Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 108 of 313
Found at i:35411357 original size:41 final size:41
Alignment explanation
Indices: 35411280--35411357 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35411270 TTTGTATCTC
* * *
35411280 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35411321 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35411358 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35415588 original size:27 final size:27
Alignment explanation
Indices: 35415558--35415735 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35415548 ATATTGAGTC
* * * *
35415558 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35415585 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35415612 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35415640 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35415667 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35415694 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35415721 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35415736 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35415697 original size:82 final size:81
Alignment explanation
Indices: 35415579--35415734 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35415569 TGCTATATAA
* *
35415579 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35415644 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35415661 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35415725 CACTTAGTGC
65 CACTTAGTGC
35415735 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35429041 original size:41 final size:40
Alignment explanation
Indices: 35428887--35429058 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 40
35428877 TCTTCCGGGT
** * * *
35428887 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
* * * *
35428925 TTAACCCGGATATGGTCACTGGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
*
35428965 TTAGCCCGGATATAGTCGCTAGCACAAATGCCTTC-GGATC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGA-C
* * *
35429005 TTAGTCCGGATGTAGTCACTTAGCACAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCAC-TAGCACAAATGCCTTCGGGAC
35429046 TTAGCCCGGATAT
1 TTAGCCCGGATAT
35429059 CATTCGAGTA
Statistics
Matches: 110, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 3 0.03
39 18 0.16
40 59 0.54
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:35437221 original size:12 final size:12
Alignment explanation
Indices: 35437204--35437230 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
35437194 ATTCCAAAGT
35437204 ATATATATATAC
1 ATATATATATAC
35437216 ATATATATATAC
1 ATATATATATAC
35437228 ATA
1 ATA
35437231 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:35437791 original size:27 final size:28
Alignment explanation
Indices: 35437679--35437804 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
35437669 CATGAGATTG
* * * *
35437679 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
35437708 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35437736 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
35437764 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
35437791 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
35437805 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.26
28 50 0.54
29 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35437801 original size:55 final size:57
Alignment explanation
Indices: 35437679--35437804 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
35437669 CATGAGATTG
* *
35437679 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
35437736 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
35437791 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
35437805 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 24 0.38
56 22 0.34
57 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:35437815 original size:27 final size:27
Alignment explanation
Indices: 35437707--35437817 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
35437697 TAAATTGTAC
*
35437707 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
35437735 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
35437763 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
35437790 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
35437817 A
1 A
35437818 CTTTTGAATC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 30 0.38
28 48 0.62
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:35440817 original size:32 final size:33
Alignment explanation
Indices: 35440772--35440840 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
35440762 AGCCATGGAT
35440772 TGTGTTTAAAATTTAACCATGGATGACATACA-
1 TGTGTTTAAAATTTAACCATGGATGACATACAG
**
35440804 TGTGTTTTGAATTTAACCATGGATGACATACAG
1 TGTGTTTAAAATTTAACCATGGATGACATACAG
35440837 TGTG
1 TGTG
35440841 ATAAACAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (33 bp):
TGTGTTTAAAATTTAACCATGGATGACATACAG
Found at i:35441550 original size:52 final size:52
Alignment explanation
Indices: 35441456--35441569 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 52
35441446 AATATGACAT
* * *
35441456 TGTGCTAAGTAAAATAAGACCATGGCATCTAAATGAATTAAGTTCATGGCAA
1 TGTGCTAAGTAAAATAAGACCATGGCATCTAAATAAAATAAGTCCATGGCAA
* * * * *
35441508 TGTGCTAAGTAAAATAGGCCCATGGCATCTAAGTAAAATAAGTCCATTGCAT
1 TGTGCTAAGTAAAATAAGACCATGGCATCTAAATAAAATAAGTCCATGGCAA
*
35441560 TATGCTAAGT
1 TGTGCTAAGT
35441570 GAGAAATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTGCTAAGTAAAATAAGACCATGGCATCTAAATAAAATAAGTCCATGGCAA
Found at i:35441554 original size:24 final size:24
Alignment explanation
Indices: 35441460--35441559 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
35441450 TGACATTGTG
*
35441460 CTAAGTAAAATAAGACCATGGCAT
1 CTAAGTAAAATAAGTCCATGGCAT
* * * *
35441484 CTAAATGAATTAAGTTCATGGCAATGT
1 CTAAGTAAAATAAGTCCATGGC-A--T
* *
35441511 GCTAAGTAAAATAGGCCCATGGCAT
1 -CTAAGTAAAATAAGTCCATGGCAT
*
35441536 CTAAGTAAAATAAGTCCATTGCAT
1 CTAAGTAAAATAAGTCCATGGCAT
35441560 TATGCTAAGT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
24 38 0.66
25 2 0.03
27 2 0.03
28 16 0.28
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (24 bp):
CTAAGTAAAATAAGTCCATGGCAT
Found at i:35441658 original size:51 final size:51
Alignment explanation
Indices: 35441595--35441743 Score: 239
Period size: 51 Copynumber: 2.9 Consensus size: 51
35441585 TGAACCTTAG
35441595 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * *
35441646 GACTAAAATAGCTTTGGACACAAGTGTGGTACTAGGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
35441697 GAATAAAATAGCTTTGG-CTACAAAG-GTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-AC-AAGTGTGGTACTATGTGAAGGCCACT
35441744 ATGTATCCGT
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
50 1 0.01
51 87 0.96
52 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
Found at i:35445410 original size:35 final size:35
Alignment explanation
Indices: 35445370--35445439 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
35445360 AAACACATCC
* * *
35445370 CAAACCGTTTCATGACGCATCACTAAAAATTACTA
1 CAAACCGTTTAATAACGCATCACTAAAAATCACTA
35445405 CAAACCGTTTAATAACGCATCACTAAAAATCACTA
1 CAAACCGTTTAATAACGCATCACTAAAAATCACTA
35445440 ACTCTTTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (35 bp):
CAAACCGTTTAATAACGCATCACTAAAAATCACTA
Found at i:35456490 original size:379 final size:379
Alignment explanation
Indices: 35455791--35456549 Score: 1518
Period size: 379 Copynumber: 2.0 Consensus size: 379
35455781 CGGTGGAGGT
35455791 GGAGAAAGTTATCGGCACCTATAAACTCTTCAGTGTGTATGCCCAAAGCTGCGCCAATGTAACAC
1 GGAGAAAGTTATCGGCACCTATAAACTCTTCAGTGTGTATGCCCAAAGCTGCGCCAATGTAACAC
35455856 CCCGTACCCGAGACCATCGTCGGAGTCAAAAACGAGGTGTTAATGGACTTAATTCATTACTTAAA
66 CCCGTACCCGAGACCATCGTCGGAGTCAAAAACGAGGTGTTAATGGACTTAATTCATTACTTAAA
35455921 AAGCTTAAACAATTTATTTTTAAAATTTCTAGTCAAGCTAGCAATCTGCATCATAGTCGCTTAAA
131 AAGCTTAAACAATTTATTTTTAAAATTTCTAGTCAAGCTAGCAATCTGCATCATAGTCGCTTAAA
35455986 AATTCATATCTCGAGTTCTGAAACTTGAAATCCAATTCCGTAAATTTTTCCTAAAATTAGACTCA
196 AATTCATATCTCGAGTTCTGAAACTTGAAATCCAATTCCGTAAATTTTTCCTAAAATTAGACTCA
35456051 TATATATATTTACTAATTATTTTCTAGAATTTTTGGTCGAGCCAATTAGTACATTTTATTAGCTA
261 TATATATATTTACTAATTATTTTCTAGAATTTTTGGTCGAGCCAATTAGTACATTTTATTAGCTA
35456116 AAGTCTCCCCTATTTCAGGGTTTGACTGCTCTGACCTCTGTGTATTACGAGTCA
326 AAGTCTCCCCTATTTCAGGGTTTGACTGCTCTGACCTCTGTGTATTACGAGTCA
35456170 GGAGAAAGTTATCGGCACCTATAAACTCTTCAGTGTGTATGCCCAAAGCTGCGCCAATGTAACAC
1 GGAGAAAGTTATCGGCACCTATAAACTCTTCAGTGTGTATGCCCAAAGCTGCGCCAATGTAACAC
35456235 CCCGTACCCGAGACCATCGTCGGAGTCAAAAACGAGGTGTTAATGGACTTAATTCATTACTTAAA
66 CCCGTACCCGAGACCATCGTCGGAGTCAAAAACGAGGTGTTAATGGACTTAATTCATTACTTAAA
35456300 AAGCTTAAACAATTTATTTTTAAAATTTCTAGTCAAGCTAGCAATCTGCATCATAGTCGCTTAAA
131 AAGCTTAAACAATTTATTTTTAAAATTTCTAGTCAAGCTAGCAATCTGCATCATAGTCGCTTAAA
35456365 AATTCATATCTCGAGTTCTGAAACTTGAAATCCAATTCCGTAAATTTTTCCTAAAATTAGACTCA
196 AATTCATATCTCGAGTTCTGAAACTTGAAATCCAATTCCGTAAATTTTTCCTAAAATTAGACTCA
35456430 TATATATATTTACTAATTATTTTCTAGAATTTTTGGTCGAGCCAATTAGTACATTTTATTAGCTA
261 TATATATATTTACTAATTATTTTCTAGAATTTTTGGTCGAGCCAATTAGTACATTTTATTAGCTA
35456495 AAGTCTCCCCTATTTCAGGGTTTGACTGCTCTGACCTCTGTGTATTACGAGTCA
326 AAGTCTCCCCTATTTCAGGGTTTGACTGCTCTGACCTCTGTGTATTACGAGTCA
35456549 G
1 G
35456550 ATATCTCCCT
Statistics
Matches: 380, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
379 380 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (379 bp):
GGAGAAAGTTATCGGCACCTATAAACTCTTCAGTGTGTATGCCCAAAGCTGCGCCAATGTAACAC
CCCGTACCCGAGACCATCGTCGGAGTCAAAAACGAGGTGTTAATGGACTTAATTCATTACTTAAA
AAGCTTAAACAATTTATTTTTAAAATTTCTAGTCAAGCTAGCAATCTGCATCATAGTCGCTTAAA
AATTCATATCTCGAGTTCTGAAACTTGAAATCCAATTCCGTAAATTTTTCCTAAAATTAGACTCA
TATATATATTTACTAATTATTTTCTAGAATTTTTGGTCGAGCCAATTAGTACATTTTATTAGCTA
AAGTCTCCCCTATTTCAGGGTTTGACTGCTCTGACCTCTGTGTATTACGAGTCA
Found at i:35460045 original size:30 final size:30
Alignment explanation
Indices: 35460001--35460089 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
35459991 CAAAGATAAT
*
35460001 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAAACCAAGATA
* *
35460030 GAGAAACCCAGAATAAAGAAAACC-AGAATA
1 AAGAAAACCAGAATAAAGAAAACCAAG-ATA
* * * *
