328 TATAACCAAATGTATATATGTATTTATCACCTGCA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
* **
20113363 TATATCCAAATGCATATATGTACTTAACATGTACA
1 TATAACCAAATGCATATATGTACTTAACACCTACA
*
20113398 TATAATCAAA
1 TATAACCAAA
20113408 CCTATACAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (35 bp):
TATAACCAAATGCATATATGTACTTAACACCTACA
Found at i:20113856 original size:41 final size:41
Alignment explanation
Indices: 20113811--20114120 Score: 516
Period size: 41 Copynumber: 7.6 Consensus size: 41
20113801 ACCAACAATT
* * *
20113811 AGCCTGTTAGACATAAAGTCTGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
20113852 AGCCTGCTAGACATAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
20113893 A-CCTGCTAGACGTAAAGT-TCGAAATATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCT-GAAACATTTCACCGGCATCA
20113933 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
20113974 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
20114015 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
20114056 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGACATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
* * *
20114097 AGCCTACAAGATGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
20114121 TCATCTTACT
Statistics
Matches: 257, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
39 1 0.00
40 36 0.14
41 219 0.85
42 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:20118300 original size:17 final size:17
Alignment explanation
Indices: 20118269--20118559 Score: 164
Period size: 18 Copynumber: 16.5 Consensus size: 17
20118259 AAAAACACAA
*
20118269 AAAAATTTA-AAACACG
1 AAAATTTTAGAAACACG
* *
20118285 AGAATTTTAGAGACACG
1 AAAATTTTAGAAACACG
*
20118302 AAAATTCTTAAAAACACG
1 AAAATT-TTAGAAACACG
*
20118320 AAAATTTTTGAAAACACG
1 AAAATTTTAG-AAACACG
20118338 AAAATTTT-GAAACACGAG
1 AAAATTTTAGAAACAC--G
*
20118356 AAAAGTTTTTGAAAACACG
1 AAAA-TTTTAG-AAACACG
*** * *
20118375 ATTTTTTTTGAAACGCG
1 AAAATTTTAGAAACACG
20118392 AAAATTTGT-GAAACACG
1 AAAATTT-TAGAAACACG
* *
20118409 AGAATTGTT-GAAATCAAG
1 AAAATT-TTAGAAA-CACG
*
20118427 AAAATTTTGGAAAACACG
1 AAAATTTTAG-AAACACG
*
20118445 AAAATTTTTGAAACACGG
1 AAAATTTTAGAAACAC-G
**
20118463 AAGTTTTTAGAAAACACG
1 AAAATTTTAG-AAACACG
* *
20118481 AAAAATTTTTG-ATCATCG
1 -AAAATTTTAGAAACA-CG
* *
20118499 GAAATTTT-GAGAACAGG
1 AAAATTTTAGA-AACACG
20118516 AAAA-TTTATGAAACACAG
1 AAAATTTTA-GAAACAC-G
**
20118534 AAGTTTTTAGAAAACACG
1 AAAATTTTAG-AAACACG
20118552 AAAATTTT
1 AAAATTTT
20118560 TTTGGCGACA
Statistics
Matches: 214, Mismatches: 37, Indels: 46
0.72 0.12 0.15
Matches are distributed among these distances:
16 17 0.08
17 67 0.31
18 91 0.43
19 32 0.15
20 1 0.00
21 6 0.03
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.27
Consensus pattern (17 bp):
AAAATTTTAGAAACACG
Found at i:20118359 original size:36 final size:36
Alignment explanation
Indices: 20118297--20118559 Score: 187
Period size: 36 Copynumber: 7.4 Consensus size: 36
20118287 AATTTTAGAG
*
20118297 ACACGAAAATTCTT-AAAAAC-ACGAAAATTTTTGAAA
1 ACACGAAAATT-TTGAAACACGA-GAAAATTTTTGAAA
20118333 ACACGAAAATTTTGAAACACGAGAAAAGTTTTTGAAA
1 ACACGAAAATTTTGAAACACGAGAAAA-TTTTTGAAA
*** * *
20118370 ACACGATTTTTTTTG-AA-ACGCGAAAATTTGTG-AA
1 ACACGA-AAATTTTGAAACACGAGAAAATTTTTGAAA
* *
20118404 ACACGAGAATTGTTGAAATCA--AGAAAATTTTGGAAA
1 ACACGAAAATT-TTGAAA-CACGAGAAAATTTTTGAAA
*
20118440 ACACGAAAATTTTTGAAACACG-G-AAGTTTTTAGAAA
1 ACACGAAAA-TTTTGAAACACGAGAAAATTTTT-GAAA
* *
20118476 ACACGAAAAATTTTTG-ATCATCG-G-AAA-TTTTGAGA
1 ACACG-AAAA-TTTTGAAACA-CGAGAAAATTTTTGAAA
* *
20118511 ACAGGAAAATTTATGAAACAC-AG-AAGTTTTTAGAAA
1 ACACGAAAATTT-TGAAACACGAGAAAATTTTT-GAAA
20118547 ACACGAAAATTTT
1 ACACGAAAATTTT
20118560 TTTGGCGACA
Statistics
Matches: 184, Mismatches: 23, Indels: 41
0.74 0.09 0.17
Matches are distributed among these distances:
33 5 0.03
34 21 0.11
35 41 0.22
36 76 0.41
37 36 0.20
38 5 0.03
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (36 bp):
ACACGAAAATTTTGAAACACGAGAAAATTTTTGAAA
Found at i:20118406 original size:89 final size:90
Alignment explanation
Indices: 20118313--20118553 Score: 239
Period size: 89 Copynumber: 2.7 Consensus size: 90
20118303 AAATTCTTAA
* **
20118313 AAACACGAAAATTTTTGAAAACACGAAAATTTTGAAACACGAGAAAAGTTTTTGAAAACACGATT
1 AAACACGAAAATTTTTGAAAACAAGAAAATTTTGAAACAC-AGAAAAGTTTTTGAAAACACGAAG
* *
20118378 TTTTTTG-AAACGCG-AAAATTTGTG
65 TTTTTAGAAAACACGAAAAATTTGTG
* * *
20118402 AAACACGAGAATTGTTGAAATCAAGAAAATTTTGGAAA-ACACGAAAA-TTTTTG-AAACACGGA
1 AAACACGAAAATTTTTGAAAACAAGAAAATTTT-GAAACACA-GAAAAGTTTTTGAAAACAC-GA
*
20118464 AGTTTTTAGAAAACACGAAAAATTTTTG
63 AGTTTTTAGAAAACACGAAAAATTTGTG
* * * *
20118492 -ATCATCGGAAA-TTTTGAGAACAGGAAAATTTATGAAACACAG--AAGTTTTTAGAAAACACGA
1 AAACA-CGAAAATTTTTGAAAACAAGAAAATTT-TGAAACACAGAAAAGTTTTT-GAAAACACGA
20118553 A
63 A
20118554 AATTTTTTTG
Statistics
Matches: 125, Mismatches: 16, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
87 8 0.06
88 20 0.16
89 70 0.56
90 27 0.22
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.27
Consensus pattern (90 bp):
AAACACGAAAATTTTTGAAAACAAGAAAATTTTGAAACACAGAAAAGTTTTTGAAAACACGAAGT
