Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 146 of 205
Found at i:44270453 original size:84 final size:84
Alignment explanation
Indices: 44270306--44270485 Score: 216
Period size: 84 Copynumber: 2.1 Consensus size: 84
44270296 AGGTGTTTCG
** * * *
44270306 TTAGTGGTATTTTTCATTAACGCCACAAAATTACAATACCAATTTGACTTAAATGGCGTCGTTTC
1 TTAGTGGCGTTTTTCATAAACGCCACAAAATTACAATACCAATTTGACTTAAACGGCGACGTTTC
** *
44270371 TTTACAGAGCATTAAATTT
66 ACTACAGAGAATTAAATTT
** * * * *
44270390 TTAGTGGCGTTTTTCATAAACGCCGTAAAATTGCAATACCCATTTGTCTTAAACGTCGACGTTTC
1 TTAGTGGCGTTTTTCATAAACGCCACAAAATTACAATACCAATTTGACTTAAACGGCGACGTTTC
* *
44270455 ACTATAGGGAATTAAATTT
66 ACTACAGAGAATTAAATTT
44270474 TTAGTGGCGTTT
1 TTAGTGGCGTTT
44270486 ATGAAATAGT
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (84 bp):
TTAGTGGCGTTTTTCATAAACGCCACAAAATTACAATACCAATTTGACTTAAACGGCGACGTTTC
ACTACAGAGAATTAAATTT
Found at i:44271289 original size:7 final size:7
Alignment explanation
Indices: 44271254--44271392 Score: 86
Period size: 7 Copynumber: 19.7 Consensus size: 7
44271244 TATTAATTTG
*
44271254 AACCCAA
1 AACCCTA
*
44271261 AACCCTT
1 AACCCTA
44271268 AACCTCTA
1 AACC-CTA
*
44271276 ACCCCTA
1 AACCCTA
*
44271283 AATCCTA
1 AACCCTA
* *
44271290 AATCATA
1 AACCCTA
* *
44271297 AAACATA
1 AACCCTA
*
44271304 ATA-CATA
1 A-ACCCTA
44271311 AACCCTA
1 AACCCTA
44271318 AACCCTA
1 AACCCTA
44271325 AACCCTA
1 AACCCTA
44271332 AACCCT-
1 AACCCTA
44271338 AACCTCTA
1 AACC-CTA
*
44271346 AACCTTA
1 AACCCTA
*
44271353 AACCC-C
1 AACCCTA
44271359 AACCCTTA
1 AACCC-TA
*
44271367 AACCATA
1 AACCCTA
*
44271374 AACCATA
1 AACCCTA
* *
44271381 ATCTCTA
1 AACCCTA
44271388 AACCC
1 AACCC
44271393 ATAATCTATA
Statistics
Matches: 106, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
6 10 0.09
7 82 0.77
8 14 0.13
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (7 bp):
AACCCTA
Found at i:44271993 original size:146 final size:145
Alignment explanation
Indices: 44271731--44272001 Score: 348
Period size: 146 Copynumber: 1.9 Consensus size: 145
44271721 TTATGGCGGC
* *
44271731 GTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAGTACCGCTAATAGTCTACCTATAATGGCGT
1 GTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAG-ACCGCTAATAGTCGACCTATAACGGCGT
** * * *
44271796 CTTTCGAAAAACGCCTCTAATGCTCGATCTATAGCGGCATTTTTCAGAAAGCGCCGCTAAAGCAC
65 CTTTCGAAAAACGCAGCTAATACTCGATCTATAGCAGCATTTTTCAGAAAGCGCCACTAAAGCAC
44271861 AACATAAAACGACAGT
130 AACATAAAACGACAGT
* *
44271877 GTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAG-CGCTCTAATTAGTCGACCTATAGCGGCA
1 GTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAGAC-CGCTAA-TAGTCGACCTATAACGGC-
* * * ** * *
44271941 TTTTTTTGAAAAGTGCAGCTAATACTCGATCTATAGTAGCATTTTTTA-AAAGCGCCACTAA
63 GTCTTTCGAAAAACGCAGCTAATACTCGATCTATAGCAGCATTTTTCAGAAAGCGCCACTAA
44272002 TACTTGATCT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
144 1 0.01
145 5 0.05
146 63 0.59
147 37 0.35
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (145 bp):
GTTGTGCTTAATTTTTTTGCGGCGTTTTTCAAAAAGACCGCTAATAGTCGACCTATAACGGCGTC
TTTCGAAAAACGCAGCTAATACTCGATCTATAGCAGCATTTTTCAGAAAGCGCCACTAAAGCACA
ACATAAAACGACAGT
Found at i:44272026 original size:40 final size:39
Alignment explanation
Indices: 44271895--44272062 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
44271885 TAATTTTTTT
* * * *
44271895 GCGGCGTTTTTCAAAAAGCGCTCTAATTAGTCGACCTATA
1 GCGGCGTTTTTTAAAAAGCGCACTAA-TACTCGATCTATA
* * *
44271935 GCGGCATTTTTTTGAAAAGTGCAGCTAATACTCGATCTATA
1 GCGGC-GTTTTTTAAAAAGCGCA-CTAATACTCGATCTATA
** * *
44271976 GTAGCATTTTTT-AAAAGCGCCACTAATACTTGATCTATA
1 GCGGCGTTTTTTAAAAAGCG-CACTAATACTCGATCTATA
* *
44272015 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTAAAAAGCG-CACTAATACTCGATCTATA
*
44272055 ACGGCGTT
1 GCGGCGTT
44272063 AGCATACGCC
Statistics
Matches: 105, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 31 0.30
40 44 0.42
41 26 0.25
42 4 0.04
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (39 bp):
GCGGCGTTTTTTAAAAAGCGCACTAATACTCGATCTATA
Found at i:44272177 original size:2 final size:2
Alignment explanation
Indices: 44272170--44272199 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
44272160 AAACTGATGC
*
44272170 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44272200 TTAAACATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:44272200 original size:12 final size:12
Alignment explanation
Indices: 44272170--44272202 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
44272160 AAACTGATGC
*
44272170 ATATATATATAT
1 ATATATTTATAT
44272182 ATATATTTATAT
1 ATATATTTATAT
44272194 ATATATTTA
1 ATATATTTA
44272203 AACATGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:44272501 original size:19 final size:19
Alignment explanation
Indices: 44272466--44272503 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44272456 ACTATTTATA
*
44272466 TAATATATATATCTAAAAT
1 TAATATATATATATAAAAT
44272485 TAATAT-TATATTATAAAAT
1 TAATATATATA-TATAAAAT
44272504 ACTGTTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATATATATATATAAAAT
Found at i:44272657 original size:2 final size:2
Alignment explanation
Indices: 44272650--44272674 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44272640 TGGACGGTGT
44272650 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
44272675 TCTTATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44273587 original size:35 final size:35
Alignment explanation
Indices: 44273546--44273623 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
44273536 TTTTAATAAT
*
44273546 ATTTAAAGTTTATGATTATGATAATTTAAATAAAC
1 ATTTAAAGTTTATGATTATCATAATTTAAATAAAC
* *
44273581 ATTTAAAGTTTATGATTATCATAATTTATATAAGC
1 ATTTAAAGTTTATGATTATCATAATTTAAATAAAC
44273616 ATTTAAAG
1 ATTTAAAG
44273624 AATAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (35 bp):
ATTTAAAGTTTATGATTATCATAATTTAAATAAAC
Found at i:44273699 original size:36 final size:34
Alignment explanation
Indices: 44273642--44273727 Score: 127
Period size: 36 Copynumber: 2.5 Consensus size: 34
44273632 AAAACTTTGG
*
44273642 ATCATAACTTACATAATACATAAATATATGTCAT
1 ATCATAACTTACATAATACATAAATATATATCAT
* *
44273676 ATTATAATTTACATAATTAACATAAATATATATCAT
1 ATCATAACTTACATAA-T-ACATAAATATATATCAT
44273712 ATCATAACTTACATAA
1 ATCATAACTTACATAA
44273728 CTATAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
34 14 0.31
35 1 0.02
36 30 0.67
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (34 bp):
ATCATAACTTACATAATACATAAATATATATCAT
Found at i:44276223 original size:30 final size:30
Alignment explanation
Indices: 44276189--44276249 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44276179 TTCTCGAGCC
44276189 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
44276219 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
44276249 T
1 T
44276250 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:44277031 original size:68 final size:68
Alignment explanation
Indices: 44276959--44277106 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 68
44276949 CTTCATGTGT
* * * *
44276959 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44277022 TGTAG
64 TGTAG
* ** *
44277027 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
44277090 GTAG
65 GTAG
*
44277094 ACAATAGAGCTAC
1 ACAAGAGAGCTAC
44277107 GGGATAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 25 0.38
65 3 0.05
66 5 0.08
67 22 0.33
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:44277063 original size:64 final size:64
Alignment explanation
Indices: 44276983--44277154 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 64
44276973 AGACATTATG
* *
44276983 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAA
* * * * * *
44277047 ATGTAGCTAGGTCGCATGCGTGATTCCAGGTGAAGGACACCATGTAGACAATAGAGCTACGGGAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGGGAT
44277112 AA
63 AA
* * * *
44277114 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
44277155 GTAGAAGAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 26 0.30
66 20 0.23
67 30 0.34
68 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAA
Found at i:44282672 original size:66 final size:65
Alignment explanation
Indices: 44282560--44282697 Score: 163
Period size: 66 Copynumber: 2.1 Consensus size: 65
44282550 GCAAATTGCT
* * *
44282560 CAACTTAAAGCGGAGGCAGCATCGAGAGAAGCAGAGGTTCAAAGAAAATATGAAGAACTCCAGCT
1 CAACTTAAAGCGGAGGCAGCAGCGAGAGAAACAGAGG-TCAAAGAAAACATGAAGAACTCCAGCT
44282625 A
65 A
* * *
44282626 CAACTTAAAGCGGAGGCAGCAGCGAGGGAAACAGA-G-CAAAGTAGAAAACATGATGCACTCCAG
1 CAACTTAAAGCGGAGGCAGCAGCGAGAGAAACAGAGGTC-AA--AGAAAACATGAAGAACTCCAG
*
44282689 CTG
63 CTA
44282692 CAACTT
1 CAACTT
44282698 TAGAATATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
63 1 0.02
64 2 0.03
65 1 0.02
66 58 0.94
ACGTcount: A:0.41, C:0.20, G:0.26, T:0.13
Consensus pattern (65 bp):
CAACTTAAAGCGGAGGCAGCAGCGAGAGAAACAGAGGTCAAAGAAAACATGAAGAACTCCAGCTA
Found at i:44283084 original size:43 final size:42
Alignment explanation
Indices: 44283037--44283185 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 42
44283027 AAAACGCCAC
*
44283037 TAAAGGTCATGTTCTTTAGCGGCATTTGTGAAAAAGGCGCCGT
1 TAAAGGTCATGTTCTATAGCGGCATTTGTGAAAAA-GCGCCGT
* * * *
44283080 TAAAGGTCATGTTCTATAGTGACATTTGTGAAAAAAGTGTCGT
1 TAAAGGTCATGTTCTATAGCGGCATTTGTG-AAAAAGCGCCGT
* * * * * *
44283123 TAAAGGTCATATTCTATAGTGGCATTTTTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTATAGCGGCATTTGT-GAAAAAGCGCCGT
*
44283166 TAAAGGTCTTGTTCTATAGC
1 TAAAGGTCATGTTCTATAGC
44283186 AGCGTTTTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
43 82 0.93
44 6 0.07
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (42 bp):
TAAAGGTCATGTTCTATAGCGGCATTTGTGAAAAAGCGCCGT
Found at i:44289637 original size:22 final size:22
Alignment explanation
Indices: 44289609--44289655 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
44289599 GAATTCTTAA
44289609 GAAACAAATGACTTGTCATTAG
1 GAAACAAATGACTTGTCATTAG
44289631 GAAACAAATGACTTGTCATTAG
1 GAAACAAATGACTTGTCATTAG
44289653 GAA
1 GAA
44289656 TTTTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (22 bp):
GAAACAAATGACTTGTCATTAG
Found at i:44291566 original size:18 final size:17
Alignment explanation
Indices: 44291543--44291581 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
44291533 AGCAGGGAAA
44291543 GAAAGAAGAAAAAAAAAG
1 GAAAGAA-AAAAAAAAAG
* *
44291561 GAAAGAAAAAGAAAAGG
1 GAAAGAAAAAAAAAAAG
44291578 GAAA
1 GAAA
44291582 ATTAGGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAAAAAAAAG
Found at i:44291568 original size:15 final size:16
Alignment explanation
