Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 19 of 205
Found at i:5846338 original size:47 final size:47
Alignment explanation
Indices: 5846250--5846341 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
5846240 CTTAATTTCG
* **
5846250 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
5846297 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
5846342 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:5846352 original size:19 final size:19
Alignment explanation
Indices: 5846329--5846378 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
5846319 AAAAATAAAA
5846329 ATTTTAGTTTTTTTA-TTTC
1 ATTTTA-TTTTTTTATTTTC
*
5846348 -TTTTTTATTTTTTATTTTC
1 ATTTTAT-TTTTTTATTTTC
5846367 ATTTTATTTTTT
1 ATTTTATTTTTT
5846379 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 1 0.04
18 11 0.42
19 9 0.35
20 5 0.19
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTC
Found at i:5846679 original size:7 final size:7
Alignment explanation
Indices: 5846667--5846756 Score: 92
Period size: 7 Copynumber: 12.9 Consensus size: 7
5846657 AATCTCTAAC
5846667 CCCTTAA
1 CCCTTAA
5846674 CCCTTAA
1 CCCTTAA
5846681 CCCTTAA
1 CCCTTAA
*
5846688 CTCTTAA
1 CCCTTAA
5846695 CCCTTAA
1 CCCTTAA
*
5846702 CCCTAAA
1 CCCTTAA
5846709 CCCTTAA
1 CCCTTAA
* *
5846716 CCCATGA
1 CCCTTAA
5846723 -CCTCTAA
1 CCCT-TAA
*
5846730 CCCCTAA
1 CCCTTAA
*
5846737 CCCCTAA
1 CCCTTAA
*
5846744 CCCCTAA
1 CCCTTAA
*
5846751 ACCTTA
1 CCCTTA
5846757 TTTAATATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
6 2 0.03
7 66 0.94
8 2 0.03
ACGTcount: A:0.30, C:0.44, G:0.01, T:0.24
Consensus pattern (7 bp):
CCCTTAA
Found at i:5846860 original size:7 final size:7
Alignment explanation
Indices: 5846850--5846889 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
5846840 CTCTTAACAT
5846850 CTAACCC
1 CTAACCC
5846857 CTAA--C
1 CTAACCC
5846862 CTAACCC
1 CTAACCC
5846869 CTAACCC
1 CTAACCC
*
5846876 CTAATCC
1 CTAACCC
5846883 CTAACCC
1 CTAACCC
5846890 ATAAACCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 5 0.17
7 24 0.83
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAACCC
Found at i:5846867 original size:12 final size:12
Alignment explanation
Indices: 5846850--5846888 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
5846840 CTCTTAACAT
5846850 CTAACCCCTAAC
1 CTAACCCCTAAC
5846862 CTAACCCCTAACCC
1 CTAACCCCTAA--C
*
5846876 CTAATCCCTAAC
1 CTAACCCCTAAC
5846888 C
1 C
5846889 CATAAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:5846873 original size:26 final size:26
Alignment explanation
Indices: 5846835--5846888 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
5846825 ACCCTAAATC
* * *
5846835 CCTAACTCTTAACATCTAACCCCTAA
1 CCTAACCCCTAACACCTAACCCCTAA
* *
5846861 CCTAACCCCTAACCCCTAATCCCTAA
1 CCTAACCCCTAACACCTAACCCCTAA
5846887 CC
1 CC
5846889 CATAAACCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.22
Consensus pattern (26 bp):
CCTAACCCCTAACACCTAACCCCTAA
Found at i:5846945 original size:14 final size:15
Alignment explanation
Indices: 5846923--5846956 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
5846913 CTTAAACCAG
*
5846923 AATCACTAA-TCCAT
1 AATCTCTAATTCCAT
5846937 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
5846952 AATCT
1 AATCT
5846957 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:5847743 original size:114 final size:113
Alignment explanation
Indices: 5847211--5847756 Score: 614
Period size: 114 Copynumber: 4.8 Consensus size: 113
5847201 GTGGCGCTTC
* * *
5847211 ATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAACGACGTCGTTGGGCTGAAGTATTTTTGCG
1 ATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTA-TTTTGCG
**
5847276 GCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCATACA
65 GCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCG-ATTTA
*** ** *
5847326 A-AAAAACGCCACTAAATTATTC-TCAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTATTATTGT
1 ATAAAAACGCCACTAAA-TCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTATT-TTGC