TTTTAGAAAACACGAAAAATTTGTG
Found at i:20118434 original size:55 final size:54
Alignment explanation
Indices: 20118324--20118478 Score: 158
Period size: 53 Copynumber: 2.9 Consensus size: 54
20118314 AACACGAAAA
* *
20118324 TTTTTGAAAACACGAAAATTTTGAAACACGAGAAAAGTTTTTGAAAACACGATTT
1 TTTTTGAAAACACGAAAATTTTGAAACACGAG-AAAGTTGTTGAAAACAAGATTT
* * ***
20118379 TTTTTG-AAACGCGAAAATTTGTGAAACACGAG-AA-TTGTTGAAATCAAGAAAA
1 TTTTTGAAAACACGAAAATTT-TGAAACACGAGAAAGTTGTTGAAAACAAGATTT
* *
20118431 TTTTGGAAAACACGAAAATTTTTGAAACACG-G-AAGTTTTTAGAAAACA
1 TTTTTGAAAACACGAAAA-TTTTGAAACACGAGAAAGTTGTT-GAAAACA
20118479 CGAAAAATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
52 20 0.24
53 25 0.30
54 22 0.26
55 17 0.20
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (54 bp):
TTTTTGAAAACACGAAAATTTTGAAACACGAGAAAGTTGTTGAAAACAAGATTT
Found at i:20118479 original size:19 final size:18
Alignment explanation
Indices: 20118277--20118560 Score: 212
Period size: 17 Copynumber: 15.9 Consensus size: 18
20118267 AAAAAAATTT
* *
20118277 AAAACACGAGAATTTTAG
1 AAAACACGAAAATTTTTG
* * *
20118295 -AGACACGAAAATTCTTA
1 AAAACACGAAAATTTTTG
20118312 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
20118330 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
20118347 -AAACACGAGAAAAGTTTTTG
1 AAAACAC--GAAAA-TTTTTG
***
20118367 AAAACACGATTTTTTTTG
1 AAAACACGAAAATTTTTG
* *
20118385 -AAACGCGAAAATTTGTG
1 AAAACACGAAAATTTTTG
* *
20118402 -AAACACGAGAATTGTTG
1 AAAACACGAAAATTTTTG
* * *
20118419 AAATCAAGAAAATTTTGG
1 AAAACACGAAAATTTTTG
20118437 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* *
20118455 -AAACACGGAAGTTTTTAG
1 AAAACACGAAAATTTTT-G
20118473 AAAACACGAAAAATTTTTG
1 AAAACACG-AAAATTTTTG
* *
20118492 --ATCATCGGAAA-TTTTG
1 AAAACA-CGAAAATTTTTG
* * *
20118508 AGAACAGGAAAATTTATG
1 AAAACACGAAAATTTTTG
*
20118526 -AAACAC-AGAAGTTTTTAG
1 AAAACACGA-AAATTTTT-G
20118544 AAAACACGAAAATTTTT
1 AAAACACGAAAATTTTT
20118561 TTGGCGACAC
Statistics
Matches: 205, Mismatches: 43, Indels: 35
0.72 0.15 0.12
Matches are distributed among these distances:
16 12 0.06
17 76 0.37
18 75 0.37
19 23 0.11
20 13 0.06
21 6 0.03
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:20118490 original size:107 final size:105
Alignment explanation
Indices: 20118287--20118599 Score: 277
Period size: 107 Copynumber: 2.9 Consensus size: 105
20118277 AAAACACGAG
* *
20118287 AATTTT-AGAGACACGAAAATTCT-T-AAAAACACGAAAATTTTTGAAAACACGAAAA-TTTTGA
1 AATTTTGAGA-ACACGAAAATT-TATGAAACACA-GAAAATTTTAGAAAACACGAAAATTTTTGA
***
20118348 AACACGAGAAAAGTTTTTGAAAACACG-ATTTTTTTTGA-AACGCGAA
63 AACACG-G--AAGTTTTTGAAAACACGAAAAATTTTTGACAACG-G-A
* *
20118394 AATTTGTGA-AACACGAGAATTGT-TGAAATCA-AGAAAATTTTGGAAAACACGAAAATTTTTGA
1 AATTT-TGAGAACACGAAAATT-TATGAAA-CACAGAAAATTTTAGAAAACACGAAAATTTTTGA
*
20118456 AACACGGAAGTTTTTAGAAAACACGAAAAATTTTTGATCATCGGA
63 AACACGGAAGTTTTT-GAAAACACGAAAAATTTTTGA-CAACGGA
* ** *
20118501 AATTTTGAGAACAGGAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAATTTTTTTGGC
1 AATTTTGAGAACACGAAAATTTATGAAACACAGAAAATTTTAGAAAACACGAAAA--TTTTT-GA
*
20118566 GACACGGGAA-TTTTCTGAAAACACGAAAAATTTT
63 AACAC-GGAAGTTTT-TGAAAACACGAAAAATTTT
20118600 AAAAATTGGA
Statistics
Matches: 174, Mismatches: 15, Indels: 31
0.79 0.07 0.14
Matches are distributed among these distances:
105 8 0.05
106 15 0.09
107 90 0.52
108 19 0.11
109 10 0.06
110 27 0.16
111 5 0.03
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (105 bp):
AATTTTGAGAACACGAAAATTTATGAAACACAGAAAATTTTAGAAAACACGAAAATTTTTGAAAC
ACGGAAGTTTTTGAAAACACGAAAAATTTTTGACAACGGA
Found at i:20118531 original size:71 final size:72
Alignment explanation
Indices: 20118428--20118561 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 72
20118418 GAAATCAAGA
* *
20118428 AAATTTTGGAAAACACGAAAATTTTTGAAACACGGAAGTTTTTAGAAAACACGAAAAATTTTTGA
1 AAATTTTGGAAAACACGAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAAATTTTTGA
20118493 TCATCGG
66 TCATCGG
* * *
20118500 AAATTTT-GAGAACAGGAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAATTTTTT
1 AAATTTTGGAAAACACGAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAAATTTTT
20118562 TGGCGACACG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
71 50 0.88
72 7 0.12
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.30
Consensus pattern (72 bp):
AAATTTTGGAAAACACGAAAATTTATGAAACACAGAAGTTTTTAGAAAACACGAAAAATTTTTGA
TCATCGG
Found at i:20118589 original size:19 final size:18
Alignment explanation
Indices: 20118567--20118638 Score: 51
Period size: 19 Copynumber: 4.1 Consensus size: 18
20118557 TTTTTTGGCG
20118567 ACACGGGAATTTTCTGAAA
1 ACACGGGAATTTT-TGAAA
** *
20118586 ACACGAAAAATTTT-AAA
1 ACACGGGAATTTTTGAAA
**
20118603 A-ATTGGAATTTTGTGAAA
1 ACACGGGAATTTT-TGAAA
*
20118621 ATACGGGAATTTTT-AAA
1 ACACGGGAATTTTTGAAA
20118638 A
1 A
20118639 AACATACCGT
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
16 6 0.15
17 9 0.22
18 6 0.15
19 19 0.47
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (18 bp):
ACACGGGAATTTTTGAAA
Found at i:20118620 original size:35 final size:35
Alignment explanation