Indices: 44291548--44291577 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44291538 GGAAAGAAAG
44291548 AAGAAAAA-AAAAGGA
1 AAGAAAAAGAAAAGGA
44291563 AAGAAAAAGAAAAGG
1 AAGAAAAAGAAAAGG
44291578 GAAAATTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAAGGA
Found at i:44291860 original size:13 final size:13
Alignment explanation
Indices: 44291842--44291869 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44291832 ATTAAATTGT
44291842 TTAAATTGTAGAA
1 TTAAATTGTAGAA
44291855 TTAAATTGTAGAA
1 TTAAATTGTAGAA
44291868 TT
1 TT
44291870 TATGTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (13 bp):
TTAAATTGTAGAA
Found at i:44295115 original size:53 final size:54
Alignment explanation
Indices: 44295035--44295241 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
44295025 TTCCTTTTTA
* * * * * *
44295035 AACTTACCATTGTCAGGTCTTGTCATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * * ** *
44295088 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATTTTTACCTTATAG
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
44295142 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
*
44295197 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
44295242 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 42 0.35
54 38 0.32
55 40 0.33
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:44295664 original size:14 final size:14
Alignment explanation
Indices: 44295645--44295672 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44295635 CCAAGGCTCG
44295645 AAAATGAAACTTTA
1 AAAATGAAACTTTA
44295659 AAAATGAAACTTTA
1 AAAATGAAACTTTA
44295673 TCCCTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAATGAAACTTTA
Found at i:44301378 original size:46 final size:47
Alignment explanation
Indices: 44301232--44301493 Score: 187
Period size: 46 Copynumber: 5.5 Consensus size: 47
44301222 TTGCCGACGC
* * ** *
44301232 CATGTCCCAGACATGGTCTTACACT-GGATATCATCTTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCA-CTCATAAT-GTGGCCGATG
* * * * *
44301280 CCATGCCCCAGACATGGTCTTACATTAGCTCTCGTATATACGT-GCTGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCACTC--ATA-ATGTGGCCGATG
*
44301330 CATGTCCCAGACAT-GTCTTACACTAGCACTCATAATGTGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACTCATAATGTGGCCGATG
* * * * ****
44301376 CATGTCCCAGACAT-GTCTTACACTATCCCTCGT-CTCAACCCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCACTCATAAT-GTGGCCGATG
* * *
44301422 CCATGTCCCAAACATGGTCTTACACTGGCTA-TCATAATGTGCCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGC-ACTCATAATGTGGCCGATG
*
44301470 CATGTCCCAAACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
44301494 GGCGCACAAA
Statistics
Matches: 171, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
45 4 0.02
46 55 0.32
47 27 0.16
48 36 0.21
49 39 0.23
50 7 0.04
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCACTCATAATGTGGCCGATG
Found at i:44306150 original size:55 final size:54
Alignment explanation
Indices: 44305995--44306201 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
44305985 TTCCTTTCTA
* * * *
44305995 AACTTACCATTGCCATGTCTTGTCATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
44306048 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
** * * ** * * *
44306102 TAGTTTATCAATGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
*
44306157 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
44306202 AAACCTTAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
53 46 0.37
54 37 0.30
55 41 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:44309290 original size:30 final size:30
Alignment explanation
Indices: 44309255--44309312 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
44309245 TGGGCACTTC
* *
44309255 CACACGGGT-GATCCACATGTCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
44309285 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
44309313 CATGGTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.21, C:0.31, G:0.29, T:0.19
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:44316149 original size:11 final size:12
Alignment explanation
Indices: 44316128--44316168 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
44316118 ATTTTCTTTT
44316128 TCTTTCCTTCCC
1 TCTTTCCTTCCC
*
44316140 T-TTTCTTTCCC
1 TCTTTCCTTCCC
*
44316151 TCTTTCC-TCCT
1 TCTTTCCTTCCC
44316162 TCTTTCC
1 TCTTTCC
44316169 CTTTCTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (12 bp):
TCTTTCCTTCCC
Found at i:44319946 original size:19 final size:19
Alignment explanation
Indices: 44319909--44319946 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44319899 CAAGTCAGAA
*
44319909 TTGCACACGGCTTGAGCAC
1 TTGCACACGGCGTGAGCAC
44319928 TTGCACACGGGCGTG-GCAC
1 TTGCACAC-GGCGTGAGCAC
44319947 ACGGCTGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.18, C:0.32, G:0.32, T:0.18
Consensus pattern (19 bp):
TTGCACACGGCGTGAGCAC
Found at i:44321778 original size:29 final size:28
Alignment explanation
Indices: 44321734--44321788 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
44321724 GAGTTATACC
44321734 GATTTGGCTTCAGGCCATGAATATCAGCT
1 GATTTGGCTTCAGGCCATG-ATATCAGCT
**
44321763 GATTTGGCTTTGGGCCATGATATCAG
1 GATTTGGCTTCAGGCCATGATATCAG
44321789 TATTTCGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (28 bp):
GATTTGGCTTCAGGCCATGATATCAGCT
Found at i:44325700 original size:16 final size:16
Alignment explanation
Indices: 44325666--44325700 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44325656 CTAGATCGGC
*
44325666 AAAAGTCGAAGAGCCG
1 AAAAGTCGAAAAGCCG
*
44325682 AAAAGTCGAAAAGCTG
1 AAAAGTCGAAAAGCCG
44325698 AAA
1 AAA
44325701 TGCCAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.26, T:0.09
Consensus pattern (16 bp):
AAAAGTCGAAAAGCCG
Found at i:44326192 original size:27 final size:26
Alignment explanation
Indices: 44326131--44326243 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
44326121 AGGAAGCGTC
*
44326131 CTGGTGGCTCTGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
44326159 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
44326186 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
44326214 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
44326240 CTGG
1 CTGG
44326244 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.49
28 32 0.42
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:44326218 original size:55 final size:54
Alignment explanation
Indices: 44326134--44326241 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 54
44326124 AAGCGTCCTG
*
44326134 GTGGCTCTGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTCTGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTTCTA
* *
44326189 GTGGCTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTTCT
1 GTGGCTCTGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTTCT
44326242 GGCAGCCATG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
54 18 0.37
55 31 0.63
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (54 bp):
GTGGCTCTGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTTCTA
Found at i:44334071 original size:40 final size:40
Alignment explanation
Indices: 44334007--44334164 Score: 210
Period size: 40 Copynumber: 4.0 Consensus size: 40
44333997 TGGAAAAAAA
* * *
44334007 TATAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAC
1 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
* * *
44334047 TATAACCGGGTTAAGTTCCAAAGGCATTCATACGGGTTAT
1 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
* *
44334087 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
* *
44334127 TATAACCGGGTTAAGTCCCGAAA-GCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCC-AAAGGCATTCGTGCGGGTT
44334165 GTTACATCCG
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
40 100 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCAAAGGCATTCGTGCGGGTTAT
Found at i:44334154 original size:80 final size:80
Alignment explanation
Indices: 44334007--44334154 Score: 244
Period size: 80 Copynumber: 1.9 Consensus size: 80
44333997 TGGAAAAAAA
* *
44334007 TATAGCCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTTCCAAAGGC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCAAAGGC
44334072 ATTCATACGGGTTAT
66 ATTCATACGGGTTAT
* *
44334087 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAA-G
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCC-AAAGG
44334151 CATT
65 CATT
44334155 TGTGCTGGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 60 0.95
81 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCAAAGGC
ATTCATACGGGTTAT
Found at i:44334188 original size:80 final size:80
Alignment explanation
Indices: 44334022--44334188 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 80
44334012 CCGGGTTAAG
*
44334022 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTTCCAAAGGCATTCATACGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCAAAGGCATTCATACGGGTTAT
* * * *
44334087 TATAACCGGGTTAAG
66 TACAACCGAGTCAAA
* * ** * * *
44334102 TCCCGAAGGCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAA-GCATTTGTGCTGGTTG
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCC-AAAGGCATTCATACGGGTTA
*
44334166 TTACATCCGAGTCAAA
65 TTACAACCGAGTCAAA
*
44334182 TTCCGAA
1 TCCCGAA
44334189 AGTATTTATG
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 69 0.96
81 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCAAAGGCATTCATACGGGTTAT
TACAACCGAGTCAAA
Found at i:44336683 original size:8 final size:8
Alignment explanation
Indices: 44336665--44336709 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
44336655 CTAGATCGAC
*
44336665 AAAAGCTG
1 AAAAGCCG
*
44336673 AAAAGTCG
1 AAAAGCCG
44336681 AAAAGCCG
1 AAAAGCCG
*
44336689 AAAAGCTG
1 AAAAGCCG
*
44336697 AAATGCCG
1 AAAAGCCG
44336705 AAAAG
1 AAAAG
44336710 TCGATATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:44336686 original size:16 final size:16
Alignment explanation
Indices: 44336665--44336713 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
44336655 CTAGATCGAC
*
44336665 AAAAGCTGAAAAGTCG
1 AAAAGCCGAAAAGTCG
44336681 AAAAGCCGAAAAG-CTG
1 AAAAGCCGAAAAGTC-G
*
44336697 AAATGCCGAAAAGTCG
1 AAAAGCCGAAAAGTCG
44336713 A
1 A
44336714 TATTTTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.24, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAAAGTCG
Found at i:44337187 original size:27 final size:26
Alignment explanation
Indices: 44337148--44337241 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
44337138 TATGCCACAA
* * *
44337148 ATTATCTGATCTGTTGGTTCTGCCAC
1 ATTATCTGTTCTGATGGCTCTGCCAC
*
44337174 ATATATCTGTTCTGGTGGCTCTGCCAC
1 AT-TATCTGTTCTGATGGCTCTGCCAC
* *
44337201 GATTATCTGTATCTGATGACTCTGTCAC