* * ** * * *
5847389 GGCGCTTTCACAAAAACGACGCTAAATCCCTGAGTATTAACGGCGCTTTA
64 GGCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGATTTA
*
5847439 ATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTATTGTTGTG
1 ATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTATT-TTGCG
* * * * *
5847504 GCGCTTTCACAAAAATGCCGCTAAA-TCTCTGAGTATTAGCGGCGCTTTA
65 GCGCTTTCCCAAAAACGCCGCTAAAGAC-CTGAGCATTAGCGGCGATTTA
* * * * * *
5847553 ATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGTGTTGTTTGACTGAAGTACGTTTACG
1 ATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTA-TTTTGCG
* * **
5847618 GCGCTTTCCCAAAAACGCTGCTAAAGACCTGAGCATTCGCGGCGATTGC
65 GCGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGATTTA
* * *
5847667 ATGAAAACGCCACTAAATCCCCCGAAAGCTCAG-AAACGGTGTCGTTGGGCTGAAGTACGTTTGC
1 ATAAAAACGCCACTAAAT-CCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTA-TTTTGC
* * * *
5847731 GGCGCATCCCCAAAAACACCACTAAA
64 GGCGCTTTCCCAAAAACGCCGCTAAA
5847757 TCCCCGAAAG
Statistics
Matches: 369, Mismatches: 54, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
113 8 0.02
114 342 0.93
115 19 0.05
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (113 bp):
ATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTGAAGTATTTTGCGG
CGCTTTCCCAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGATTTA
Found at i:5847777 original size:73 final size:73
Alignment explanation
Indices: 5847670--5847808 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 73
5847660 CGATTGCATG
* * **
5847670 AAAACGCCACTAAATCCCCCGAAAGCTCAGAAACGGTGTCGTTG-GGCTGAAGTAC-GTTTGCGG
1 AAAACACCACTAAATCCCCCGAAAGCTCAAAAACGGCATCG-TGAGGCTGAAGT-CTGTTTGCGG
5847733 CGCATCCCCA
64 CGCATCCCCA
*
5847743 AAAACACCACTAAAT-CCCCGAAAGCTCAAAAAACGGCATCGTGAGGCTGAAGTCTTTTTGCGGC
1 AAAACACCACTAAATCCCCCGAAAGCTC-AAAAACGGCATCGTGAGGCTGAAGTCTGTTTGCGGC
5847807 GC
65 GC
5847809 TTACTGAGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
72 15 0.26
73 43 0.74
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.18
Consensus pattern (73 bp):
AAAACACCACTAAATCCCCCGAAAGCTCAAAAACGGCATCGTGAGGCTGAAGTCTGTTTGCGGCG
CATCCCCA
Found at i:5854230 original size:23 final size:22
Alignment explanation
Indices: 5854203--5854249 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5854193 AGTAAGAATA
*
5854203 TATAAGGTTATTAATTTTATTTT
1 TATAA-GTGATTAATTTTATTTT
**
5854226 TATAAGTGATTTTTTTTATTTT
1 TATAAGTGATTAATTTTATTTT
5854248 TA
1 TA
5854250 ATTAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (22 bp):
TATAAGTGATTAATTTTATTTT
Found at i:5855320 original size:45 final size:45
Alignment explanation
Indices: 5854819--5855279 Score: 843
Period size: 45 Copynumber: 10.2 Consensus size: 45
5854809 GACTGGAGTG
* * * * *
5854819 GGTGGTGGGGGAGACTTATACTTGTAAGGG-TGCTTGGGTGGTGAG
1 GGTGGAGGTGGAGACTTGTACTTAT-AGGGATGCTTGGGTGGTGAT
*
5854864 GGTGGGGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5854909 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5854954 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5854999 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5855044 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5855089 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5855134 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5855179 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
5855224 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
1 GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
*
5855269 GGTGGGGGTGG
1 GGTGGAGGTGG
5855280 TGGAGACTTA
Statistics
Matches: 408, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
44 4 0.01
45 404 0.99
ACGTcount: A:0.17, C:0.07, G:0.46, T:0.31
Consensus pattern (45 bp):
GGTGGAGGTGGAGACTTGTACTTATAGGGATGCTTGGGTGGTGAT
Found at i:5865035 original size:5 final size:6
Alignment explanation
Indices: 5865018--5865044 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
5865008 ATATTTAATA
5865018 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