Indices: 20118572--20118639 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
20118562 TGGCGACACG
20118572 GGAATTTTCTGAAAACACGAAAAATTTTAAAAATT
1 GGAATTTTCTGAAAACACGAAAAATTTTAAAAATT
* * ** *
20118607 GGAATTTTGTGAAAATACGGGAATTTTTAAAAA
1 GGAATTTTCTGAAAACACGAAAAATTTTAAAAA
20118640 ACATACCGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (35 bp):
GGAATTTTCTGAAAACACGAAAAATTTTAAAAATT
Found at i:20118769 original size:20 final size:20
Alignment explanation
Indices: 20118744--20118782 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20118734 CGTGATCTTA
20118744 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAGAATTTTTT
20118764 TTAAAACACGAGAATTTTT
1 TTAAAACACGAGAATTTTT
20118783 GAATATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAAAACACGAGAATTTTTT
Found at i:20119123 original size:17 final size:18
Alignment explanation
Indices: 20119103--20119141 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
20119093 TTTTTGGGCC
20119103 TTTTCTTTTT-TCTTTTT
1 TTTTCTTTTTCTCTTTTT
20119120 TTTTCTTTTTCTCTTTTT
1 TTTTCTTTTTCTCTTTTT
20119138 TTTT
1 TTTT
20119142 ACAGATTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTCTTTTTCTCTTTTT
Found at i:20119439 original size:13 final size:12
Alignment explanation
Indices: 20119412--20119468 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 12
20119402 ATTTTTTCTA
20119412 TTTTTCTTC--T
1 TTTTTCTTCTTT
20119422 TTTTTCTTCCTTT
1 TTTTTCTT-CTTT
20119435 TTTTTCTTCTTT
1 TTTTTCTTCTTT
20119447 CCTTTTT-TTCTTT
1 --TTTTTCTTCTTT
*
20119460 TTCTTCTTC
1 TTTTTCTTC
20119469 GGGCTGAACC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
10 8 0.20
11 5 0.12
12 7 0.17
13 15 0.38
14 5 0.12
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTCTTCTTT
Found at i:20119452 original size:16 final size:15
Alignment explanation
Indices: 20119403--20119462 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
20119393 GATTGTGATA
*
20119403 TTTTTTCTATTTTTCT
1 TTTTTTCT-TTTTCCT
* *
20119419 TCTTTT-TTCTTCCTT
1 TTTTTTCTTTTTCC-T
20119434 TTTTTTCTTCTTTCCT
1 TTTTTTCTT-TTTCCT
20119450 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
20119463 TTCTTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
14 4 0.11
15 11 0.31
16 17 0.47
17 4 0.11
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCTTTTTCCT
Found at i:20119560 original size:12 final size:13
Alignment explanation
Indices: 20119541--20119597 Score: 64
Period size: 12 Copynumber: 4.4 Consensus size: 13
20119531 GACGCGCCCG
*
20119541 CTTCTCTTTCTCT
1 CTTCTCTTTCTTT
20119554 C-TCTCTTTTCTTT
1 CTTCTC-TTTCTTT
20119567 CTTCTCTTT-TTT
1 CTTCTCTTTCTTT
*
20119579 CTTTTCTTTCTTCT
1 CTTCTCTTTCTT-T
20119593 CTTCT
1 CTTCT
20119598 TTCTTTTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 15 0.41
13 13 0.35
14 9 0.24
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (13 bp):
CTTCTCTTTCTTT
Found at i:20119567 original size:4 final size:4
Alignment explanation
Indices: 20119545--20119603 Score: 50
Period size: 4 Copynumber: 14.2 Consensus size: 4
20119535 CGCCCGCTTC
* *
20119545 TCTT TCTC TCTC TCTTT TCTT TCTT CTCTT T-TT TCTTT TCTT TC-T TCTCT
1 TCTT TCTT TCTT TC-TT TCTT TCTT -TCTT TCTT TC-TT TCTT TCTT TCT-T
20119595 TCTT TCTT T
1 TCTT TCTT T
20119604 TTGGCTGCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 6 0.13
4 26 0.55
5 15 0.32
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:20119569 original size:21 final size:21
Alignment explanation
Indices: 20119548--20119604 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
20119538 CCGCTTCTCT
*
20119548 TTCTC-TCTCTCTTTTCTTTC
1 TTCTCTTCTTTCTTTTCTTTC
*
20119568 TTCTCTTTTTTCTTTTCTTTC
1 TTCTCTTCTTTCTTTTCTTTC
20119589 TTCTCTTCTTTCTTTT
1 TTCTCTTCTTTCTTTT
20119605 TGGCTGCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (21 bp):
TTCTCTTCTTTCTTTTCTTTC
Found at i:20120033 original size:29 final size:29
Alignment explanation
Indices: 20119987--20120086 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
20119977 TTCTGGGGCA
*
20119987 AAAATATAATTTCA-AGAAAATATAGGGTT
1 AAAATGTAATTT-ATAGAAAATATAGGGTT
* * *
20120016 AAAATGTAATTTATAGAAAGTTTAGAGGCT
1 AAAATGTAATTTATAGAAAATATAG-GGTT
** *
20120046 CGAATGTAA-TT-TACAAAATATTAGGGGTT
1 AAAATGTAATTTATAGAAAATA-TA-GGGTT
20120075 AAAATGTAATTT
1 AAAATGTAATTT
20120087 TTATTTTTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
28 7 0.13
29 34 0.63
30 13 0.24
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (29 bp):
AAAATGTAATTTATAGAAAATATAGGGTT
Found at i:20123278 original size:51 final size:51
Alignment explanation
Indices: 20123165--20123278 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
20123155 CATACGGGTA
*
20123165 AGTCACACGGGAGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGG
1 AGTCACACGGGTGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGG
* * * * *
20123216 AGTCACACGGGTGTGTGTCTAGGTTGTGTAACTCCCTGAGTTTAGACTTGG
1 AGTCACACGGGTGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGG
20123267 AGTCACACGGGT
1 AGTCACACGGGT
20123279 AGGGGACATG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (51 bp):
AGTCACACGGGTGTGTATCCAGGTCGTGTAACTCCCTAAGTTAAGACTTGG