1 -ATTATCTGT-TCTGATGGCTCTGCCAC
44337229 ATTATCTGTTCTG
1 ATTATCTGTTCTG
44337242 GCAGCCATGC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
26 6 0.10
27 37 0.63
28 16 0.27
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.41
Consensus pattern (26 bp):
ATTATCTGTTCTGATGGCTCTGCCAC
Found at i:44337215 original size:55 final size:54
Alignment explanation
Indices: 44337130--44337251 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 54
44337120 AGGAAGCGTC
* **
44337130 CTGGTAGCTATGCCACAAATTATCTGATCTGTTGGTTCTGCCACATATATCTGTT
1 CTGGTAGCTATGCCACAAATTATCTGATCTGATGACTCTGCCACAT-TATCTGTT
* * * *
44337185 CTGGTGGCTCTGCCAC-GATTATCTGTATCTGATGACTCTGTCACATTATCTGTT
1 CTGGTAGCTATGCCACAAATTATCTG-ATCTGATGACTCTGCCACATTATCTGTT
* *
44337239 CTGGCAGCCATGC
1 CTGGTAGCTATGC
44337252 TGCATATTTC
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
54 25 0.45
55 30 0.55
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (54 bp):
CTGGTAGCTATGCCACAAATTATCTGATCTGATGACTCTGCCACATTATCTGTT
Found at i:44350387 original size:27 final size:27
Alignment explanation
Indices: 44350354--44350471 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
44350344 TGGATAAGTT
*
44350354 GTAGAATTACCGAAATACCCCTATAAG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
44350381 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* *
44350408 GTAGAAATATCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTATAGG
* * * *
44350435 GTAGAATTACTGAGATACCCTTATGGG
1 GTAGAATTACCGAAATACCCCTATAGG
44350462 GTA-AATTACC
1 GTAGAATTACC
44350472 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 6 0.08
27 71 0.92
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTATAGG
Found at i:44351164 original size:27 final size:26
Alignment explanation
Indices: 44351120--44351171 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
44351110 CTCGCTGCAA
*
44351120 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
44351147 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
44351172 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:44351239 original size:26 final size:27
Alignment explanation
Indices: 44351210--44351269 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
44351200 CCACATATAT
*
44351210 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
44351236 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
44351263 ATATCTG
1 ATATCTG
44351270 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:44354069 original size:46 final size:46
Alignment explanation
Indices: 44354019--44354120 Score: 143
Period size: 46 Copynumber: 2.2 Consensus size: 46
44354009 GACGAGGGCT
*
44354019 AGTGTAAGACATGTATGGGACATGCATCAACTTCGAGATG-TAAGCC
1 AGTGTAAGACATGTATGGGACATGCATCAACTACGAGATGATAA-CC
* ** *
44354065 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAATC
1 AGTGTAAGACATGTATGGGACATGCATCAACTACGAGATGATAACC
44354111 AGTGTAAGAC
1 AGTGTAAGAC
44354121 CATGCCTGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 47 0.94
47 3 0.06
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTATGGGACATGCATCAACTACGAGATGATAACC
Found at i:44367489 original size:37 final size:37
Alignment explanation
Indices: 44367439--44367517 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44367429 TTATTACGAA
* * *
44367439 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44367476 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44367513 GTCTT
1 GTCTT
44367518 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44367761 original size:49 final size:49
Alignment explanation
Indices: 44367636--44368665 Score: 1937
Period size: 49 Copynumber: 21.1 Consensus size: 49
44367626 CCCTTCGGGA
* * * * *
44367636 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44367683 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44367730 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44367779 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44367828 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44367877 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44367926 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44367975 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368024 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368073 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368122 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368171 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44368220 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368267 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368316 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368365 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368414 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368463 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368512 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368561 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44368610 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44368659 CTTATCA
1 CTTATCA
44368666 ACATTCATCA
Statistics
Matches: 965, Mismatches: 12, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 89 0.09
49 875 0.91
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44368675 original size:32 final size:32
Alignment explanation
Indices: 44368634--44368697 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
44368624 ATACACTTTC
*
44368634 ACATTCATCACATTGGCCATTAGGCCTTATCA
1 ACATTCATCACATCGGCCATTAGGCCTTATCA
44368666 ACATTCATCACATCGGCCATTAGGCCTTATCA
1 ACATTCATCACATCGGCCATTAGGCCTTATCA
44368698 CATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (32 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:44368681 original size:81 final size:81
Alignment explanation
Indices: 44368585--44368746 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
44368575 ATACACTTTC
*
44368585 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGG
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
44368650 CCATTAGGCCTTATCA
66 CCATTAGGCCTTATCA
44368666 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
44368731 CCATTAGGCCTTATCA
66 CCATTAGGCCTTATCA
44368747 CATATATATA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.30, C:0.29, G:0.10, T:0.31
Consensus pattern (81 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCA
Found at i:44368693 original size:130 final size:130
Alignment explanation
Indices: 44368536--44368795 Score: 511
Period size: 130 Copynumber: 2.0 Consensus size: 130
44368526 ATACACTTTC
44368536 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
*
44368601 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
66 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
44368666 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
44368731 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
66 CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
44368796 CATATATACA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 129 1.00
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (130 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGG
CCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:44368721 original size:49 final size:49
Alignment explanation
Indices: 44368666--44368831 Score: 311
Period size: 49 Copynumber: 3.4 Consensus size: 49
44368656 GGCCTTATCA
44368666 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
44368715 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
44368764 ACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTC
1 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
44368811 ACATTCATCACATCGG-CATTA
1 ACATTCATCACATCGGCCATTA
44368832 CGCCATACTA
Statistics
Matches: 117, Mismatches: 0, Indels: 3
0.98 0.00 0.03
Matches are distributed among these distances:
46 5 0.04
47 30 0.26
49 82 0.70
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
Found at i:44372088 original size:39 final size:38
Alignment explanation
Indices: 44372045--44372137 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
44372035 TGAGATTTAG
* * * *
44372045 TTAGCCTTCTGGCTTTCGTTTAGGACTTGTGTGCTTCAA
1 TTAGCCTTCGGGCTTCCGTTT-GCACTTATGTGCTTCAA
* *
44372084 TTAGCCTTCGGGCTTCCGTTTGCACTTATGTGCTTTAG
1 TTAGCCTTCGGGCTTCCGTTTGCACTTATGTGCTTCAA
* *
44372122 CTAGACTTCGGGCTTC
1 TTAGCCTTCGGGCTTC
44372138 AGATCACGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
38 27 0.59
39 19 0.41
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.41
Consensus pattern (38 bp):
TTAGCCTTCGGGCTTCCGTTTGCACTTATGTGCTTCAA
Found at i:44379398 original size:76 final size:76
Alignment explanation
Indices: 44379292--44379483 Score: 181
Period size: 76 Copynumber: 2.5 Consensus size: 76
44379282 ACGTAAATGT
* * * * * **
44379292 TTGTTGGTATATCCAACTAGTGCT-AGGCACACATCTGATATCATCAGTTTA-CCTGACTAGTGC
1 TTGTTGATTTATCCGACTAGTGTTGA-GCACACATTTGATATCATCAGTTTATCC-GACTAGCAC
* *
44379355 TGGGCAGAAATGA
64 TGGGCACAAATCA
* * * **
44379368 TTGTTTATTTATCCGACTAGTGTTGAGCACACATTTAATATCGTTGGTTTATCCGACTAGCACTG
1 TTGTTGATTTATCCGACTAGTGTTGAGCACACATTTGATATCATCAGTTTATCCGACTAGCACTG
* *
44379433 GGCCCAACTCA
66 GGCACAAATCA
* * *
44379444 TTGTTGCTTTATCTGACTAGTGTTGGGCACACATTTGATA
1 TTGTTGATTTATCCGACTAGTGTTGAGCACACATTTGATA
44379484 CCGTTGGTTT
Statistics
Matches: 93, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
76 90 0.97
77 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (76 bp):
TTGTTGATTTATCCGACTAGTGTTGAGCACACATTTGATATCATCAGTTTATCCGACTAGCACTG
GGCACAAATCA
Found at i:44379422 original size:40 final size:40
Alignment explanation
Indices: 44379375--44379496 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 40
44379365 TGATTGTTTA
*
44379375 TTTATCCGACTAGTGTTGAGCACACATTTAATATCGTTGG
1 TTTATCCGACTAGTGTTGGGCACACATTTAATATCGTTGG
*** ** * *
44379415 TTTATCCGACTAGCACTGGGC-C-CAACTCAT-T-GTTGC
1 TTTATCCGACTAGTGTTGGGCACACATTTAATATCGTTGG
* * *
44379451 TTTATCTGACTAGTGTTGGGCACACATTTGATACCGTTGG
1 TTTATCCGACTAGTGTTGGGCACACATTTAATATCGTTGG
44379491 TTTATC
1 TTTATC
44379497 TAACTAGGGC
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
36 21 0.34
37 2 0.03
38 10 0.16
39 1 0.02
40 27 0.44
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTATCCGACTAGTGTTGGGCACACATTTAATATCGTTGG
Found at i:44379524 original size:76 final size:76
Alignment explanation
Indices: 44379375--44379524 Score: 183
Period size: 76 Copynumber: 2.0 Consensus size: 76
44379365 TGATTGTTTA
* * *
44379375 TTTATCCGACTAGTGTTGAGCACACATTTAATATCGTTGGTTTATCCGACTAGCACTGGGCCCAA
1 TTTATCCGACTAGTGTTGAGCACACATTTAATACCGTTGGTTTATCCAACTAGCACTAGGCCCAA
**
44379440 CTCATTGTTGC
66 AACATTGTTGC
* * * * ** *