5865045 CTTGTGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:5866441 original size:57 final size:56
Alignment explanation
Indices: 5866338--5866448 Score: 134
Period size: 57 Copynumber: 1.9 Consensus size: 56
5866328 CTAGGAATTG
** *
5866338 GACTATTTTATTCTGTCACCTAGTTGCCCGACAACAATGATTTTTAGTACTTGTCCA
1 GACTATTTTATTCTACCACCTAGTTGCCCAACAACAATGA-TTTTAGTACTTGTCCA
* * *
5866395 GACTATTTTATTCTACCATCCTGGGTTGCCCAACAACGATGA-TTTAGTATTTGT
1 GACTATTTTATTCTACCA-CCT-AGTTGCCCAACAACAATGATTTTAGTACTTGT
5866449 TCACGACTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 27 0.59
58 3 0.07
59 16 0.35
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (56 bp):
GACTATTTTATTCTACCACCTAGTTGCCCAACAACAATGATTTTAGTACTTGTCCA
Found at i:5871572 original size:52 final size:52
Alignment explanation
Indices: 5871511--5871618 Score: 216
Period size: 52 Copynumber: 2.1 Consensus size: 52
5871501 GTTTAGTTAA
5871511 CTTTGTTTTGTATTTAAGGCTTCATTGTTTTATTCTTTTAACTATGAACAAT
1 CTTTGTTTTGTATTTAAGGCTTCATTGTTTTATTCTTTTAACTATGAACAAT
5871563 CTTTGTTTTGTATTTAAGGCTTCATTGTTTTATTCTTTTAACTATGAACAAT
1 CTTTGTTTTGTATTTAAGGCTTCATTGTTTTATTCTTTTAACTATGAACAAT
5871615 CTTT
1 CTTT
5871619 CATTTATAAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.22, C:0.12, G:0.11, T:0.55
Consensus pattern (52 bp):
CTTTGTTTTGTATTTAAGGCTTCATTGTTTTATTCTTTTAACTATGAACAAT
Found at i:5876177 original size:12 final size:12
Alignment explanation
Indices: 5876160--5876186 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5876150 ATATCACATC
5876160 TTTATAGGTATA
1 TTTATAGGTATA
5876172 TTTATAGGTATA
1 TTTATAGGTATA
5876184 TTT
1 TTT
5876187 GGATGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (12 bp):
TTTATAGGTATA
Found at i:5881769 original size:22 final size:21
Alignment explanation
Indices: 5881714--5881772 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
5881704 ATCAAAGAGT
* *
5881714 AAATTAGTATTTTTATTAAAA
1 AAATTAGTCTTTATATTAAAA
* *
5881735 AAATT-TTCATTTATATTATTAA
1 AAATTAGTC-TTTATATTA-AAA
5881757 AAATTAGTCTTTATAT
1 AAATTAGTCTTTATAT
5881773 GTCAACGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 13 0.43
22 14 0.47
23 2 0.07
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (21 bp):
AAATTAGTCTTTATATTAAAA
Found at i:5886933 original size:604 final size:604
Alignment explanation
Indices: 5885785--5886993 Score: 2418
Period size: 604 Copynumber: 2.0 Consensus size: 604
5885775 ATCGTTCTAC
5885785 TTCAGCCACTTGGTATTCGGGTAGAGAGCGAGGTTTTCAACGTACTAATCCAAGACCTTCCGCTC
1 TTCAGCCACTTGGTATTCGGGTAGAGAGCGAGGTTTTCAACGTACTAATCCAAGACCTTCCGCTC
5885850 CATCAGTGACCAGTGTTGGCAGTGTTGGTACCCCTAAGCCGATATGTCAGTACTGTAATAAAACT
66 CATCAGTGACCAGTGTTGGCAGTGTTGGTACCCCTAAGCCGATATGTCAGTACTGTAATAAAACT
5885915 CATTTTGGTGAATGCTGATTAAAGAGCGGGGCTTGTTACCGATGTGGTTCTTTCGATCATTTCCT
131 CATTTTGGTGAATGCTGATTAAAGAGCGGGGCTTGTTACCGATGTGGTTCTTTCGATCATTTCCT
5885980 TAGAGATTGTCTAGAAAGAGGTAAAAAAGAAGTTGAACAGACATCGAAGTTGAGTAATCCAGTTT
196 TAGAGATTGTCTAGAAAGAGGTAAAAAAGAAGTTGAACAGACATCGAAGTTGAGTAATCCAGTTT
5886045 CGAGGGGTAGACCATCTCGACCATCTGGTAATGTCAGTGGTAGCCGAAGAGCTACGAAAGATACT
261 CGAGGGGTAGACCATCTCGACCATCTGGTAATGTCAGTGGTAGCCGAAGAGCTACGAAAGATACT
5886110 GCAGACAGGCCTGAGGCACGAGCACCTGCTAGGACATATGCCATCCGTGCTAGAGAAGAGGCCTC
326 GCAGACAGGCCTGAGGCACGAGCACCTGCTAGGACATATGCCATCCGTGCTAGAGAAGAGGCCTC
5886175 AGCACCCGATGTTATTACTGGTACATTTTCTTTACTTGATACTGATATTACTGCATTGATTAATC
391 AGCACCCGATGTTATTACTGGTACATTTTCTTTACTTGATACTGATATTACTGCATTGATTAATC
5886240 CTGGTTCTACGCATTCATATATATATGTGTTAAACTTGCATTTGTTAAAAATTTATCTGTTGAAC
456 CTGGTTCTACGCATTCATATATATATGTGTTAAACTTGCATTTGTTAAAAATTTATCTGTTGAAC
5886305 ATACTGAATTTGTGGTTAAAGTCTCAAATCCCCTAGGCCAGTTTGTGATGGTGGATAAAGTTTGT
521 ATACTGAATTTGTGGTTAAAGTCTCAAATCCCCTAGGCCAGTTTGTGATGGTGGATAAAGTTTGT
5886370 AAAAATTGTCCACTGATGG
586 AAAAATTGTCCACTGATGG
5886389 TTCAGCCACTTGGTATTCGGGTAGAGAGCGAGGTTTTCAACGTACTAATCCAAGACCTTCCGCTC
1 TTCAGCCACTTGGTATTCGGGTAGAGAGCGAGGTTTTCAACGTACTAATCCAAGACCTTCCGCTC