Found at i:20130126 original size:16 final size:17
Alignment explanation
Indices: 20130105--20130138 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20130095 TTATATTTCT
20130105 TTTAAAA-AAACATTAA
1 TTTAAAATAAACATTAA
*
20130121 TTTAAAATAAATATTAA
1 TTTAAAATAAACATTAA
20130138 T
1 T
20130139 ATCTACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTAAAATAAACATTAA
Found at i:20134365 original size:6 final size:6
Alignment explanation
Indices: 20134354--20134392 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
20134344 AGCCGAATGT
20134354 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
20134393 GAACAAGCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:20135253 original size:43 final size:43
Alignment explanation
Indices: 20135205--20135287 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
20135195 GATTCCGATA
** * *
20135205 TGTGTTTTTGTGTAAGACCAC-GTTTGGGACATTGGCATCGACC
1 TGTGTTTACGTGTAAGACC-CTGTCTGGGACAGTGGCATCGACC
20135248 TGTGTTTACGTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 TGTGTTTACGTGTAAGACCCTGTCTGGGACAGTGGCATCG
20135288 GTATGTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGACC
Found at i:20135305 original size:43 final size:43
Alignment explanation
Indices: 20135215--20135328 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
20135205 TGTGTTTTTG
* * * * *
20135215 TGTAAGACCACGTTTGGGACATTGGCATCGACCTGTGTTTACG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGACATGTGATTACA
**
20135258 TGTAAGACC-CTGTCTGGGACAGTGGCATCGGTATGTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGACATGTGATTACA
*
20135301 TGTAAGACCACGTCTCGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
20135329 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.03
43 57 0.95
44 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGACATGTGATTACA
Found at i:20138131 original size:18 final size:18
Alignment explanation
Indices: 20138088--20138131 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
20138078 AAATATAATA
20138088 AAAAG-AAATAAACAAAT
1 AAAAGTAAATAAACAAAT
20138105 AAAAGTAAATAAACAAAT
1 AAAAGTAAATAAACAAAT
*
20138123 AAAATTAAA
1 AAAAGTAAA
20138132 GCACTTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAGTAAATAAACAAAT
Found at i:20138303 original size:24 final size:23
Alignment explanation
Indices: 20138276--20138320 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
20138266 ATTTAAGAAG
* *
20138276 AGATATAGATATATATACATAATA
1 AGATATAAAGATATATA-ATAATA
20138300 AGATATAAAGATATATAATAA
1 AGATATAAAGATATATAATAA
20138321 GGTATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (23 bp):
AGATATAAAGATATATAATAATA
Found at i:20138411 original size:14 final size:14
Alignment explanation
Indices: 20138392--20138418 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20138382 AAGCAAAAAA
20138392 AATAATAATATAAC
1 AATAATAATATAAC
20138406 AATAATAATATAA
1 AATAATAATATAA
20138419 GCTAATGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATATAAC
Found at i:20139092 original size:6 final size:6
Alignment explanation
Indices: 20139081--20139122 Score: 75
Period size: 6 Copynumber: 6.8 Consensus size: 6
20139071 AAATGAACAA
20139081 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
20139123 GGGGTTAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:20140292 original size:46 final size:46
Alignment explanation
Indices: 20140118--20140289 Score: 236
Period size: 46 Copynumber: 3.7 Consensus size: 46
20140108 CTGATTAGGG
* * * * * *
20140118 AGACAGGATCTGCAATCTTCGATCTACTTCACTGCCAAATATAAGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCACTGCAAAATACAGGA
* * *
20140164 AGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGAA
1 AGACAAGATCTGCTATCTTCGATCTACTCCACTGCAAAATACAGGA
* *
20140210 AGACAAGATCTTCTATCTTCGATCTACTCCACTGTAAAATACAGGA
1 AGACAAGATCTGCTATCTTCGATCTACTCCACTGCAAAATACAGGA
*
20140256 AGACAAGATCTTCTATCTTCGATCTACTCCACTG
1 AGACAAGATCTGCTATCTTCGATCTACTCCACTG
20140290 TAATCTCAGG
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 114 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (46 bp):
AGACAAGATCTGCTATCTTCGATCTACTCCACTGCAAAATACAGGA
Found at i:20140444 original size:129 final size:128
Alignment explanation
Indices: 20140272--20140573 Score: 428
Period size: 129 Copynumber: 2.3 Consensus size: 128
20140262 GATCTTCTAT
* * *
20140272 CTTCGATCTACTCCACTGTAATCTCAGGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTT
1 CTTCAATCTGCTCCGCTGTAATCTCA-GGAGATAAGATCTGAAACGATCTACTCTACTGTAACTT
* * * *
20140337 CAGAGAG-ATAAGATCCTTTATTTTAATCCGCTCCATTGTAATCTCAGAGAGATAGGATTACTGG
65 CAGAG-GTATAAGATCCTTTATTTTAATCCACTCCACTGTAATATCAGAGAGATAGGATTACTAG
*
20140401 CTTCAATCTGCTCCGCTATAATCTCAGTGAGATAAGA-CTTGAAACGATCTACTCTACTGTAACT
1 CTTCAATCTGCTCCGCTGTAATCTCAG-GAGATAAGATC-TGAAACGATCTACTCTACTGTAACT
* * * *
20140465 TTAGAGGTATATGATTCTTTATTTTAATCCACTCCACTGTAATATCAGGGAGATAGGATTACTAG
64 TCAGAGGTATAAGATCCTTTATTTTAATCCACTCCACTGTAATATCAGAGAGATAGGATTACTAG
*
20140530 CTTCAATCGGCTCCGCTGTAATCTCAAGGAGATAAGATCTGAAA
1 CTTCAATCTGCTCCGCTGTAATCTC-AGGAGATAAGATCTGAAA
20140574 TTCTTCGGTC
