Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 149 of 310
Found at i:48752365 original size:41 final size:41
Alignment explanation
Indices: 48752288--48752365 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48752278 TTTGTATCTC
* * *
48752288 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
48752329 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
48752366 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:48756892 original size:96 final size:96
Alignment explanation
Indices: 48756728--48756918 Score: 328
Period size: 96 Copynumber: 2.0 Consensus size: 96
48756718 TACGGAGCTA
48756728 TCGAAATCGACGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGTAAA
1 TCGAAATCGACGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGTAAA
**
48756793 CCCGGTAATTCCTCGGGAAAAACATCCGGGC
66 CCCGGTAATTCCTCCAGAAAAACATCCGGGC
* * *
48756824 TCGAAATCGGCGTAGTCCCAGGTACAAGCTCTATACCAAACTCTACGTCCCGAACAGGTGGTAAA
1 TCGAAATCGACGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGTAAA
*
48756889 CCCGGTAATTCTTCCAGAAAAACATCCGGG
66 CCCGGTAATTCCTCCAGAAAAACATCCGGG
48756919 TATTCACAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 89 1.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (96 bp):
TCGAAATCGACGTAGTCCCAGGTACAAGCTCAATACCAAACTCTACCTCCCGAACAGGTGGTAAA
CCCGGTAATTCCTCCAGAAAAACATCCGGGC
Found at i:48757218 original size:102 final size:102
Alignment explanation
Indices: 48757042--48757245 Score: 336
Period size: 102 Copynumber: 2.0 Consensus size: 102
48757032 TGATATTACA
* * *
48757042 GCTGGCATCCCCTCCAAGTCCGCAGACTCAATTCGGACTACTTCGTTATTTGCGCACCTCAAATC
1 GCTGGCAACCCATCCAAGTCCGCAGACTCAACTCGGACTACTTCGTTATTTGCGCACCTCAAATC
*
48757107 AATAGTCTTGCTCTTGCAATTCACAATCGCATCATGC
66 AATAGTCTTGCTCTTGCAATTCACAACCGCATCATGC
* * *
48757144 GCTGGCAACCCATCCAAGTCTGTAGACTCAACTCGGATTACTTCGTTATTTGCGCACCTCAAATC
1 GCTGGCAACCCATCCAAGTCCGCAGACTCAACTCGGACTACTTCGTTATTTGCGCACCTCAAATC
*
48757209 AATAGTCTTGCTTTTGCAATTCACAACCGCATCATGC
66 AATAGTCTTGCTCTTGCAATTCACAACCGCATCATGC
48757246 ACGGTCAACC
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 94 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.29
Consensus pattern (102 bp):
GCTGGCAACCCATCCAAGTCCGCAGACTCAACTCGGACTACTTCGTTATTTGCGCACCTCAAATC
AATAGTCTTGCTCTTGCAATTCACAACCGCATCATGC
Found at i:48757780 original size:121 final size:121
Alignment explanation
Indices: 48757566--48757805 Score: 408
Period size: 121 Copynumber: 2.0 Consensus size: 121
48757556 GGGCACGTAT
* * * * * *
48757566 AGCATAAGCTCTAGCAGGCGCACGAGCTTCGGATCTGGTTATATCATCTCTAGATCCTCTCTGAC
1 AGCATAAGCCCTAGCAGGAGCACGAGCCTCAGATCTGGTCATAGCATCTCTAGATCCTCTCTGAC
48757631 CACCACCAGCATTGCCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACAG
66 CACCACCAGCATTGCCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACAG
*
48757687 AGCATAAGCCCTAGCAGGAGCACGAGCCTCAGATCTGGTCGTAGCATCTCTAGATCCTCTCTGAC
1 AGCATAAGCCCTAGCAGGAGCACGAGCCTCAGATCTGGTCATAGCATCTCTAGATCCTCTCTGAC
*
48757752 CACCACTAGCATTGCCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCAC
66 CACCACCAGCATTGCCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCAC
48757806 CCGGTTTCCC
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (121 bp):
AGCATAAGCCCTAGCAGGAGCACGAGCCTCAGATCTGGTCATAGCATCTCTAGATCCTCTCTGAC
CACCACCAGCATTGCCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCACAG
Found at i:48759353 original size:68 final size:68
Alignment explanation
Indices: 48759243--48759384 Score: 266
Period size: 68 Copynumber: 2.1 Consensus size: 68
48759233 ACTAGACTCA
48759243 TGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCA
1 TGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCA
48759308 AAG
66 AAG
*
48759311 TGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCA
1 TGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCA
48759376 AAG
66 AAG
*
48759379 TCTCCC
1 TGTCCC
48759385 ATGTTACAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 72 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (68 bp):
TGTCCCCACCTATGTATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCA
AAG
Found at i:48760623 original size:40 final size:40
Alignment explanation
Indices: 48760523--48760694 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
48760513 GCTCCTCGTT
* * *
48760523 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
48760563 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* *
48760602 CGAATGCCTTCGGGA-ATTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACA-TAACCCGGATTTAGTAACTCGCA
* * * * *
48760642 CAAAGGCCTTCGGGGCTTAACCCAGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCC-GGATTTAGTAACTCGCA
48760682 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48760695 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 36 0.31
40 75 0.65
41 5 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:48760707 original size:80 final size:79
Alignment explanation
Indices: 48760523--48760737 Score: 209
Period size: 80 Copynumber: 2.7 Consensus size: 79
48760513 GCTCCTCGTT
* * * *
48760523 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGAA
48760588 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * * * *
48760602 CGAATGCCTTCGGGAATTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCC-G
* *
48760667 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * * *
48760682 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGAC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGAC
48760738 TTAGCCCGGA
Statistics
Matches: 107, Mismatches: 25, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
79 37 0.35
80 62 0.58
81 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGAA
TTTAATAACTCGCA
Found at i:48760756 original size:41 final size:41
Alignment explanation
Indices: 48760679--48760756 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48760669 TTTGTATCTC
* * *
48760679 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
48760720 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
48760757 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:48768571 original size:40 final size:40
Alignment explanation
Indices: 48768471--48768642 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
48768461 GCTCCTCGTT
* * *
48768471 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
48768511 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
48768550 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTTGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
48768590 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
48768630 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48768643 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:48768679 original size:80 final size:80
Alignment explanation
Indices: 48768471--48768695 Score: 215
Period size: 80 Copynumber: 2.8 Consensus size: 80
48768461 GCTCCTCGTT
* * * * * ** * *
48768471 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTATCTTGCACAAAGCCTTCGGGACTTAACCCGGA
48768535 ATTTAATAACTCGCA
66 ATTTAATAACTCGCA
* * *
48768550 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTTGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTATCTTGCACAAA-GCCTTCGGGACTTAACCCGG
* *
48768615 AATTT-GTATCTCGCA
65 AATTTAATAACTCGCA
** * * *
48768630 CAAATGCCTTC-GGATCTTAGTCCGGGTATATTCA-CTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGT-ATCTT-GCACAAAGCCTTCGGGACTTAACCC
48768693 GGA
63 GGA
48768696 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
79 39 0.32
80 70 0.58
81 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTATCTTGCACAAAGCCTTCGGGACTTAACCCGGA
ATTTAATAACTCGCA
Found at i:48771343 original size:11 final size:11
Alignment explanation
Indices: 48771315--48771357 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
48771305 AAATGATTTT
48771315 TATTATTTAA-
1 TATTATTTAAC
48771325 TATTATTTAAC
1 TATTATTTAAC
*
48771336 TTTTATTTAAC
1 TATTATTTAAC
*
48771347 ATCTTATTTAA
1 -TATTATTTAA
48771358 AACAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 10 0.34
11 10 0.34
12 9 0.31
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTATTTAAC
Found at i:48771921 original size:21 final size:21
Alignment explanation
Indices: 48771897--48771936 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
48771887 TTGTGGGCTT
48771897 AGATATCTGCATAGAGTTTAA
1 AGATATCTGCATAGAGTTTAA
48771918 AGATATCTGCATAGAGTTT
1 AGATATCTGCATAGAGTTT
48771937 CGAAGCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
AGATATCTGCATAGAGTTTAA
Found at i:48784048 original size:13 final size:13
Alignment explanation
Indices: 48784030--48784054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48784020 TAATGGTATA
48784030 TTGAATCCATGAT
1 TTGAATCCATGAT
48784043 TTGAATCCATGA
1 TTGAATCCATGA
48784055 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:48786081 original size:161 final size:161
Alignment explanation
Indices: 48785816--48786126 Score: 529
Period size: 161 Copynumber: 1.9 Consensus size: 161
48785806 TAATCAAAAT
48785816 ACCAAATCCGTATTAAAGTGAAGCTATAAGCCGTAAATTACTAGTATACCTAGTCAATTTTGTTA
1 ACCAAATCCGTATTAAAGTGAAGCTATAAGCCGTAAATTACTAGTATACCTAGTCAATTTTGTTA
* *
48785881 TGATGAAATTGATGTACAAGATATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
66 TGATGAAATTGATGTACAAGATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGA
48785946 AAGTGTATATATGTGATAAGGCCGAATGGCA
131 AAGTGTATATATGTGATAAGGCCGAATGGCA
48785977 ACCAAATCCGTATTAAAGTGAAGCTATAAGCCGTAAATTACTAGTATACCTAGTCAATTTTGTTA
1 ACCAAATCCGTATTAAAGTGAAGCTATAAGCCGTAAATTACTAGTATACCTAGTCAATTTTGTTA
** *
48786042 TGAATGTGA-TGAATGTGA-AAG-TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
66 TG-ATGAAATTG-ATGT-ACAAGATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
48786104 GGAAAGTGTATATATGTGATAAG
128 GGAAAGTGTATATATGTGATAAG
48786127 TCCCGAAGGA
Statistics
Matches: 142, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
161 130 0.92
162 11 0.08
163 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (161 bp):
ACCAAATCCGTATTAAAGTGAAGCTATAAGCCGTAAATTACTAGTATACCTAGTCAATTTTGTTA
TGATGAAATTGATGTACAAGATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGA
AAGTGTATATATGTGATAAGGCCGAATGGCA
Found at i:48814337 original size:47 final size:47
Alignment explanation
Indices: 48814268--48814361 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
48814258 ACCTTCATAA
48814268 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
48814315 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
1 TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
48814362 GTTAAACCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.28, G:0.06, T:0.28
Consensus pattern (47 bp):
TCTATCATCAATCATCAACTTACTCAAGCATTCAACAATGGCAACAT
Found at i:48827703 original size:51 final size:51