5886454 CATCAGTGACCAGTGTTGGCAGTGTTGGTACCCCTAAGCCGATATGTCAGTACTGTAATAAAACT
66 CATCAGTGACCAGTGTTGGCAGTGTTGGTACCCCTAAGCCGATATGTCAGTACTGTAATAAAACT
5886519 CATTTTGGTGAATGCTGATTAAAGAGCGGGGCTTGTTACCGATGTGGTTCTTTCGATCATTTCCT
131 CATTTTGGTGAATGCTGATTAAAGAGCGGGGCTTGTTACCGATGTGGTTCTTTCGATCATTTCCT
5886584 TAGAGATTGTCTAGAAAGAGGTAAAAAAGAAGTTGAACAGACATCGAAGTTGAGTAATCCAGTTT
196 TAGAGATTGTCTAGAAAGAGGTAAAAAAGAAGTTGAACAGACATCGAAGTTGAGTAATCCAGTTT
5886649 CGAGGGGTAGACCATCTCGACCATCTGGTAATGTCAGTGGTAGCCGAAGAGCTACGAAAGATACT
261 CGAGGGGTAGACCATCTCGACCATCTGGTAATGTCAGTGGTAGCCGAAGAGCTACGAAAGATACT
5886714 GCAGACAGGCCTGAGGCACGAGCACCTGCTAGGACATATGCCATCCGTGCTAGAGAAGAGGCCTC
326 GCAGACAGGCCTGAGGCACGAGCACCTGCTAGGACATATGCCATCCGTGCTAGAGAAGAGGCCTC
5886779 AGCACCCGATGTTATTACTGGTACATTTTCTTTACTTGATACTGATATTACTGCATTGATTAATC
391 AGCACCCGATGTTATTACTGGTACATTTTCTTTACTTGATACTGATATTACTGCATTGATTAATC
5886844 CTGGTTCTACGCATTCATATATATATGTGTTAAACTTGCATTTGTTAAAAATTTATCTGTTGAAC
456 CTGGTTCTACGCATTCATATATATATGTGTTAAACTTGCATTTGTTAAAAATTTATCTGTTGAAC
5886909 ATACTGAATTTGTGGTTAAAGTCTCAAATCCCCTAGGCCAGTTTGTGATGGTGGATAAAGTTTGT
521 ATACTGAATTTGTGGTTAAAGTCTCAAATCCCCTAGGCCAGTTTGTGATGGTGGATAAAGTTTGT
5886974 AAAAATTGTCCACTGATGG
586 AAAAATTGTCCACTGATGG
5886993 T
1 T
5886994 AAGAGGTTAT
Statistics
Matches: 605, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
604 605 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (604 bp):
TTCAGCCACTTGGTATTCGGGTAGAGAGCGAGGTTTTCAACGTACTAATCCAAGACCTTCCGCTC
CATCAGTGACCAGTGTTGGCAGTGTTGGTACCCCTAAGCCGATATGTCAGTACTGTAATAAAACT
CATTTTGGTGAATGCTGATTAAAGAGCGGGGCTTGTTACCGATGTGGTTCTTTCGATCATTTCCT
TAGAGATTGTCTAGAAAGAGGTAAAAAAGAAGTTGAACAGACATCGAAGTTGAGTAATCCAGTTT
CGAGGGGTAGACCATCTCGACCATCTGGTAATGTCAGTGGTAGCCGAAGAGCTACGAAAGATACT
GCAGACAGGCCTGAGGCACGAGCACCTGCTAGGACATATGCCATCCGTGCTAGAGAAGAGGCCTC
AGCACCCGATGTTATTACTGGTACATTTTCTTTACTTGATACTGATATTACTGCATTGATTAATC
CTGGTTCTACGCATTCATATATATATGTGTTAAACTTGCATTTGTTAAAAATTTATCTGTTGAAC
ATACTGAATTTGTGGTTAAAGTCTCAAATCCCCTAGGCCAGTTTGTGATGGTGGATAAAGTTTGT
AAAAATTGTCCACTGATGG
Found at i:5891571 original size:20 final size:20
Alignment explanation
Indices: 5891546--5891584 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5891536 TCTCCTCACT
* *
5891546 AACCACTAATCACATCATAG
1 AACCACCAATCACACCATAG
5891566 AACCACCAATCACACCATA
1 AACCACCAATCACACCATA
5891585 CATCAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.36, G:0.03, T:0.15
Consensus pattern (20 bp):
AACCACCAATCACACCATAG
Found at i:5893442 original size:12 final size:12
Alignment explanation
Indices: 5893427--5893451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5893417 CTCAATATGC
5893427 ATCACATATCAT
1 ATCACATATCAT
5893439 ATCACATATCAT
1 ATCACATATCAT
5893451 A
1 A
5893452 AGCATAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
ATCACATATCAT
Found at i:5894607 original size:18 final size:19
Alignment explanation
Indices: 5894584--5894622 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
5894574 TATTTTAAAA
5894584 TTTAAAGTAA-TA-TATATT
1 TTTAAA-TAATTATTATATT
5894602 TTTAAATAATTATTATATT
1 TTTAAATAATTATTATATT
5894621 TT
1 TT
5894623 ATTATTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 8 0.42
19 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTAAATAATTATTATATT
Found at i:5894871 original size:13 final size:13
Alignment explanation
Indices: 5894853--5894877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5894843 TCTTTATAAT
5894853 AAATTTATTTTAA
1 AAATTTATTTTAA
5894866 AAATTTATTTTA
1 AAATTTATTTTA
5894878 TATGATAAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AAATTTATTTTAA
Found at i:5897500 original size:16 final size:17
Alignment explanation
Indices: 5897475--5897507 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
5897465 AAATTTTTTG
5897475 AAAAATATTCAATATAT
1 AAAAATATTCAATATAT
5897492 AAAAA-ATTCAATATAT
1 AAAAATATTCAATATAT
5897508 CAAGTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAAATATTCAATATAT
Found at i:5900749 original size:53 final size:53