44379451 TTTATCTGACTAGTGTTGGGCACACATTTGATACCGTTGGTTTATCTAACTAGGGCTAGGCGCAA
1 TTTATCCGACTAGTGTTGAGCACACATTTAATACCGTTGGTTTATCCAACTAGCACTAGGCCCAA
*
44379516 AACCTTGTT
66 AACATTGTT
44379525 ACGGTCTATC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
TTTATCCGACTAGTGTTGAGCACACATTTAATACCGTTGGTTTATCCAACTAGCACTAGGCCCAA
AACATTGTTGC
Found at i:44379827 original size:152 final size:152
Alignment explanation
Indices: 44379551--44379845 Score: 590
Period size: 152 Copynumber: 1.9 Consensus size: 152
44379541 GCACTGGGTG
44379551 CCATTACCAAATTAATCCATGCTAGTAAATGAAGGTTATTATGAAACGAATATGTATGCTCATGT
1 CCATTACCAAATTAATCCATGCTAGTAAATGAAGGTTATTATGAAACGAATATGTATGCTCATGT
44379616 TGAACTCAATGATAGAAAAAATGGAATGAATATTGCATGATGTGTTTTTTATATAGTTACGATTA
66 TGAACTCAATGATAGAAAAAATGGAATGAATATTGCATGATGTGTTTTTTATATAGTTACGATTA
44379681 TAGAGTACAATAACAAATTAAT
131 TAGAGTACAATAACAAATTAAT
44379703 CCATTACCAAATTAATCCATGCTAGTAAATGAAGGTTATTATGAAACGAATATGTATGCTCATGT
1 CCATTACCAAATTAATCCATGCTAGTAAATGAAGGTTATTATGAAACGAATATGTATGCTCATGT
44379768 TGAACTCAATGATAGAAAAAATGGAATGAATATTGCATGATGTGTTTTTTATATAGTTACGATTA
66 TGAACTCAATGATAGAAAAAATGGAATGAATATTGCATGATGTGTTTTTTATATAGTTACGATTA
44379833 TAGAGTACAATAA
131 TAGAGTACAATAA
44379846 TAGTTCTAAA
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 143 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.34
Consensus pattern (152 bp):
CCATTACCAAATTAATCCATGCTAGTAAATGAAGGTTATTATGAAACGAATATGTATGCTCATGT
TGAACTCAATGATAGAAAAAATGGAATGAATATTGCATGATGTGTTTTTTATATAGTTACGATTA
TAGAGTACAATAACAAATTAAT
Found at i:44383945 original size:11 final size:11
Alignment explanation
Indices: 44383931--44383957 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
44383921 AAAAAATTGG
44383931 ATTTTAATTTT
1 ATTTTAATTTT
44383942 ATTTTAATTTT
1 ATTTTAATTTT
44383953 ATTTT
1 ATTTT
44383958 TTTCCTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTAATTTT
Found at i:44384341 original size:49 final size:49
Alignment explanation
Indices: 44384269--44384368 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
44384259 TAGAGTTTCA
44384269 TTCTTAGGTGGGAATTTTGAGGCGCTCACTCTTCCTCCAGCATCGTGAT
1 TTCTTAGGTGGGAATTTTGAGGCGCTCACTCTTCCTCCAGCATCGTGAT
*
44384318 TTCTTAGGTTGGAATTTTGAGGCGCTCACTCTTCCTCCAGCATCGTGAT
1 TTCTTAGGTGGGAATTTTGAGGCGCTCACTCTTCCTCCAGCATCGTGAT
44384367 TT
1 TT
44384369 TGTGAAGTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (49 bp):
TTCTTAGGTGGGAATTTTGAGGCGCTCACTCTTCCTCCAGCATCGTGAT
Found at i:44385621 original size:21 final size:23
Alignment explanation
Indices: 44385584--44385635 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
44385574 TCGATTTTGG
44385584 AAACAACAAATCGAG-TTTTCCA
1 AAACAACAAATCGAGTTTTTCCA
44385606 AAACAACAAATC-AGTTTTTCCA
1 AAACAACAAATCGAGTTTTTCCA
*
44385628 AAAGAACA
1 AAACAACA
44385636 TCAACCTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.50, C:0.21, G:0.08, T:0.21
Consensus pattern (23 bp):
AAACAACAAATCGAGTTTTTCCA
Found at i:44386897 original size:22 final size:23
Alignment explanation
Indices: 44386872--44386917 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44386862 CAACCAAACC
44386872 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
44386894 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
44386917 A
1 A
44386918 CATCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:44392277 original size:18 final size:18
Alignment explanation
Indices: 44392250--44392284 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44392240 GATATGTCCT
44392250 AATCAAGGATTTACTCCC
1 AATCAAGGATTTACTCCC
*
44392268 AATCAGGGATTTACTCC
1 AATCAAGGATTTACTCC
44392285 TATATTAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (18 bp):
AATCAAGGATTTACTCCC
Found at i:44393864 original size:16 final size:17
Alignment explanation
Indices: 44393833--44393866 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44393823 ATATCCTCTC
44393833 TGTAAACAACCTTTCCT
1 TGTAAACAACCTTTCCT
*
44393850 TGTAAA-AATCTTTCCT
1 TGTAAACAACCTTTCCT
44393866 T
1 T
44393867 TAATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (17 bp):
TGTAAACAACCTTTCCT
Found at i:44393925 original size:40 final size:40
Alignment explanation
Indices: 44393871--44393949 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
44393861 TTCCTTTAAT
*
44393871 AAAAAATAGATCTTCCGTACTTTAAATAGTCTGTAATTGA
1 AAAAAATAGATCTTCCGCACTTTAAATAGTCTGTAATTGA
44393911 AAAAAATAGATCTTCCGCACTTTAAATAGTCTGTAATTG
1 AAAAAATAGATCTTCCGCACTTTAAATAGTCTGTAATTG
44393950 GTATCAGAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (40 bp):
AAAAAATAGATCTTCCGCACTTTAAATAGTCTGTAATTGA
Found at i:44397025 original size:20 final size:20
Alignment explanation
Indices: 44397000--44397037 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44396990 GATTATTTAA
44397000 TAATTATAAGATGACAATAC
1 TAATTATAAGATGACAATAC
*
44397020 TAATTATAGGATGACAAT
1 TAATTATAAGATGACAAT
44397038 TAATTTATTA
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:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (20 bp):
TAATTATAAGATGACAATAC
Found at i:44403235 original size:27 final size:27
Alignment explanation
Indices: 44403204--44403257 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
44403194 TCCAAATGAC
44403204 TAAGTTTCCTCCCACAAGAATACAATA
1 TAAGTTTCCTCCCACAAGAATACAATA
44403231 TAAGTTTCCTCCCACAAGAATACAATA
1 TAAGTTTCCTCCCACAAGAATACAATA
44403258 ACCGTTGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (27 bp):
TAAGTTTCCTCCCACAAGAATACAATA
Found at i:44407852 original size:13 final size:13
Alignment explanation
Indices: 44407834--44407858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44407824 AGGGTTTTCG
44407834 GAAAAAAAAATCA
1 GAAAAAAAAATCA
44407847 GAAAAAAAAATC
1 GAAAAAAAAATC
44407859 TCAAAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
GAAAAAAAAATCA
Found at i:44415354 original size:75 final size:75
Alignment explanation
Indices: 44415260--44416087 Score: 666
Period size: 75 Copynumber: 11.1 Consensus size: 75
44415250 AGCAAATTGC
* * * * *
44415260 TAGAAAATCAAGGGTCGCGATATTAAATAAGCGGACCATAAAAATCTCACCTGTGAACGTAGGTC
1 TAGAAAACCGAGGGTCGCGATCTTAAATAAGCGGACCATAAAAATATCAACTGTGAACGTAGGTC
44415325 AACGAGCTGT
66 AACGAGCTGT
* * * * * * * *
44415335 TAGAAAACCAAAGGTCGCGATATTAAATCAA--TGACCATAAAAATATCAGCCGTAAATGTAGGT
1 TAGAAAACCGAGGGTCGCGATCTTAAAT-AAGCGGACCATAAAAATATCAACTGTGAACGTAGGT
** *
44415398 CATGGAGCTAT
65 CAACGAGCTGT
** ** * * * *
44415409 TAGAAAATTGAGGGTCATGATCTTAAATCAGCGGACCGTAAAAATATCAACTGTGAATGTAAGTC
1 TAGAAAACCGAGGGTCGCGATCTTAAATAAGCGGACCATAAAAATATCAACTGTGAACGTAGGTC
44415474 AACGAGCTGT
66 AACGAGCTGT
* * ** * *
44415484 TAGAAAATCGAGGGTCGTGATCTTAAATCAA-CAAATCATAAAAATATCAACTGTGAACATAGGT
1 TAGAAAACCGAGGGTCGCGATCTTAAAT-AAGCGGACCATAAAAATATCAACTGTGAACGTAGGT
* *
44415548 CAGCGAGCTAT
65 CAACGAGCTGT
*** * * * *
44415559 TAGAGAAAAATA-GGTCACGATCTTAAATCAGCGAACCATAAAAATATCAGCTGTGAACGTAGGT
1 TAGA-AAACCGAGGGTCGCGATCTTAAATAAGCGGACCATAAAAATATCAACTGTGAACGTAGGT
44415623 CAACGAGCTGT
65 CAACGAGCTGT
* * * *
44415634 TAGAAAACCAAGGGTCGTGATCTTAAATCAA-TGGACCATAAAAGTATCAACTGTGAACGTAGGT
1 TAGAAAACCGAGGGTCGCGATCTTAAAT-AAGCGGACCATAAAAATATCAACTGTGAACGTAGGT
* * *
44415698 TAGA-AAGTTGT
65 CA-ACGAGCTGT
* * * * * *
44415709 TAGAAAATCGAGGGTCGCGATCTTAAATCAGCAGACCCTAAAAATATCAGCTGTGAACGTAGGTT
1 TAGAAAACCGAGGGTCGCGATCTTAAATAAGCGGACCATAAAAATATCAACTGTGAACGTAGGTC
* *
44415774 AGCGAGCTAT
66 AACGAGCTGT
* * * *
44415784 TAGAAAACCGAGGGTCGCGATCTTAAATCAGCGGACCGTAAAAATATCAATTGGGAACGTAGGTC
1 TAGAAAACCGAGGGTCGCGATCTTAAATAAGCGGACCATAAAAATATCAACTGTGAACGTAGGTC
*
44415849 AGCGAGCTGT
66 AACGAGCTGT
* * * * ** * * **
44415859 TAAAAAACCGATGGTCGCAATCTTAAATTAG-GAGACTGTAAAAAAATCAGCTACGAACGTAGGT
1 TAGAAAACCGAGGGTCGCGATCTTAAATAAGCG-GACCATAAAAATATCAACTGTGAACGTAGGT
* * *
44415923 CATCAAGCTAT
65 CAACGAGCTGT
* * * * ** ** * *
44415934 TAGAAAGCCGATGGCCGCGATCTTAAATCAA--TGAGCCGCAAAAATATCAGTTGCGAATGTAGG
1 TAGAAAACCGAGGGTCGCGATCTTAAAT-AAGCGGA-CCATAAAAATATCAACTGTGAACGTAGG
* *
44415997 TCAGCGAGCTGC
64 TCAACGAGCTGT
* ** * * * * * *
44416009 TAGAAAATCGATAGTCGTGATCTTAAATCAGTGGACCGTAAAAATATCAACTGTGAACTTATGTC
1 TAGAAAACCGAGGGTCGCGATCTTAAATAAGCGGACCATAAAAATATCAACTGTGAACGTAGGTC
* *
44416074 AGCGAGCTAT
66 AACGAGCTGT
44416084 TAGA
1 TAGA
44416088 TAACTGTAAC
Statistics
Matches: 606, Mismatches: 131, Indels: 32
0.79 0.17 0.04
Matches are distributed among these distances:
73 1 0.00
74 65 0.11
75 528 0.87
76 12 0.02
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (75 bp):
TAGAAAACCGAGGGTCGCGATCTTAAATAAGCGGACCATAAAAATATCAACTGTGAACGTAGGTC
AACGAGCTGT
Found at i:44417299 original size:22 final size:22
Alignment explanation
Indices: 44417273--44417332 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
44417263 ATGAATAGAT
*
44417273 AGCACTAATGTACTAAACAGAG
1 AGCACTAATGTGCTAAACAGAG
* *
44417295 AGCACGAATGTGCTAAACGGAG
1 AGCACTAATGTGCTAAACAGAG
44417317 AGCACTAATGTGCTAA
1 AGCACTAATGTGCTAA
44417333 TAATCGGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (22 bp):
AGCACTAATGTGCTAAACAGAG
Found at i:44419136 original size:52 final size:52
Alignment explanation
Indices: 44419058--44419161 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
44419048 TGATGTGCTT
44419058 ATTCAGAGGAGAAAATGTCCTTGTCTAAGAGTAGATCTAACATAATTAAGCG
1 ATTCAGAGGAGAAAATGTCCTTGTCTAAGAGTAGATCTAACATAATTAAGCG
*
44419110 ATTCAGAGGAGCAAATGTCCTTGTCTAAGAGTAGATCTAACATAATTAAGCG
1 ATTCAGAGGAGAAAATGTCCTTGTCTAAGAGTAGATCTAACATAATTAAGCG
44419162 GAGTTGATTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (52 bp):
ATTCAGAGGAGAAAATGTCCTTGTCTAAGAGTAGATCTAACATAATTAAGCG
Found at i:44422908 original size:55 final size:55
Alignment explanation
Indices: 44422811--44422939 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 55
44422801 TGAATCTGTT
* * * * * *
44422811 AAAACAACACGAGCGTGCGACACGCCCGTGTCTAGAAGCCGTGGTTGAA-ACTGAG
1 AAAACAACATGGGCGTGCGACACGCCCGTGCCCAGAAGCCGT-GCTCAAGACTGAG
* * *
44422866 AAAACAATATGGGCGTGCGACACGCCCGTGCCCA-ACATCCGTGCTCAAGACTGAT
1 AAAACAACATGGGCGTGCGACACGCCCGTGCCCAGA-AGCCGTGCTCAAGACTGAG
44422921 AAAACAACATGGGCGTGCG
1 AAAACAACATGGGCGTGCG
44422940 CCTATATACA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
54 5 0.08
55 57 0.92
ACGTcount: A:0.31, C:0.27, G:0.27, T:0.15
Consensus pattern (55 bp):
AAAACAACATGGGCGTGCGACACGCCCGTGCCCAGAAGCCGTGCTCAAGACTGAG
Found at i:44427550 original size:47 final size:47
Alignment explanation
Indices: 44427476--44427572 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
44427466 ATTGATGTGC
*
44427476 TTATTCAGAGGAGAAAATGTCCTTGTCTAAGAGTAGATCTAACATAA
1 TTATTCAGAGGAGAAAATGTCCCTGTCTAAGAGTAGATCTAACATAA