Alignment explanation
Indices: 48827637--48828021 Score: 437
Period size: 51 Copynumber: 7.7 Consensus size: 51
48827627 TGAGGTCGCA
48827637 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
* * * * * * *
48827688 TGTGTAGTACTAAGTGCAGGCTATTACGTGTA-CC--AGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACG
*
48827737 TGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
* * * * * *
48827788 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACG
* *
48827837 TGTATAGTACTAAGTGCAGGCTACTATGCGTAACCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
**
48827888 TGTGTAGTGGTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
* * * * ** *
48827939 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACG
* *
48827988 TGTGTAGTACTAAGTGCAGGCTTCTATACGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
48828022 AGATAGCTTC
Statistics
Matches: 278, Mismatches: 46, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
48 15 0.05
49 99 0.36
50 11 0.04
51 143 0.51
52 10 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
Found at i:48827803 original size:100 final size:100
Alignment explanation
Indices: 48827630--48827964 Score: 528
Period size: 100 Copynumber: 3.3 Consensus size: 100
48827620 TCTATTGTGA
*
48827630 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
*
48827695 TACTAAGTGCAGGCTATTACGTGTACCAGACTGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
48827730 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
48827795 TACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
*
48827830 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTAACCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
** * * *
48827895 TGGTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
66 TACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTT
* * * *
48827932 GATCACGTGTGTAGTACTAAGTGCAGGCTACTA
1 GGTCGCATGTATAGTACTAAGTGCAGGCTACTA
48827965 CGTGTACCAG
Statistics
Matches: 220, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
100 183 0.83
101 2 0.01
102 30 0.14
103 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (100 bp):
GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
Found at i:48827911 original size:151 final size:150
Alignment explanation
Indices: 48827637--48828019 Score: 520
Period size: 151 Copynumber: 2.5 Consensus size: 150
48827627 TGAGGTCGCA
* * * * * *
48827637 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-TGATCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTTGGTCGCATGTGTAGTACTAA
* * * * * *
48827701 GTGCAGGCTATTACGTGT-ACCAGACTGTTGGTCGCATGTATAGTACTAAGTGCAGGCTACTATG
63 GTGCAGGCTACTATGCGTAACCAAACTGTTGATCACATGTATAGTACTAAGTGCAGGCTACTATG
48827765 CGTACCCGAAAACTGTGATCACG
128 CGTACCCGAAAACTGTGATCACG
*
48827788 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTATAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAAGTG
* * **
48827853 CAGGCTACTATGCGTAACCGAAAACTG-TGATCACGTGTGTAGTGGTAAGTGCAGGCTACTATGC
66 CAGGCTACTATGCGTAACC--AAACTGTTGATCACATGTATAGTACTAAGTGCAGGCTACTATGC
48827917 GTACCCGAAAACTGTGATCACG
129 GTACCCGAAAACTGTGATCACG
*
48827939 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTTGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAAGTG
* *
48828004 CAGGCTTCTATACGTA
66 CAGGCTACTATGCGTA
48828020 CCAGATAGCT
Statistics
Matches: 207, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
148 5 0.02
149 32 0.15
150 5 0.02
151 160 0.77
152 5 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCATGTGTAGTACTAAGTG
CAGGCTACTATGCGTAACCAAACTGTTGATCACATGTATAGTACTAAGTGCAGGCTACTATGCGT
ACCCGAAAACTGTGATCACG
Found at i:48831284 original size:53 final size:54
Alignment explanation
Indices: 48831090--48831296 Score: 202
Period size: 53 Copynumber: 3.8 Consensus size: 54
48831080 ATTAGGGTTT
* * * * * *
48831090 AAGGATACCAAGTAAGACCATGCCAAGGCACGACATTGGTACA-TTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTA-AGTTCTATAAGGC
* * * * * * * *
48831144 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAAGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * *
48831199 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
* *
48831252 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
48831297 AAAAAGGAAA
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 45 0.37
54 36 0.30
55 41 0.34
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:48839112 original size:30 final size:30
Alignment explanation
Indices: 48839071--48839138 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
48839061 TAAATGTAAC
48839071 TTAAGCAAATG-CTTCTAAAATAAGAAAAAAA
1 TTAA-CAAATGCCTT-TAAAATAAGAAAAAAA
**
48839102 TTAACAAATGCCTTTAAAATACTAAAAAAA
1 TTAACAAATGCCTTTAAAATAAGAAAAAAA
48839132 TTAACAA
1 TTAACAA
48839139 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (30 bp):
TTAACAAATGCCTTTAAAATAAGAAAAAAA
Found at i:48839830 original size:55 final size:54
Alignment explanation
Indices: 48839713--48839844 Score: 165
Period size: 55 Copynumber: 2.4 Consensus size: 54
48839703 GGATACCAAA
* * * * *
48839713 TAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGGAAATCATG
1 TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATG
* * * **
48839767 TAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAGATCCCATG
1 TAAGACCATGCCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAAACCATG
48839822 TAAGACCATGCCAAGGCATGGCA
1 TAAGACCATGCCAAGGCATGGCA
48839845 ATGGTGAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
54 25 0.38
55 40 0.62
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (54 bp):
TAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAAACCATG
Found at i:48839901 original size:53 final size:52
Alignment explanation
Indices: 48839803--48839917 Score: 122
Period size: 53 Copynumber: 2.2 Consensus size: 52
48839793 ATAAACTACT
* * * * ** * *
48839803 ATAAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC
1 ATAAGG-AAAGATACCACGTAAGACCATACCAAGACATGAAAATGGTAAGTTA
*
48839856 ATAAGGAAAGGATACCACGTAAGACCATATCAAGACATGAAAATGGTAAGTTA
1 ATAAGGAAA-GATACCACGTAAGACCATACCAAGACATGAAAATGGTAAGTTA
*
48839909 AAAAGGAAA
1 ATAAGGAAA
48839918 TGTACCCGTG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 3 0.06
53 48 0.94
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.17
Consensus pattern (52 bp):
ATAAGGAAAGATACCACGTAAGACCATACCAAGACATGAAAATGGTAAGTTA
Found at i:48846099 original size:30 final size:30
Alignment explanation
Indices: 48846065--48846125 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48846055 TCATTAACTC
48846065 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
48846095 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
48846125 A
1 A
48846126 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:48850196 original size:58 final size:58
Alignment explanation
Indices: 48850106--48850222 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
48850096 TCCCTAAGTG
48850106 AACCAAAGTCATCAAAACCTCCATCCACCTGATTACATTCCTCCAACACCTGTCTAAA
1 AACCAAAGTCATCAAAACCTCCATCCACCTGATTACATTCCTCCAACACCTGTCTAAA
*
48850164 AACCAAAGTCATCAAAACCTCCATCCACCTGATTGCATTCCTCCAACACCTGTCTAAA
1 AACCAAAGTCATCAAAACCTCCATCCACCTGATTACATTCCTCCAACACCTGTCTAAA
48850222 A
1 A
48850223 TTCTCCATTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.36, C:0.36, G:0.06, T:0.22
Consensus pattern (58 bp):
AACCAAAGTCATCAAAACCTCCATCCACCTGATTACATTCCTCCAACACCTGTCTAAA
Found at i:48864445 original size:679 final size:679
Alignment explanation
Indices: 48863148--48864500 Score: 2634
Period size: 679 Copynumber: 2.0 Consensus size: 679
48863138 TATACATATA
*
48863148 GTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACGATTTCAAGATAACAAGGCCAAA
1 GTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGCCAAA
*
48863213 ATATCATAAATCACTATCACTGAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAATCAAT
66 ATATCATAAATCACTATCACTAAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAATCAAT
*
48863278 ATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCGGTCACCAGTAGCAATGGAGGT
131 ATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCGGTCACCAGTAGCAAAGGAGGT
* *
48863343 TTGATGATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTTGAAG
196 CTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTTGAAG
* *
48863408 GTGGTTGGAGAGGAAGAAATTAAAGAGGTTCGACACAAATATAATGAGGAAAAAAATAAAAATGA
261 GTGGTTGGAAAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAAATGA
48863473 AGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAAAAGG
326 AGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAAAAGG
48863538 AAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTAAAAT
391 AAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTAAAAT
48863603 AAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGAAAGA
456 AAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGAAAGA
48863668 AAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAG
521 AAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAG
*
48863733 GTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGCTGTGA
586 GTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGATGTGA
48863798 AAAGGGGGATCACACTCCCTCAAACTATT
651 AAAGGGGGATCACACTCCCTCAAACTATT
48863827 GTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGCCAAA
1 GTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGCCAAA
48863892 ATATCATAAATCACTATCACTAAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAATCAAT
66 ATATCATAAATCACTATCACTAAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAATCAAT
48863957 ATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCGGTCACCAGTAGCAAAGGAGGT
131 ATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCGGTCACCAGTAGCAAAGGAGGT
48864022 CTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTTGAAG
196 CTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTTGAAG
48864087 GTGGTTGGAAAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAAATGA
261 GTGGTTGGAAAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAAATGA
48864152 AGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAAAAGG
326 AGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAAAAGG
48864217 AAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTAAAAT
391 AAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTAAAAT
48864282 AAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGAAAGA
456 AAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGAAAGA
48864347 AAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAG
521 AAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAG
48864412 GTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGATGTGA
586 GTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGATGTGA
48864477 AAAGGGGGATCACACTCCCTCAAA