Alignment explanation
Indices: 5900660--5900763 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
5900650 TTAACACTAA
* * *
5900660 TTTAATCTAAAAAATGTTTTTAAATTTTTTTTAATAAAGTGGTATTTTTGTTT
1 TTTAATCCAAAAAATGTCTTTAAATTTTTTTTAATAAAGTGATATTTTTGTTT
5900713 TTTACATCCAAAAAATGTCTTT-AATTTTTTTTAATAAAGTGATATTTTTGT
1 TTTA-ATCCAAAAAATGTCTTTAAATTTTTTTTAATAAAGTGATATTTTTGT
5900764 AAATGTTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 32 0.68
54 15 0.32
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.54
Consensus pattern (53 bp):
TTTAATCCAAAAAATGTCTTTAAATTTTTTTTAATAAAGTGATATTTTTGTTT
Found at i:5907604 original size:14 final size:14
Alignment explanation
Indices: 5907580--5907626 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
5907570 TATAGGTATC
*
5907580 TAAAAAAATAAATGG
1 TAAATAAATAAA-GG
5907595 -AAATAAATAAAGG
1 TAAATAAATAAAGG
*
5907608 TAAATAAA-AAAAG
1 TAAATAAATAAAGG
5907621 TAAATA
1 TAAATA
5907627 TATATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 12 0.41
14 17 0.59
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (14 bp):
TAAATAAATAAAGG
Found at i:5915499 original size:3 final size:3
Alignment explanation
Indices: 5915491--5915521 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
5915481 TCGGAAAAAC
5915491 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5915522 GTGGTCTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5918130 original size:19 final size:19
Alignment explanation
Indices: 5918085--5918133 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
5918075 CTGACATGTA
* * * *
5918085 AAGTGCATACTGGCGCTCG
1 AAGTGCATCCTGGCACACC
*
5918104 AAGCGCATCCTGGCACACC
1 AAGTGCATCCTGGCACACC
5918123 AAGTGCATCCT
1 AAGTGCATCCT
5918134 AGAGCGTAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (19 bp):
AAGTGCATCCTGGCACACC
Found at i:5920293 original size:43 final size:43
Alignment explanation
Indices: 5920240--5920334 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 43
5920230 ATAGGATTTC
* *
5920240 CGATATGTGTTTTTGTGTAAGACCAC-GTCTAGGACATTGGCAT
1 CGATATGTGTTTTCGTGTAAGACC-CTGTCTAGGACAGTGGCAT
*
5920283 CGATTTGTGTTTTCGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 CGATATGTGTTTTCGTGTAAGACCCTGTCTAGGACAGTGGCAT
*
5920326 CGATCTGTG
1 CGATATGTG
5920335 ATTACATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 46 0.98
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (43 bp):
CGATATGTGTTTTCGTGTAAGACCCTGTCTAGGACAGTGGCAT
Found at i:5920345 original size:43 final size:43
Alignment explanation
Indices: 5920255--5920368 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
5920245 TGTGTTTTTG
* * * * *
5920255 TGTAAGACCACGTCTAGGACATTGGCATCGATTTGTGTTTTCG
1 TGTAAGACCACGTCTAGGACAGTGGCATCGATCTGTGATTACA
5920298 TGTAAGACC-CTGTCTAGGACAGTGGCATCGATCTGTGATTACA
1 TGTAAGACCAC-GTCTAGGACAGTGGCATCGATCTGTGATTACA
* * *
5920341 TGTAATACCACATCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTAGGACAG-TGGCAT
5920369 TGTACGAGCC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.03
43 57 0.95
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACAGTGGCATCGATCTGTGATTACA
Found at i:5927992 original size:43 final size:43
Alignment explanation
Indices: 5927902--5928015 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 43
5927892 ATCTATTTTG
* * * * * *
5927902 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGTTTTCG
1 TGTAAGACCACGTCTAGGACGGTGGCATCGATCTGTGATTACA
5927945 TGTAAGACC-CTGTCTAGGACGGTGGCATCGATCTGTGATTACA
1 TGTAAGACCAC-GTCTAGGACGGTGGCATCGATCTGTGATTACA
* * * *
5927988 TGTAATACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGGTGGCAT
5928016 TGTACGAGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.02
43 57 0.97
44 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACGGTGGCATCGATCTGTGATTACA
Found at i:5930171 original size:33 final size:33
Alignment explanation
Indices: 5930142--5930206 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
5930132 GTCCAAAGAT
* *
5930142 GAGCTAACTTAAAGAGCAACCTCACCCAAAAAA