44427523 TTATTCAGAGGAGAAAATGTCCCTGTCTAAGAGTAGATCTAACATAA
1 TTATTCAGAGGAGAAAATGTCCCTGTCTAAGAGTAGATCTAACATAA
44427570 TTA
1 TTA
44427573 AGCGAAGTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (47 bp):
TTATTCAGAGGAGAAAATGTCCCTGTCTAAGAGTAGATCTAACATAA
Found at i:44431696 original size:3 final size:3
Alignment explanation
Indices: 44431688--44431721 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
44431678 ATGAAATAGA
44431688 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
44431722 GATAACTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:44431987 original size:9 final size:9
Alignment explanation
Indices: 44431973--44431997 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44431963 CATGGTAACA
44431973 TAACAAATT
1 TAACAAATT
44431982 TAACAAATT
1 TAACAAATT
44431991 TAACAAA
1 TAACAAA
44431998 GGTGAATTAA
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (9 bp):
TAACAAATT
Found at i:44435900 original size:3 final size:3
Alignment explanation
Indices: 44435892--44435925 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
44435882 ATGAAATAGA
44435892 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
44435926 GATAACTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:44436191 original size:9 final size:9
Alignment explanation
Indices: 44436177--44436201 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44436167 CATGGTAACA
44436177 TAACAAATT
1 TAACAAATT
44436186 TAACAAATT
1 TAACAAATT
44436195 TAACAAA
1 TAACAAA
44436202 GGTGAATTAA
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (9 bp):
TAACAAATT
Found at i:44443465 original size:43 final size:43
Alignment explanation
Indices: 44443416--44443562 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
44443406 ATCGAGATGA
* *
44443416 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TAT-T
1 GATTACATGTAAGACCATGTCTGGGACGTTGGCATCGTTATAT
* *
44443457 GTTATTACATGTAAGACCATGTCTTGGATGTTGGCATCGTTATAT
1 G--ATTACATGTAAGACCATGTCTGGGACGTTGGCATCGTTATAT
* * * *
44443502 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGGTATAT
1 GATTACATGTAAGACCATGTCTGGGACGTTGGCATCGTTATAT
** *
44443545 GAAAACATGTAAGGCCAT
1 GATTACATGTAAGACCAT
44443563 ATATGGGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
43 80 0.93
44 3 0.03
45 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACGTTGGCATCGTTATAT
Found at i:44447472 original size:13 final size:14
Alignment explanation
Indices: 44447454--44447482 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44447444 CCCACATAAT
44447454 TTAAAAATA-TTTA
1 TTAAAAATAGTTTA
44447467 TTAAAAATAGTTTA
1 TTAAAAATAGTTTA
44447481 TT
1 TT
44447483 TATGTGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TTAAAAATAGTTTA
Found at i:44448544 original size:18 final size:17
Alignment explanation
Indices: 44448523--44448566 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
44448513 TTTTAGCCTC
44448523 ATTTTTTATTTGTTTCTT
1 ATTTTTTATTT-TTTCTT
* *
44448541 ATTTTTAATTTTTTTTT
1 ATTTTTTATTTTTTCTT
44448558 ATGTTTTTA
1 AT-TTTTTA
44448567 AATGTATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (17 bp):
ATTTTTTATTTTTTCTT
Found at i:44453425 original size:92 final size:92
Alignment explanation
Indices: 44453268--44453551 Score: 532
Period size: 92 Copynumber: 3.1 Consensus size: 92
44453258 GTTTGGTTGA
* *
44453268 GGTTTTAGTTAAACTAATAGTGTTTTAAGGGCTAATGGGGCTTATATATGATTTATACTTTGGTA
1 GGTTTAAGTTAAACTAATAGTGTTTTAAGGGGTAATGGGGCTTATATATGATTTATACTTTGGTA
44453333 TTAGGTTTAAAAGCAGTATATTTTTAG
66 TTAGGTTTAAAAGCAGTATATTTTTAG
44453360 GGTTTAAGTTAAACTAATAGTGTTTTAAGGGGTAATGGGGCTTATATATGATTTATACTTTGGTA
1 GGTTTAAGTTAAACTAATAGTGTTTTAAGGGGTAATGGGGCTTATATATGATTTATACTTTGGTA
44453425 TTAGGTTTAAAAGCAGTATATTTTTAG
66 TTAGGTTTAAAAGCAGTATATTTTTAG
44453452 GGTTTAAGTTAAACTAATAGTGTTTTAAGGGGTAATGGGGCTTATATATGATTTATACTTTGGTA
1 GGTTTAAGTTAAACTAATAGTGTTTTAAGGGGTAATGGGGCTTATATATGATTTATACTTTGGTA
* *
44453517 TTAGGTTTAAAATCGGTATATTTTTAG
66 TTAGGTTTAAAAGCAGTATATTTTTAG
44453544 GGTTTAAG
1 GGTTTAAG
44453552 CACTAGATTG
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 188 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.43
Consensus pattern (92 bp):
GGTTTAAGTTAAACTAATAGTGTTTTAAGGGGTAATGGGGCTTATATATGATTTATACTTTGGTA
TTAGGTTTAAAAGCAGTATATTTTTAG
Found at i:44454458 original size:16 final size:16
Alignment explanation
Indices: 44454437--44454471 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
44454427 GACTAATTAC
44454437 GGTGTATGCATGTAAG
1 GGTGTATGCATGTAAG
44454453 GGTGTATGCATGTAAG
1 GGTGTATGCATGTAAG
44454469 GGT
1 GGT
44454472 TTTCTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.06, G:0.40, T:0.31
Consensus pattern (16 bp):
GGTGTATGCATGTAAG
Found at i:44460829 original size:129 final size:128
Alignment explanation
Indices: 44460598--44460842 Score: 280
Period size: 129 Copynumber: 1.9 Consensus size: 128
44460588 GAATTCCAAA
* ** * * *
44460598 GCCATGTCCGAGACATGGTCTTACATGGGTCTACATATCGATGCCATATCCCAGATATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTACATGAATCTACATATCAATGCCATATCCCAGATACGATCTTA
* * *
44460663 TACGAAATTTCACGTTAGTGCCGATGCCATGTACCAGACATGGTCTTACACGGGACCTCACATC
66 CACGAAA-TTCACGATAGTGCCGATGCCATATACCAGACATGGTCTTACACGGGACCTCACATC
* *
44460727 GCCATGTCCCAGCCATGGTCTTACATGAAATCT-CATATCAATGCCATATCCTAGATACGATCTT
1 GCCATGTCCCAGACATGGTCTTACATG-AATCTACATATCAATGCCATATCCCAGATACGATCTT
* * * * *
44460791 ACATGAAA-TCAC-ATACCGTGACTGATGCCATATCCCAGATATTGTCTTACAC
65 ACACGAAATTCACGATA--GTG-CCGATGCCATATACCAGACATGGTCTTACAC
44460843 TGGCATACAT
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
126 2 0.02
127 4 0.04
128 3 0.03
129 84 0.88
130 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (128 bp):
GCCATGTCCCAGACATGGTCTTACATGAATCTACATATCAATGCCATATCCCAGATACGATCTTA
CACGAAATTCACGATAGTGCCGATGCCATATACCAGACATGGTCTTACACGGGACCTCACATC
Found at i:44460853 original size:48 final size:48
Alignment explanation
Indices: 44460801--44460939 Score: 156
Period size: 48 Copynumber: 2.9 Consensus size: 48
44460791 ACATGAAATC
* * * *
44460801 ACATACCGTGACTGATGCCATATCCCAGATATTGTCTTACACTGGCAT
1 ACATACCATGACCGATGCCATATCCCAGACATGGTCTTACACTGGCAT
* *
44460849 ACATATCAATG-CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T
1 ACATA-CCATGACCGATGCCATATCCCAGACATGGTCTTACACTGGCAT
* ** *
44460896 ATCATATCAACACCGATGCCATATCCCAAACATGGTCTTACACT
1 A-CATACCATGACCGATGCCATATCCCAGACATGGTCTTACACT
44460940 AGCTCTCATT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
47 3 0.04
48 70 0.92
49 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (48 bp):
ACATACCATGACCGATGCCATATCCCAGACATGGTCTTACACTGGCAT
Found at i:44465258 original size:20 final size:20
Alignment explanation
Indices: 44465230--44465277 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
44465220 ATATATCCTG
*
44465230 ATTTTATTTGATTCCAATCA
1 ATTTGATTTGATTCCAATCA
**
44465250 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCCAATCA
*
44465270 AATTGATT
1 ATTTGATT
44465278 CAATTGCTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.52
Consensus pattern (20 bp):
ATTTGATTTGATTCCAATCA
Found at i:44467351 original size:265 final size:270
Alignment explanation
Indices: 44466864--44467554 Score: 789
Period size: 265 Copynumber: 2.5 Consensus size: 270
44466854 ATATGTGAAC
* * *
44466864 CTAATATTTATGAATTAAATTCTAATTTTAATTATCATAATTTTTCTTAGATTTTATGTTTAGAG
1 CTAATATTT-TGAATTAAATTCTAATTATAATTATCATAAATTTT-TTATATTTTATGTTTAGAG
* * * *
44466929 TTCCATTTAAGTAAT-ACTTTTATTTTAAAATTAGCACAA-ATTTTTAATTAA-TAATTCTAAAT
64 TTCTATTTAAGTAATAAC-TCTATTTTAAAATTAGCACAACTTTTTTAA-TAACAAATTCTAAAT
* * * *
44466991 TAAATTTTAATTATTTTATGCTTCAAGTTTTATTCAAAGTGGTAATTAAGATACTTAGAATTCTA
127 TAAATTATAATTATTTTATACTTCAAGTTCTATTCAAAGTGATAATTAAGATACTTAGAATTCTA
* * * * *
44467056 TTCAAGTAATAACTCTATTTTACCTCAATAAAATTAGTACAA-TTT-AAAA-AAAA-TAAGAGT-
192 TTAAAGTAATAACTATATTTTACATCAATAAAATTAGCACAATTTTAAAAATAAAATTAACA-TA
44467116 A-A-AAAA-TTTTAA
256 ATATAAAATTTTTAA
* *
44467128 CTAATAATTTTGAATTAAATTCTAAATCTAATTATCATAAATTTTTTATATTTTATGTTTAGAGT
1 CTAAT-ATTTTGAATTAAATTCTAATTATAATTATCATAAATTTTTTATATTTTATGTTTAGAGT
* * *
44467193 TTTATTCAAGTAATAACTCTATTTTAAAATTAGCACAACTTTTTTAACTAACAAATTCTAAACTA
65 TCTATTTAAGTAATAACTCTATTTTAAAATTAGCACAACTTTTTTAA-TAACAAATTCTAAATTA
* * * *
44467258 AATTGTAATTATTTTATACTT-ACAGTTCTATTCAATGTGATAATTAAGATGCTTAGAGTTCTAT
129 AATTATAATTATTTTATACTTCA-AGTTCTATTCAAAGTGATAATTAAGATACTTAGAATTCTAT
44467322 TAAAGTAATAACTATATTTTACATCAATAAAATTAGCACAATTTTTAAAAAATAAAATTAACATA
193 TAAAGTAATAACTATATTTTACATCAATAAAATTAGCACAA-TTTT-AAAAATAAAATTAACATA
44467387 ATTTTTTATGTCAAAATTTTTAA
256 A-----TA--T-AAAATTTTTAA
* * * * * *
44467410 CTAATGATTTTGAATTTAATTATAATTATAATTATTAAAAAATTTCTTATA-TTTATGCTTAGAG
1 CTAAT-ATTTTGAATTAAATTCTAATTATAATTA-TCATAAATTTTTTATATTTTATGTTTAGAG
* * *
44467474 TTCTATTTAATTAATAACTCTATTTTAAAATTAGCACAACTCTTTTAA-ACCATAATTCTAAATT
64 TTCTATTTAAGTAATAACTCTATTTTAAAATTAGCACAACTTTTTTAATAACA-AATTCTAAATT
44467538 AAATTATAATTATTTTA
128 AAATTATAATTATTTTA
44467555 AAATTAATTT
Statistics
Matches: 362, Mismatches: 40, Indels: 33
0.83 0.09 0.08
Matches are distributed among these distances:
263 50 0.14
264 50 0.14
265 107 0.30
267 3 0.01
269 4 0.01
270 5 0.01
271 5 0.01
277 1 0.00
280 3 0.01
281 30 0.08
282 91 0.25
283 13 0.04
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.45
Consensus pattern (270 bp):
CTAATATTTTGAATTAAATTCTAATTATAATTATCATAAATTTTTTATATTTTATGTTTAGAGTT
CTATTTAAGTAATAACTCTATTTTAAAATTAGCACAACTTTTTTAATAACAAATTCTAAATTAAA
TTATAATTATTTTATACTTCAAGTTCTATTCAAAGTGATAATTAAGATACTTAGAATTCTATTAA
AGTAATAACTATATTTTACATCAATAAAATTAGCACAATTTTAAAAATAAAATTAACATAATATA
AAATTTTTAA
Found at i:44472031 original size:30 final size:29
Alignment explanation
Indices: 44471976--44472033 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
44471966 AGTTAAAATT
44471976 TAAATATATGTATATATATTATTTATACA
1 TAAATATATGTATATATATTATTTATACA
44472005 TAAA-ATAT-TATATATTATATATTTTATAC
1 TAAATATATGTATATA-TAT-TA-TTTATAC
44472034 CAAAAGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 6 0.23
28 7 0.27
29 6 0.23
30 7 0.27
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (29 bp):
TAAATATATGTATATATATTATTTATACA
Found at i:44472565 original size:54 final size:53
Alignment explanation
Indices: 44472480--44472590 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 53
44472470 ATCAACAACT
*
44472480 ATGCTTAAAAAAATTTAAAGGAAATTTTGCACGGGGCAGGGATGTGCGCAGGA
1 ATGCTTAAAAAAATTTAAAGGAAATTTTGCACGGGGCAGGGATGGGCGCAGGA
*
44472533 ATGNCTTAAAAAAATTTAAAGGAAATTTTGCACGGGGCAGGGATGGGCTCAGGA
1 ATG-CTTAAAAAAATTTAAAGGAAATTTTGCACGGGGCAGGGATGGGCGCAGGA
44472587 ATGC
1 ATGC