35460060 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAAACCAAGATA
35460090 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAAACCAAGATA
Found at i:35460049 original size:15 final size:15
Alignment explanation
Indices: 35460001--35460080 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
35459991 CAAAGATAAT
35460001 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
35460015 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
* *
35460030 GAGAAACCCAGAATA
1 AAGAAAACCAGAATA
35460045 AAGAAAACCAGAATA
1 AAGAAAACCAGAATA
* * *
35460060 AAGAGATCCAGGATA
1 AAGAAAACCAGAATA
35460075 AAGAAA
1 AAGAAA
35460081 CCCAAGATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 9 0.17
15 44 0.81
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.09
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:35460089 original size:15 final size:15
Alignment explanation
Indices: 35460012--35460089 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
35460002 AGAAAACCGA
*
35460012 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
35460027 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
*
35460041 AATAAAGAAAACC-AG
1 -ATAAAGAAACCCAAG
* * *
35460056 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
35460072 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
35460087 ATA
1 ATA
35460090 CGATACTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
14 2 0.04
15 48 0.94
16 1 0.02
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.10
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:35463213 original size:93 final size:93
Alignment explanation
Indices: 35463050--35463220 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
35463040 GCCCCTAAGT
* *
35463050 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
35463115 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
35463143 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGATTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
35463208 TGAGTTCGGATGC
66 CGAGTTCGGATGC
35463221 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35463217 original size:46 final size:46
Alignment explanation
Indices: 35463045--35463217 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
35463035 AACCCGCCCC
* * * * *
35463045 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
35463091 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
35463139 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
35463184 TAAGTGAACTCGGATTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35463218 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:35466357 original size:55 final size:55
Alignment explanation
Indices: 35466289--35466396 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 55
35466279 ACAGGTTAGA
* * * *
35466289 CCACGGGTGTTCCACACGGGCGTGTCACATGCCCGTGTTGTTTTAGTAGGCTCAC
1 CCACGGGTCTTCCACACGAGCGTGTCACACGCCCATGTTGTTTTAGTAGGCTCAC
* * *
35466344 CCACGGTTCTTCCACACGAGCGTGTCTCACGCCCATGTTGTTTTGGTAGGCTC
1 CCACGGGTCTTCCACACGAGCGTGTCACACGCCCATGTTGTTTTAGTAGGCTC
35466397 GACCATGACC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.14, C:0.31, G:0.27, T:0.29
Consensus pattern (55 bp):
CCACGGGTCTTCCACACGAGCGTGTCACACGCCCATGTTGTTTTAGTAGGCTCAC
Found at i:35477754 original size:48 final size:48
Alignment explanation
Indices: 35477679--35477822 Score: 191
Period size: 48 Copynumber: 3.0 Consensus size: 48
35477669 CATGTCATTA
** * *
35477679 GGGA-ATACATTGATTTGGCTTCAGGCCATGATATTGACACTTCTGGT
1 GGGAGATACATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGT
* * * *
35477726 GTGAGTTACTTTGATTTAGCTTTGGGCCATGATATTGGCACTTCGGGT
1 GGGAGATACATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGT
* *
35477774 GGGAGATACATTGAGTTGGCTTTGGGCCATGATATTGGCACTTAGGGT
1 GGGAGATACATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGT
35477822 G
1 G
35477823 CAAGACTCCT
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 3 0.04
48 79 0.96
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.35
Consensus pattern (48 bp):
GGGAGATACATTGATTTGGCTTTGGGCCATGATATTGGCACTTCGGGT
Found at i:35485218 original size:21 final size:21
Alignment explanation
Indices: 35485194--35485236 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35485184 TCATCAGTGT
*
35485194 ATATGCTTAAAGCTATGCCAA
1 ATATGCCTAAAGCTATGCCAA
* *
35485215 ATATGCCTAAAGTTGTGCCAA
1 ATATGCCTAAAGCTATGCCAA
35485236 A
1 A
35485237 ATCAGGAACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (21 bp):
ATATGCCTAAAGCTATGCCAA
Found at i:35491488 original size:21 final size:21
Alignment explanation
Indices: 35491463--35491502 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35491453 TGGAGTAGGA
*
35491463 ATATCGATACCTTAGGAAAAT
1 ATATCGATACCTTAAGAAAAT
35491484 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
35491503 GTATCAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (21 bp):
ATATCGATACCTTAAGAAAAT
Found at i:35494546 original size:43 final size:43
Alignment explanation
Indices: 35494383--35494546 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 43
35494373 AGCTAATACA
* * * * ** * *
35494383 ATGCC-ATATCCCAGATATGGTTTTATATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
** * **
35494425 ATGCCTCTGTCCCAGACAAGGTCTTACACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
* *
35494468 ATCCCAATGTCCCAGACATGGTCTTATATGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
* *
35494511 ATGCCAATGTCCCAAACATGGTCTTACATGTAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
35494547 CATCTCGGTA
Statistics
Matches: 98, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 5 0.05
43 93 0.95
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAACG
Found at i:35495933 original size:33 final size:32
Alignment explanation
Indices: 35495890--35495962 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
35495880 CAGGTCTTTA
*
35495890 AAACAAAAAAACGAACCTCACAACTAGGCCTCT
1 AAACAAAAAAA-GAACATCACAACTAGGCCTCT
* * * *
35495923 AAACACAAAAAGGACATTACAACTAGGCTTCT
1 AAACAAAAAAAGAACATCACAACTAGGCCTCT
35495955 AAGACAAA
1 AA-ACAAA
35495963 CTTGGACCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
32 19 0.58
33 14 0.42
ACGTcount: A:0.51, C:0.25, G:0.11, T:0.14
Consensus pattern (32 bp):
AAACAAAAAAAGAACATCACAACTAGGCCTCT
Found at i:35497090 original size:49 final size:49
Alignment explanation
Indices: 35496981--35497090 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
35496971 TAGTATAATG
* * *
35496981 GTTTTGCCTTTTAACTTTAGAAAATATAAACATTTATCAGAACGACATA
1 GTTTTGCCTTTTAACTTTAGAAAAGATAAACATTTATCAAAACGACACA
** * *
35497030 GTTTTTTCTTTTAACTTTAGAAAAGGTAAATATTTATCAAAACGA-AGCA
1 GTTTTGCCTTTTAACTTTAGAAAAGATAAACATTTATCAAAACGACA-CA
35497079 GTTTTGCCTTTT
1 GTTTTGCCTTTT
35497091 CTTATTTGGG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (49 bp):
GTTTTGCCTTTTAACTTTAGAAAAGATAAACATTTATCAAAACGACACA
Found at i:35497194 original size:40 final size:40
Alignment explanation
Indices: 35497139--35497222 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
35497129 ATATTCTAGT
35497139 TAAACCAAAAATTTTAATTTTTTATTTGAGTTTATCCGAA
1 TAAACCAAAAATTTTAATTTTTTATTTGAGTTTATCCGAA
*
35497179 TAAACCAAAATTTTTAATTTTTTATTTGAGTTTATCCGAA
1 TAAACCAAAAATTTTAATTTTTTATTTGAGTTTATCCGAA
35497219 TAAA
1 TAAA
35497223 TTGAACTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (40 bp):
TAAACCAAAAATTTTAATTTTTTATTTGAGTTTATCCGAA
Found at i:35502032 original size:9 final size:9
Alignment explanation
Indices: 35502018--35502042 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
35502008 ACAGCTTCAC
35502018 ATATTTGTA
1 ATATTTGTA
35502027 ATATTTGTA
1 ATATTTGTA
35502036 ATATTTG
1 ATATTTG
35502043 CATTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (9 bp):
ATATTTGTA
Found at i:35505858 original size:3 final size:3
Alignment explanation
Indices: 35505845--35505884 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
35505835 GAGTGTTTAC
35505845 ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35505885 GAGGAAGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:35517888 original size:21 final size:20
Alignment explanation
Indices: 35517859--35517900 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 20
35517849 TGCATATTGT
35517859 ATATCAAAATTACAAATTTAAA
1 ATATCAAAATTAC--ATTTAAA
35517881 ATAT-AAAATTACATTTAAA
1 ATATCAAAATTACATTTAAA
35517900 A
1 A
35517901 GAATATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATCAAAATTACATTTAAA
Found at i:35518841 original size:23 final size:24
Alignment explanation
Indices: 35518811--35518859 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
35518801 TTTTTTTTAC
* *
35518811 AAGGAATCGAATAGAAAAAA-AGA
1 AAGGAATCAAATACAAAAAAGAGA
*
35518834 AAGGAATCAAATTCAAAAAAGAGA
1 AAGGAATCAAATACAAAAAAGAGA
35518858 AA
1 AA
35518860 ACAACGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.65, C:0.06, G:0.18, T:0.10
Consensus pattern (24 bp):
AAGGAATCAAATACAAAAAAGAGA
Found at i:35520643 original size:85 final size:85
Alignment explanation
Indices: 35520506--35520674 Score: 302
Period size: 85 Copynumber: 2.0 Consensus size: 85
35520496 AAAATTCAAC
*
35520506 ATATATAAGACTTAGGTAGTAATCAAATAATGAGAATCTTTATTTTCGAGGATTCGAGATATCGT
1 ATATATAAGACTTAGGTAGTAATAAAATAATGAGAATCTTTATTTTCGAGGATTCGAGATATCGT
35520571 GCCCTAACTTACGAAACATA
66 GCCCTAACTTACGAAACATA
*
35520591 ATATATAAGACTTAGGTAGTAATAAAATGATGAGAATCTTTATTTTCGAGGATTCGAGATATCGT
1 ATATATAAGACTTAGGTAGTAATAAAATAATGAGAATCTTTATTTTCGAGGATTCGAGATATCGT
**
35520656 GCCCTAACTTTTGAAACAT
66 GCCCTAACTTACGAAACAT
35520675 GATCATTTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 80 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (85 bp):
ATATATAAGACTTAGGTAGTAATAAAATAATGAGAATCTTTATTTTCGAGGATTCGAGATATCGT
GCCCTAACTTACGAAACATA
Found at i:35529973 original size:5 final size:5
Alignment explanation
Indices: 35529965--35529990 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
35529955 GAGATGGAAT
35529965 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
35529991 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:35530160 original size:19 final size:19
Alignment explanation
Indices: 35530136--35530179 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35530126 TACAAGCAAC