651 AAAGGGGGATCACACTCCCTCAAA
48864501 TTAAGGTAAG
Statistics
Matches: 666, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
679 666 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.20
Consensus pattern (679 bp):
GTTGAGTACTCACAATCCTATGGCATGCCAATTCTAACCAACAATTTCAAGATAACAAGGCCAAA
ATATCATAAATCACTATCACTAAATGTTAGTATCTTTTGCAACAGAAGATGTAAGTTTAATCAAT
ATGAGAAACAAAAAAATAGAGGAGGATGAAAGGGAGGAAATTCGGTCACCAGTAGCAAAGGAGGT
CTGATAATGGTGGTGAGGGCAATGGTTCGATGGGGGTCAAGTGACGAGGGAGTGGTGGTTTGAAG
GTGGTTGGAAAGGAAGAAATTAAAGAGGTTCGACACAAATATAAGGAGGAAAAAAATAAAAATGA
AGGAGAAAATAGCCTGCGGTGGTGCATGGTGGCAATCACAGTGGCGATGGAAGGAGTAAAAAAGG
AAAATAGGAGGTGCAATGGCCACGAGGCGTGGTGAACGGTGGTGGAAAAGAGCAAAGATTAAAAT
AAAGGGTGGTTATTATTTTGCAAATTAAAGAGAAAATGTATGAGAAAAGAAATGAAAAAGAAAGA
AAATGGGAGCAAGAAGGGGGTAAGGACGACAAAGGGGTGGTGAGAGCTTGGTCAACCATGACTAG
GTTCAATGAACCTAAACTAAAGGCAAGGTAAGAAGTTTTGGGAAGAAGAGGGAGACATGATGTGA
AAAGGGGGATCACACTCCCTCAAACTATT
Found at i:48866711 original size:28 final size:28
Alignment explanation
Indices: 48866671--48866729 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
48866661 AAGTAATACG
48866671 TACCTGAACATTTTAAATGTATAGTACT
1 TACCTGAACATTTTAAATGTATAGTACT
48866699 TACCTGAACATTTTAAATGTATAGTACT
1 TACCTGAACATTTTAAATGTATAGTACT
48866727 TAC
1 TAC
48866730 TCGACGATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (28 bp):
TACCTGAACATTTTAAATGTATAGTACT
Found at i:48866903 original size:39 final size:39
Alignment explanation
Indices: 48866820--48866915 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
48866810 TGAAATCAAT
*
48866820 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
48866858 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
48866897 TTCCAGCACGTAGCCTGCG
1 TACCAGCACGAAGCCTGCG
48866916 AACCTTAAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 14 0.29
39 34 0.71
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:48866930 original size:39 final size:39
Alignment explanation
Indices: 48866887--48867012 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
48866877 GGACTTTAGC
* * * *
48866887 CCGGACATATTTCCAGCACGTAGCCTGCGAACCTTAAGT
1 CCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
48866926 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
1 CCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
48866965 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGT
48867004 CCGGACATA
1 CCGGACATA
48867013 CATCACTGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:48866936 original size:78 final size:78
Alignment explanation
Indices: 48866849--48867008 Score: 182
Period size: 78 Copynumber: 2.1 Consensus size: 78
48866839 GAATTTAAAC
* * * * *
48866849 CCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGC
*
48866911 CTGCGAACCTTAAGT
64 CTGCGAACCCTAAGT
* * * *
48866926 CCGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
*
48866991 GCGGACCCTAAGT
66 GCGAACCCTAAGT
48867004 CCGGA
1 CCGGA
48867009 CATACATCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
77 8 0.12
78 61 0.88
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (78 bp):
CCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGAACCCTAAGT
Found at i:48875877 original size:49 final size:51
Alignment explanation
Indices: 48875760--48875895 Score: 195
Period size: 49 Copynumber: 2.7 Consensus size: 51
48875750 CTAACCATCT
* * *
48875760 GATACACGTAGTAGCTTGCACTTAGTACTACACACGCGATCGAAGTTATCG
1 GATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCC
* * * *
48875811 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCC
1 GATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCC
48875860 GATACACGTAGTAGCCTGCACTTAGTACTACACACG
1 GATACACGTAGTAGCCTGCACTTAGTACTACACACG
48875896 TGACCTCACA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 37 0.50
50 3 0.04
51 34 0.46
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (51 bp):
GATACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTTATCC
Found at i:48877627 original size:46 final size:49
Alignment explanation
Indices: 48877495--48877726 Score: 218
Period size: 46 Copynumber: 4.9 Consensus size: 49
48877485 TCGGGTTATT
*
48877495 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT--TGAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAT-AGA
* * * *
48877543 CGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-ACGTCGGCCTCA-AGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATAGA
*
48877589 TGTA-AGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGG-CT-AT-GA
1 TG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATAGA
* * * ** *
48877633 -GATGTGTCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACGGATATA
1 TGA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCATAGA
* *
48877683 TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTC
1 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
48877727 GATTTCGATA
Statistics
Matches: 148, Mismatches: 23, Indels: 25
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 13 0.09
45 15 0.10
46 48 0.32
47 15 0.10
48 16 0.11
49 3 0.02
50 34 0.23
51 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (49 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCATAGA
Found at i:48877762 original size:138 final size:133
Alignment explanation
Indices: 48877498--48877813 Score: 334
Period size: 138 Copynumber: 2.3 Consensus size: 133
48877488 GGTTATTTGA
**
48877498 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGACGAGAGCTAGTGTAAGACAT
*
48877563 GTCTGGGACATACGTCGGCCTCAAGATGTAAGCCAATGTAAGACATGTCTGGGACATGCATCGGC
66 GTCTGGGACATACGTCGGCCTC-AGATGTAAGCCAATGTAAGACATGTCT-GG--A-GCATCGAC
48877628 TATGA-GAT
126 T-TGAGGAT
* * * * *
48877636 GTGTCAGTGTAAGACCATGTCTGGAACATGGCATCGGCACGGATATATGAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGG--AGACGAGAGCTAGTGTAAGA-
* * ** * *
48877701 CATGTCTGGGACATGGCGTCGGCCTC-GATTTCGATAGTTAGTGTAAGACCATTTCT-G-GCATC
63 CATGTCTGGGACAT-ACGTCGGCCTCAGATGT--A-AGCCAATGTAAGA-CATGTCTGGAGCATC
48877763 GACTTGATGGAT
123 GACTTGA-GGAT
*
48877775 GAGCCAGTGTAAGACCATTTCTGGGACATGGCATCGGCA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
48877814 TTATACCCTA
Statistics
Matches: 150, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
137 3 0.02
138 45 0.30
139 38 0.25
140 22 0.15
141 14 0.09
142 12 0.08
143 10 0.07
144 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (133 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAGACGAGAGCTAGTGTAAGACAT
GTCTGGGACATACGTCGGCCTCAGATGTAAGCCAATGTAAGACATGTCTGGAGCATCGACTTGAG
GAT
Found at i:48883153 original size:43 final size:43
Alignment explanation
Indices: 48883092--48883177 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
48883082 CAACAAAGGT
48883092 TAGATCAGATCATACTCATCACACTACGATAGATTTATATGGC
1 TAGATCAGATCATACTCATCACACTACGATAGATTTATATGGC
48883135 TAGATC-GAATCATACTCATCACACTACGATAGATTTATATGGC
1 TAGATCAG-ATCATACTCATCACACTACGATAGATTTATATGGC
48883178 ATGTATTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
42 1 0.02
43 41 0.98
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (43 bp):
TAGATCAGATCATACTCATCACACTACGATAGATTTATATGGC
Found at i:48895278 original size:47 final size:47
Alignment explanation
Indices: 48895215--48895420 Score: 340
Period size: 47 Copynumber: 4.4 Consensus size: 47
48895205 CCCTTCGGGA
* * *
48895215 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
48895262 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * *
48895309 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
48895356 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
48895403 CTTATCACATATACACAC
1 CTTATCACATATATACAC
48895421 CTTGTACATC
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 150 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:48895376 original size:94 final size:94
Alignment explanation
Indices: 48895215--48895420 Score: 376
Period size: 94 Copynumber: 2.2 Consensus size: 94
48895205 CCCTTCGGGA
*
48895215 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
48895280 TTTCACATCCATCACATCGGCCATTAGGC
66 TTTCACATCCATCACATCGGCCATTAGGC
*
48895309 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
48895374 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATCCATCACATCGGCCATTAGGC
*
48895403 CTTATCACATATACACAC
1 CTTATCACATATATACAC
48895421 CTTGTACATC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 108 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATCCATCACATCGGCCATTAGGC
Found at i:48898659 original size:21 final size:20
Alignment explanation
Indices: 48898635--48898704 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
48898625 ATGAGAGCTA
48898635 AACAGAAACCCATAAGGGTT
1 AACAGAAACCCATAAGGGTT
* ** *
48898655 GAACAGAAGCTTATAAGAGCTT
1 -AACAGAAACCCATAAG-GGTT
*
48898677 AACGGAAACCCATAAGGGTT
1 AACAGAAACCCATAAGGGTT
48898697 AAACAGAA
1 -AACAGAA
48898705 GCTCAATAGA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
20 3 0.08
21 31 0.84
22 3 0.08
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (20 bp):
AACAGAAACCCATAAGGGTT
Found at i:48898664 original size:42 final size:42
Alignment explanation
Indices: 48898617--48898768 Score: 189
Period size: 42 Copynumber: 3.6 Consensus size: 42
48898607 AAGGCTGAAT
* *
48898617 AGAAGCTCATGAGAGCTAAACAGAAACCCATAAGGGTTGAAC
1 AGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTAAAC
* * *
48898659 AGAAGCTTATAAGAGCTTAACGGAAACCCATAAGGGTTAAAC
1 AGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTAAAC
* * * * *
48898701 AGAAGCTCAAT-AGAGATGAACGGAAACTCATATGAGTTAAAC
1 AGAAGCTC-ATGAGAGCTAAACGGAAACCCATAAGGGTTAAAC
*
48898743 AGAAGCTCGTGAGAGCTAAACGGAAA
1 AGAAGCTCATGAGAGCTAAACGGAAA
48898769 GTTTGCAACA
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 91 0.97
43 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (42 bp):
AGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTAAAC
Found at i:48900216 original size:14 final size:15
Alignment explanation
Indices: 48900189--48900217 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48900179 GTTTTTTGGG
48900189 ACGATTTGGGATTTC
1 ACGATTTGGGATTTC
48900204 ACGATTT-GGATTTC
1 ACGATTTGGGATTTC
48900218 TTTAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (15 bp):
ACGATTTGGGATTTC
Found at i:48900239 original size:18 final size:17
Alignment explanation
Indices: 48900218--48900256 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
48900208 TTTGGATTTC
48900218 TTTAATTATT-TATTTCTT
1 TTTAATT-TTATATTT-TT
48900236 TTTAATTTTATATTTTT
1 TTTAATTTTATATTTTT
48900253 TTTA
1 TTTA
48900257 CACTTCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTAATTTTATATTTTT
Found at i:48902137 original size:21 final size:20
Alignment explanation
Indices: 48902103--48902143 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