1 GAGCTAACTAAAAGACCAACCTCACCCAAAAAA
* * *
5930175 GGGCTAGCTAAAAGACCAACCTCATCCAAAAA
1 GAGCTAACTAAAAGACCAACCTCACCCAAAAA
5930207 GAGTTGCCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.46, C:0.28, G:0.14, T:0.12
Consensus pattern (33 bp):
GAGCTAACTAAAAGACCAACCTCACCCAAAAAA
Found at i:5930226 original size:17 final size:17
Alignment explanation
Indices: 5930204--5930243 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
5930194 CCTCATCCAA
* *
5930204 AAAGAGTTGCCTCGCCC
1 AAAGAGTAGCCTCACCC
*
5930221 AAAGAGTAGCCTTACCC
1 AAAGAGTAGCCTCACCC
5930238 AAAGAG
1 AAAGAG
5930244 GTACCTAGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.28, G:0.23, T:0.15
Consensus pattern (17 bp):
AAAGAGTAGCCTCACCC
Found at i:5954937 original size:28 final size:28
Alignment explanation
Indices: 5954906--5954962 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
5954896 ATATCAATTA
5954906 TAGGTAAGTATACATACGCTCTATTAAC
1 TAGGTAAGTATACATACGCTCTATTAAC
5954934 TAGGTAAGTATACATACGCTCTATTAAC
1 TAGGTAAGTATACATACGCTCTATTAAC
5954962 T
1 T
5954963 TGAATTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (28 bp):
TAGGTAAGTATACATACGCTCTATTAAC
Found at i:5956157 original size:35 final size:37
Alignment explanation
Indices: 5956094--5956163 Score: 126
Period size: 36 Copynumber: 1.9 Consensus size: 37
5956084 AATATAGCTT
5956094 CCAGTGTCATGATTTCTTTTAAGTTTTGTA-AATTAA
1 CCAGTGTCATGATTTCTTTTAAGTTTTGTATAATTAA
5956130 CCAGTGTCATGATTTC-TTTAAGTTTTGTATAATT
1 CCAGTGTCATGATTTCTTTTAAGTTTTGTATAATT
5956164 TAGTTGTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 13 0.39
36 20 0.61
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (37 bp):
CCAGTGTCATGATTTCTTTTAAGTTTTGTATAATTAA
Found at i:5958747 original size:89 final size:91
Alignment explanation
Indices: 5958641--5958821 Score: 305
Period size: 91 Copynumber: 2.0 Consensus size: 91
5958631 TTGGAACTTT
*
5958641 GGATAATTGGAGCATG-CCC-AATGTGAGTAAAGACAATGTGATGCAGACGTAAA-GGGGATAAA
1 GGATAATTGGAGCATGCCCCTAATGTGAGTAAAGACAATGTGATGCAGACGAAAATGGGG-TAAA
5958703 TGCAGGAACGGGTTTAGATTTTAGAAG
65 TGCAGGAACGGGTTTAGATTTTAGAAG
*
5958730 GGATAATTGGAGCATGCCCCTATTGTGAGTAAAGACAATGTGATGCAGACGAAAATGGGGTAAAT
1 GGATAATTGGAGCATGCCCCTAATGTGAGTAAAGACAATGTGATGCAGACGAAAATGGGGTAAAT
*
5958795 GCAGTAACGGGTTTAGATTTTAGAAG
66 GCAGGAACGGGTTTAGATTTTAGAAG
5958821 G
1 G
5958822 ATTTGCATGA
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
89 16 0.19
90 3 0.03
91 63 0.73
92 4 0.05
ACGTcount: A:0.35, C:0.10, G:0.31, T:0.24
Consensus pattern (91 bp):
GGATAATTGGAGCATGCCCCTAATGTGAGTAAAGACAATGTGATGCAGACGAAAATGGGGTAAAT
GCAGGAACGGGTTTAGATTTTAGAAG
Found at i:5967261 original size:2 final size:2
Alignment explanation
Indices: 5967254--5967292 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5967244 TATAATTATA
5967254 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
5967293 ATAATTGGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:5967842 original size:2 final size:2
Alignment explanation
Indices: 5967835--5967885 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
5967825 TTGTAGTGGC
5967835 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
5967877 AG AG AG AG A
1 AG AG AG AG A
5967886 TTTTGATTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5968672 original size:24 final size:24
Alignment explanation
Indices: 5968625--5968676 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
5968615 GTTTAAATAA
*
5968625 TAAAAATATTATATAAATTTAATT
1 TAAAAATATTATATAAATTCAATT
5968649 GTAAAAATA-TATA-AAATATCAATT
1 -TAAAAATATTATATAAAT-TCAATT
5968673 TAAA
1 TAAA
5968677 TTAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 8 0.32
24 9 0.36
25 8 0.32
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAAATATTATATAAATTCAATT
Found at i:5968672 original size:29 final size:27
Alignment explanation
Indices: 5968635--5968692 Score: 71
Period size: 29 Copynumber: 2.1 Consensus size: 27
5968625 TAAAAATATT
* *
5968635 ATATAAATTTAATTGTAAAAATATATAAA