*
35530136 ACAACATTAACCCAAATAA
1 ACAACATTAACCCAAAAAA
**
35530155 ACAACATTAGTCCAAAAAA
1 ACAACATTAACCCAAAAAA
35530174 ACAACA
1 ACAACA
35530180 AAAAAATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.59, C:0.25, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATTAACCCAAAAAA
Found at i:35530507 original size:215 final size:212
Alignment explanation
Indices: 35530247--35530638 Score: 653
Period size: 215 Copynumber: 1.8 Consensus size: 212
35530237 GTCGAAGTAA
*
35530247 ACAACAACATTATAATAAAAAAAACATAAGCAAAAGTCCAAAATACAGTAGAAACCTACACCACT
1 ACAACAACATTATAATAAAAAAAACATAAGCAAAAGTCCAAAATACAATAGAAACCTACACCACT
*
35530312 CC-AAAAAAAAAAGAACACAACAAAAGTTCAATTAACCAACAACAATAACTAACCAAACCAAACC
66 CCAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAATAACT-----AACCAAACC
35530376 AAACTAATAACAATAACACATCAGTTCAAAAA-CATTATAGAATAGTTTAAGTTTCTTCATGAGT
126 AAACTAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGT
35530440 CCAAATAAACAACAAAAACAAT
191 CCAAATAAACAACAAAAACAAT
* * * *
35530462 ACAACAACATTGTAGTAAAAAAAACATAAGCAAAAGTCTAAAATACAATAGAAACCTACACCAGT
1 ACAACAACATTATAATAAAAAAAACATAAGCAAAAGTCCAAAATACAATAGAAACCTACACCACT
*
35530527 CCAAAAAAAAAAAAGAACACAACAAAAGCTCAATTATCCAACAACAATAACTAACCAAACCAAAC
66 CC-AAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAATAACTAACCAAACCAAAC
35530592 TAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTTTAA
130 TAATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTTTAA
35530639 CTTCTTGTGC
Statistics
Matches: 167, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
212 41 0.25
213 18 0.11
215 62 0.37
217 46 0.28
ACGTcount: A:0.56, C:0.21, G:0.06, T:0.17
Consensus pattern (212 bp):
ACAACAACATTATAATAAAAAAAACATAAGCAAAAGTCCAAAATACAATAGAAACCTACACCACT
CCAAAAAAAAAAAGAACACAACAAAAGCTCAATTAACCAACAACAATAACTAACCAAACCAAACT
AATAACAATAACACATCAGTTCAAAAACCATTATAGAATAGTTTAAGTTTCTTCATGAGTCCAAA
TAAACAACAAAAACAAT
Found at i:35533353 original size:29 final size:29
Alignment explanation
Indices: 35533297--35533353 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
35533287 CCACTAAGTC
*
35533297 CAAATCACTTGTATATGACCCATTAGGCT
1 CAAATCACTTGTATATGACCCATGAGGCT
* *
35533326 CAAATCACATT-TATATGGCCCGTGAGGC
1 CAAATCAC-TTGTATATGACCCATGAGGC
35533354 CTACTCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (29 bp):
CAAATCACTTGTATATGACCCATGAGGCT
Found at i:35533601 original size:16 final size:16
Alignment explanation
Indices: 35533580--35533614 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35533570 GTAGCCAAAC
*
35533580 TTTCAGCTTTTCGACT
1 TTTCAGCATTTCGACT
*
35533596 TTTCAGCATTTCGGCT
1 TTTCAGCATTTCGACT
35533612 TTT
1 TTT
35533615 ACCCGTAGAT
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:0.11, C:0.23, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAGCATTTCGACT
Found at i:35534731 original size:16 final size:16
Alignment explanation
Indices: 35534712--35534759 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
35534702 AAAAAAATCG
35534712 AGATTTCGGGATTTTT
1 AGATTTCGGGATTTTT
*
35534728 AGATTTTGGGATTTTT
1 AGATTTCGGGATTTTT
*
35534744 -GTATTTCGAGATTTTT
1 AG-ATTTCGGGATTTTT
35534760 GGGGCGTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.19, C:0.04, G:0.23, T:0.54
Consensus pattern (16 bp):
AGATTTCGGGATTTTT
Found at i:35540988 original size:29 final size:29
Alignment explanation
Indices: 35540901--35540991 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
35540891 TACCTGTATC
* * *
35540901 TGGCCCACTAAGCCC-AATCATA-TTCATA
1 TGGCCCATTAGGCCCAAATCACACTT-ATA
*
35540929 TAGCCCATTAGGCCCAAATCAC-CTGTATA
1 TGGCCCATTAGGCCCAAATCACACT-TATA
35540958 TGGCCCATTAGGCCCAAATCACACTTATA
1 TGGCCCATTAGGCCCAAATCACACTTATA
35540987 TGGCC
1 TGGCC
35540992 TAACATTCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
28 12 0.22
29 39 0.72
30 3 0.06
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACACTTATA
Found at i:35545649 original size:22 final size:23
Alignment explanation
Indices: 35545624--35545669 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
35545614 CAACCAAATC
35545624 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
35545646 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
35545669 A
1 A
35545670 CGTCATCACA
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:35545675 original size:23 final size:23
Alignment explanation
Indices: 35545631--35545675 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35545621 ATCAATTCAA
*
35545631 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
35545654 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
35545676 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:35546342 original size:54 final size:58
Alignment explanation
Indices: 35546257--35546452 Score: 251
Period size: 59 Copynumber: 3.4 Consensus size: 58
35546247 AACCTTGCAG
* * *
35546257 CGGGATTACCAGTCCAGGCTAAATCCTCTGCAAT-ATAA-ACTC--ATAGAG-TATTG-T
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATACTCTAAT-GAGCT-TGGAT
35546311 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAA-TACTCTAATGAGCTTGGAT
* *
35546370 CTGAATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGAT
1 CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAA-TACTCTAATGAGCTTGGAT
* *
35546429 CTGAATTACCAGTCCAGGCTAAAT
1 CGGGATTACCAGTCCAGGCTAAAT
35546453 TCAGACCCTA
Statistics
Matches: 130, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
54 33 0.25
55 3 0.02
57 4 0.03
58 5 0.04
59 85 0.65
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (58 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATACTCTAATGAGCTTGGAT
Found at i:35546390 original size:59 final size:59
Alignment explanation
Indices: 35546315--35546452 Score: 276
Period size: 59 Copynumber: 2.3 Consensus size: 59
35546305 TATTGTCGGG
35546315 ATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
35546374 ATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
35546433 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
35546453 TCAGACCCTA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (59 bp):
ATTACCAGTCCAGGCTAAATCCCCTGCAATGACAATTACTCTAATGAGCTTGGATCTGA
Found at i:35562728 original size:23 final size:25
Alignment explanation
Indices: 35562702--35562748 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
35562692 TATCATTCAT
*
35562702 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
35562725 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
35562749 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:35563372 original size:295 final size:295
Alignment explanation
Indices: 35562842--35563378 Score: 1047
Period size: 295 Copynumber: 1.8 Consensus size: 295
35562832 CATAATTATT
35562842 TCATACAACGCTTTTGTACATATATTTCCATATGACCAGTTCTTGTAAACATTTCACACAACCAT
1 TCATACAACGCTTTTGTACATATATTTCCATATGACCAGTTCTTGTAAACATTTCACACAACCAT
35562907 TTCATATAACCATTCGTCATCTGATACATTTTACCTGAATATCAATTGTTCAACAGATGTTATAG
66 TTCATATAACCATTCGTCATCTGATACATTTTACCTGAATATCAATTGTTCAACAGATGTTATAG
35562972 TGCCTCCCATCTACGGTCTTATTTATCTTTGACGTGATGCCATAGTGTCTCTCAACTATGGTCTT
131 TGCCTCCCATCTACGGTCTTATTTATCTTTGACGTGATGCCATAGTGTCTCTCAACTATGGTCTT
*
35563037 ACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCACAGGTTGCCATGGT
196 ACTCATTTTCTGTCATGTTGCCATGGTATCCTTCAACCATGGTCTTATTCACAGGTTGCCATGGT
35563102 ATCCTTCAACCATGGTCTTACACATTTCATATCAG
261 ATCCTTCAACCATGGTCTTACACATTTCATATCAG
*
35563137 TCATACAACGCTTTTGTACATATATTTCCATATGACCAGTTCTTGTAAACATTTCTCACAACCAT
1 TCATACAACGCTTTTGTACATATATTTCCATATGACCAGTTCTTGTAAACATTTCACACAACCAT
*
35563202 TTCATATAGCCATTCGTCATCTGATACATTTTACCTGAATATCAATTGTTCAACAGATGTTATAG
66 TTCATATAACCATTCGTCATCTGATACATTTTACCTGAATATCAATTGTTCAACAGATGTTATAG
35563267 TGCCTCCCATCTACGGTCTTATTTATCTTTGACGTGATGCCATAGTGTCTCTCAACTATGGTCTT
131 TGCCTCCCATCTACGGTCTTATTTATCTTTGACGTGATGCCATAGTGTCTCTCAACTATGGTCTT
35563332 ACTCATTTTCTGTCATGTTGCCATGGTATCCTTCAACCATGGTCTTA
196 ACTCATTTTCTGTCATGTTGCCATGGTATCCTTCAACCATGGTCTTA
35563379 CACATTTCAT
Statistics
Matches: 239, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
295 239 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (295 bp):
TCATACAACGCTTTTGTACATATATTTCCATATGACCAGTTCTTGTAAACATTTCACACAACCAT
TTCATATAACCATTCGTCATCTGATACATTTTACCTGAATATCAATTGTTCAACAGATGTTATAG
TGCCTCCCATCTACGGTCTTATTTATCTTTGACGTGATGCCATAGTGTCTCTCAACTATGGTCTT
ACTCATTTTCTGTCATGTTGCCATGGTATCCTTCAACCATGGTCTTATTCACAGGTTGCCATGGT
ATCCTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:35563559 original size:59 final size:59
Alignment explanation
Indices: 35563484--35563621 Score: 276
Period size: 59 Copynumber: 2.3 Consensus size: 59
35563474 TATTGTCGGG
35563484 ATTACCAGTCCAGGCTAAATCCCTTGCAACGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCTTGCAACGACAATTACTCTAATGAGCTTGGATCTGA
35563543 ATTACCAGTCCAGGCTAAATCCCTTGCAACGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCTTGCAACGACAATTACTCTAATGAGCTTGGATCTGA
35563602 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
35563622 TCAGACCCTA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (59 bp):
ATTACCAGTCCAGGCTAAATCCCTTGCAACGACAATTACTCTAATGAGCTTGGATCTGA
Found at i:35569642 original size:43 final size:45
Alignment explanation
Indices: 35569594--35569679 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 45
35569584 AGAAGAAGCC
* *
35569594 AAAAAGAACAGGAGCCAAAAGAAAAAAGTGA-AAAAAA-AAACAA
1 AAAAAGAACAGGAGACAAAAGAAAAAAGAGACAAAAAACAAACAA
* *
35569637 AAAAAGATCAGGAGACAAAAGAAAAGAGAGACAAAAAACAAAC
1 AAAAAGAACAGGAGACAAAAGAAAAAAGAGACAAAAAACAAAC
35569680 GTCCAGGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 27 0.73
44 6 0.16
45 4 0.11
ACGTcount: A:0.70, C:0.10, G:0.17, T:0.02
Consensus pattern (45 bp):
AAAAAGAACAGGAGACAAAAGAAAAAAGAGACAAAAAACAAACAA
Found at i:35569761 original size:3 final size:3
Alignment explanation
Indices: 35569743--35569780 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
35569733 TAAATAAATA
*
35569743 AAT AAT AAA AAGT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT A
35569781 GTTTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 30 0.94
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:35571430 original size:25 final size:25
Alignment explanation
Indices: 35571402--35571505 Score: 131