44472591 AGGCCGGATT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
53 4 0.07
54 51 0.93
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (53 bp):
ATGCTTAAAAAAATTTAAAGGAAATTTTGCACGGGGCAGGGATGGGCGCAGGA
Found at i:44485612 original size:10 final size:10
Alignment explanation
Indices: 44485597--44485626 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
44485587 CCTAATTGTA
44485597 TTTTTTGGCC
1 TTTTTTGGCC
44485607 TTTTTTGGCC
1 TTTTTTGGCC
44485617 TTTTTTGGCC
1 TTTTTTGGCC
44485627 ATCAACCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (10 bp):
TTTTTTGGCC
Found at i:44487197 original size:24 final size:26
Alignment explanation
Indices: 44487140--44487198 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 26
44487130 ATCATCTCAT
*
44487140 ACATATATAT-CAAAATTATAATATA
1 ACATATATATAAAAAATTATAATATA
44487165 A-ATAT-TATAAAAAATTATAA-A-A
1 ACATATATATAAAAAATTATAATATA
44487187 ACATATATATAA
1 ACATATATATAA
44487199 GGAGATAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 2 0.07
23 8 0.27
24 19 0.63
25 1 0.03
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
ACATATATATAAAAAATTATAATATA
Found at i:44488236 original size:61 final size:58
Alignment explanation
Indices: 44488126--44488325 Score: 150
Period size: 61 Copynumber: 3.2 Consensus size: 58
44488116 ATCACTTTAA
** *
44488126 TATTAAATTAATAAAATACTTATCAAGATAAATATTTGATTAAATTTAATATTAAATC
1 TATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAACTTAATATTAAATC
* * * *
44488184 TATTAAATTAATAGAATATTTATCTACAATATAAATATTAAATTAAGCTTAATATTAAGATAATC
1 TATTAAATTAATAAAATACTTA--T-CAAGATAAATATTAAATTAAACTTAATATT---A-AAT-
44488249 AC
58 -C
* * * * *
44488251 TTTAATATTAAATTAATAAAATAC-TATTAAGATAAGTATTAAATTTAATTTAATATTAAATT
1 -----TATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAACTTAATATTAAATC
*
44488313 TATTAAAATAATA
1 TATTAAATTAATA
44488326 TTATTTTTGG
Statistics
Matches: 111, Mismatches: 17, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
57 12 0.11
58 20 0.18
60 1 0.01
61 25 0.23
64 4 0.04
65 4 0.04
67 1 0.01
68 24 0.22
69 1 0.01
71 2 0.02
72 17 0.15
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATAAAATACTTATCAAGATAAATATTAAATTAAACTTAATATTAAATC
Found at i:44488322 original size:17 final size:17
Alignment explanation
Indices: 44488287--44488319 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44488277 TTAAGATAAG
*
44488287 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
44488304 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
44488320 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:44492477 original size:24 final size:25
Alignment explanation
Indices: 44492441--44492488 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
44492431 TTTCTTTCCA
44492441 TTTTCTTTCTATT-TCTTTATTATG
1 TTTTCTTTCTATTATCTTTATTATG
44492465 TTTTCATTT-TATTATCTTTATTAT
1 TTTTC-TTTCTATTATCTTTATTAT
44492489 TATTATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTCTTTCTATTATCTTTATTATG
Found at i:44492493 original size:15 final size:15
Alignment explanation
Indices: 44492473--44492505 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44492463 TGTTTTCATT
*
44492473 TTATTATCTTTATTA
1 TTATTATCATTATTA
44492488 TTATTATCATTATTA
1 TTATTATCATTATTA
44492503 TTA
1 TTA
44492506 AAGTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATCATTATTA
Found at i:44504293 original size:20 final size:21
Alignment explanation
Indices: 44504256--44504295 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44504246 TGTTTAATTT
*
44504256 TTTTATTTTTAATTAATAAATA
1 TTTTATTTATAA-TAATAAATA
44504278 TTTTATTTATAA-AATAAA
1 TTTTATTTATAATAATAAA
44504296 ATAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTTATAATAATAAATA
Found at i:44506919 original size:44 final size:47
Alignment explanation
Indices: 44506870--44506957 Score: 137
Period size: 44 Copynumber: 1.9 Consensus size: 47
44506860 AAACTGGTTG
44506870 AACCAATTTATAAATTTATAAAATAT-T-T-TTTAAAAAAAGTATGC
1 AACCAATTTATAAATTTATAAAATATATATATTTAAAAAAAGTATGC
* *
44506914 AACCAATTTATAAATTTTTAAAATATATATATTTTAAAAAAGTA
1 AACCAATTTATAAATTTATAAAATATATATATTTAAAAAAAGTA
44506958 CGCATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
44 25 0.64
45 1 0.03
46 1 0.03
47 12 0.31
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (47 bp):
AACCAATTTATAAATTTATAAAATATATATATTTAAAAAAAGTATGC
Found at i:44509101 original size:16 final size:17
Alignment explanation
Indices: 44509068--44509105 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
44509058 AGCTCAATCA
44509068 ATTTTTTTCAATTCTTTT
1 ATTTTTTT-AATTCTTTT
*
44509086 ATTTTTTT-ATTTTTTT
1 ATTTTTTTAATTCTTTT
44509102 ATTT
1 ATTT
44509106 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTTTTAATTCTTTT
Found at i:44512686 original size:10 final size:10
Alignment explanation
Indices: 44512671--44512709 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
44512661 GTATGGACCC
44512671 TTTTTTAAAT
1 TTTTTTAAAT
44512681 TTTTTTAAA-
1 TTTTTTAAAT
44512690 TTTTTTAAAT
1 TTTTTTAAAT
44512700 TTTTTTAAAT
1 TTTTTTAAAT
44512710 AACATGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:44512695 original size:19 final size:19
Alignment explanation
Indices: 44512671--44512709 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44512661 GTATGGACCC
44512671 TTTTTTAAATTTTTTTAAA
1 TTTTTTAAATTTTTTTAAA
44512690 TTTTTTAAATTTTTTTAAA
1 TTTTTTAAATTTTTTTAAA
44512709 T
1 T
44512710 AACATGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTTAAATTTTTTTAAA
Found at i:44515733 original size:42 final size:42
Alignment explanation
Indices: 44515670--44515895 Score: 159
Period size: 42 Copynumber: 5.0 Consensus size: 42
44515660 CTTTGTTTCC
* * * *
44515670 TCGATGCCATAGTCCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
44515713 T-GATGTCATAGCCCAGCTATGGTCTTACACATATTCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACATATTCACATA
* * *
44515754 TCAATGTCATAGCACAGCTATGGTCGTACACGTAATCACATATCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* * *
44515803 CCGATGCCATAGTCCAGCTATGGTCTTACACGGAATCACATAATCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC---AT---AT--TCACATA
* * * *
44515853 -CAGATGCCATAGCCCAGCTATGGTCTTATACAAAATCACATA
1 TC-GATGTCATAGCCCAGCTATGGTCTTACACATATTCACATA
44515895 T
1 T
44515896 TCACATATCA
Statistics
Matches: 154, Mismatches: 18, Indels: 22
0.79 0.09 0.11
Matches are distributed among these distances:
41 2 0.01
42 68 0.44
43 1 0.01
44 1 0.01
45 2 0.01
47 1 0.01
48 2 0.01
49 42 0.27
50 35 0.23
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (42 bp):
TCGATGTCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:44515870 original size:50 final size:51
Alignment explanation
Indices: 44515740--44515956 Score: 253
Period size: 50 Copynumber: 4.3 Consensus size: 51
44515730 TATGGTCTTA
* * * *
44515740 CACATATTCACATATCA-ATGTCATAGCACAGCTATGGTCGTACACGTAAT
1 CACATATTCACATATCAGATGCCATAGCCCAGCTATGGTCTTACACGGAAT
* *
44515790 CACATA-TCACATA-CCGATGCCATAGTCCAGCTATGGTCTTACACGGAAT
1 CACATATTCACATATCAGATGCCATAGCCCAGCTATGGTCTTACACGGAAT
* * **
44515839 CACATAATCACATA-CAGATGCCATAGCCCAGCTATGGTCTTATACAAAAT
1 CACATATTCACATATCAGATGCCATAGCCCAGCTATGGTCTTACACGGAAT
* **** * *
44515889 CACATATTCACATATCACATATTGTCGCCCAGCTATGGTCTTATACGGAAT
1 CACATATTCACATATCAGATGCCATAGCCCAGCTATGGTCTTACACGGAAT
44515940 CACATATTCACATATCA
1 CACATATTCACATATCA
44515957 CATATTGCCA
Statistics
Matches: 144, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
48 1 0.01
49 41 0.28
50 57 0.40
51 45 0.31
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (51 bp):
CACATATTCACATATCAGATGCCATAGCCCAGCTATGGTCTTACACGGAAT
Found at i:44515875 original size:99 final size:101
Alignment explanation
Indices: 44515740--44515956 Score: 262
Period size: 99 Copynumber: 2.2 Consensus size: 101
44515730 TATGGTCTTA
* **
44515740 CACATATTCACATATCAATGTCATAGCACAGCTATGGTCGTACACGTAATCACATA-TCACATA-
1 CACATATTCACATATCAATGCCATAGCACAGCTATGGTCGTACACAAAATCACATATTCACATAT
* *
44515803 C-CGATGCCATAGTCCAGCTATGGTCTTACACGGAAT
66 CAC-ATACCATAGCCCAGCTATGGTCTTACACGGAAT
* * * *
44515839 CACATAATCACATA-CAGATGCCATAGCCCAGCTATGGTCTTATACAAAATCACATATTCACATA
1 CACATATTCACATATCA-ATGCCATAGCACAGCTATGGTCGTACACAAAATCACATATTCACATA
*** * *
44515903 TCACATATTGTCGCCCAGCTATGGTCTTATACGGAAT
65 TCACATACCATAGCCCAGCTATGGTCTTACACGGAAT
44515940 CACATATTCACATATCA
1 CACATATTCACATATCA
44515957 CATATTGCCA
Statistics
Matches: 98, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
98 2 0.02
99 46 0.47
100 7 0.07
101 40 0.41
102 3 0.03
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (101 bp):
CACATATTCACATATCAATGCCATAGCACAGCTATGGTCGTACACAAAATCACATATTCACATAT
CACATACCATAGCCCAGCTATGGTCTTACACGGAAT
Found at i:44515930 original size:51 final size:51
Alignment explanation
Indices: 44515864--44515963 Score: 182
Period size: 51 Copynumber: 2.0 Consensus size: 51
44515854 AGATGCCATA
44515864 GCCCAGCTATGGTCTTATACAAAATCACATATTCACATATCACATATTGTC
1 GCCCAGCTATGGTCTTATACAAAATCACATATTCACATATCACATATTGTC
**
44515915 GCCCAGCTATGGTCTTATACGGAATCACATATTCACATATCACATATTG
1 GCCCAGCTATGGTCTTATACAAAATCACATATTCACATATCACATATTG
44515964 CCATGGTTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (51 bp):
GCCCAGCTATGGTCTTATACAAAATCACATATTCACATATCACATATTGTC
Found at i:44516436 original size:205 final size:205
Alignment explanation
Indices: 44516084--44516496 Score: 772
Period size: 205 Copynumber: 2.0 Consensus size: 205
44516074 ACAATATTTA
44516084 CAATTTAATAACGAACATATGAAATAAAACATTATATCATTTCTAATTCAACGTTTATCGATTAT
1 CAATTTAATAACGAACATATGAAATAAAACATTATATCATTTCTAATTCAACGTTTATCGATTAT
* *
44516149 AATCGGGCATGTGATCAACTTATACACAAGTTATTCATATATTTTCCTCCTCCTCATCTCTATTT
66 AATCGGGCATGTGATCAACTTATACACAAGTCATTCATATATTTTCCTCCTCCTCATCTCCATTT
*
44516214 CACATCCTTAATGTATATATATCATGCTTATAAGTAACATTATCTATAATTTCACTATTTACTTA
131 CACATCCTTAATGTATATATATCACGCTTATAAGTAACATTATCTATAATTTCACTATTTACTTA
44516279 TATGTGTATT
196 TATGTGTATT
44516289 CAATTTAATAACGAACATATGAAATAAAACATTATATCATTTCTAATTCAACGTTTATCGATTAT
1 CAATTTAATAACGAACATATGAAATAAAACATTATATCATTTCTAATTCAACGTTTATCGATTAT
* *
44516354 AATCGGGCATGTGATCAATTTATACACAAGTCATTCATATATTTTCCTCCTCCTCCTCTCCATTT
66 AATCGGGCATGTGATCAACTTATACACAAGTCATTCATATATTTTCCTCCTCCTCATCTCCATTT
*
44516419 CACATCCTTAATGTATATATATCACGCTTATAAGTAACATTATCTATACTTTCACTATTTACTTA
131 CACATCCTTAATGTATATATATCACGCTTATAAGTAACATTATCTATAATTTCACTATTTACTTA
44516484 TATGTGTATT
196 TATGTGTATT
44516494 CAA
1 CAA
44516497 AGTTGTCCAT
Statistics
Matches: 202, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 202 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (205 bp):