48902093 AGGCAATTTT
*
48902103 GTAATTAAAGTGAAATTAAA
1 GTAATTAAAGTGAAAGTAAA
*
48902123 GTAATTTAGAGTGAAAGTAAA
1 GTAA-TTAAAGTGAAAGTAAA
48902144 ACATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (20 bp):
GTAATTAAAGTGAAAGTAAA
Found at i:48905617 original size:20 final size:20
Alignment explanation
Indices: 48905588--48905638 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
48905578 TATGGACCTG
48905588 GGACACGCCCGGTGGCCATA
1 GGACACGCCCGGTGGCCATA
*
48905608 GGACATGCCCGGTGGCCATA
1 GGACACGCCCGGTGGCCATA
*
48905628 GGACACACCCG
1 GGACACGCCCG
48905639 TGTCTCAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.35, G:0.33, T:0.10
Consensus pattern (20 bp):
GGACACGCCCGGTGGCCATA
Found at i:48909288 original size:48 final size:47
Alignment explanation
Indices: 48909175--48909344 Score: 215
Period size: 48 Copynumber: 3.6 Consensus size: 47
48909165 CGAGGCTGAC
* *
48909175 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATTCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CAC-CTCATA-T-GTGCCGAT
48909225 GCCATGTCCCAGACATGGTCTTACACTGACACCTCTATATGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACACCTC-ATATGTGCCGAT
* *
48909273 GCCATGTCCCAGACATGGTCTTACACTGACACATC-T-CGTAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACACCTCATATGT-GCCGAT
48909319 G-CATGTCCCAGACAT-GTCTTACACTG
1 GCCATGTCCCAGACATGGTCTTACACTG
48909345 GCTTACATCT
Statistics
Matches: 113, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
44 11 0.10
45 16 0.14
46 8 0.07
48 42 0.37
49 3 0.03
50 32 0.28
51 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACACCTCATATGTGCCGAT
Found at i:48909353 original size:46 final size:48
Alignment explanation
Indices: 48909177--48909438 Score: 237
Period size: 46 Copynumber: 5.6 Consensus size: 48
48909167 AGGCTGACGC
* *
48909177 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTCG--TGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACAT-CTCGTATGCCGATG
* * *
48909226 CCATGTCCCAGACATGGTCTTACACTGAC--ACCTCT-ATATGTGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA--TGCCGATG
*
48909274 CCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTATGCCGATG
*
48909320 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTATGCCGATG
* * * * * *
48909366 TATGTCCTAGACAT-GCCTTACACTAGCTCT-CGTCTC-AATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGTATGCCGATG
48909412 CATGTCCCAGACAT-GTCTTACACTGGC
1 CATGTCCCAGACATGGTCTTACACTGGC
48909439 ACATAAATAA
Statistics
Matches: 184, Mismatches: 18, Indels: 24
0.81 0.08 0.11
Matches are distributed among these distances:
44 12 0.07
45 16 0.09
46 85 0.46
47 1 0.01
48 42 0.23
49 2 0.01
50 26 0.14
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTATGCCGATG
Found at i:48914406 original size:33 final size:32
Alignment explanation
Indices: 48914368--48914476 Score: 116
Period size: 33 Copynumber: 3.3 Consensus size: 32
48914358 AGATTAATTT
48914368 ATATTTTATGTATTATTATATTAAATTATTTAA
1 ATATTTTATGTATTATTATATTAAATT-TTTAA
* * *
48914401 ATATTTCATGTATCATTATATTAAATTTTTTAG
1 ATATTTTATGTATTATTATATTAAA-TTTTTAA
*
48914434 ATATCATTTAT-TATTA-TAT-TTAAGTTTTTAAA
1 ATAT--TTTATGTATTATTATATTAAATTTTT-AA
48914466 ATATTTTATGT
1 ATATTTTATGT
48914477 TTCATTAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
30 5 0.08
31 6 0.09
32 9 0.14
33 34 0.53
34 6 0.09
35 4 0.06
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.57
Consensus pattern (32 bp):
ATATTTTATGTATTATTATATTAAATTTTTAA
Found at i:48915728 original size:16 final size:16
Alignment explanation
Indices: 48915707--48915741 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
48915697 GCACTTTGAC
48915707 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
48915723 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
48915739 TAA
1 TAA
48915742 GACTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (16 bp):
TAAAATTAATAGGCTG
Found at i:48921178 original size:17 final size:18
Alignment explanation
Indices: 48921156--48921189 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
48921146 CGACCGCAAC
48921156 AAACGCGA-CGCGACCGA
1 AAACGCGACCGCGACCGA
48921173 AAACGCGACCGCGACCG
1 AAACGCGACCGCGACCG
48921190 CAATTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.38, G:0.29, T:0.00
Consensus pattern (18 bp):
AAACGCGACCGCGACCGA
Found at i:48925152 original size:23 final size:23
Alignment explanation
Indices: 48925107--48925152 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48925097 TTTTTTTTTA
48925107 TTTTTATAAATTTTAAAATAATT
1 TTTTTATAAATTTTAAAATAATT
* *
48925130 TTTTTCTAATTTTCTAAAA-AATT
1 TTTTTATAAATTT-TAAAATAATT
48925153 AACTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTATAAATTTTAAAATAATT
Found at i:48938722 original size:12 final size:14
Alignment explanation
Indices: 48938705--48938740 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
48938695 CATAAATCAC
48938705 TTTTTTTTTC-G-A
1 TTTTTTTTTCGGAA
48938717 TTTTTTTTTCGGAA
1 TTTTTTTTTCGGAA
48938731 TTTTTTTTTC
1 TTTTTTTTTC
48938741 AAACTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 1 0.05
14 11 0.50
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.75
Consensus pattern (14 bp):
TTTTTTTTTCGGAA
Found at i:48940352 original size:21 final size:22
Alignment explanation
Indices: 48940326--48940369 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
48940316 AAACGAGCTC
48940326 GTTGAGCTAAGTTGAG-TTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
* *
48940347 GTTGAGCTGATTTGAGCTTGAA
1 GTTGAGCTAAGTTGAGCTTGAA
48940369 G
1 G
48940370 GAGTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34
Consensus pattern (22 bp):
GTTGAGCTAAGTTGAGCTTGAA
Found at i:48943141 original size:33 final size:33
Alignment explanation
Indices: 48943103--48943165 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
48943093 GATTACTCAC
48943103 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
48943136 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
48943166 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:48943192 original size:21 final size:21
Alignment explanation
Indices: 48943163--48943218 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
48943153 CAAGCTCTCT
*
48943163 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
48943184 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
48943205 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
48943219 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:48943211 original size:14 final size:14
Alignment explanation
Indices: 48943162--48943218 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
48943152 TCAAGCTCTC
48943162 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
48943175 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
48943189 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
48943203 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
48943217 TT
1 TT
48943219 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:48943278 original size:18 final size:18
Alignment explanation
Indices: 48943180--48943318 Score: 88
Period size: 18 Copynumber: 7.7 Consensus size: 18
48943170 TCTTTTTTCG
48943180 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
48943199 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
48943219 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
48943237 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
48943255 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
48943273 CTTTTT-GTTTTC--TTT
1 CTTTTTCTTTTTCATTTT
** * *
48943288 CAATTTCTTTTTCAATCT
1 CTTTTTCTTTTTCATTTT
*
48943306 CTTTTTCCTTTTC
1 CTTTTTCTTTTTC
48943319 TCGCTCAATG
Statistics
Matches: 91, Mismatches: 22, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
15 7 0.08
16 5 0.05
17 6 0.07
18 54 0.59
19 3 0.03
20 8 0.09
21 8 0.09
ACGTcount: A:0.08, C:0.20, G:0.03, T:0.69
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:48943300 original size:6 final size:6
Alignment explanation
Indices: 48943180--48943287 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
48943170 TCTTTTTTCG
* * * **
48943180 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
48943231 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
48943279 -GTTTT CTTT
1 CTTTTT CTTT
48943288 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:48947780 original size:18 final size:18
Alignment explanation
Indices: 48947757--48947792 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
48947747 AAATTGATTG
48947757 ACTAGTTATTCTGGCTCT
1 ACTAGTTATTCTGGCTCT
48947775 ACTAGTTATTCTGGCTCT
1 ACTAGTTATTCTGGCTCT
48947793 GAATCGGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (18 bp):
ACTAGTTATTCTGGCTCT
Found at i:48948515 original size:13 final size:13
Alignment explanation
Indices: 48948497--48948527 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
48948487 TGGCAGGGAA
48948497 ACGCCTGTGGCAC
1 ACGCCTGTGGCAC
48948510 ACGCCTGTGGCAC
1 ACGCCTGTGGCAC
48948523 ACGCC
1 ACGCC
48948528 CGTGTTCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.42, G:0.29, T:0.13
Consensus pattern (13 bp):
ACGCCTGTGGCAC
Found at i:48952419 original size:11 final size:11
Alignment explanation
Indices: 48952405--48952439 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
48952395 ATTTAAAAAT
48952405 TATTTTATGTG
1 TATTTTATGTG
48952416 TATTTTATGTG
1 TATTTTATGTG
*
48952427 AATTTGTATGTG
1 TATTT-TATGTG
48952439 T
1 T
48952440 GAAATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (11 bp):
TATTTTATGTG
Found at i:48982054 original size:27 final size:27
Alignment explanation
Indices: 48982023--48982200 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48982013 TAAATTGTAC
48982023 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48982050 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48982076 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48982104 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48982132 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48982159 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48982186 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48982201 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48982137 original size:82 final size:81
Alignment explanation
Indices: 48982024--48982179 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48982014 AAATTGTACA
* *
48982024 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48982088 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48982105 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48982170 TGCGAGTTGA
65 TGCGAATTGA
48982180 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48982191 original size:82 final size:81
Alignment explanation