Period size: 25 Copynumber: 4.2 Consensus size: 25
35571392 TTTCTCACCC
35571402 CAATTGTACCCCAATAAAATTTTAA
1 CAATTGTACCCCAATAAAATTTTAA
*
35571427 CAATTGTACCCCAGTAAAATTTTAA
1 CAATTGTACCCCAATAAAATTTTAA
* *
35571452 CAATTTTACCCCGATAAAATTTTAA
1 CAATTGTACCCCAATAAAATTTTAA
** *
35571477 TGA-T-TACCCCCAATAAAATTTTGA
1 CAATTGTA-CCCCAATAAAATTTTAA
35571501 CAATT
1 CAATT
35571506 TTACTCTCGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
23 2 0.03
24 17 0.25
25 48 0.72
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (25 bp):
CAATTGTACCCCAATAAAATTTTAA
Found at i:35571506 original size:49 final size:50
Alignment explanation
Indices: 35571402--35571523 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
35571392 TTTCTCACCC
* * *
35571402 CAATTGTACCCCAATAAAATTTTAACAATTGTACCCCAGTAAAATTTTAA
1 CAATTTTACCCCGATAAAATTTTAACAATTGTACCCCAATAAAATTTTAA
** *
35571452 CAATTTTACCCCGATAAAATTTTAATGA-T-TACCCCCAATAAAATTTTGA
1 CAATTTTACCCCGATAAAATTTTAACAATTGTA-CCCCAATAAAATTTTAA
* *
35571501 CAATTTTACTCTCGTTAAAATTT
1 CAATTTTAC-CCCGATAAAATTT
35571524 CGAGAAAATT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 2 0.03
49 25 0.40
50 35 0.56
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.36
Consensus pattern (50 bp):
CAATTTTACCCCGATAAAATTTTAACAATTGTACCCCAATAAAATTTTAA
Found at i:35574279 original size:31 final size:30
Alignment explanation
Indices: 35574244--35574354 Score: 111
Period size: 31 Copynumber: 3.6 Consensus size: 30
35574234 TATTAAATTA
*
35574244 AATTTAATATTTATGTAGATAGTATTTTATT
1 AATTTAATATTTATG-AGATAATATTTTATT
* **
35574275 AATTTATTATTAATATGAGATAATAAATTA--
1 AATTTAATATT--TATGAGATAATATTTTATT
35574305 AATTTAATATTTATCTG-GATAATATTTTATT
1 AATTTAATATTTA--TGAGATAATATTTTATT
*
35574336 AATTTAATATTAATGAGAT
1 AATTTAATATTTATGAGAT
35574355 TAATTCTAGT
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
28 2 0.03
29 12 0.18
30 15 0.23
31 22 0.34
32 10 0.15
33 4 0.06
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.50
Consensus pattern (30 bp):
AATTTAATATTTATGAGATAATATTTTATT
Found at i:35574291 original size:61 final size:61
Alignment explanation
Indices: 35574220--35574349 Score: 215
Period size: 61 Copynumber: 2.1 Consensus size: 61
35574210 ATTTATCTAG
* * *
35574220 ATATTAATATGAGATATTAAATTAAATTTAATATTTATGTAGATAGTATTTTATTAATTTA
1 ATATTAATATGAGATAATAAATTAAATTTAATATTTATCTAGATAATATTTTATTAATTTA
* *
35574281 TTATTAATATGAGATAATAAATTAAATTTAATATTTATCTGGATAATATTTTATTAATTTA
1 ATATTAATATGAGATAATAAATTAAATTTAATATTTATCTAGATAATATTTTATTAATTTA
35574342 ATATTAAT
1 ATATTAAT
35574350 GAGATTAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.43, C:0.01, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATTAATATGAGATAATAAATTAAATTTAATATTTATCTAGATAATATTTTATTAATTTA
Found at i:35581212 original size:44 final size:44
Alignment explanation
Indices: 35581164--35581254 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
35581154 GTAGGTCAAA
* *
35581164 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTAGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAATTTAAGTAAGAAAC
35581208 TAATATTAAAATAACCTACACTAATCAGAATTTAAGTAAGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAATTTAAGTAAGAAAC
35581252 TAA
1 TAA
35581255 AAATAGAGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAATTTAAGTAAGAAAC
Found at i:35586579 original size:13 final size:13
Alignment explanation
Indices: 35586561--35586586 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35586551 CTGTGAATTC
35586561 TTAGTTTAGATAA
1 TTAGTTTAGATAA
35586574 TTAGTTTAGATAA
1 TTAGTTTAGATAA
35586587 AACAAAAACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTAGTTTAGATAA
Found at i:35588803 original size:31 final size:32
Alignment explanation
Indices: 35588768--35588844 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
35588758 ATGATGCTAG
* *
35588768 AGATATTTTAATATTTTA-TAATTA-TTTAATT
1 AGATATTTTATTATTTTATTAA-TACTTTAATA
**
35588799 AGATA-AATATTATTTTATTAATACTTTAATA
1 AGATATTTTATTATTTTATTAATACTTTAATA
35588830 AGATATTTTATTATT
1 AGATATTTTATTATT
35588845 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
30 11 0.30
31 19 0.51
32 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (32 bp):
AGATATTTTATTATTTTATTAATACTTTAATA
Found at i:35591266 original size:46 final size:46
Alignment explanation
Indices: 35591204--35591336 Score: 176
Period size: 46 Copynumber: 2.9 Consensus size: 46
35591194 CAAGAACTGA
35591204 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * *
35591250 ATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * * * * *
35591296 ACATGAAAAGAATAAGACCATAGTAGAAAGACACTATGGCA
1 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCA
35591337 TCACGTCAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:35591455 original size:265 final size:268
Alignment explanation
Indices: 35590982--35591753 Score: 1023
Period size: 265 Copynumber: 2.9 Consensus size: 268
35590972 AGTGTGCTCT
* *
35590982 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAAATGAGTAA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-GAATAA
35591046 GACCATAGTAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCT
65 GACCATAGTAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCT
35591111 ATAACATCTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAAT
130 ATAACATCTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAAT
* *
35591176 GGTTGTGAGAAATGTTTACAAGAACTG-AATAT-G-A-A-ATGTATAAGACCATGGT-TGAAAGA
195 GGTTGTGAGAAATGTTTACAAGAACTGTAATATGGAATATATGTACAAAACCATGGTATGAAAGA
*
35591235 TACCATGGCAAC
260 -ACCAT-G-AAA
*
35591247 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
35591312 ACCATAGTAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTA
66 ACCATAGTAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTA
35591377 TAACATCTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATG
131 TAACATCTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATG
* * * * *
35591442 GTTGTGAGAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAAGCGTTGTATGAAAT
196 GTTGTGAGAAATGTTTACAAGAACT-GTAATATGG-AATATATGTACAAAACCATGGTATGAAAG
**
35591507 AATTATGAAA
259 AACCATGAAA
* * * * * ** ** *
35591517 ATGGATAAACGAAATAAGTATAAGTA-CATGGAAT-ATA-AT-TTATGTTAA-GT---TTG---A
1 CT-GAT--ATGAAAT--GTGTAAG-ACCATGG-TTGAAAGATACCATGGCAACGTGACATGAAAA
*
35591571 -TATAAG--C-TA-TAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGA
59 GAATAAGACCATAGTAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGA
35591631 GACGCTATAACATCTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATA
124 GACGCTATAACATCTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATA
*
35591696 TGAAATGGTTGTGAGAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAA
189 TGAAATGGTTGTGAGAAATGTTTACAAGAACT-GTAATATGG-AATATATGTACAAAA
35591754 GCGTTGTATG
Statistics
Matches: 466, Mismatches: 25, Indels: 36
0.88 0.05 0.07
Matches are distributed among these distances:
261 174 0.37
262 2 0.00
263 1 0.00
265 216 0.46
266 7 0.02
267 4 0.01
268 1 0.00
269 2 0.00
270 4 0.01
271 5 0.01
272 17 0.04
273 16 0.03
274 2 0.00
275 13 0.03
276 2 0.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (268 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
ACCATAGTAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTA
TAACATCTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATG
GTTGTGAGAAATGTTTACAAGAACTGTAATATGGAATATATGTACAAAACCATGGTATGAAAGAA
CCATGAAA
Found at i:35591783 original size:261 final size:261
Alignment explanation
Indices: 35591054--35591841 Score: 1102
Period size: 261 Copynumber: 3.0 Consensus size: 261
35591044 AAGACCATAG
35591054 TAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATC
1 TAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATC
35591119 TGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATGGTTGTGA
66 TGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATGGTTGTGA
* * * * * * * **
35591184 GAAATGTTTACAAGAACT-G-AATAT-G--A-A-ATGTATAAGACCATGGT-TGAAAGATACCAT
131 GAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAAGCGTTGTATGAAATA-ATTAT
** * * * * * ** ** *
35591241 GGCAACCT-GAT--ATGAGAT--GTGTAAG-ACCATGG-TTGAAAGATACCATGGCAACGTGACA
195 -G-AAAATGGATAAACGAAATAAGTATAAGTA-CATGGAAT-ATA-AT-TTATGTTAA-GT---T
*
35591299 TGAAAAGAATAAGACCATA
250 TG---A-TATAAG--C-TA
35591318 GTAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACAT
1 -TAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACAT
35591383 CTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATGGTTGTG
65 CTGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATGGTTGTG
35591448 AGAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAAGCGTTGTATGAAATAATTAT
130 AGAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAAGCGTTGTATGAAATAATTAT
35591513 GAAAATGGATAAACGAAATAAGTATAAGTACATGGAATATAATTTATGTTAAGTTTGATATAAGC
195 GAAAATGGATAAACGAAATAAGTATAAGTACATGGAATATAATTTATGTTAAGTTTGATATAAGC
35591578 TA
260 TA
35591580 TAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATC
1 TAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATC
35591645 TGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATGGTTGTGA
66 TGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATGGTTGTGA
35591710 GAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAAGCGTTGTATGAAATAATTATG
131 GAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAAGCGTTGTATGAAATAATTATG
35591775 AAAATGGATAAACGAAATAAGTATAAGTACATGGAATATAATTTATGTTAAGTTTGATATAAGCT
196 AAAATGGATAAACGAAATAAGTATAAGTACATGGAATATAATTTATGTTAAGTTTGATATAAGCT
35591840 A
261 A
35591841 T
1 T
35591842 TACCAGAATA
Statistics
Matches: 486, Mismatches: 22, Indels: 34
0.90 0.04 0.06
Matches are distributed among these distances:
261 262 0.54
262 2 0.00
263 1 0.00
265 153 0.31
266 2 0.00
267 4 0.01
268 1 0.00
269 2 0.00
270 4 0.01
271 5 0.01
272 17 0.03
273 16 0.03
274 2 0.00
275 13 0.03
276 2 0.00
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (261 bp):
TAGAAAGACACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATC
TGTTGAACAATTGATATTCAGGTAAAATGTATCAGATGACGAATGGCTATATGAAATGGTTGTGA
GAAATGTTTACAAGAACTGGTCATATGGAAATATATGTACAAAAGCGTTGTATGAAATAATTATG
AAAATGGATAAACGAAATAAGTATAAGTACATGGAATATAATTTATGTTAAGTTTGATATAAGCT