Statistics
Matches: 154, Mismatches: 14, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
128 3 0.02
129 148 0.96
130 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (128 bp):
CTTCAATCTGCTCCGCTGTAATCTCAGGAGATAAGATCTGAAACGATCTACTCTACTGTAACTTC
AGAGGTATAAGATCCTTTATTTTAATCCACTCCACTGTAATATCAGAGAGATAGGATTACTAG
Found at i:20140763 original size:44 final size:44
Alignment explanation
Indices: 20140496--20141005 Score: 278
Period size: 44 Copynumber: 11.7 Consensus size: 44
20140486 TTTTAATCCA
* * * * *
20140496 CTCCACTGTAATATCAGGGAGATAGGAT-TACTAGCTTCAATCGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTG
* * * **
20140540 CTCCGCTGTAATCTCAAGGAGATAAGATCTGAAAT-TCTTCGGTCTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTG
* * * * * *
20140586 TTCCACTGTAATCTCAGGGAAATAAGA-C-CTGG-TGCGATCTA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
* * *** * *
20140627 CTCTGCTGTAA-CTTCAGAGAGATAAGATC-CTTTATTTTAATCCG
1 CTCCGCTGTAATC-TCAGGGAGATAAGATCTC-TGGCTTCAATCTG
* * * ** * * *
20140671 CTCCACTATAA-CTTCAGGGAGATAGGAT-AGTGTCTACGATCTG
1 CTCCGCTGTAATC-TCAGGGAGATAAGATCTCTGGCTTCAATCTG
*
20140714 CTCCGCTGTGATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
* * **
20140758 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTG
* * * * * *
20140804 TTCCACTGTAATCTCAGGGAAATAAGA-C-CTGG-TGCGATCTA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
** * * *** * *
20140845 CTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTAATCCG
1 CTCCGCTGTAATC-TCAGGGAGATAAGATCTCTGGCTTCAATCTG
* * * ** * *
20140889 CTCCACTAT-ATCTTCAGGGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCGCTGTAATC-TCAGGGAGATAAGATCTCTGGCTTCAATCTG
20140932 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
20140976 CTCCGCTGTAATCTCAGGGAGATAAGATCT
1 CTCCGCTGTAATCTCAGGGAGATAAGATCT
20141006 GANNNNNNNN
Statistics
Matches: 348, Mismatches: 96, Indels: 44
0.71 0.20 0.09
Matches are distributed among these distances:
40 2 0.01
41 55 0.16
42 3 0.01
43 59 0.17
44 161 0.46
45 3 0.01
46 62 0.18
47 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
Found at i:20140769 original size:218 final size:218
Alignment explanation
Indices: 20140496--20141007 Score: 909
Period size: 218 Copynumber: 2.3 Consensus size: 218
20140486 TTTTAATCCA
* * * * * *
20140496 CTCCACTGTAATATCAGGGAGATAGGAT-TACTAGCTTCAATCGGCTCCGCTGTAATCTCAAGGA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
20140560 GATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC
65 GATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC
*
20140625 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGG
130 TACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGG
20140690 AGATAGGATAGTGTCTACGATCTG
195 AGATAGGATAGTGTCTACGATCTG
*
20140714 CTCCGCTGTGATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
20140779 ATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCT
66 ATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCT
* *
20140844 ACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTATATCTTCAGGGA
131 ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGA
*
20140909 GATAGGATAGTGTCTTCGATCTG
196 GATAGGATAGTGTCTACGATCTG
20140932 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
20140997 ATAAGATCTGA
66 ATAAGATCTGA
20141008 NNNNNNNNNN
Statistics
Matches: 281, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
218 280 1.00
219 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (218 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATCT
ACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGA
GATAGGATAGTGTCTACGATCTG
Found at i:20141765 original size:87 final size:89
Alignment explanation
Indices: 20141481--20141765 Score: 227
Period size: 87 Copynumber: 3.3 Consensus size: 89
20141471 TTTAATCCAC
* * * * *
20141481 TCCACTGTAATCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCGCTGTAATCTTAGGGAG
1 TCCACTGTAATCTCAGGGAGATAGGACTAGT-GTCTTCGATCTACTCCGCTGTAATCTCAGGGAG
*
20141545 ATAAGA--TCTGAAATTCTTCGATCTGT
65 ATAAGATCTCTG-AA-T-TTCAATCTGT
* * * * *
20141571 TCCACTGTAATCTCAGGGAAATAAGACCT-G-GT-GT-GATCTACTCTGCTGTAA-CTTCAGAGA
1 TCCACTGTAATCTCAGGGAGATAGGA-CTAGTGTCTTCGATCTACTCCGCTGTAATC-TCAGGGA
** * *
20141631 GATAAGATC-CTTTATTTTAAT-TCGC
64 GATAAGATCTCTGAATTTCAATCT-GT
* * *
20141656 TCCACTATAA-CTTTAGGGAGATAGGA-TAGTGTCTTCGATCTTCTCCGCTGTAATCTCAGGGAG
1 TCCACTGTAATC-TCAGGGAGATAGGACTAGTGTCTTCGATCTACTCCGCTGTAATCTCAGGGAG
*
20141719 ATAAGATCTCTGGA-TTCAATCTGT
65 ATAAGATCTCTGAATTTCAATCTGT
*
20141743 TCCGCTGTAATCTCAGGGAGATA
1 TCCACTGTAATCTCAGGGAGATA
20141766 AGATCTGAAA
Statistics
Matches: 150, Mismatches: 30, Indels: 33
0.70 0.14 0.15
Matches are distributed among these distances:
83 1 0.01
84 3 0.02
85 27 0.18
86 3 0.02
87 81 0.54
88 10 0.07
90 24 0.16
91 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (89 bp):
TCCACTGTAATCTCAGGGAGATAGGACTAGTGTCTTCGATCTACTCCGCTGTAATCTCAGGGAGA
TAAGATCTCTGAATTTCAATCTGT
Found at i:20141863 original size:218 final size:219
Alignment explanation
Indices: 20141480--20141945 Score: 708
Period size: 218 Copynumber: 2.1 Consensus size: 219