Indices: 48982020--48982200 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48982010 GATTAAATTG
* *
48982020 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48982085 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48982101 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48982165 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48982183 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48982201 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48985706 original size:42 final size:42
Alignment explanation
Indices: 48985647--48985752 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
48985637 CATTTAAGCC
48985647 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
48985689 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
48985731 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
48985753 TATTTAATGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:48985754 original size:14 final size:14
Alignment explanation
Indices: 48985735--48985779 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
48985725 AACTCATCTT
*
48985735 AGTTTAATTAAATG
1 AGTTTAATTTAATG
48985749 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
48985762 AATTTAATTTAATG
1 AGTTTAATTTAATG
48985776 AGTT
1 AGTT
48985780 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:48986541 original size:53 final size:53
Alignment explanation
Indices: 48986461--48986565 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 53
48986451 TTTGTGAGGA
48986461 AAACTTTTCTCTATTTTCGTTCAAAGATTTGTTGGCTACCTAGTATTCTAGTC
1 AAACTTTTCTCTATTTTCGTTCAAAGATTTGTTGGCTACCTAGTATTCTAGTC
*
48986514 AAACTTTTCTCTGTTTTCGTTCAAAGATTTGTTGGCTACCTAGTATTCTAGT
1 AAACTTTTCTCTATTTTCGTTCAAAGATTTGTTGGCTACCTAGTATTCTAGT
48986566 TGTGTCATCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (53 bp):
AAACTTTTCTCTATTTTCGTTCAAAGATTTGTTGGCTACCTAGTATTCTAGTC
Found at i:48986838 original size:29 final size:29
Alignment explanation
Indices: 48986805--48986864 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
48986795 ATAACCAAAC
*
48986805 CTACA-AAAACTTTATATCCATAAACCCAT
1 CTACATAAAA-TTCATATCCATAAACCCAT
48986834 CTACATAAAATTCATATCCATAAACCCAT
1 CTACATAAAATTCATATCCATAAACCCAT
48986863 CT
1 CT
48986865 TTGAATTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACATAAAATTCATATCCATAAACCCAT
Found at i:48988209 original size:18 final size:18
Alignment explanation
Indices: 48988186--48988238 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
48988176 GAAAGAAAAA
48988186 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGATTGAGAGT
* * *
48988204 GAAAAAGAAAATGAGATT
1 GAAAAAGAGATTGAGAGT
*
48988222 GAAAAAGAGTTTGAGAG
1 GAAAAAGAGATTGAGAG
48988239 AGAGAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (18 bp):
GAAAAAGAGATTGAGAGT
Found at i:48988289 original size:146 final size:146
Alignment explanation
Indices: 48988128--48988577 Score: 882
Period size: 146 Copynumber: 3.1 Consensus size: 146
48988118 AGATTATGAG
48988128 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
1 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
48988193 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
66 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
48988258 GAAAAAAGAGTGGAAA
131 GAAAAAAGAGTGGAAA
48988274 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
1 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
48988339 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
66 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
48988404 GAAAAAAGAGTGGAAA
131 GAAAAAAGAGTGGAAA
48988420 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
1 AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
48988485 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
66 AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
48988550 GAAAAAAGAGTGGAAAA
131 GAAAAAAGAGTGG-AAA
*
48988567 AGAAATTGAGA
1 AGAAAATGAGA
48988578 TAAAAGAAAC
Statistics
Matches: 302, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
146 289 0.96
147 13 0.04
ACGTcount: A:0.59, C:0.03, G:0.25, T:0.13
Consensus pattern (146 bp):
AGAAAATGAGAGAATCTTGAATGAAATCAAGAAAAGAAACAAAGAAATGAAAGAAAAAGAAAAAG
AGATTGAGAGTGAAAAAGAAAATGAGATTGAAAAAGAGTTTGAGAGAGAGAAAGAATGTGAACAA
GAAAAAAGAGTGGAAA
Found at i:48988355 original size:18 final size:18
Alignment explanation
Indices: 48988332--48988384 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
48988322 GAAAGAAAAA
48988332 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGATTGAGAGT
* * *
48988350 GAAAAAGAAAATGAGATT
1 GAAAAAGAGATTGAGAGT
*
48988368 GAAAAAGAGTTTGAGAG
1 GAAAAAGAGATTGAGAG
48988385 AGAGAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (18 bp):
GAAAAAGAGATTGAGAGT
Found at i:48988501 original size:18 final size:18
Alignment explanation
Indices: 48988478--48988530 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
48988468 GAAAGAAAAA
48988478 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGATTGAGAGT
* * *
48988496 GAAAAAGAAAATGAGATT
1 GAAAAAGAGATTGAGAGT
*
48988514 GAAAAAGAGTTTGAGAG
1 GAAAAAGAGATTGAGAG
48988531 AGAGAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (18 bp):
GAAAAAGAGATTGAGAGT
Found at i:48991376 original size:22 final size:23
Alignment explanation
Indices: 48991351--48991410 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
48991341 TGGACTGAAT
48991351 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
48991373 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
48991395 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
48991411 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:48991378 original size:4 final size:4
Alignment explanation
Indices: 48991360--48991393 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
48991350 TATAAAAATT
48991360 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
48991394 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:48991943 original size:57 final size:57
Alignment explanation
Indices: 48991850--48991962 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
48991840 ATTTCAGCTC
*
48991850 AATTTCCGCTCCTTGAACCCGTTCCAACTAATTTGAACTTTTATTTATTTCTTTCAA
1 AATTTCCGCTCCTTGAACCCGTTCCAACTAAATTGAACTTTTATTTATTTCTTTCAA
48991907 AATTTCCGCTCCTTGAACCCGTTCCAACTAAATTGAACTTTTATTTATTTCTTTCA
1 AATTTCCGCTCCTTGAACCCGTTCCAACTAAATTGAACTTTTATTTATTTCTTTCA
48991963 GCTTTGCATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.43
Consensus pattern (57 bp):
AATTTCCGCTCCTTGAACCCGTTCCAACTAAATTGAACTTTTATTTATTTCTTTCAA
Found at i:48992063 original size:42 final size:42
Alignment explanation
Indices: 48992004--48992109 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
48991994 CATTTAAGCC
48992004 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
* *
48992046 TCTTAATTTAATAAATGAGTTGCTGGTCATTAATACAACTTA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
48992088 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
48992110 TATTTAATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 50 0.83
43 10 0.17
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:48992111 original size:14 final size:14
Alignment explanation
Indices: 48992092--48992136 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
48992082 AACTTATCTT
*
48992092 AGTTTAATTAAATG
1 AGTTTAATTTAATG
48992106 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
48992119 AATTTAATTTAATG
1 AGTTTAATTTAATG
48992133 AGTT
1 AGTT
48992137 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:48994729 original size:29 final size:29
Alignment explanation
Indices: 48994696--48994755 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
48994686 ATAACCAAAC
*
48994696 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
48994725 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
48994754 CT
1 CT
48994756 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:48994748 original size:15 final size:15
Alignment explanation
Indices: 48994702--48994749 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
48994692 AAACCTACAA
*
48994702 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
48994717 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
48994731 AAACTTCATATCCAT
1 AAACTTCATATCCAT
48994746 AAAC
1 AAAC
48994750 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:48995475 original size:14 final size:14
Alignment explanation
Indices: 48995428--48995475 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
48995418 GTACGAATGG
* *
48995428 AATGGTAAGAACGA
1 AATGGTAGGAACAA
*
48995442 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
48995456 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
48995470 ATTGGT
1 AATGGT
48995476 CGGTTTAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:49003672 original size:40 final size:40
Alignment explanation
Indices: 49003623--49004610 Score: 1858
Period size: 40 Copynumber: 24.7 Consensus size: 40
49003613 ATAGCAACTC
* *
49003623 GCACGAATGCCTTCGGGA-CTTAGCCCGGACATAATCACTA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
*
49003663 GCACAAATGCCTTCAGGA-CTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
*
49003703 GCACAAATGCCTTTGAGA-CTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCG-GATCTTAGCCCGGATATAATCACTA
49003743 GCACAAATGCCTTCGGGA-CTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGATATAATCACTA
49003783 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49003823 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49003863 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49003903 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49003943 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49003983 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004023 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004063 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004103 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004143 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004183 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004223 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004263 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004303 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004343 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004383 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004423 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004463 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004503 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
49004543 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
* *
49004583 GCACAAATGCCTTCGAATCTTAGTCCGG
1 GCACAAATGCCTTCGGATCTTAGCCCGG
49004611 TTATCATTCG
Statistics
Matches: 936, Mismatches: 9, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