A
Found at i:35591903 original size:23 final size:25
Alignment explanation
Indices: 35591858--35591904 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
35591848 AATAAATATA
*
35591858 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
35591883 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
35591905 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:35594942 original size:29 final size:28
Alignment explanation
Indices: 35594887--35594942 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
35594877 TATAGTACAA
35594887 ATATAAATATATAACTAATTTGTTACCT
1 ATATAAATATATAACTAATTTGTTACCT
*
35594915 ATATAAATATATTAATTAATTTGTTACC
1 ATATAAATATA-TAACTAATTTGTTACC
35594943 CATCTATGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (28 bp):
ATATAAATATATAACTAATTTGTTACCT
Found at i:35597503 original size:13 final size:14
Alignment explanation
Indices: 35597485--35597513 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35597475 GAAAAAAATG
35597485 AAAATATTTTT-TT
1 AAAATATTTTTATT
35597498 AAAATATTTTTATT
1 AAAATATTTTTATT
35597512 AA
1 AA
35597514 TTTATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAAATATTTTTATT
Found at i:35599553 original size:30 final size:30
Alignment explanation
Indices: 35599519--35599578 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
35599509 ACTTAACAAG
*
35599519 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
35599549 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
35599579 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:35600670 original size:9 final size:9
Alignment explanation
Indices: 35600652--35600694 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
35600642 ATTAATTTTT
35600652 AAAA-ATTA
1 AAAATATTA
35600660 AAAATATTA
1 AAAATATTA
35600669 AAAATATT-
1 AAAATATTA
*
35600677 AAAATTTATA
1 AAAATAT-TA
35600687 AAAATATT
1 AAAATATT
35600695 TTTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 10 0.33
9 14 0.47
10 6 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATATTA
Found at i:35602975 original size:14 final size:15
Alignment explanation
Indices: 35602956--35603011 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
35602946 AATCTGCAAT
35602956 GATATG-CAATCTTA
1 GATATGACAATCTTA
35602970 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
35602987 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
35603005 GATATGA
1 GATATGA
35603012 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:35602982 original size:17 final size:17
Alignment explanation
Indices: 35602962--35603025 Score: 92
Period size: 17 Copynumber: 3.6 Consensus size: 17
35602952 CAATGATATG
35602962 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
35602979 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
35602997 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
35603014 TGCAATCTTAGA
1 --CAATCTTAGA
35603026 AGATATGATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.38
18 16 0.38
19 10 0.24
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:35603000 original size:35 final size:37
Alignment explanation
Indices: 35602954--35603032 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
35602944 ATAATCTGCA
35602954 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
35602990 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
35603026 A-GATATG
1 ATGATATG
35603033 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:35603032 original size:17 final size:19
Alignment explanation
Indices: 35602954--35603025 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
35602944 ATAATCTGCA
35602954 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
35602973 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
35602990 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
35603008 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
35603026 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:35603051 original size:22 final size:22
Alignment explanation
Indices: 35602954--35603048 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 22
35602944 ATAATCTGCA
35602954 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
35602973 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
35602990 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
35603008 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
35603030 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
35603049 GATTTAATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 15 0.22
22 8 0.12
23 12 0.18
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:35605619 original size:37 final size:37
Alignment explanation
Indices: 35605575--35605648 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
35605565 TAACTATGAT
35605575 TAATAAGCTTAATTCACTTTTAATTAATAATAGTGGA
1 TAATAAGCTTAATTCACTTTTAATTAATAATAGTGGA
35605612 TAATAAGCTTAATTCACTTTTAATTAATAATAGTGGA
1 TAATAAGCTTAATTCACTTTTAATTAATAATAGTGGA
35605649 ATCTCTCATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (37 bp):
TAATAAGCTTAATTCACTTTTAATTAATAATAGTGGA
Found at i:35607567 original size:32 final size:33
Alignment explanation
Indices: 35607526--35607604 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 33
35607516 CAATTTTTTC
* * *
35607526 ATTTT-TTTTCTTTAGATTAGGTTTCTTTGC-T-
1 ATTTTCTTTTCTTTAGAATAGATTT-TTTACGTG
35607557 ATTTTCTTTTCTTTAGAATAGATTTTTTACGTGG
1 ATTTTCTTTTCTTTAGAATAGATTTTTTACGT-G
35607591 ATTTTCTTTTCTTT
1 ATTTTCTTTTCTTT
35607605 TGTTGAGAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 9 0.22
32 18 0.44
34 14 0.34
ACGTcount: A:0.15, C:0.10, G:0.11, T:0.63
Consensus pattern (33 bp):
ATTTTCTTTTCTTTAGAATAGATTTTTTACGTG
Found at i:35616470 original size:11 final size:11
Alignment explanation
Indices: 35616451--35616486 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
35616441 AAGTATATAT
*
35616451 ATTTGAAAAAA
1 ATTTCAAAAAA
35616462 ATTTCAAAAAAA
1 ATTTC-AAAAAA
35616474 ATTTCAAAAAA
1 ATTTCAAAAAA
35616485 AT
1 AT
35616487 AATATACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (11 bp):
ATTTCAAAAAA
Found at i:35616473 original size:12 final size:12
Alignment explanation
Indices: 35616456--35616485 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
35616446 TATATATTTG
35616456 AAAAAAATTTCA
1 AAAAAAATTTCA
35616468 AAAAAAATTTCA
1 AAAAAAATTTCA
35616480 AAAAAA
1 AAAAAA
35616486 TAATATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAAAAATTTCA
Found at i:35620603 original size:28 final size:28
Alignment explanation
Indices: 35620563--35620619 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
35620553 GGTGTAAAAG
35620563 TTAAAATAGTTTTACATATTTTTATAAT
1 TTAAAATAGTTTTACATATTTTTATAAT
*
35620591 TTAAAATAGTTTTACATATTTTTCTAAT
1 TTAAAATAGTTTTACATATTTTTATAAT
35620619 T
1 T
35620620 ATTTATATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (28 bp):
TTAAAATAGTTTTACATATTTTTATAAT
Found at i:35621991 original size:4 final size:4
Alignment explanation
Indices: 35621982--35622008 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
35621972 AAATTTATGT
35621982 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
35622009 TTATAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:35623457 original size:26 final size:26
Alignment explanation
Indices: 35623421--35623530 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
35623411 TGATACAAAT
35623421 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
35623447 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
35623473 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
35623499 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
35623525 TGATAA
1 TGATAA
35623531 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:35627521 original size:20 final size:19
Alignment explanation
Indices: 35627493--35627531 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
35627483 TCTAAAATTG
35627493 ACCTCCGATCTGGATATCA
1 ACCTCCGATCTGGATATCA
*
35627512 NACCTTCGATCTGGATATCA
1 -ACCTCCGATCTGGATATCA
35627532 TCAGTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.28
Consensus pattern (19 bp):
ACCTCCGATCTGGATATCA
Found at i:35630717 original size:27 final size:27
Alignment explanation
Indices: 35630676--35630788 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
35630666 GAGGAAGCGT
*
35630676 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
35630703 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
35630730 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
35630758 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
35630784 TCTGG
1 TCTGG
35630789 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:35630781 original size:54 final size:54
Alignment explanation
Indices: 35630674--35630788 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
35630664 TGGAGGAAGC
*
35630674 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
35630728 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
35630782 GTTCTGG
1 GTTCTGG
35630789 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:35639340 original size:130 final size:130
Alignment explanation
Indices: 35639106--35639831 Score: 891
Period size: 130 Copynumber: 5.6 Consensus size: 130
35639096 AGTTACGCTT
* * * * *
35639106 GTAAATCAACTAACTTAGAAGAAATTGTTCATGATCACAAATCAATGAACTTAGGTTGTGATCGT
1 GTAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAAGCTGTGATCGT
* * * *
35639171 AAATCAACTAGCCTTAATAATATCAATCATGATCATAAATAAACGAGTTGTTTGGAGTTGCGGTC
66 AAATCAACGAGCCTTAATAATATCAATCATGATCATAAATCAACGAGTTATTTGGAGTTGCGATC
* *
35639236 ATAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATAAATGAACTTAAGCTGTGATCGT
1 GTAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAAGCTGTGATCGT
* ** * * * * *
35639301 AAATTAGTGAGCATTAATAATATCAATCATGATCATAAATCAACAAGCTATTTGGAGTTACGATT
66 AAATCAACGAGCCTTAATAATATCAATCATGATCATAAATCAACGAGTTATTTGGAGTTGCGATC
* * * * * *
35639366 GT-AATTCAGCCAACTCAGAAGAAATGGTTCATGATCGTAAATTAATGAACTTAGGCTGTGATCG
1 GTAAATT-AGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAAGCTGTGATCG
* * * * *
35639430 TAAATCAACGAGCTTTAATAATATCAATCGTTATCATAAATCAA-GAGTTGTTTGGAGTTGCGGT
65 TAAATCAACGAGCCTTAATAATATCAATCATGATCATAAATCAACGAGTTATTTGGAGTTGCGAT