CAATTTAATAACGAACATATGAAATAAAACATTATATCATTTCTAATTCAACGTTTATCGATTAT
AATCGGGCATGTGATCAACTTATACACAAGTCATTCATATATTTTCCTCCTCCTCATCTCCATTT
CACATCCTTAATGTATATATATCACGCTTATAAGTAACATTATCTATAATTTCACTATTTACTTA
TATGTGTATT
Found at i:44523103 original size:131 final size:130
Alignment explanation
Indices: 44522825--44523113 Score: 296
Period size: 131 Copynumber: 2.2 Consensus size: 130
44522815 TAAAAAAACG
* *
44522825 CAACCCAACACGATAGGGCTCGATTCTCAAATCGCCAAACATCGAACATCGCTTTCATTTTGAAA
1 CAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAACATCGCTTTCATTTTGAAA
** * * * * * * *
44522890 GATTTTAGGAAATGTGAGTGAAATTCCAAAGGGATGTTCAATTGTTTCGAACCAATGAAAAAGCG
66 GATTTTAGGAAACATGAGTGAAAATACAAAGGAATGTTCAATCGTTTCGAACAAACGAAAAAGCA
* * * * * *
44522955 CAACCCAGTATGATAGGGCACGATTCTCAAATCGCCAAATATTGAACATCG-TCTTCGTTTT-TA
1 CAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAACATCGCT-TTCATTTTGAA
* * * * * *
44523018 AGTATTTTTTA-TAAACATGAGTGAAAATATAAAGGAATGTTCGATCGTTTTGAGCAAACGAGAA
65 AG-A--TTTTAGGAAACATGAGTGAAAATACAAAGGAATGTTCAATCGTTTCGAACAAACGAAAA
*
44523082 ATCA
127 AGCA
*
44523086 CAACCCAGCACGATAGGGCATGATTCTC
1 CAACCCAGCACGATAGGGCACGATTCTC
44523114 GAATTGTCAA
Statistics
Matches: 128, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
129 4 0.03
130 53 0.41
131 66 0.52
132 5 0.04
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (130 bp):
CAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAACATCGCTTTCATTTTGAAA
GATTTTAGGAAACATGAGTGAAAATACAAAGGAATGTTCAATCGTTTCGAACAAACGAAAAAGCA
Found at i:44523858 original size:16 final size:17
Alignment explanation
Indices: 44523823--44523868 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
44523813 AAAAGTTAAC
44523823 AAAATATATGATAGTACAA
1 AAAATATATG--AGTACAA
44523842 AAAATATATGA-TACAA
1 AAAATATATGAGTACAA
*
44523858 AAAATACATGA
1 AAAATATATGA
44523869 CAAAAACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 15 0.58
17 1 0.04
19 10 0.38
ACGTcount: A:0.61, C:0.07, G:0.09, T:0.24
Consensus pattern (17 bp):
AAAATATATGAGTACAA
Found at i:44525117 original size:22 final size:22
Alignment explanation
Indices: 44525089--44525138 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
44525079 CCCTTTTTGG
44525089 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
44525111 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
44525133 CCACCC
1 CCACCC
44525139 CAACCACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.26, C:0.54, G:0.08, T:0.12
Consensus pattern (22 bp):
CCACCCACCTTGGCCACCTAAA
Found at i:44527886 original size:19 final size:19
Alignment explanation
Indices: 44527864--44527910 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
44527854 CTTCCTTTCT
*
44527864 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTACA-ACA
44527883 TTTGCATTACATTACAACA
1 TTTGCATTACATTACAACA
44527902 TTTGCATTA
1 TTTGCATTA
44527911 AACTTTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (19 bp):
TTTGCATTACATTACAACA
Found at i:44531984 original size:61 final size:64
Alignment explanation
Indices: 44531908--44532026 Score: 192
Period size: 61 Copynumber: 1.9 Consensus size: 64
44531898 GTAACGCATC
*
44531908 TAGTTAGGAGCATTTGATTCATTTC-AT-A-A-CATCCTAATTATTTGACATAAAGCATCACATT
1 TAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACAT-AAGCATCACATT
44531969 TAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
1 TAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
44532027 AGATACATGG
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
61 25 0.47
62 2 0.04
63 1 0.02
64 7 0.13
65 18 0.34
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (64 bp):
TAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCATCACATT
Found at i:44532329 original size:68 final size:68
Alignment explanation
Indices: 44532217--44532409 Score: 262
Period size: 68 Copynumber: 2.8 Consensus size: 68
44532207 TACAAATTTC
* * * *
44532217 TTTTTCCCTGGAATGACATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AGG
1 TTTTTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCA-A
*
44532281 ATAT
65 ACAT
* *
44532285 TTTTTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCAAA
1 TTTTTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAA
*
44532350 CCT
66 CAT
* * * *
44532353 CTTCTTCCAGAAATGGCATTGGAGCGGCTAAAAGCCATAGCAGATCTCCTTGAAGTT
1 TTTTTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTT
44532410 CCAATAGAAG
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 109 0.99
69 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (68 bp):
TTTTTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGCAAA
CAT
Found at i:44532572 original size:44 final size:44
Alignment explanation
Indices: 44532466--44533113 Score: 552
Period size: 44 Copynumber: 14.7 Consensus size: 44
44532456 AGGAGCAGAC
* * * * *
44532466 TGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC-AGAT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAG-T
* ** *
44532511 CGAAGATTTCA-ACTTGGCATCCCTGTGCTTATAGGGAACAAGT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
* *
44532554 TGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
*
44532598 TGAAGACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AGAT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-T
* * * * * *
44532642 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC-AGAT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAG-T
* ** *
44532687 CGAAGATTTCA-ACTTGGCATCCCTGTGCTTATAGGGAACAAGT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
* *
44532730 TGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
* *
44532774 TGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC-AGAT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-T
* * ** * * *
44532818 CGAAGATAGCAGATCTGATATTCCTGTGCTTA-CGATGAAGC-AGAT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAG-GGAA-CAAG-T
* ** * *
44532863 CGAAGATTTCAGCA--TGGAATCCTTGTGCTTATAGGGAAC-AGAT
1 TGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAG-T
* * * * * *
44532906 CGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGC-AGAT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAAG-T
* * ** *
44532951 CGATGATTTCAGCA--TGGAATCCCTGTGCTTATAGGGAACAAGT
1 TGAAGATAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAAGT
*
44532994 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGTAACAAGT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
* *
44533038 TGAAAATAGCAGATTTGGCATCCCTGTACTTATAGGGAAC-AGAT
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-T
* * * *
44533082 CGAAGATAGCAGATCTGACATTCCTGTGCTTA
1 TGAAGATAGCAGATTTGGCATCCCTGTGCTTA
44533114 CGGTGAAGCA
Statistics
Matches: 499, Mismatches: 85, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
42 2 0.00
43 48 0.10
44 395 0.79
45 52 0.10
46 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAAGT
Found at i:44532622 original size:88 final size:89
Alignment explanation
Indices: 44532467--44533305 Score: 849
Period size: 88 Copynumber: 9.5 Consensus size: 89
44532457 GGAGCAGACT
* * ** *
44532467 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCA-ACTTGGCAT
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGATCGAAGATAGCAGATTTGGCAT
*
44532531 CCCTGTGCTTATAGGGAACA-AGTT
66 CCCTGTGCTTATAGGGAACAGA-TC
* * * * * * *
44532555 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CA-AGTTGAAGACAGCAGATTTGGCA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGA-TCGAAGATAGCAGATTTGGCA
44532618 TCCCTGTGCTTATAGGGAACAGATC
65 TCCCTGTGCTTATAGGGAACAGATC
* * ** *
44532643 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCA-ACTTGGCAT
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGATCGAAGATAGCAGATTTGGCAT
*
44532707 CCCTGTGCTTATAGGGAACA-AGTT
66 CCCTGTGCTTATAGGGAACAGA-TC
* * * * * * * *
44532731 GAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CA-AGTTGAAAACAGCAGATTTGGCA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGA-TCGAAGATAGCAGATTTGGCA
44532794 TCCCTGTGCTTATAGGGAACAGATC
65 TCCCTGTGCTTATAGGGAACAGATC
* * * ** *
44532819 GAAGATAGCAGATCTGATATTCCTGTGCTTA-CGATGAAGCAGATCGAAGATTTCAGCA--TGGA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAG-GGAAGCAGATCGAAGATAGCAG-ATTTGGC
*
44532881 ATCCTTGTGCTTATAGGGAACAGATC
64 ATCCCTGTGCTTATAGGGAACAGATC
* * * ** *
44532907 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGATGATTTCAGCA--TGGAA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGATCGAAGATAGCAG-ATTTGGCA
*
44532970 TCCCTGTGCTTATAGGGAACA-AGTT
65 TCCCTGTGCTTATAGGGAACAGA-TC
* * * * * *
44532995 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGTAA-CA-AGTTGAAAATAGCAGATTTGGCA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGA-TCGAAGATAGCAGATTTGGCA
*
44533058 TCCCTGTACTTATAGGGAACAGATC
65 TCCCTGTGCTTATAGGGAACAGATC
* ** *
44533083 GAAGATAGCAGATCTGACATTCCTGTGCTTA-CGGTGAAGCAGATCGAAGATTTCAGCA--TGGA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGG-GAAGCAGATCGAAGATAGCAG-ATTTGGC
*
44533145 ATCCCTGTGCTTATAGGGAACGGATC
64 ATCCCTGTGCTTATAGGGAACAGATC
* * ** *
44533171 GAAGATAACAGATCTGACATTCCTGTGCTTA-CGGTGAAGCAGATCGAAGATTTCAGCA--TGGA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGG-GAAGCAGATCGAAGATAGCAG-ATTTGGC
* *
44533233 ATCCTTGTGCTTATAGGGAACGGATC
64 ATCCCTGTGCTTATAGGGAACAGATC
* *
44533259 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGA
1 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGATCGA
44533306 TTATTATAAA
Statistics
Matches: 636, Mismatches: 91, Indels: 48
0.82 0.12 0.06
Matches are distributed among these distances:
86 4 0.01
87 34 0.05
88 557 0.88
89 36 0.06
90 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (89 bp):
GAAGATAGCAGATCTGACATTCCTGTGCTTATAGGGAAGCAGATCGAAGATAGCAGATTTGGCAT
CCCTGTGCTTATAGGGAACAGATC
Found at i:44532761 original size:176 final size:176
Alignment explanation
Indices: 44532467--44533305 Score: 950
Period size: 176 Copynumber: 4.8 Consensus size: 176
44532457 GGAGCAGACT
44532467 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACTTGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACTTGGCATC
* * *
44532532 CCTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CA
66 CCTGTGCTTATAGGGAACAGA-TCGAAAACAGCAGATCTGACATCCCTGTGCTTATAGGGAAGCA
* *
44532595 -AGTTGAAGACAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGATC
130 GA-TCGAAGACAGCAGCA--TGGAATCCCTGTGCTTATAGGGAACAGATC
44532643 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACTTGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACTTGGCATC
* * *
44532708 CCTGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CA
66 CCTGTGCTTATAGGGAACAGA-TCGAAAACAGCAGATCTGACATCCCTGTGCTTATAGGGAAGCA