39 4 0.00
40 931 0.99
41 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGATATAATCACTA
Found at i:49007519 original size:27 final size:27
Alignment explanation
Indices: 49007474--49007706 Score: 287
Period size: 27 Copynumber: 8.6 Consensus size: 27
49007464 TTATCCCACG
* *
49007474 AGGGTATCTCGGTAATTCTACCCTACA
1 AGGGTATTTCAGTAATTCTACCCTACA
*
49007501 AGGGTATTTCAGTATTTCTACCCTACA
1 AGGGTATTTCAGTAATTCTACCCTACA
49007528 AGGGTATTTC-GATAATTCTACCCTACA
1 AGGGTATTTCAG-TAATTCTACCCTACA
* *
49007555 GGGGTATTTC-GATAATTCTACCTTACA
1 AGGGTATTTCAG-TAATTCTACCCTACA
49007582 AGGGTATTTCAGTAATTCTACCCTACA
1 AGGGTATTTCAGTAATTCTACCCTACA
*
49007609 AGGGTATTTCGGTAATTCTA-CCTA-A
1 AGGGTATTTCAGTAATTCTACCCTACA
* *
49007634 CAGAGGTATTTTAGTAATTCTACCTTAC-
1 -AG-GGTATTTCAGTAATTCTACCCTACA
*
49007662 AGAGGTATTTCAGTAATTCTACCTTACA
1 AG-GGTATTTCAGTAATTCTACCCTACA
* *
49007690 GGGGTATTTTAGTAATT
1 AGGGTATTTCAGTAATT
49007707 TTACAAATCA
Statistics
Matches: 184, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.01
26 7 0.04
27 171 0.93
28 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTCTACCCTACA
Found at i:49007594 original size:81 final size:81
Alignment explanation
Indices: 49007475--49007698 Score: 319
Period size: 81 Copynumber: 2.8 Consensus size: 81
49007465 TATCCCACGA
* * * *
49007475 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA
1 GGGTATTTCGATAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
49007540 TAATTCTACCCT-ACAG
66 TAATTCTA-CCTAACAG
*
49007556 GGGTATTTCGATAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCGATAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
49007621 TAATTCTACCTAACAG
66 TAATTCTACCTAACAG
* * * *
49007637 AGGTATTT-TAGTAATTCTACCTTAC-AGAGGTATTTCAGTAATTCTACCTTACAGGGGTATTT
1 GGGTATTTCGA-TAATTCTACCTTACAAG-GGTATTTCAGTAATTCTACCCTACAAGGGTATTT
49007699 TAGTAATTTT
Statistics
Matches: 131, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
80 6 0.05
81 125 0.95
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
GGGTATTTCGATAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGA
TAATTCTACCTAACAG
Found at i:49007718 original size:27 final size:27
Alignment explanation
Indices: 49007688--49007788 Score: 132
Period size: 27 Copynumber: 3.7 Consensus size: 27
49007678 TTCTACCTTA
*
49007688 CAGGGGTATTTTAGTAATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
49007715 CAGGGGTATTTGGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
49007742 CAGGGGTATTTTGGTAATTTTGCTAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
*
49007769 C-GAGGGTATTTTTGTAATTT
1 CAG-GGGTATTTTGGTAATTT
49007789 GGTGAACTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 64 0.98
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.42
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:49007723 original size:54 final size:54
Alignment explanation
Indices: 49007485--49007760 Score: 272
Period size: 54 Copynumber: 5.1 Consensus size: 54
49007475 GGGTATCTCG
* * * * * *
49007485 GTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTA-TTTC
1 GTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
* * *
49007538 GATAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCTTACAAGGGTATTTCA
1 G-TAATTCTACCATACAGGGGTATTTCAG-TAATTCTACCTTACAGGGGTATTTTA
* * * * *
49007593 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCTAACAGAGGTATTTTA
1 GTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
* *
49007647 GTAATTCTACCTTACAGAGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
* * ** * ** *
49007701 GTAATTTTA-CAAATCAGGGGTATTTGGGTAATTTTA-CAAACCAGGGGTATTTTG
1 GTAATTCTACCATA-CAGGGGTATTTCAGTAATTCTACCTTA-CAGGGGTATTTTA
49007755 GTAATT
1 GTAATT
49007761 TTGCTAATCG
Statistics
Matches: 191, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
53 6 0.03
54 181 0.95
55 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
Found at i:49007732 original size:81 final size:80
Alignment explanation
Indices: 49007475--49007733 Score: 299
Period size: 81 Copynumber: 3.2 Consensus size: 80
49007465 TATCCCACGA
* * * *
49007475 GGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCTACAAGGGTA-TTTCG
1 GGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTAG
**
49007539 ATAATTCTACCCTACAG
66 -TAATTCTACAAT-CAG
* **
49007556 GGGTATTTCGATAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTAG
49007621 TAATTCTACCTAA-CAG
66 TAATTCTA-C-AATCAG
* ** * *
49007637 AGGTATTTTAGTAATTCTACCTTAC-AGAGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
1 GGGTATTTCGGTAATTCTACCTTACAAG-GGTATTTCAGTAATTCTACCCTACAAGGGTATTTTA
*
49007701 GTAATTTTACAAATCAG
65 GTAATTCTAC-AATCAG
*
49007718 GGGTATTTGGGTAATT
1 GGGTATTTCGGTAATT
49007734 TTACAAACCA
Statistics
Matches: 152, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
80 5 0.03
81 143 0.94
82 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (80 bp):
GGGTATTTCGGTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTAG
TAATTCTACAATCAG
Found at i:49010647 original size:27 final size:27
Alignment explanation
Indices: 49010617--49010821 Score: 277
Period size: 27 Copynumber: 7.6 Consensus size: 27
49010607 TATCCCACGA
* *
49010617 GGGTATCTCGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTATAG
* * *
49010644 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTATAG
* *
49010671 GGGTATTTC-GATAATTCTACCTTACAG
1 GGGTATTTCAG-TAATTCTACCCTATAG
49010698 GGGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTATAG
** * *
49010725 GGGTATTTTGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTATAG
*
49010752 GGGTATTTTAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTATAG
*
49010779 GGGTATTTCAGTAATTCTACCTTATAG
1 GGGTATTTCAGTAATTCTACCCTATAG
49010806 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
49010822 TTACAAATCA
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 1 0.01
27 155 0.99
28 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTATAG
Found at i:49010837 original size:27 final size:27
Alignment explanation
Indices: 49010780--49010894 Score: 76
Period size: 27 Copynumber: 4.3 Consensus size: 27
49010770 ACCCTATAGG
* ** *
49010780 GGTATTTCAGTAATTCTACCTTAT-AGG
1 GGTATTTCAGTAATTTTA-CAAATCAGA
49010807 GGTATTTCAGTAATTTTACAAATCAGA
1 GGTATTTCAGTAATTTTACAAATCAGA
* *
49010834 GGTACTTT-GGTAATTTTACAAA-CTAGG
1 GGTA-TTTCAGTAATTTTACAAATC-AGA
** * *
49010861 GGTATTTTGGTAATTTTGCTAATC-GA
1 GGTATTTCAGTAATTTTACAAATCAGA
49010887 GGGTATTT
1 -GGTATTT
49010895 TTTTAATTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
26 8 0.11
27 61 0.84
28 4 0.05
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
GGTATTTCAGTAATTTTACAAATCAGA
Found at i:49010847 original size:81 final size:80
Alignment explanation
Indices: 49010617--49010848 Score: 263
Period size: 81 Copynumber: 2.9 Consensus size: 80
49010607 TATCCCACGA
* * *
49010617 GGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCAGT-ATTTCTACCCTACA-AGGGTATTTC
1 GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTT-TACCATACAGA-GGTATTT-
* *
49010680 GATAATTCTACCTTACAG
63 GGTAATTCTACCCTACAG
** * * * *
49010698 GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTTGGTAATTCTACCTTACAGGGGTATTTTAG
1 GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTTTACCATACAGAGGTA-TTTGG
*
49010763 TAATTCTACCCTATAG
65 TAATTCTACCCTACAG
* *
49010779 GGGTATTTCAGTAATTCTACCTTATAGGGGTATTTCAGTAATTTTA-CAAATCAGAGGTACTTTG
1 GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTTTACCATA-CAGAGGTA-TTTG
49010843 GTAATT
64 GTAATT
49010849 TTACAAACTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.02
81 119 0.94
82 6 0.05
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (80 bp):
GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTTTACCATACAGAGGTATTTGGT
AATTCTACCCTACAG
Found at i:49010895 original size:27 final size:27
Alignment explanation
Indices: 49010806--49010957 Score: 157
Period size: 27 Copynumber: 5.6 Consensus size: 27
49010796 TACCTTATAG
** *
49010806 GGGTATTTCAGTAATTTTACAAATC-A
1 GGGTATTTTGGTAATTTTACTAATCGA
* * *
49010832 GAGGTACTTTGGTAATTTTAC-AAACTA
1 G-GGTATTTTGGTAATTTTACTAATCGA
*
49010859 GGGGTATTTTGGTAATTTTGCTAATCGA
1 -GGGTATTTTGGTAATTTTACTAATCGA
**
49010887 GGGTATTTTTTTAATTTTTA-TAATCGA
1 GGGTATTTTGGTAA-TTTTACTAATCGA
**
49010914 GGGTATTTTGGTAATTTTGTTAATCGA
1 GGGTATTTTGGTAATTTTACTAATCGA
49010941 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
49010958 GATAAACTAA
Statistics
Matches: 106, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.08
27 89 0.84
28 9 0.08
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACTAATCGA
Found at i:49016651 original size:27 final size:28
Alignment explanation
Indices: 49016610--49016665 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
49016600 GGTCCCTATC
* **
49016610 TTGATATAGCCAGAG-CTGGGAAAGAGT
1 TTGATACAGCCAGAGTCTAAGAAAGAGT
*
49016637 TTGATACAGCTAGAGTCTAAGAAAGAGT
1 TTGATACAGCCAGAGTCTAAGAAAGAGT
49016665 T
1 T
49016666 CACTGTCTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.25
Consensus pattern (28 bp):
TTGATACAGCCAGAGTCTAAGAAAGAGT
Found at i:49019386 original size:5 final size:5
Alignment explanation
Indices: 49019376--49019418 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
49019366 GAATACCTTG
49019376 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCT
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCT
49019419 CTTTCAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TCTTC
Found at i:49022125 original size:39 final size:41
Alignment explanation
Indices: 49022034--49022125 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 41
49022024 TGTCACTAAG
* * *
49022034 ATGGGCTCAGG-CCCACACTGATACTGATACTGATACTGTA
1 ATGGGCTAAGGCCCCACACTGAAACTGATACCGATACTGTA
*
49022074 ATGGGCTAAGGCCCCA-ACTGAAACTGA-ACCGTTACTG-A
1 ATGGGCTAAGGCCCCACACTGAAACTGATACCGATACTGTA
*
49022112 ATTGGGCTTAGGCC
1 A-TGGGCTAAGGCC
49022126 TAGACTGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.04
39 19 0.42
40 20 0.44
41 4 0.09
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (41 bp):
ATGGGCTAAGGCCCCACACTGAAACTGATACCGATACTGTA
Found at i:49026974 original size:30 final size:30
Alignment explanation
Indices: 49026940--49027037 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 30
49026930 TAAACTAAAA
49026940 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
49026970 TGAGCTGAGGC-TAAACTCCT-AGGCTGAGGT
1 TGAGCT-AAGCTTTAGCTCGTGA-GCTAAAGT
* *
49027000 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
49027030 TGAGCTAA
1 TGAGCTAA
49027038 AAGTGAGCTC
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
29 3 0.06
30 40 0.82
31 6 0.12
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:49029299 original size:30 final size:30
Alignment explanation