1 ATATAAATTTAAAT-TAAAAAAAT-TAAA
*
5968664 ATATCAATTTAAATTAAAAAAATTAAA
1 ATATAAATTTAAATTAAAAAAATTAAA
5968691 AT
1 AT
5968693 TTTATTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 8 0.31
29 12 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
ATATAAATTTAAATTAAAAAAATTAAA
Found at i:5976365 original size:16 final size:16
Alignment explanation
Indices: 5976339--5976380 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5976329 AAGAGTTTTG
*
5976339 AATTTAAGTTGAACTA
1 AATTGAAGTTGAACTA
*
5976355 TATTGAAGTTGAACTA
1 AATTGAAGTTGAACTA
*
5976371 AATTTAAGTT
1 AATTGAAGTT
5976381 TTGAATTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (16 bp):
AATTGAAGTTGAACTA
Found at i:5981406 original size:18 final size:18
Alignment explanation
Indices: 5981376--5981410 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5981366 TTTCTGAAAA
5981376 TGAAAAGCCAACAGAACAT
1 TGAAAAGCCAACA-AACAT
5981395 TGAAAA-CCAACAAACA
1 TGAAAAGCCAACAAACA
5981411 AGTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.09
Consensus pattern (18 bp):
TGAAAAGCCAACAAACAT
Found at i:5983169 original size:25 final size:25
Alignment explanation
Indices: 5983135--5983182 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
5983125 CCCAGCATAA
5983135 ATGCATAACTTGAAGTACTCTTTTT
1 ATGCATAACTTGAAGTACTCTTTTT
5983160 ATGCATAACTTGAAGTACTCTTT
1 ATGCATAACTTGAAGTACTCTTT
5983183 CTATCATCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (25 bp):
ATGCATAACTTGAAGTACTCTTTTT
Found at i:5987311 original size:12 final size:12
Alignment explanation
Indices: 5987294--5987334 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
5987284 TTTATTAATT
5987294 ATTTTTTAAATAA
1 ATTTTTTAAA-AA
5987307 ATTTTTTAAAAA
1 ATTTTTTAAAAA
5987319 ATATTTATTAAAAA
1 AT-TTT-TTAAAAA
5987333 AT
1 AT
5987335 GAATTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.15
13 13 0.50
14 9 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTTTTAAAAA
Found at i:5987312 original size:14 final size:14
Alignment explanation
Indices: 5987293--5987334 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
5987283 TTTTATTAAT
*
5987293 TATTTTTTAAATAA
1 TATTTTTTAAAAAA
5987307 -ATTTTTTAAAAAA
1 TATTTTTTAAAAAA
*
5987320 TATTTATTAAAAAA
1 TATTTTTTAAAAAA
5987334 T
1 T
5987335 GAATTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTTTTAAAAAA
Found at i:5988734 original size:54 final size:55
Alignment explanation
Indices: 5988646--5988750 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 55
5988636 CGACGTCCTC
* * * * * *
5988646 CTCTCTCTCTCCATCTTTAAACGAGATGTGTTTCCTTTTAAA-TCATAACACCCT
1 CTCTCTCTCTCCAACTTTAAACCAAATGTCTTTCCGTTTAAACCCATAACACCCT
*
5988700 CTCTCTCTCTCCAACTTTAAGCCAAATGTCTTTCCGTTTAAACCCATAACA
1 CTCTCTCTCTCCAACTTTAAACCAAATGTCTTTCCGTTTAAACCCATAACA
5988751 ATAGCTCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 36 0.84
55 7 0.16
ACGTcount: A:0.26, C:0.31, G:0.07, T:0.36
Consensus pattern (55 bp):
CTCTCTCTCTCCAACTTTAAACCAAATGTCTTTCCGTTTAAACCCATAACACCCT
Found at i:5992651 original size:23 final size:23
Alignment explanation
Indices: 5992621--5992666 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
5992611 TATTAATCAC
*
5992621 ATGTGCCTTCATTCTTTTAGGAT
1 ATGTGCCTTCATTCATTTAGGAT
5992644 ATGTGCCTTCATTCATTTAGGAT
1 ATGTGCCTTCATTCATTTAGGAT
5992667 TTGAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (23 bp):
ATGTGCCTTCATTCATTTAGGAT
Found at i:6001921 original size:895 final size:895
Alignment explanation
Indices: 6000192--6001981 Score: 3580
Period size: 895 Copynumber: 2.0 Consensus size: 895
6000182 CGAGGAAAAT
6000192 GGAAAAGTATCAAAATGTCCCTGAATTTTGGTATTTCTGTAATTTAGCCTTGTAATTTTGTCTAA
1 GGAAAAGTATCAAAATGTCCCTGAATTTTGGTATTTCTGTAATTTAGCCTTGTAATTTTGTCTAA
6000257 CTTGAATTATATTCTTAAATGCTTGAAATGTATGTTATTGATGTGAATATGATTTGAATGTTCAT
66 CTTGAATTATATTCTTAAATGCTTGAAATGTATGTTATTGATGTGAATATGATTTGAATGTTCAT
6000322 TATATGAAAATTGATGAAACATTGATATAGTTTATAAAAAGGGGAAGAAATCCCGGTTGAATGAA
131 TATATGAAAATTGATGAAACATTGATATAGTTTATAAAAAGGGGAAGAAATCCCGGTTGAATGAA