35639494 C
130 C
* * * *
35639495 ATAAATTAGCTAACTTAGAAGAAATTTTTCATGATCATAAATCAATGAACTTAGGTTGTGATCGT
1 GTAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAAGCTGTGATCGT
* * * *
35639560 AAATCAACGAGTCTTAGTAATATCAATCATGATCGTAAATCAACGAGCTATTTGGAGTTGCGATC
66 AAATCAACGAGCCTTAATAATATCAATCATGATCATAAATCAACGAGTTATTTGGAGTTGCGATC
* * * ** * * *
35639625 GTAAATCAACTAACTTGGAAGAAATAATTCATGATCGTAAATCAATGAACTTAAGATGTGATCAT
1 GTAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAAGCTGTGATCGT
* * ** *
35639690 AAATCAACGAGCCTTAATAATATCAATCGTGACCATAAATCAACGAGTTATTTGGAGTTTTGATT
66 AAATCAACGAGCCTTAATAATATCAATCATGATCATAAATCAACGAGTTATTTGGAGTTGCGATC
* ** * * *
35639755 GTAAATAAATTAACTCAGAAGAAATGGTTCATGATCATAAATCAATGAACTT-AGACTGTGATTG
1 GTAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAAG-CTGTGATCG
*
35639819 TAAATCAGCGAGC
65 TAAATCAACGAGC
35639832 TGTTTAAAGT
Statistics
Matches: 507, Mismatches: 85, Indels: 8
0.85 0.14 0.01
Matches are distributed among these distances:
129 110 0.22
130 397 0.78
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (130 bp):
GTAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAAGCTGTGATCGT
AAATCAACGAGCCTTAATAATATCAATCATGATCATAAATCAACGAGTTATTTGGAGTTGCGATC
Found at i:35639557 original size:259 final size:260
Alignment explanation
Indices: 35639096--35639830 Score: 1015
Period size: 259 Copynumber: 2.8 Consensus size: 260
35639086 AGTGCACCTA
* * **
35639096 AGTTACGCTTGTAAATCAACTAACTTAGAAGAAATTGTTCATGATCACAAATCAATGAACTTAGG
1 AGTTACGATTGTAAATCAACTAACTTAGAAGAAATAGTTCATGATCGTAAATCAATGAACTTAGG
* * * *
35639161 TTGTGATCGTAAATCAACTAGCCTTAATAATATCAATCATGATCATAAATAAACGAGTTGTTTGG
66 ATGTGATCGTAAATCAACGAGCCTTAATAATATCAATCGTGATCATAAATCAACGAGTTGTTTGG
* *
35639226 AGTTGCGGTCATAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATAAATGAACTTAAG
131 AGTTGCGGTCATAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGG
* **
35639291 CTGTGATCGTAAATTAGTGAG-CATTAATAATATCAATCATGATCATAAATCAACAAGCTATTTG
196 CTGTGATCGTAAATCAACGAGTC-TTAATAATATCAATCATGATCATAAATCAACAAGCTATTTG
35639355 G
260 G
* * * * * *
35639356 AGTTACGATTGTAATTCAGCCAACTCAGAAGAAATGGTTCATGATCGTAAATTAATGAACTTAGG
1 AGTTACGATTGTAAATCAACTAACTTAGAAGAAATAGTTCATGATCGTAAATCAATGAACTTAGG
* * *
35639421 CTGTGATCGTAAATCAACGAGCTTTAATAATATCAATCGTTATCATAAATCAA-GAGTTGTTTGG
66 ATGTGATCGTAAATCAACGAGCCTTAATAATATCAATCGTGATCATAAATCAACGAGTTGTTTGG
*
35639485 AGTTGCGGTCATAAATTAGCTAACTTAGAAGAAATTTTTCATGATCATAAATCAATGAACTTAGG
131 AGTTGCGGTCATAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGG
* * * *
35639550 TTGTGATCGTAAATCAACGAGTCTTAGTAATATCAATCATGATCGTAAATCAACGAGCTATTTGG
196 CTGTGATCGTAAATCAACGAGTCTTAATAATATCAATCATGATCATAAATCAACAAGCTATTTGG
* * * * *
35639615 AGTTGCGATCGTAAATCAACTAACTTGGAAGAAATAATTCATGATCGTAAATCAATGAACTTAAG
1 AGTTACGATTGTAAATCAACTAACTTAGAAGAAATAGTTCATGATCGTAAATCAATGAACTTAGG
* * *
35639680 ATGTGATCATAAATCAACGAGCCTTAATAATATCAATCGTGACCATAAATCAACGAGTTATTTGG
66 ATGTGATCGTAAATCAACGAGCCTTAATAATATCAATCGTGATCATAAATCAACGAGTTGTTTGG
** * ** * ** * * *
35639745 AGTTTTGATTGTAAATAAATTAACTCAGAAGAAATGGTTCATGATCATAAATCAATGAACTTAGA
131 AGTTGCGGTCATAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGG
* *
35639810 CTGTGATTGTAAATCAGCGAG
196 CTGTGATCGTAAATCAACGAG
35639831 CTGTTTAAAG
Statistics
Matches: 416, Mismatches: 57, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
259 231 0.56
260 185 0.44
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (260 bp):
AGTTACGATTGTAAATCAACTAACTTAGAAGAAATAGTTCATGATCGTAAATCAATGAACTTAGG
ATGTGATCGTAAATCAACGAGCCTTAATAATATCAATCGTGATCATAAATCAACGAGTTGTTTGG
AGTTGCGGTCATAAATTAGCTAACTTAGAAGAAATTGTTCATGATCATAAATCAATGAACTTAGG
CTGTGATCGTAAATCAACGAGTCTTAATAATATCAATCATGATCATAAATCAACAAGCTATTTGG
Found at i:35639852 original size:224 final size:224
Alignment explanation
Indices: 35639589--35640051 Score: 561
Period size: 224 Copynumber: 2.1 Consensus size: 224
35639579 ATATCAATCA
** * **
35639589 TGATCGTAAATCAACGAGCTATTTGGAGTTGCGATCGTAAATCAACTAACTTGGAAGAAATAATT
1 TGATCGTAAATCAACGAGCTATTTAAAGTTGCGATCGTAAACCAACTAACTCAGAAGAAATAATT
* * *
35639654 CATGATCGTAAATCAATGAACTTAAGATGTGATCATAAATCAACGAGCCTTAATAATATCAATCG
66 CATGATCGTAAATCAATGAACTTAAGATGTAACCATAAATCAACAAGCCTTAATAATATCAATCG
* * * *** * *
35639719 TGACCATAAATCAA-CGAGTTATTTGGAGTTTTGATTGTAAATAAATTAACTCAGAAGAAATGGT
131 TGACCATAAAT-AAGCGAGCTATTTGGAGTTGTAATCACAAATAAACTAACTCAAAAGAAATGGT
35639783 TCATGATCATAAATCAATGAACTTAGACTG
195 TCATGATCATAAATCAATGAACTTAGACTG
* * * * *
35639813 TGATTGTAAATCAGCGAGCTGTTTAAAGTTGCGATCGTAAACCAGCTAACTCAGAAGAAATTATT
1 TGATCGTAAATCAACGAGCTATTTAAAGTTGCGATCGTAAACCAACTAACTCAGAAGAAATAATT
* * * * * * *
35639878 CGTGATTGTAAATCAATGAACTTAGGCTGTAACCGTAAATTAACAAGCCTTAATAATATCAGTCG
66 CATGATCGTAAATCAATGAACTTAAGATGTAACCATAAATCAACAAGCCTTAATAATATCAATCG
* * * * * * *
35639943 TGATCGTAAATAAGCGAGCTGTTTGGAGTTGTAATCACAAATCAACTAACTTAAAATAAATTGTT
131 TGACCATAAATAAGCGAGCTATTTGGAGTTGTAATCACAAATAAACTAACTCAAAAGAAATGGTT
*
35640008 CATGATCATAAATCAATGAACTTA-AGTGG
196 CATGATCATAAATCAATGAACTTAGACT-G
*
35640037 TGATCATAAATCAAC
1 TGATCGTAAATCAAC
35640052 AAACCTTAAT
Statistics
Matches: 198, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
223 4 0.02
224 194 0.98
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (224 bp):
TGATCGTAAATCAACGAGCTATTTAAAGTTGCGATCGTAAACCAACTAACTCAGAAGAAATAATT
CATGATCGTAAATCAATGAACTTAAGATGTAACCATAAATCAACAAGCCTTAATAATATCAATCG
TGACCATAAATAAGCGAGCTATTTGGAGTTGTAATCACAAATAAACTAACTCAAAAGAAATGGTT
CATGATCATAAATCAATGAACTTAGACTG
Found at i:35641337 original size:23 final size:26
Alignment explanation
Indices: 35641288--35641339 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
35641278 GTGAAAACCA
*
35641288 CCAATAATAATATGCAGAAAATTCTG
1 CCAATAATAATATGCAGAAAATGCTG
*
35641314 CCAATAA-AA-ATGCAGACAA-GCTG
1 CCAATAATAATATGCAGAAAATGCTG
35641337 CCA
1 CCA
35641340 TTCCCCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 2 0.08
26 7 0.29
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.19
Consensus pattern (26 bp):
CCAATAATAATATGCAGAAAATGCTG
Found at i:35655839 original size:30 final size:29
Alignment explanation
Indices: 35655748--35655844 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
35655738 TGGTGTCCAC
* * *
35655748 TACCTGATAA-TATAACATC-GACACAAAC
1 TACCTGATAACTGTAACACCAG-CACAAAG
* * *
35655776 TGCCTGATAACTGTAACACCGGTACAAAG
1 TACCTGATAACTGTAACACCAGCACAAAG
* *
35655805 TACCTGATAACTGTAATCACTAGCACATAG
1 TACCTGATAACTGTAA-CACCAGCACAAAG
35655835 TACCTGATAA
1 TACCTGATAA
35655845 ACCCTAATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 9 0.16
29 27 0.48
30 20 0.36
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (29 bp):
TACCTGATAACTGTAACACCAGCACAAAG
Found at i:35657365 original size:47 final size:47
Alignment explanation
Indices: 35657311--35657437 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
35657301 ATCGATAAGC
* * *
35657311 ACCTATACAATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGT
1 ACCTATACAATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
* * *
35657358 ACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCAAAAT
1 ACCTATACAATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
* *
35657405 ACCTACATCAA-GGCCCATAGCCAAATCAAGGTA
1 ACCTATA-CAATGGCCCGTAGCCAAATCAAGGTA
35657438 TTATTCACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
47 68 0.97
48 2 0.03
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (47 bp):
ACCTATACAATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAAT
Found at i:35666954 original size:15 final size:15
Alignment explanation
Indices: 35666919--35666957 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
35666909 CTTGCTATTA
*
35666919 AAAAAGGGGATTTAG
1 AAAAAGGTGATTTAG
**
35666934 GGAAAGGTGATTTAG
1 AAAAAGGTGATTTAG
35666949 AAAAAGGTG
1 AAAAAGGTG
35666958 GCATTTGTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.21
Consensus pattern (15 bp):
AAAAAGGTGATTTAG
Found at i:35674988 original size:21 final size:20
Alignment explanation
Indices: 35674950--35674988 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
35674940 CAACGTATTC
* *
35674950 TTTTAGTTAATATTTTTAAT
1 TTTTAGTTAAAATGTTTAAT
35674970 TTTTAGTTTAAAATGTTTA
1 TTTTAG-TTAAAATGTTTA
35674989 CCATATTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTAGTTAAAATGTTTAAT
Found at i:35676199 original size:60 final size:60
Alignment explanation
Indices: 35676089--35676201 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
35676079 TTGGTATAAT
* * * * *
35676089 AACAAATTTAGCTCTCAATATTTACACATTTTATTATTTTAGTCCCAATTTTGAAAAATC
1 AACAAATTTAACCCTCAATATTTACACATTTTATCAATCTAGTCCCAATTTTGAAAAATC
*
35676149 AACAAATTTAACCCTCAATATTTACATATTTTATCAATCTAG-CCCTAATTTTG
1 AACAAATTTAACCCTCAATATTTACACATTTTATCAATCTAGTCCC-AATTTTG
35676202 GAAATTAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 3 0.07
60 43 0.93
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (60 bp):
AACAAATTTAACCCTCAATATTTACACATTTTATCAATCTAGTCCCAATTTTGAAAAATC
Found at i:35681575 original size:34 final size:34
Alignment explanation
Indices: 35681537--35681615 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 34
35681527 ATAATAACAT
* *
35681537 TTAATATGCTTATAACATATCAATACGGTAGCAG
1 TTAATATGCTTATAACAAATCAATACGGTAGCAA
*
35681571 TTAATATGCTCATAACAAATCAATACGGTAGCAA
1 TTAATATGCTTATAACAAATCAATACGGTAGCAA
*
35681605 TTATTATGCTT
1 TTAATATGCTT
35681616 TTAATAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (34 bp):
TTAATATGCTTATAACAAATCAATACGGTAGCAA
Found at i:35682519 original size:15 final size:17
Alignment explanation
Indices: 35682489--35682526 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 17
35682479 TGGTGTAAAG
35682489 AAAAGAGAAATAAAATA
1 AAAAGAGAAATAAAATA
35682506 AAAAGAG-AAT-AAATA
1 AAAAGAGAAATAAAATA
35682521 AAAAGA
1 AAAAGA
35682527 TGGAGAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.52
16 3 0.14
17 7 0.33
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (17 bp):
AAAAGAGAAATAAAATA
Found at i:35684960 original size:29 final size:27
Alignment explanation
Indices: 35684919--35684972 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
35684909 TATAAATATA
**
35684919 TTTTTTTTCCACTTTGGTACCTAAACT