20141470 TTTTAATCCA
* * * *
20141480 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCGCTGTAATCTTAGGGA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTACTAGATTCAATCTGCTCCGCTGTAATCTCAGGGA
*
20141544 GATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGTGATC
66 GATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC
* * *
20141609 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATTCGCTCCACTATAA-CTTTAGG
131 TACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATTCGCTCCACT-TAATC-TCAGG
* * *
20141673 GAGATAGGA-TAGT-GTCTTCGATCTT
194 GAGATAGGATTACTAG-CTTCAATCTG
* *
20141698 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGATTCAATCTGTTCCGCTGTAATCTCAGGGA
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTACTAGATTCAATCTGCTCCGCTGTAATCTCAGGGA
* *
20141762 GATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTGAGGGAAATAAGACCTGGTGCGATC
66 GATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC
* *
20141827 TACTCTACTGTAACTTCAGAGAGTTAAAATCCTTTATTTTAATTTGCTCCACTTAATCTCAGGGA
131 TACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATTCGCTCCACTTAATCTCAGGGA
20141892 GATAGGATTACTAGCTTCAATCTG
196 GATAGGATTACTAGCTTCAATCTG
*
20141916 ATCCGCTGTAATCTCAGGGAGATAAGATCT
1 CTCCGCTGTAATCTCAGGGAGATAAGATCT
20141946 GAAATTCTTC
Statistics
Matches: 226, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
217 16 0.07
218 208 0.92
219 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (219 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATCTACTAGATTCAATCTGCTCCGCTGTAATCTCAGGGA
GATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTGCGATC
TACTCTACTGTAACTTCAGAGAGATAAAATCCTTTATTTTAATTCGCTCCACTTAATCTCAGGGA
GATAGGATTACTAGCTTCAATCTG
Found at i:20142130 original size:175 final size:175
Alignment explanation
Indices: 20141698--20142311 Score: 1009
Period size: 175 Copynumber: 3.5 Consensus size: 175
20141688 CTTCGATCTT
* * * * *
20141698 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGATTCAATCTGTTCCGCTGTAATCTCAGGGA
1 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGA
* * * *
20141762 GATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTGAGGGAAATAAGACCTGGTGCGATC
65 GATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGAGAAATAAGACCTAGTGCGATC
* * * **
20141827 TACTCTACTGTAACTTCAGAGAGTTAAAATCCTTTATTTTAATTTG
130 TACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
*
20141873 CTCCACT-TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGATCCGCTGTAATCTCAGGGAG
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
20141937 ATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGAGAAATAAGACCTAGTGCGATCT
66 ATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGAGAAATAAGACCTAGTGCGATCT
*
20142002 ACTCTGCTGTAACTTTAGAGAGATAAGAT-CTTTAATTTTAATCCG
131 ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTT-ATTTTAATCCG
*
20142047 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATATCAGGGAG
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
20142112 ATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGAGAAATAAGACCTAGTGCGATCT
66 ATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGAGAAATAAGACCTAGTGCGATCT
*
20142177 ACTCTGCTGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCCG
131 ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
*
20142222 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAG
1 CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
*
20142287 ATAAGATCTGAAATTCTTTGATCTG
66 ATAAGATCTGAAATTCTTCGATCTG
20142312 CTTCGTTGTC
Statistics
Matches: 413, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
173 5 0.01
174 153 0.37
175 251 0.61
176 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (175 bp):
CTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAG
ATAAGATCTGAAATTCTTCGATCTGTTCCACTGTAATCTCAGAGAAATAAGACCTAGTGCGATCT
ACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCG
Found at i:20142162 original size:46 final size:44
Alignment explanation
Indices: 20141480--20142313 Score: 278
Period size: 44 Copynumber: 19.0 Consensus size: 44
20141470 TTTTAATCCA
* * * *
20141480 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAAT-TCTTCAATCTG
* * * *
20141524 CTCCGCTGTAATCTTAGGGAGATAAGATCTGAAATTCTTCGATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCT--AATTCTTCAATCTG
* * * * ** * * *
20141570 TTCCACTGTAATCTCAGGGAAATAAGACCT-GGT-GT-GATCTA
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAATTCTTCAATCTG
** *
20141611 CTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTTATT-TT-AAT-TCG
1 CTCCACTGTAATC-TCAGAGAGATAAGAT-C-TAATTCTTCAATCT-G
* * * * * * *
20141655 CTCCACTATAA-CTTTAGGGAGATAGGA--TAGTGTCTTCGATCTT
1 CTCCACTGTAATC-TCAGAGAGATAAGATCTAAT-TCTTCAATCTG
* * * **
20141698 CTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGATTCAATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAAT-TCTTCAATCTG
* * * **
20141742 TTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCT--AATTCTTCAATCTG
* * * * * ** * * *
20141788 TTCCACTGTAATCTGAGGGAAATAAGA-C--CTGGTGCGATCTA
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAATTCTTCAATCTG
* * * * *