Indices: 49029234--49029301 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
49029224 TCTCACTCGA
*
49029234 TTCTTTTTCACTCTCAAATTTCTTTTCGTT
1 TTCTTTTTCAATCTCAAATTTCTTTTCGTT
* * *
49029264 CTCTTTTTCAATCTC-ATTTTCTTTTTCTTT
1 TTCTTTTTCAATCTCAAATTTC-TTTTCGTT
49029294 TTCTTTTT
1 TTCTTTTT
49029302 GATTTTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.10, C:0.22, G:0.01, T:0.66
Consensus pattern (30 bp):
TTCTTTTTCAATCTCAAATTTCTTTTCGTT
Found at i:49029380 original size:5 final size:5
Alignment explanation
Indices: 49029370--49029426 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
49029360 TTCTTGCCTC
*
49029370 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
49029417 TCTTT TCTTT
1 TCTTT TCTTT
49029427 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:49029410 original size:15 final size:14
Alignment explanation
Indices: 49029370--49029426 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
49029360 TTCTTGCCTC
*
49029370 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
49029385 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
49029400 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
49029417 TCTTTTCTTT
1 TCTTTTCTTT
49029427 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:49029427 original size:21 final size:21
Alignment explanation
Indices: 49029370--49029437 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
49029360 TTCTTGCCTC
* *
49029370 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
49029391 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
49029412 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
49029432 CTCTTT
1 -TCTTT
49029438 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:49030522 original size:82 final size:80
Alignment explanation
Indices: 49030377--49030529 Score: 180
Period size: 82 Copynumber: 1.9 Consensus size: 80
49030367 TCTTATATAC
* * ** *
49030377 TTTTTTTTATAACTACTAAAATGATAATTACAAAACAATACTCGAATCTCACGAAGTAGTTTTTT
1 TTTTTTTTATAACTACTAAAAAGATAAATACAAAACAATACTCGAATCTCACGAAACAATTTTTT
*
49030442 TGTATATATATATTT
66 TCTATATATATATTT
* ** * * *
49030457 TTTTTGTTTATAAACTACTAAAAAGGTAAATACAGTATAATACTTGAATTTCACGAAACAATTTT
1 TTTTT-TTTAT-AACTACTAAAAAGATAAATACAAAACAATACTCGAATCTCACGAAACAATTTT
49030522 TTTCTATA
64 TTTCTATA
49030530 CTATTTTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
80 5 0.08
81 5 0.08
82 49 0.83
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (80 bp):
TTTTTTTTATAACTACTAAAAAGATAAATACAAAACAATACTCGAATCTCACGAAACAATTTTTT
TCTATATATATATTT
Found at i:49031622 original size:17 final size:16
Alignment explanation
Indices: 49031563--49031622 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 16
49031553 GAGACAGCCA
* *
49031563 CCATACATGCATTTAAG
1 CCATTCATGCATTT-AT
49031580 CCATTCATGCATTCTAT
1 CCATTCATGCATT-TAT
*
49031597 -CATCCCATGCATTTGAT
1 CCAT-TCATGCATTT-AT
49031614 CCATTCATG
1 CCATTCATG
49031623 GACTAGACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.11
17 27 0.77
18 4 0.11
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.35
Consensus pattern (16 bp):
CCATTCATGCATTTAT
Found at i:49032053 original size:30 final size:30
Alignment explanation
Indices: 49032019--49032115 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
49032009 TAAACTAAAA
*
49032019 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCCTGAGCTAAAGT
* * * * *
49032049 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCCTGAGCTAAAGT
* * *
49032079 TGAGCTAAGGTTTAGCTCTTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCCTGAGCT-AAAGT
49032109 TGAGCTA
1 TGAGCTA
49032116 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCCTGAGCTAAAGT
Found at i:49037827 original size:36 final size:36
Alignment explanation
Indices: 49037780--49037854 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
49037770 ATCGAATGAG
*
49037780 GCTGATGTGTTTTAAAAACTTCAAAACTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
*
49037816 GCTGATATGTTTTAAAGACTTCAAAACTCATACCTT
1 GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
49037852 GCT
1 GCT
49037855 TACCTTTTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (36 bp):
GCTGATATGTTTTAAAAACTTCAAAACTCATACCTT
Found at i:49039876 original size:23 final size:22
Alignment explanation
Indices: 49039824--49039876 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
49039814 TCCACGTCTT
*
49039824 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
49039846 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
49039869 TTTCTTTT
1 TTTCTTTT
49039877 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:49040136 original size:50 final size:50
Alignment explanation
Indices: 49040061--49040160 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
49040051 GTGACTTTTT
*
49040061 GATCCAGTTGCCATGGTTCTCCTAGCAACAAATGGCAGGCCTGAATAGGC
1 GATCCAATTGCCATGGTTCTCCTAGCAACAAATGGCAGGCCTGAATAGGC
49040111 GATCCAATTGCCATGGTTCTCCTAGCAACAAATGGCAGGCCTGAATAGGC
1 GATCCAATTGCCATGGTTCTCCTAGCAACAAATGGCAGGCCTGAATAGGC
49040161 ATTACGTCAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (50 bp):
GATCCAATTGCCATGGTTCTCCTAGCAACAAATGGCAGGCCTGAATAGGC
Found at i:49046881 original size:29 final size:29
Alignment explanation
Indices: 49046788--49046885 Score: 106
Period size: 29 Copynumber: 3.4 Consensus size: 29
49046778 ACAATATATC
*
49046788 GACGCCCATCGAATATGAAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
* * * *
49046817 GACAACCATCAAACATGGAAAGGGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*** *
49046846 TTTGACCATCGAATATGAAAAGAGATGGT
1 GACGACCATCGAATATGAAAAGGGATGGT
*
49046875 GGCGACCATCG
1 GACGACCATCG
49046886 CTTAGCACAC
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (29 bp):
GACGACCATCGAATATGAAAAGGGATGGT
Found at i:49049755 original size:28 final size:28
Alignment explanation
Indices: 49049682--49049759 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
49049672 CTGTAAAAGT
* **
49049682 GATTGGGCCTAGTGGGCCATATAGATGT
1 GATTGGGCCTTGTGGGCCATATAGATAA
49049710 GATATGGG-CTTAAG-GGGCCATAT-GAATAA
1 GAT-TGGGCCTT--GTGGGCCATATAG-ATAA
49049739 GATTGGGCCTTGTGGGCCATA
1 GATTGGGCCTTGTGGGCCATA
49049760 AGCATGTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
27 1 0.02
28 18 0.44
29 21 0.51
30 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (28 bp):
GATTGGGCCTTGTGGGCCATATAGATAA
Found at i:49061995 original size:200 final size:200
Alignment explanation
Indices: 49061652--49062051 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
49061642 ACCCTAACCT
49061652 TAGCTGCTGCAAGTCCATACGCCCTTCCACCACGCCCGTACACCGCTTCCAACTGCATTTTTGAC
1 TAGCTGCTGCAAGTCCATACGCCCTTCCACCACGCCCGTACACCGCTTCCAACTGCATTTTTGAC
49061717 ACCCAACCTCTCTCCTCCAGCGTTTGTTTACTCCTTTCTCTTTTATTTCACTAATTTATAATGCT
66 ACCCAACCTCTCTCCTCCAGCGTTTGTTTACTCCTTTCTCTTTTATTTCACTAATTTATAATGCT
*
49061782 ATTTATCATAGCAATCTATATTTTTCATATTATTTTCATCTTTCTATCACTCAAATGTCATTTAT
131 ATTTATCATAGCAATCTATATTTTTCAGATTATTTTCATCTTTCTATCACTCAAATGTCATTTAT
49061847 AGAAC
196 AGAAC
49061852 TAGCTGCTGCAAGTCCATACGCCCTTCCACCACGCCCGTACACCGCTTCCAACTGCATTTTTGAC
1 TAGCTGCTGCAAGTCCATACGCCCTTCCACCACGCCCGTACACCGCTTCCAACTGCATTTTTGAC
49061917 ACCCAACCTCTCTCCTCCAGCGTTTGTTTACTCCTTTCTCTTTTATTTCACTAATTTATAATGCT
66 ACCCAACCTCTCTCCTCCAGCGTTTGTTTACTCCTTTCTCTTTTATTTCACTAATTTATAATGCT
49061982 ATTTATCATAGCAATCTATATTTTTCAGATTATTTTCATCTTTCTATCACTCAAATGTCATTTAT
131 ATTTATCATAGCAATCTATATTTTTCAGATTATTTTCATCTTTCTATCACTCAAATGTCATTTAT
49062047 AGAAC
196 AGAAC
49062052 AATTTATCAT
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.23, C:0.29, G:0.09, T:0.39
Consensus pattern (200 bp):
TAGCTGCTGCAAGTCCATACGCCCTTCCACCACGCCCGTACACCGCTTCCAACTGCATTTTTGAC
ACCCAACCTCTCTCCTCCAGCGTTTGTTTACTCCTTTCTCTTTTATTTCACTAATTTATAATGCT
ATTTATCATAGCAATCTATATTTTTCAGATTATTTTCATCTTTCTATCACTCAAATGTCATTTAT
AGAAC
Found at i:49064141 original size:17 final size:17
Alignment explanation
Indices: 49064116--49064150 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49064106 TTAGGATAAA
*
49064116 TTTTGATTGATTTATCT
1 TTTTGATTGATATATCT
*
49064133 TTTTTATTGATATATCT
1 TTTTGATTGATATATCT
49064150 T
1 T
49064151 GAATTAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.09, T:0.66
Consensus pattern (17 bp):
TTTTGATTGATATATCT
Found at i:49066710 original size:43 final size:42
Alignment explanation
Indices: 49066635--49066743 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
49066625 ATCTCGATCA
* * * **
49066635 CATATCCCAGATATGGTCTTAAACGGGATCTCATATTTATGC
1 CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
* *
49066677 CAATAGCCTAGCTATGGTCTTACACGA-AGTCTCATATCGATGC
1 C-ATAGCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGC
*
49066720 CATATCCCAGATATGGTCTTACAC
1 CATAGCCCAGATATGGTCTTACAC
49066744 ATAATTTCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 22 0.40
43 33 0.60
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
CATAGCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
Found at i:49069307 original size:27 final size:27
Alignment explanation
Indices: 49069277--49069452 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 27
49069267 GCTTTATGGC
49069277 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* *
49069304 TTACCAAAACACTCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* *
49069331 TTATCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
* *
49069358 TTACCAAAATACCCCTGATTTGTGAAA
1 TTACCAAAATACCCCTGGTTTGTAAAA
** * *
49069385 TTACTGAAATA-CCCTAAGTTTGCAAAA
1 TTACCAAAATACCCCT-GGTTTGTAAAA
*** **
49069412 TTATTGAAATA-CCCTCGACTTGTAAAA
1 TTACCAAAATACCCCT-GGTTTGTAAAA
*
49069439 TTACCAAAGTACCC
1 TTACCAAAATACCC
49069453 TTGATTTACA
Statistics
Matches: 121, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 4 0.03
27 115 0.95
28 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
TTACCAAAATACCCCTGGTTTGTAAAA
Found at i:49069412 original size:81 final size:81
Alignment explanation
Indices: 49069277--49069459 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 81
49069267 GCTTTATGGC
* * *
49069277 TTACCAAAATACCCCTGGTTTGTAAAATTACCAAAACACTCCTGGTTTGTAAAATTATCAAAATA
1 TTACCAAAATACCCCTGATTTGTAAAATTACCAAAACACTCCTAGTTTGCAAAATTATCAAAATA
*
49069342 CCCCTAG-TTTGTAAAA
66 -CCCTAGACTTGTAAAA
* ** * **
49069358 TTACCAAAATACCCCTGATTTGTGAAATTACTGAAATAC-CCTAAGTTTGCAAAATTATTGAAAT
1 TTACCAAAATACCCCTGATTTGTAAAATTACCAAAACACTCCT-AGTTTGCAAAATTATCAAAAT
*
49069422 ACCCTCGACTTGTAAAA
65 ACCCTAGACTTGTAAAA
* *
49069439 TTACCAAAGTACCCTTGATTT
1 TTACCAAAATACCCCTGATTT
49069460 ACAGAATTAC
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 8 0.09
81 79 0.91
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (81 bp):
TTACCAAAATACCCCTGATTTGTAAAATTACCAAAACACTCCTAGTTTGCAAAATTATCAAAATA
CCCTAGACTTGTAAAA