1 TTTTTTTTCCACTTCAGTACCTAAACT
35684946 TTTTTTTGTCTCACTTCAGTACCTAAA
1 TTTTTTT-TC-CACTTCAGTACCTAAA
35684973 ATACACTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 2 0.09
29 14 0.61
ACGTcount: A:0.20, C:0.22, G:0.07, T:0.50
Consensus pattern (27 bp):
TTTTTTTTCCACTTCAGTACCTAAACT
Found at i:35685645 original size:23 final size:23
Alignment explanation
Indices: 35685618--35685689 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
35685608 ATTATTTTAA
35685618 ATTTTTAAAATTTATAATTATAT
1 ATTTTTAAAATTTATAATTATAT
* **
35685641 A-TTTTAGAATTTTATAAAAATAT
1 ATTTTTA-AAATTTATAATTATAT
35685664 -TTTTTAAAATTATATATATTATAT
1 ATTTTTAAAATT-TATA-ATTATAT
35685688 AT
1 AT
35685690 GAATTATTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
22 9 0.24
23 23 0.61
24 5 0.13
25 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
ATTTTTAAAATTTATAATTATAT
Found at i:35687907 original size:15 final size:15
Alignment explanation
Indices: 35687884--35687914 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35687874 TCTTTGATAC
*
35687884 AAAAGTAAAAAATAA
1 AAAAATAAAAAATAA
35687899 AAAAATAAAAAATAA
1 AAAAATAAAAAATAA
35687914 A
1 A
35687915 TTCATCCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAATAAAAAATAA
Found at i:35694495 original size:34 final size:34
Alignment explanation
Indices: 35694348--35694494 Score: 186
Period size: 34 Copynumber: 4.3 Consensus size: 34
35694338 CTAACAGTTC
35694348 ACTATGTCATACTATATAACATGAGGGTTAGCAT
1 ACTATGTCATACTATATAACATGAGGGTTAGCAT
* * *
35694382 ACTATGTCTTACTATATAACGTGAGGGTTTGCAT
1 ACTATGTCATACTATATAACATGAGGGTTAGCAT
* ** *
35694416 ACTATGTCTTACTATATAATGTGAGGGTTAACAT
1 ACTATGTCATACTATATAACATGAGGGTTAGCAT
* * * * *
35694450 ATTATGTCATATTATATAACATAAAGGTTCGCAT
1 ACTATGTCATACTATATAACATGAGGGTTAGCAT
35694484 ACTATGTCATA
1 ACTATGTCATA
35694495 TGGGGTTCGC
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 97 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (34 bp):
ACTATGTCATACTATATAACATGAGGGTTAGCAT
Found at i:35694688 original size:34 final size:34
Alignment explanation
Indices: 35694650--35694788 Score: 188
Period size: 34 Copynumber: 4.1 Consensus size: 34
35694640 CTAACAGTTC
* *
35694650 ACTATGTCATACTATACAAAATGAGGGTTCGCAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
* * * *
35694684 ACTATGTCTTCCTATATAACGTGAGGGTTCACAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
* *
35694718 ACTATGTCATACTATATAACGTGAGGGTTTGCAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
* *
35694752 ACCATGTCATACTATATAACATGAGTGTTCGCAT
1 ACTATGTCATACTATATAACATGAGGGTTCGCAT
35694786 ACT
1 ACT
35694789 GAGTCCATAA
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 90 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (34 bp):
ACTATGTCATACTATATAACATGAGGGTTCGCAT
Found at i:35694784 original size:302 final size:300
Alignment explanation
Indices: 35694240--35694788 Score: 839
Period size: 302 Copynumber: 1.8 Consensus size: 300
35694230 GGGTTCACAT
* * *
35694240 ATATATTCACTAAGGGATCGCCTACATGTACTAAAGGTTCGCTTAATAGTTCACATAAAAGTTTG
1 ATATATTCACTAAGGGATCGCATACATGTACTAAAGGTTCGCTTAACAGTTCACATAAAAGTTCG
* * ** * *
35694305 CATAATAATTTATCTAGGGTTCGTAAACATGTACTAACAGTTCACTATGTCATACTATATAACAT
66 CATAATAATTCACCTAGGGTTCACAAACATGTACTAACAGTTCACTATGTCATACTATACAAAAT
** *
35694370 GAGGGTTAGCATACTATGTCTTACTATATAACGTGAGGGTTTGCATACTATGTCTTACTATATAA
131 GAGGGTTAGCATACTATGTCTTACTATATAACGTGAGGGTTCACATACTATGTCATACTATATAA
* ** *
35694435 TGTGAGGGTTAACATATTATGTCATATTATATAACATAAAGGTTCGCATACTATGTCATATGGGG
196 CGTGAGGGTTAACATACCATGTCATACTATATAACATAAAGGTTCGCATACTATGTCATATGGGG
35694500 TTCGCATACTGAATCCATAAGGGTTTGCATGTGGGTTCGC
261 TTCGCATACTGAATCCATAAGGGTTTGCATGTGGGTTCGC
* * *
35694540 ATATATTCTCTAAAGTGGTTCGCATACATGTACTAAGGGTTCGCTTAACAGTTCACATAAAAGTT
1 ATATATTCACT-AAG-GGATCGCATACATGTACTAAAGGTTCGCTTAACAGTTCACATAAAAGTT
*
35694605 CGCATAATAATTCACCTAGGGTTCACATACATGTACTAACAGTTCACTATGTCATACTATACAAA
64 CGCATAATAATTCACCTAGGGTTCACAAACATGTACTAACAGTTCACTATGTCATACTATACAAA
* *
35694670 ATGAGGGTTCGCATACTATGTCTTCCTATATAACGTGAGGGTTCACATACTATGTCATACTATAT
129 ATGAGGGTTAGCATACTATGTCTTACTATATAACGTGAGGGTTCACATACTATGTCATACTATAT
** *
35694735 AACGTGAGGGTTTGCATACCATGTCATACTATATAACAT-GAGTGTTCGCATACT
194 AACGTGAGGGTTAACATACCATGTCATACTATATAACATAAAG-GTTCGCATACT
35694789 GAGTCCATAA
Statistics
Matches: 221, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
300 10 0.05
301 5 0.02
302 206 0.93
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (300 bp):
ATATATTCACTAAGGGATCGCATACATGTACTAAAGGTTCGCTTAACAGTTCACATAAAAGTTCG
CATAATAATTCACCTAGGGTTCACAAACATGTACTAACAGTTCACTATGTCATACTATACAAAAT
GAGGGTTAGCATACTATGTCTTACTATATAACGTGAGGGTTCACATACTATGTCATACTATATAA
CGTGAGGGTTAACATACCATGTCATACTATATAACATAAAGGTTCGCATACTATGTCATATGGGG
TTCGCATACTGAATCCATAAGGGTTTGCATGTGGGTTCGC
Found at i:35695928 original size:41 final size:41
Alignment explanation
Indices: 35695881--35696163 Score: 325
Period size: 41 Copynumber: 6.9 Consensus size: 41
35695871 CGTTTGTCCG
* * * *
35695881 AAACGCCACTAAAAGCTAAACTATAGCGGCGTTTTTGGCAA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCAA
*
35695922 AAACGCCACTAAAAACTGGTCAATAGCGGCGTTTTTGGCAA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCAA
* *
35695963 AAACGCCACTAAAAACTGGTCAATAGCGGCGTTTTTCGC-A
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCAA
* *** **
35696003 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTAATCTC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCAA
* ** **
35696044 AAACGCCACTAAAAACTGATCAATTGCGGCGTTTTTTTCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCAA
* * * ** *
35696085 AAACGCCACAAAAAACTGATCAATTGTGGCGTTTTTATCCA
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCAA
* *
35696126 AAATGCCACTAAAAACTGATTAATAGCGGCGTTTTTGG
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGG
35696164 TCCAAACGCC
Statistics
Matches: 213, Mismatches: 28, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
40 35 0.16
41 178 0.84
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCAA
Found at i:35696099 original size:122 final size:123
Alignment explanation
Indices: 35695881--35696160 Score: 348
Period size: 122 Copynumber: 2.3 Consensus size: 123
35695871 CGTTTGTCCG
* * * ** *
35695881 AAACGCCACTAAAAGCTAAACTATAGCGGCGTTTTTGGCAAAAACGCCACTAAAAACTGGTCAAT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTAAGCAAAAACGCCACTAAAAACTGATCAAT
* *
35695946 AGCGGCGTTTTTGGCAAAAACGCCACTAAAAACTGGTCAATAGCGGCG-TTTT-TCGCA
66 AGCGGCGTTTTTGGCAAAAACGCCACAAAAAACTGATCAATAGCGGCGTTTTTATC-CA
* **
35696003 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTAATCTCAAACGCCACTAAAAACTGATCAAT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTAAGCAAAAACGCCACTAAAAACTGATCAAT
* ** ** * *
35696068 TGCGGCGTTTTTTTCCCAAACGCCACAAAAAACTGATCAATTGTGGCGTTTTTATCCA
66 AGCGGCGTTTTTGGCAAAAACGCCACAAAAAACTGATCAATAGCGGCGTTTTTATCCA
* * *
35696126 AAATGCCACTAAAAACTGATTAATAGCGGCGTTTT
1 AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTT
35696161 TGGTCCAAAC
Statistics
Matches: 135, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
122 95 0.70
123 38 0.28
124 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (123 bp):
AAACGCCACTAAAAGCTGATCAATAGCGGCGTTTTAAGCAAAAACGCCACTAAAAACTGATCAAT
AGCGGCGTTTTTGGCAAAAACGCCACAAAAAACTGATCAATAGCGGCGTTTTTATCCA
Found at i:35696522 original size:28 final size:28
Alignment explanation
Indices: 35696462--35696528 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
35696452 TGGCTTTCTG
* *
35696462 TAAACCCTTAAATCTTAAACATTAAACCC
1 TAAACCC-TAAATCTTAAACATTAAAACA
*
35696491 TAAACCCTAAATTTTAAATCA-TAAAACA
1 TAAACCCTAAATCTTAAA-CATTAAAACA
*
35696519 TAAACACTAA
1 TAAACCCTAA
35696529 TCCATAAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAACATTAAAACA
Found at i:35696779 original size:43 final size:45
Alignment explanation
Indices: 35696713--35696802 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 45
35696703 TATGGTTTAG
* * * *
35696713 GGTTCAATGGTAGAATTAATATATTTTAAGTTTATGGTTTAGGCC
1 GGTTCAATGGTAGAAGTAATATATATTAAGTTAATGGTATAGGCC
* *
35696758 GGTTCAATGGTA-TAGT-ATATATATTAAGTTAATGGTATGGGCC
1 GGTTCAATGGTAGAAGTAATATATATTAAGTTAATGGTATAGGCC
35696801 GG
1 GG
35696803 GTTTGTTATC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 25 0.64
44 2 0.05
45 12 0.31
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.39
Consensus pattern (45 bp):
GGTTCAATGGTAGAAGTAATATATATTAAGTTAATGGTATAGGCC
Found at i:35698485 original size:14 final size:15
Alignment explanation
Indices: 35698466--35698495 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
35698456 TGTGTTTATA
35698466 TAAATACAT-AATTC
1 TAAATACATAAATTC
35698480 TAAATACATAAATTC
1 TAAATACATAAATTC
35698495 T
1 T
35698496 GAAGTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:35701016 original size:23 final size:23
Alignment explanation
Indices: 35700986--35701035 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
35700976 AACATTAATC
35700986 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
35701009 AAATGTATGAATTGCAGCCCTTT
1 AAATGTATGAATTGCAGCCCTTT
35701032 AAAT
1 AAAT
35701036 AAACTTGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
AAATGTATGAATTGCAGCCCTTT
Found at i:35701581 original size:241 final size:241
Alignment explanation
Indices: 35701158--35701593 Score: 845
Period size: 241 Copynumber: 1.8 Consensus size: 241
35701148 ATGAATTAAT
35701158 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCATCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCATCTCTCCAACCTT
*
35701223 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATCGAG
35701288 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
35701353 AAGAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAGAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
35701399 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCATCTCTCCAACCTT
*
35701464 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGTGTTACCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATCGAG
35701529 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
35701594 CTTACATAAN