20141829 CTCTACTGTAA-CTTCAGAGAGTTAAAATCCTTTATT-TT-AATTTG
1 CTCCACTGTAATC-TCAGAGAGATAAGAT-C-TAATTCTTCAATCTG
* * * *
20141873 CTCCACT-TAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAAT-TCTTCAATCTG
* * * *
20141916 ATCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCT--AATTCTTCAATCTG
* * * * * * *
20141962 TTCCACTGTAATCTCAGAGAAATAAGACCT-A--GTGCGATCTA
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAATTCTTCAATCTG
** * *
20142003 CTCTGCTGTAA-CTTTAGAGAGATAAGATCTTTAATT-TT-AATCCG
1 CTCCACTGTAATC-TCAGAGAGATAAGATC--TAATTCTTCAATCTG
* * * *
20142047 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAAT-TCTTCAATCTG
* * * *
20142091 CTCCGCTGTAATATCAGGGAGATAAGATCTGAAATTCTTCGATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCT--AATTCTTCAATCTG
* * * * * * *
20142137 TTCCACTGTAATCTCAGAGAAATAAGACCT-A--GTGCGATCTA
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAATTCTTCAATCTG
** * * *
20142178 CTCTGCTGTAA-CTTCAGAAAGATAAGATCCTTTATT-TT-AATCCG
1 CTCCACTGTAATC-TCAGAGAGATAAGAT-C-TAATTCTTCAATCTG
* * * *
20142222 CTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCTAAT-TCTTCAATCTG
* **
20142266 CTCCGCTGTAATCTCAGAGAGATAAGATCTGAAATTCTTTGATCTG
1 CTCCACTGTAATCTCAGAGAGATAAGATCT--AATTCTTCAATCTG
20142312 CT
1 CT
20142314 TCGTTGTCGA
Statistics
Matches: 577, Mismatches: 155, Indels: 114
0.68 0.18 0.13
Matches are distributed among these distances:
40 8 0.01
41 111 0.19
42 7 0.01
43 59 0.10
44 229 0.40
45 11 0.02
46 143 0.25
47 9 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGAGAGATAAGATCTAATTCTTCAATCTG
Found at i:20142697 original size:81 final size:81
Alignment explanation
Indices: 20142562--20142722 Score: 286
Period size: 81 Copynumber: 2.0 Consensus size: 81
20142552 CTACAACGCC
* *
20142562 TTCTCGCTTGACTGGTTTTTCTGAAGAAACATTTAGCCAGGTTGCCCCCACTGTAAACCTCAAAG
1 TTCTCGCTTGACTGGCTTTTCTGAAGAAACAATTAGCCAGGTTGCCCCCACTGTAAACCTCAAAG
20142627 TTCAATCCACTGGGAA
66 TTCAATCCACTGGGAA
*
20142643 TTCTCGCTTGACTGGCTTTTCTGAAGAAACAATTAGCCAGGTTGCCTCCACTGTAAACCTCAAAG
1 TTCTCGCTTGACTGGCTTTTCTGAAGAAACAATTAGCCAGGTTGCCCCCACTGTAAACCTCAAAG
*
20142708 TTTAATCCACTGGGA
66 TTCAATCCACTGGGA
20142723 CGCTAAAATT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (81 bp):
TTCTCGCTTGACTGGCTTTTCTGAAGAAACAATTAGCCAGGTTGCCCCCACTGTAAACCTCAAAG
TTCAATCCACTGGGAA
Found at i:20143656 original size:7 final size:7
Alignment explanation
Indices: 20143644--20143690 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
20143634 TTAGCCTCTC
20143644 CATTTTT
1 CATTTTT
20143651 CA-TTTT
1 CATTTTT
20143657 CATTTTT
1 CATTTTT
20143664 CATTTTT
1 CATTTTT
*
20143671 CA-TTCT
1 CATTTTT
20143677 CATTTTT
1 CATTTTT
20143684 CATTTTT
1 CATTTTT
20143691 TTTGACTCAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:20143662 original size:13 final size:13
Alignment explanation
Indices: 20143647--20143689 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
20143637 GCCTCTCCAT
20143647 TTTTCA-TTTTCA
1 TTTTCATTTTTCA
20143659 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
*
20143673 TTCTCATTTTTCA
1 TTTTCATTTTTCA
20143686 TTTT
1 TTTT
20143690 TTTTGACTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 21 0.78
14 6 0.22
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:20143667 original size:20 final size:20
Alignment explanation
Indices: 20143644--20143690 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
20143634 TTAGCCTCTC
*
20143644 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
20143664 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
20143684 CATTTTT
1 CATTTTT
20143691 TTTGACTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:20146517 original size:20 final size:19
Alignment explanation
Indices: 20146492--20146529 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
20146482 AATGGATTTT
*
20146492 AATGCATGTAATGCAATGCA
1 AATGCATGAAATG-AATGCA
20146512 AATGCATGAAATGAATGC
1 AATGCATGAAATGAATGC
20146530 CTAAAGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (19 bp):
AATGCATGAAATGAATGCA
Found at i:20148847 original size:18 final size:18
Alignment explanation
Indices: 20148804--20148847 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
20148794 AAATATAATA
*
20148804 AAAAG-AAATCAACAAAT
1 AAAAGTAAATAAACAAAT
20148821 AAAAGTAAATAAACAAAT
1 AAAAGTAAATAAACAAAT
*
20148839 AAAATTAAA
1 AAAAGTAAA
20148848 GCACTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.16
Consensus pattern (18 bp):
AAAAGTAAATAAACAAAT
Found at i:20149033 original size:14 final size:14
Alignment explanation
Indices: 20149000--20149026 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20148990 AAGCAAAAAT
20149000 AATAATAATATAAC
1 AATAATAATATAAC
20149014 AATAATAATATAA
1 AATAATAATATAA
20149027 GGCTAATGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATATAAC
Found at i:20149689 original size:5 final size:6
Alignment explanation
Indices: 20149674--20149703 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
20149664 TAAATGAACA
20149674 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