* * *
44532771 -AGTTGAAAACAGCAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGATC
130 GA-TCGAAGACAGCAGCA--TGGAATCCCTGTGCTTATAGGGAACAGATC
* * * *
44532819 GAAGATAGCAGATCTGATATTCCTGTGCTTAC-GATGAAGCAGATCGAAGATTTCAGCATGGAAT
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAG-TGAAGCAGATCGAAGATTTCAACTTGGCAT
* * * * * *
44532883 CCTTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCA
65 CCCTGTGCTTATAGGGAACAGATCGAAAACAGCAGATCTGACATCCCTGTGCTTATAGGGAAGCA
* *** *
44532948 GATCGATGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACA-AGTT
130 GATCGAAGACAGCAGCATGGAATCCCTGTGCTTATAGGGAACAGA-TC
* * * * * * ** *
44532995 GAAGATAGCAGATTTGGCATCCCTGTGCTTATAG-GTAA-CA-AGTTGAAAATAGCAGATTTGGC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTG-AAGCAGA-TCGAAGATTTCA-ACTTGGC
* * * * *
44533057 ATCCCTGTACTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTA-CGGTGAA
63 ATCCCTGTGCTTATAGGGAACAGATCGAAAACAGCAGATCTGACATCCCTGTGCTTATAGG-GAA
*** *
44533121 GCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACGGATC
127 GCAGATCGAAGACAGCAGCATGGAATCCCTGTGCTTATAGGGAACAGATC
* * * * *
44533171 GAAGATAACAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCATGGAATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACTTGGCATC
* * * * * * *
44533236 CTTGTGCTTATAGGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAG
66 CCTGTGCTTATAGGGAACAGATCGAAAACAGCAGATCTGACATCCCTGTGCTTATAGGGAAGCAG
44533301 ATCGA
131 ATCGA
44533306 TTATTATAAA
Statistics
Matches: 586, Mismatches: 61, Indels: 32
0.86 0.09 0.05
Matches are distributed among these distances:
174 1 0.00
175 14 0.02
176 544 0.93
177 24 0.04
178 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (176 bp):
GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAACTTGGCATC
CCTGTGCTTATAGGGAACAGATCGAAAACAGCAGATCTGACATCCCTGTGCTTATAGGGAAGCAG
ATCGAAGACAGCAGCATGGAATCCCTGTGCTTATAGGGAACAGATC
Found at i:44533265 original size:264 final size:264
Alignment explanation
Indices: 44532617--44533289 Score: 1141
Period size: 264 Copynumber: 2.5 Consensus size: 264
44532607 CAGATTTGGC
44532617 ATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAG
1 ATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAG
* * * * *
44532682 CAGATCGAAGATTTCAACTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTG
66 CAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTG
*
44532747 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
131 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTACTTATAGGGA
*
44532812 ACAGATCGAAGATAGCAGATCTGATATTCCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCA
196 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCA
44532877 TGGA
261 TGGA
*
44532881 ATCCTTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAG
1 ATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAG
*
44532946 CAGATCGATGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTG
66 CAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTG
* *
44533011 GCATCCCTGTGCTTATAGGTAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTACTTATAGGGA
131 GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTACTTATAGGGA
*
44533076 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGGTGAAGCAGATCGAAGATTTCAGCA
196 ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCA
44533141 TGGA
261 TGGA
* * *
44533145 ATCCCTGTGCTTATAGGGAACGGATCGAAGATAACAGATCTGACATTCCTGTGCTTACGGTGAAG
1 ATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAG
* * * *
44533210 CAGATCGAAGATTTCAGCATGGAATCCTTGTGCTTATAGGGAAC-GGATCGAAGATAGCAGATCT
66 CAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAGCAGATTT
* *
44533274 GACATTCCTGTGCTTA
130 GGCATCCCTGTGCTTA
44533290 CAGTGAAGCA
Statistics
Matches: 385, Mismatches: 23, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
263 1 0.00
264 384 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (264 bp):
ATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAG
CAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTG
GCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTACTTATAGGGA
ACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACGATGAAGCAGATCGAAGATTTCAGCA
TGGA
Found at i:44533541 original size:44 final size:43
Alignment explanation
Indices: 44533468--44533593 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
44533458 TCAGCATGGA
* *
44533468 ATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGATTTGGC
1 ATCCTTGTGTTTATAGGGAACAAGTTGAAGA-AGCAGATTTGGC
* *
44533512 ATCCTTGTGTTTATAGGGAACCAGTTGAAGACATCAGATTTGGC
1 ATCCTTGTGTTTATAGGGAACAAGTTGAAGA-AGCAGATTTGGC
* * *
44533556 AT-CTCTGTGTTTATGGGGAACAAATCGAAGAAGCAGAT
1 ATCCT-TGTGTTTATAGGGAACAAGTTGAAGAAGCAGAT
44533594 CAAGAACTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
43 8 0.11
44 63 0.89
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (43 bp):
ATCCTTGTGTTTATAGGGAACAAGTTGAAGAAGCAGATTTGGC
Found at i:44533941 original size:22 final size:22
Alignment explanation
Indices: 44533913--44533962 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
44533903 CCCTTGTTGG
*
44533913 CCACCCACCTTGGCCATCTAAA
1 CCACCCACCTTGGCCACCTAAA
44533935 CCACCCACCTTGGCCACCTAAA
1 CCACCCACCTTGGCCACCTAAA
44533957 CCACCC
1 CCACCC
44533963 CAACCACTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.26, C:0.52, G:0.08, T:0.14
Consensus pattern (22 bp):
CCACCCACCTTGGCCACCTAAA
Found at i:44533946 original size:38 final size:38
Alignment explanation
Indices: 44533843--44533928 Score: 145
Period size: 38 Copynumber: 2.3 Consensus size: 38
44533833 TAAATAAATA
*
44533843 ACCTTGGCCACCTACTCCACCACCCTTTTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
* *
44533881 ACCTTGGCCACCTACTCTACTACCCTTGTTGGCCACCC
1 ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
44533919 ACCTTGGCCA
1 ACCTTGGCCA
44533929 TCTAAACCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.16, C:0.47, G:0.13, T:0.24
Consensus pattern (38 bp):
ACCTTGGCCACCTACTCCACCACCCTTGTTGGCCACCC
Found at i:44534424 original size:3 final size:3
Alignment explanation
Indices: 44534410--44534492 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
44534400 GAGCTTTGTT
* *
44534410 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
44534454 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA T
44534493 ATATGCCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 7 0.11
3 49 0.75
4 7 0.11
5 2 0.03
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:44534470 original size:21 final size:18
Alignment explanation
Indices: 44534410--44534492 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
44534400 GAGCTTTGTT
*
44534410 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
44534430 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
44534448 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
44534469 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
44534487 -TATTAT
1 TTATTAT
44534493 ATATGCCCTC
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.11
18 18 0.33
19 9 0.16
20 10 0.18
21 12 0.22
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:44534495 original size:27 final size:26
Alignment explanation
Indices: 44534409--44534496 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
44534399 AGAGCTTTGT
* * *
44534409 TTTATTATTTTATTATTTTTACTATTA
1 TTTA-TATATTATTATTTATATTATTA
* *
44534436 TTTATATTATTATTA-TTAT-TTCTCA
1 TTTATA-TATTATTATTTATATTATTA
*
44534461 TGTATATATTATTATTTATATTATTA
1 TTTATATATTATTATTTATATTATTA
44534487 TATTATATAT
1 T-TTATATAT
44534497 GCCCTCTCCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
24 8 0.17
25 12 0.25
26 10 0.21
27 18 0.38
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (26 bp):
TTTATATATTATTATTTATATTATTA
Found at i:44534734 original size:18 final size:19
Alignment explanation
Indices: 44534698--44534754 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
44534688 ACTATTACTA
*
44534698 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
44534718 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
44534735 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
44534753 TT
1 TT
44534755 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:44551563 original size:53 final size:54
Alignment explanation
Indices: 44551501--44551609 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
44551491 TAAAAAAAAT
* *
44551501 TATTATTACTTATC-AAAAAA-TTAATAGTAAAAGACATGAAATTACCATTTAAA
1 TATTATTACTTATCAAAAAAATTTAACAGTAAAA-AAATGAAATTACCATTTAAA
*
44551554 TATTATTACTTATCAAAAAAATTTAACATTAAAAAAATGAAATTACCATTTAAA
1 TATTATTACTTATCAAAAAAATTTAACAGTAAAAAAATGAAATTACCATTTAAA
44551608 TA
1 TA
44551610 GTTAATTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
53 14 0.27
54 27 0.53
55 10 0.20
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (54 bp):
TATTATTACTTATCAAAAAAATTTAACAGTAAAAAAATGAAATTACCATTTAAA
Found at i:44553613 original size:42 final size:43
Alignment explanation
Indices: 44553566--44553651 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
44553556 ATTTATATGC
*
44553566 CACACGACCTGGACACA-TGCCCATGTCCT-TGCCCGTGTGGTT
1 CACACGACCTGGACACACT-CCCATGTCCTCTGCCAGTGTGGTT
* * *
44553608 CACACGGCCTGGGCACACTCCTATGTCCTCTGCCAGTGTGGTT
1 CACACGACCTGGACACACTCCCATGTCCTCTGCCAGTGTGGTT
44553651 C
1 C
44553652 TAAAACGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 24 0.63
43 14 0.37
ACGTcount: A:0.15, C:0.36, G:0.24, T:0.24
Consensus pattern (43 bp):
CACACGACCTGGACACACTCCCATGTCCTCTGCCAGTGTGGTT
Found at i:44556601 original size:15 final size:15
Alignment explanation
Indices: 44556581--44556610 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44556571 TTTTATATTC
*
44556581 GTAAATAATGTTTTT
1 GTAAATAATATTTTT
44556596 GTAAATAATATTTTT
1 GTAAATAATATTTTT
44556611 TAATCATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (15 bp):
GTAAATAATATTTTT
Found at i:44556772 original size:17 final size:17
Alignment explanation
Indices: 44556732--44556773 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
44556722 ATTATAAAGT
*
44556732 AGTTTAATATTATAGAA
1 AGTTAAATATTATAGAA
*
44556749 A-TATAAATATTATATAA
1 AGT-TAAATATTATAGAA
44556766 AGTTAAAT
1 AGTTAAAT
44556774 TAAATTGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
AGTTAAATATTATAGAA
Found at i:44560210 original size:12 final size:12
Alignment explanation
Indices: 44560193--44560220 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44560183 GACTTCCCTG
44560193 ATAAGAGTATTT
1 ATAAGAGTATTT
44560205 ATAAGAGTATTT
1 ATAAGAGTATTT
44560217 ATAA
1 ATAA
44560221 AAATTGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (12 bp):
ATAAGAGTATTT
Done.