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 192 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCATCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTACCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAGAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:35705686 original size:33 final size:33
Alignment explanation
Indices: 35705636--35705717 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
35705626 TTAGAATTAA
* *
35705636 TGTTTTTGGTTGTATTTTTTATGTTAAATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
35705669 TGTTTTTGGCTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
35705700 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
35705718 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
Found at i:35708827 original size:3 final size:3
Alignment explanation
Indices: 35708681--35708808 Score: 98
Period size: 3 Copynumber: 42.3 Consensus size: 3
35708671 CATCATTTTT
* ** * * *
35708681 TTA TTA TTT TTA -TA TTA TTA TTA CCA TTA CTA TTA GTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * **
35708728 TTT TCTA TTA TCA TTA TTA TTA TTA TTC TTG CTA TTA TTTA TTA TCG
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
35708775 TTA TTA TTA TTCA -TA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T
35708809 GTTTTACCAT
Statistics
Matches: 96, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
2 3 0.03
3 87 0.91
4 6 0.06
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:35709043 original size:6 final size:6
Alignment explanation
Indices: 35709032--35709081 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
35709022 TATAACTCTG
* * * * *
35709032 TTATTA TTATTA TTTTTA TTTTTA TTTTTA TTTTTA TTATTT TTATTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
35709080 TT
1 TT
35709082 GTTGTTGTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTA
Found at i:35709050 original size:9 final size:9
Alignment explanation
Indices: 35709032--35709081 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
35709022 TATAACTCTG
*
35709032 TTATTATTA
1 TTATTTTTA
35709041 TTATTTTTA
1 TTATTTTTA
*
35709050 TT-TTTATTT
1 TTATTT-TTA
35709059 TTATTTTTA
1 TTATTTTTA
35709068 TTATTTTTA
1 TTATTTTTA
35709077 TTATT
1 TTATT
35709082 GTTGTTGTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 3 0.08
9 30 0.83
10 3 0.08
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTTTTA
Found at i:35709056 original size:12 final size:12
Alignment explanation
Indices: 35709035--35709069 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
35709025 AACTCTGTTA
*
35709035 TTATTATTATTT
1 TTATTTTTATTT
35709047 TTATTTTTATTT
1 TTATTTTTATTT
35709059 TTATTTTTATT
1 TTATTTTTATT
35709070 ATTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTATTTTTATTT
Found at i:35710596 original size:128 final size:128
Alignment explanation
Indices: 35710366--35710626 Score: 495
Period size: 128 Copynumber: 2.0 Consensus size: 128
35710356 GGGGAACTCC
*
35710366 TTTTGGTGTGTAATAGAGTTGAGTAGGAAGTTTTCTGAAAAATCTACATTTCGTTTTCTAAAATA
1 TTTTGGTGTGTAATAGAGTTGAGTAGGAAATTTTCTGAAAAATCTACATTTCGTTTTCTAAAATA
* *
35710431 GTGCATTGCCATAACCATGCATGCATAGTTTTTCCATTCAAGTTTGATGAAACCTCTACGACA
66 GTGCATTGCCATAACCATGCATGCACAGTTTTGCCATTCAAGTTTGATGAAACCTCTACGACA
35710494 TTTTGGTGTGTAATAGAGTTGAGTAGGAAATTTTCTGAAAAATCTACATTTCGTTTTCTAAAATA
1 TTTTGGTGTGTAATAGAGTTGAGTAGGAAATTTTCTGAAAAATCTACATTTCGTTTTCTAAAATA
35710559 GTGCATTGCCATAACCATGCATGCACAGTTTTGCCATTCAAGTTTGATGAAACCTCTACGACA
66 GTGCATTGCCATAACCATGCATGCACAGTTTTGCCATTCAAGTTTGATGAAACCTCTACGACA
35710622 TTTTG
1 TTTTG
35710627 ATCTGTTTAC
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 130 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (128 bp):
TTTTGGTGTGTAATAGAGTTGAGTAGGAAATTTTCTGAAAAATCTACATTTCGTTTTCTAAAATA
GTGCATTGCCATAACCATGCATGCACAGTTTTGCCATTCAAGTTTGATGAAACCTCTACGACA
Found at i:35726406 original size:199 final size:199
Alignment explanation
Indices: 35726066--35726463 Score: 787
Period size: 199 Copynumber: 2.0 Consensus size: 199
35726056 CAATTGTTTG
35726066 CACATTGTGGCGGTGCTTGACATCTATGTTCTTCTGCCATATCTGATATCTTCTTTTTTTTTCTT
1 CACATTGTGGCGGTGCTTGACATCTATGTTCTTCTGCCATATCTGATATCTTCTTTTTTTTTCTT
35726131 TTTTTTTCAATTCTCTAAAAGGAAAAAGAAAATTACCTGACCTGAGAGTTTCAGAGAGAATTAAA
66 TTTTTTTCAATTCTCTAAAAGGAAAAAGAAAATTACCTGACCTGAGAGTTTCAGAGAGAATTAAA
35726196 CAAGAAATGAAACCCAAATCTAATAACTAATTTCTTCTTAAAGTTGAAATGACAAGGAACAAAAG
131 CAAGAAATGAAACCCAAATCTAATAACTAATTTCTTCTTAAAGTTGAAATGACAAGGAACAAAAG
35726261 AAAA
196 AAAA
*
35726265 CACATTGTGGTGGTGCTTGACATCTATGTTCTTCTGCCATATCTGATATCTTCTTTTTTTTTCTT
1 CACATTGTGGCGGTGCTTGACATCTATGTTCTTCTGCCATATCTGATATCTTCTTTTTTTTTCTT
35726330 TTTTTTTCAATTCTCTAAAAGGAAAAAGAAAATTACCTGACCTGAGAGTTTCAGAGAGAATTAAA
66 TTTTTTTCAATTCTCTAAAAGGAAAAAGAAAATTACCTGACCTGAGAGTTTCAGAGAGAATTAAA
35726395 CAAGAAATGAAACCCAAATCTAATAACTAATTTCTTCTTAAAGTTGAAATGACAAGGAACAAAAG
131 CAAGAAATGAAACCCAAATCTAATAACTAATTTCTTCTTAAAGTTGAAATGACAAGGAACAAAAG
35726460 AAAA
196 AAAA
35726464 AGTGAAGGGA
Statistics
Matches: 198, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
199 198 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (199 bp):
CACATTGTGGCGGTGCTTGACATCTATGTTCTTCTGCCATATCTGATATCTTCTTTTTTTTTCTT
TTTTTTTCAATTCTCTAAAAGGAAAAAGAAAATTACCTGACCTGAGAGTTTCAGAGAGAATTAAA
CAAGAAATGAAACCCAAATCTAATAACTAATTTCTTCTTAAAGTTGAAATGACAAGGAACAAAAG
AAAA
Found at i:35730198 original size:20 final size:20
Alignment explanation
Indices: 35730169--35730211 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
35730159 CGGGCTGGCG
35730169 ACATGACCATGTCCCAAGCC
1 ACATGACCATGTCCCAAGCC
* *
35730189 ACATGGCCATGTCCCAGGCC
1 ACATGACCATGTCCCAAGCC
35730209 ACA
1 ACA
35730212 AGGGCATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.40, G:0.19, T:0.14
Consensus pattern (20 bp):
ACATGACCATGTCCCAAGCC
Found at i:35730219 original size:20 final size:20
Alignment explanation
Indices: 35730175--35730220 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
35730165 GGCGACATGA
*
35730175 CCATGTCCCAAGCCACATGG
1 CCATGTCCCAAGCCACAAGG
*
35730195 CCATGTCCCAGGCCACAAGG
1 CCATGTCCCAAGCCACAAGG
*
35730215 GCATGT
1 CCATGT
35730221 GCCCCTATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (20 bp):
CCATGTCCCAAGCCACAAGG
Found at i:35733287 original size:16 final size:17
Alignment explanation
Indices: 35733255--35733288 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
35733245 AAGTACACTG
35733255 AAAACTATAGTTAAACT
1 AAAACTATAGTTAAACT
35733272 AAAACTATAG-TAAACT
1 AAAACTATAGTTAAACT
35733288 A
1 A
35733289 TTAGAGACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAACTATAGTTAAACT
Found at i:35740407 original size:19 final size:20
Alignment explanation
Indices: 35740371--35740422 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
35740361 AAATTACAAA
*
35740371 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
35740390 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
*
35740410 AAAAATTTAAAAT
1 AAAAATTCAAAAT
35740423 TTTATATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:35740414 original size:20 final size:20
Alignment explanation
Indices: 35740370--35740428 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 20
35740360 AAAATTACAA
*
35740370 AAAAAAATCAAAATAATTT-T
1 AAAAAATTCAAAAT-ATTTAT
*
35740390 CAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
*
35740410 -AAAAATTTAAAAT-TTTAT
1 AAAAAATTCAAAATATTTAT
35740428 A
1 A
35740429 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 5 0.15
19 16 0.47
20 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:35740456 original size:18 final size:18
Alignment explanation
Indices: 35740391--35740466 Score: 52
Period size: 18 Copynumber: 4.3 Consensus size: 18
35740381 AATAATTTTC
35740391 AAAAA-TTCAAAATATTTAT
1 AAAAATTTCAAAA-A-TTAT
*
35740410 AAAAATTT--AAAATTTT
1 AAAAATTTCAAAAATTAT
* ** *
35740426 ATATTTTTAAAAAATTAT
1 AAAAATTTCAAAAATTAT
*
35740444 AAAAATTTCAAAAA-AAT
1 AAAAATTTCAAAAATTAT
35740461 AAAAAT
1 AAAAAT
35740467 ATATAAAGAA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
16 8 0.18
17 9 0.20
18 20 0.45
19 5 0.11
20 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATTTCAAAAATTAT
Found at i:35741580 original size:28 final size:28
Alignment explanation
Indices: 35741545--35741601 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
35741535 ATAAAAGAAT
35741545 GTAAAAGGAGAAAAAATAAT-AATAAAA
1 GTAAAAGGAGAAAAAATAATAAATAAAA
* **
35741572 GTAAGAAGGAGACATGATAATAAATAAAA
1 GTAA-AAGGAGAAAAAATAATAAATAAAA
35741601 G
1 G
35741602 AGTTAAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.16
28 13 0.52
29 8 0.32
ACGTcount: A:0.63, C:0.02, G:0.19, T:0.16
Consensus pattern (28 bp):
GTAAAAGGAGAAAAAATAATAAATAAAA
Found at i:35742029 original size:3 final size:3
Alignment explanation
Indices: 35742021--35742075 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
35742011 AAAACAATAA
* * * * *
35742021 AAG AAG AAG AAA AAT AAA AAG AAG AAG AAG GAG GAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
35742069 -AG AAG AA
1 AAG AAG AA
35742076 ATGGAGATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:35742058 original size:15 final size:14
Alignment explanation
Indices: 35742040--35742075 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
35742030 AAAAATAAAA
*
35742040 AGAAGAAGAAGGAGG
1 AGAAGAAGAA-GAAG
35742055 AGAAGAAGAAGAAG
1 AGAAGAAGAAGAAG
35742069 AGAAGAA
1 AGAAGAA
35742076 ATGGAGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAGAAG
Found at i:35743141 original size:16 final size:16
Alignment explanation
Indices: 35743122--35743152 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
35743112 TTATTTAACT
35743122 TTTATATAATTTTTAA
1 TTTATATAATTTTTAA
35743138 TTTATATAATTTTTA
1 TTTATATAATTTTTA
35743153 CATGTTTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATATAATTTTTAA
Found at i:35743808 original size:21 final size:21
Alignment explanation
Indices: 35743784--35743828 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35743774 TCTCTTTTGG
*
35743784 TTTTGGGTTTTGAATTTCGAA
1 TTTTGGGTTTCGAATTTCGAA
* *
35743805 TTTTTGGTTTCGATTTTCGAA
1 TTTTGGGTTTCGAATTTCGAA
35743826 TTT
1 TTT
35743829 GATGTTCTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.07, G:0.20, T:0.58
Consensus pattern (21 bp):
TTTTGGGTTTCGAATTTCGAA
Done.