Found at i:49069422 original size:54 final size:53
Alignment explanation
Indices: 49069283--49069614 Score: 215
Period size: 54 Copynumber: 6.2 Consensus size: 53
49069273 TGGCTTACCA
* * * * ** *
49069283 AAATACCCCTGGTTTGTAAAATTACCAAAACACTCCT-GGTTTGTAAAATTA-TCA
1 AAATA-CCCTAGTTTGCAAAATTACCGAAATAC-CCTCGACTTGTAAAATTACT-G
* * * *
49069337 AAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CTGATTTGTGAAATTACTG
1 AAATA-CCCTAGTTTGCAAAATTACCGAAATACCCTC-GACTTGTAAAATTACTG
** *
49069391 AAATACCCTAAGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTAC-C
1 AAATACCCT-AGTTTGCAAAATTACCGAAATACCCTCGACTTGTAAAATTACTG
* * * *** * **
49069444 AAAGTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTG
1 AAA-TACCCTAG-TTTGCAAAATTACCGAAATACCCTCGACTTGTAAAATTACTG
** *
49069499 AAATACCCTAAGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTAC-C
1 AAATACCCT-AGTTTGCAAAATTACCGAAATACCCTCGACTTGTAAAATTACTG
* * * *** * **
49069552 AAAGTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTG
1 AAA-TACCCTAG-TTTGCAAAATTACCGAAATACCCTCGACTTGTAAAATTACTG
49069607 AAATACCC
1 AAATACCC
49069615 CTGTAGGGTA
Statistics
Matches: 218, Mismatches: 48, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
53 14 0.06
54 195 0.89
55 9 0.04
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (53 bp):
AAATACCCTAGTTTGCAAAATTACCGAAATACCCTCGACTTGTAAAATTACTG
Found at i:49069453 original size:27 final size:26
Alignment explanation
Indices: 49069277--49069567 Score: 135
Period size: 27 Copynumber: 10.8 Consensus size: 26
49069267 GCTTTATGGC
*
49069277 TTACCAAAATACCC-CTGGTTTGTAAAA
1 TTACC-AAATACCCTC-GATTTGTAAAA
* *
49069304 TTACCAAA-ACACTCCTGGTTTGTAAAA
1 TTACCAAATACCCT-C-GATTTGTAAAA
* *
49069331 TTATCAAAATACCC-CTAGTTTGTAAAA
1 TTA-CCAAATACCCTCGA-TTTGTAAAA
*
49069358 TTACCAAAATACCC-CTGATTTGTGAAA
1 TTACC-AAATACCCTC-GATTTGTAAAA
* * *
49069385 TTACTGAAATACCCT-AAGTTTGCAAAA
1 TTAC-CAAATACCCTCGA-TTTGTAAAA
** *
49069412 TTATTGAAATACCCTCGACTTGTAAAA
1 TTA-CCAAATACCCTCGATTTGTAAAA
* ** *
49069439 TTACCAAAGTACCCTTGATTTACAGAA
1 TTACCAAA-TACCCTCGATTTGTAAAA
*** **
49069466 TTACCGTTTTACCCTCGATTTACAAAA
1 TTACC-AAATACCCTCGATTTGTAAAA
* * *
49069493 TTACTGAAATACCCT-AAGTTTGCAAAA
1 TTAC-CAAATACCCTCGA-TTTGTAAAA
** *
49069520 TTATTGAAATACCCTCGACTTGTAAAA
1 TTA-CCAAATACCCTCGATTTGTAAAA
*
49069547 TTACCAAAGTACCCTTGATTT
1 TTACCAAA-TACCCTCGATTT
49069568 ACAGAATTAC
Statistics
Matches: 203, Mismatches: 42, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
25 3 0.01
26 12 0.06
27 178 0.88
28 7 0.03
29 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (26 bp):
TTACCAAATACCCTCGATTTGTAAAA
Found at i:49069479 original size:81 final size:81
Alignment explanation
Indices: 49069350--49069507 Score: 185
Period size: 81 Copynumber: 2.0 Consensus size: 81
49069340 TACCCCTAGT
** * *
49069350 TTGTAAAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTA-AGTTTGCAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAAATACCCTAGA-TTTACAAAATT
*
49069414 ATTGAAATACCCTCGAC
65 ACTGAAATACCCTCGAC
* * *** *
49069431 TTGTAAAATTACCAAAGTACCCTTGATTTACAG-AATTACCGTTTTACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTT-CAGAAATTACCGAAATACCCTAGATTTACAAAATT
49069495 ACTGAAATACCCT
65 ACTGAAATACCCT
49069508 AAGTTTGCAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 62 0.97
82 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTCAGAAATTACCGAAATACCCTAGATTTACAAAATTA
CTGAAATACCCTCGAC
Found at i:49069479 original size:108 final size:108
Alignment explanation
Indices: 49069382--49069614 Score: 466
Period size: 108 Copynumber: 2.2 Consensus size: 108
49069372 CTGATTTGTG
49069382 AAATTACTGAAATACCCTAAGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
1 AAATTACTGAAATACCCTAAGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
49069447 GTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACA
66 GTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACA
49069490 AAATTACTGAAATACCCTAAGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
1 AAATTACTGAAATACCCTAAGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
49069555 GTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACA
66 GTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACA
49069598 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
49069615 CTGTAGGGTA
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 125 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (108 bp):
AAATTACTGAAATACCCTAAGTTTGCAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAA
GTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTACA
Found at i:49069575 original size:27 final size:26
Alignment explanation
Indices: 49069354--49069614 Score: 103
Period size: 27 Copynumber: 9.7 Consensus size: 26
49069344 CCTAGTTTGT
* **
49069354 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACC-AAATACCCTTGATTTAC
* * * *
49069381 GAAATTACTGAAATACCC-TAAGTTTGC
1 AAAATTAC-CAAATACCCTTGA-TTTAC
** * * **
49069408 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTA-CCAAATACCCTTGATTTAC
49069435 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* *** *
49069462 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTTGATTTAC
* * *
49069489 AAAATTACTGAAATACCC-TAAGTTTGC
1 AAAATTAC-CAAATACCCTTGA-TTTAC
** * * **
49069516 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTA-CCAAATACCCTTGATTTAC
49069543 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* *** *
49069570 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTTGATTTAC
*
49069597 AAAATTACTGAAATACCC
1 AAAATTAC-CAAATACCC
49069615 CTGTAGGGTA
Statistics
Matches: 171, Mismatches: 50, Indels: 26
0.69 0.20 0.11
Matches are distributed among these distances:
26 9 0.05
27 160 0.94
28 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Found at i:49069820 original size:27 final size:27
Alignment explanation
Indices: 49069606--49069818 Score: 302
Period size: 27 Copynumber: 7.9 Consensus size: 27
49069596 CAAAATTACT
49069606 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* *
49069633 GCAA-ACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
49069659 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
49069686 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
* * *
49069713 GAAATACCCCTTTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTATC
*
49069740 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTATC
* * *
49069767 GAAATACCCCTGTATGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTATC
* * * *
49069794 GAGATACCCTTGTGGGGTAAAATTA
1 GAAATACCCCTGTAGGGTAGAATTA
49069819 CCATTTTCCT
Statistics
Matches: 166, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 24 0.14
27 142 0.86
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:49070024 original size:6 final size:6
Alignment explanation
Indices: 49070014--49070083 Score: 79
Period size: 6 Copynumber: 11.3 Consensus size: 6
49070004 ATCTATTGCT
* * *
49070014 TGATTT TGATTC TGATTC TGATTC TGATTC TG-TCACC TGATTC TGATTT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC
49070063 TGATTC TGATTC TGATATC TG
1 TGATTC TGATTC TGAT-TC TG
49070084 GTCTGGTGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
5 1 0.02
6 46 0.84
7 7 0.13
8 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.17, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:49070417 original size:6 final size:6
Alignment explanation
Indices: 49070386--49070442 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
49070376 NNNNNNNNNN
* *
49070386 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
49070434 AGTTCTG AT
1 A-TTCTG AT
49070443 AATGTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 3 0.07
6 34 0.81
7 4 0.10
8 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:49089732 original size:45 final size:45
Alignment explanation
Indices: 49089632--49089758 Score: 147
Period size: 45 Copynumber: 2.9 Consensus size: 45
49089622 TTTTCTCAAA
* *
49089632 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
49089674 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * *
49089718 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
49089759 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 40 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:49090196 original size:38 final size:37
Alignment explanation
Indices: 49090149--49090272 Score: 158
Period size: 38 Copynumber: 3.2 Consensus size: 37
49090139 GGCATGAAGG
* * * *
49090149 CCCGAATATAATACTAGCACTAGGCCTGCGGGATTTAT
1 CCCG-ATATAATACCAGCACGAAGCCTGCGGGATTTAA
49090187 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCC-GATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
49090225 CCCGAATATAATACCAGCACGAAGCCTACAGGATTTAA
1 CCCG-ATATAATACCAGCACGAAGCCTGCGGGATTTAA
49090263 CCCGGATATA
1 CCC-GATATA
49090273 CATCGAATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
37 1 0.01
38 74 0.96
39 2 0.03
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (37 bp):
CCCGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:49090598 original size:61 final size:61
Alignment explanation
Indices: 49090524--49090646 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
49090514 AAAAGGTCAC
*
49090524 AATTCATCTAATATGTACATATTGCTCACTGATTCGTACACAACCTTTCAAATTAGCAATT
1 AATTCATCTAATATGTACATATTGCTAACTGATTCGTACACAACCTTTCAAATTAGCAATT
*
49090585 AATTCATCTAATATTTACATATTGCTAACTGATTCGTACACAACCTTTCAAATTAGCAATT
1 AATTCATCTAATATGTACATATTGCTAACTGATTCGTACACAACCTTTCAAATTAGCAATT
49090646 A
1 A
49090647 TAAGATGGTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (61 bp):
AATTCATCTAATATGTACATATTGCTAACTGATTCGTACACAACCTTTCAAATTAGCAATT
Found at i:49095196 original size:37 final size:37
Alignment explanation
Indices: 49095147--49095219 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
49095137 CATCATCATC
49095147 ATATATACTTAAACCAATATTAGCCAATACCATATGT
1 ATATATACTTAAACCAATATTAGCCAATACCATATGT
49095184 ATATATACTTAAACCAATATTAGCCAATACCATATG
1 ATATATACTTAAACCAATATTAGCCAATACCATATG
49095220 GCCATTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.32
Consensus pattern (37 bp):
ATATATACTTAAACCAATATTAGCCAATACCATATGT
Found at i:49095899 original size:42 final size:42
Alignment explanation
Indices: 49095789--49095900 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
49095779 CACCATACCA
* * *
49095789 ATGCCATATCCCAAATATGGTCTTATATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
* * *
49095831 ATGCCAATAGCCCAGCTATGGTCTTACATGA-AGTCTTATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAGA-TCTCATATCG
*
49095874 ATGTCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
49095901 CGTAATCTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 26 0.44
43 33 0.56
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
Done.