20149704 GGGGTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:20149696 original size:13 final size:12
Alignment explanation
Indices: 20149674--20149703 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
20149664 TAAATGAACA
20149674 AAAAATAAAAAT
1 AAAAATAAAAAT
20149686 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
20149699 AAAAA
1 AAAAA
20149704 GGGGTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:20152296 original size:94 final size:95
Alignment explanation
Indices: 20152132--20152590 Score: 538
Period size: 94 Copynumber: 4.9 Consensus size: 95
20152122 AGTATCACTG
* * * * * *
20152132 TTTCATTTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTGGTAGATTCTATTCGACCCA
1 TTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCCGACCCA
*
20152197 CTGCAACTTTAGGGGTATAGAATTTGTAGC
66 CTGCAACTTCAGGGGTATAGAATTTGTAGC
* * ** * *
20152227 -TTCATCTTGCTCCACTGCAACTTCAGGGAGACAAGATTTTTTGTGGTAGATTCAATCCGATCCA
1 TTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCCGACCCA
* * * *
20152291 TTGCAACTTCAAGAGTATAGAATTTTTAGC
66 CTGCAACTTCAGGGGTATAGAATTTGTAGC
* * *
20152321 -TTCAATC-TGCTCCACTACAACTTCAGGGAGATAAGATTTGCTATGGTATATTCAA-CCTGACC
1 TTTC-ATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCC-GACC
*
20152383 CACTGCAACTTCAGGGGTATAGGATTTGTAGC
64 CACTGCAACTTCAGGGGTATAGAATTTGTAGC
* * * * **
20152415 TTTAATATT-CTCTACTGCAACTTCAAGGAGATAAGATTTGCTACGGTAGATTCAATGTGA-CCA
1 TTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCCGACCCA
*
20152478 CTGCAACTTCAGGGGTATAGGATTTGTAGC
66 CTGCAACTTCAGGGGTATAGAATTTGTAGC
* * *
20152508 TTTAATC-TGCTCTACTGCAACTTCAAGAAGATAAGATTCT-CTATGGTAGATTCAATCCGACCC
1 TTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATT-TGCTATGGTAGATTCAATCCGACCC
* *
20152571 ACTGTAACTTCAGGGATATA
65 ACTGCAACTTCAGGGGTATA
20152591 AGATTTATGG
Statistics
Matches: 315, Mismatches: 41, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
92 1 0.00
93 86 0.27
94 222 0.70
95 6 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (95 bp):
TTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATGGTAGATTCAATCCGACCCA
CTGCAACTTCAGGGGTATAGAATTTGTAGC
Found at i:20152453 original size:44 final size:44
Alignment explanation
Indices: 20152384--20152545 Score: 125
Period size: 44 Copynumber: 3.6 Consensus size: 44
20152374 AACCTGACCC
* * *
20152384 ACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATATTCTCT
1 ACTGCAACTTCAGGAGTATAAGATTTGTAGCTTTAATATACTCT
* *
20152428 ACTGCAACTTCAAGGAG-ATAAGATTTGCTACGGTAGATTCAATGTGAC-C-
1 ACTGCAACTTC-AGGAGTATAAGATTTG-TA-GCT---TT-AATAT-ACTCT
* * * *
20152477 ACTGCAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTGCTCT
1 ACTGCAACTTCAGGAGTATAAGATTTGTAGCTTTAATATACTCT
*
20152521 ACTGCAACTTCAAGAAG-ATAAGATT
1 ACTGCAACTTC-AGGAGTATAAGATT
20152546 CTCTATGGTA
Statistics
Matches: 93, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 40 0.43
45 9 0.10
46 2 0.02
47 2 0.02
48 6 0.06
49 22 0.24
50 5 0.05
51 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGAGTATAAGATTTGTAGCTTTAATATACTCT
Found at i:20156706 original size:26 final size:26
Alignment explanation
Indices: 20156676--20156762 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
20156666 TGTTAAAATT
20156676 AAAATTATTCATATATTTTAGCCTAA
1 AAAATTATTCATATATTTTAGCCTAA
* * *** *
20156702 AAAATTAACTTAATAAATTTGTTAAAAT-T
1 AAAATT-A-TTCATATA-TT-TTAGCCTAA
20156731 AAAATTATTCATATATTTTAGCCTAA
1 AAAATTATTCATATATTTTAGCCTAA
20156757 AAAATT
1 AAAATT
20156763 TAACTTAATT
Statistics
Matches: 44, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
25 4 0.09
26 14 0.32
27 7 0.16
28 7 0.16
29 8 0.18
30 4 0.09
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (26 bp):
AAAATTATTCATATATTTTAGCCTAA
Found at i:20156706 original size:32 final size:32
Alignment explanation
Indices: 20156670--20156762 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
20156660 AAAATTTGTT
20156670 AAAATTAAAATTATTCATATATTTTAGCCTAA
1 AAAATTAAAATTATTCATATATTTTAGCCTAA
* * *
20156702 AAAATT-AACTTA---ATA-AATTT-G--T-T
1 AAAATTAAAATTATTCATATATTTTAGCCTAA
20156725 AAAATTAAAATTATTCATATATTTTAGCCTAA
1 AAAATTAAAATTATTCATATATTTTAGCCTAA
20156757 AAAATT
1 AAAATT
20156763 TAACTTAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 18
0.66 0.09 0.26
Matches are distributed among these distances:
23 6 0.13
24 6 0.13
26 1 0.02
27 7 0.15
28 7 0.15
29 1 0.02
31 6 0.13
32 12 0.26
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (32 bp):
AAAATTAAAATTATTCATATATTTTAGCCTAA
Found at i:20156722 original size:55 final size:56
Alignment explanation
Indices: 20156661--20156771 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 56
20156651 AACAATATCA
20156661 AAATTTGTTAAAATTAAAATTATTCATATATTTTAGCCTAAAAAA-TTAACTTAAT
1 AAATTTGTTAAAATTAAAATTATTCATATATTTTAGCCTAAAAAATTTAACTTAAT
20156716 AAATTTGTTAAAATTAAAATTATTCATATATTTTAGCCTAAAAAATTTAACTTAAT
1 AAATTTGTTAAAATTAAAATTATTCATATATTTTAGCCTAAAAAATTTAACTTAAT
20156772 TAAACAATAT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 45 0.82
56 10 0.18
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (56 bp):
AAATTTGTTAAAATTAAAATTATTCATATATTTTAGCCTAAAAAATTTAACTTAAT
Done.