6000387 AGAAAAATTCGATGGATCTCTGAAAAGGAATTGATGGTAAAAAGGATCTAGCCCGGATGGGTGAT
196 AGAAAAATTCGATGGATCTCTGAAAAGGAATTGATGGTAAAAAGGATCTAGCCCGGATGGGTGAT
6000452 CCTATCCTGATATAGGCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCTAGACGGGTAATCCG
261 CCTATCCTGATATAGGCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCTAGACGGGTAATCCG
6000517 AATTAGGGTCTGAATTGAGCCTGGATTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCATT
326 AATTAGGGTCTGAATTGAGCCTGGATTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCATT
6000582 GCAGGGGATTTAGCCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTT
391 GCAGGGGATTTAGCCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTT
6000647 AGCCTGGACTGGTAATCCCGCTATAAGGACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAAT
456 AGCCTGGACTGGTAATCCCGCTATAAGGACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAAT
6000712 GTGTACACATGAATATGAATTGACGGACTCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCA
521 GTGTACACATGAATATGAATTGACGGACTCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCA
6000777 TCGAAATTCCAAGTAGTTCAACGGGATAAATATGGAAAATAATAAGGGTAATAGAAAATATGGAA
586 TCGAAATTCCAAGTAGTTCAACGGGATAAATATGGAAAATAATAAGGGTAATAGAAAATATGGAA
6000842 TTGAATTATTATTGGAAATATATTATCGAATTTAATACCCAGTTTGGATTGAACGCGGGATTGAG
651 TTGAATTATTATTGGAAATATATTATCGAATTTAATACCCAGTTTGGATTGAACGCGGGATTGAG
6000907 TACAATCGTTCTGTGCCAAAGGATGAATTGACAGATAAGACCATAACTGGGCTATGGCATTACAA
716 TACAATCGTTCTGTGCCAAAGGATGAATTGACAGATAAGACCATAACTGGGCTATGGCATTACAA
6000972 ATGTAAAGGAGGAATTGACAGTAAATTACCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTT
781 ATGTAAAGGAGGAATTGACAGTAAATTACCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTT
6001037 TTGTGTTTACTATCTGTTTAGCTCTCATGAGCTTAAGTTCAGCCTTCGGG
846 TTGTGTTTACTATCTGTTTAGCTCTCATGAGCTTAAGTTCAGCCTTCGGG
6001087 GGAAAAGTATCAAAATGTCCCTGAATTTTGGTATTTCTGTAATTTAGCCTTGTAATTTTGTCTAA
1 GGAAAAGTATCAAAATGTCCCTGAATTTTGGTATTTCTGTAATTTAGCCTTGTAATTTTGTCTAA
6001152 CTTGAATTATATTCTTAAATGCTTGAAATGTATGTTATTGATGTGAATATGATTTGAATGTTCAT
66 CTTGAATTATATTCTTAAATGCTTGAAATGTATGTTATTGATGTGAATATGATTTGAATGTTCAT
6001217 TATATGAAAATTGATGAAACATTGATATAGTTTATAAAAAGGGGAAGAAATCCCGGTTGAATGAA
131 TATATGAAAATTGATGAAACATTGATATAGTTTATAAAAAGGGGAAGAAATCCCGGTTGAATGAA
6001282 AGAAAAATTCGATGGATCTCTGAAAAGGAATTGATGGTAAAAAGGATCTAGCCCGGATGGGTGAT
196 AGAAAAATTCGATGGATCTCTGAAAAGGAATTGATGGTAAAAAGGATCTAGCCCGGATGGGTGAT
6001347 CCTATCCTGATATAGGCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCTAGACGGGTAATCCG
261 CCTATCCTGATATAGGCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCTAGACGGGTAATCCG
6001412 AATTAGGGTCTGAATTGAGCCTGGATTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCATT
326 AATTAGGGTCTGAATTGAGCCTGGATTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCATT
6001477 GCAGGGGATTTAGCCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTT
391 GCAGGGGATTTAGCCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTT
6001542 AGCCTGGACTGGTAATCCCGCTATAAGGACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAAT
456 AGCCTGGACTGGTAATCCCGCTATAAGGACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAAT
6001607 GTGTACACATGAATATGAATTGACGGACTCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCA
521 GTGTACACATGAATATGAATTGACGGACTCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCA
6001672 TCGAAATTCCAAGTAGTTCAACGGGATAAATATGGAAAATAATAAGGGTAATAGAAAATATGGAA
586 TCGAAATTCCAAGTAGTTCAACGGGATAAATATGGAAAATAATAAGGGTAATAGAAAATATGGAA
6001737 TTGAATTATTATTGGAAATATATTATCGAATTTAATACCCAGTTTGGATTGAACGCGGGATTGAG
651 TTGAATTATTATTGGAAATATATTATCGAATTTAATACCCAGTTTGGATTGAACGCGGGATTGAG
6001802 TACAATCGTTCTGTGCCAAAGGATGAATTGACAGATAAGACCATAACTGGGCTATGGCATTACAA
716 TACAATCGTTCTGTGCCAAAGGATGAATTGACAGATAAGACCATAACTGGGCTATGGCATTACAA
6001867 ATGTAAAGGAGGAATTGACAGTAAATTACCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTT
781 ATGTAAAGGAGGAATTGACAGTAAATTACCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTT
6001932 TTGTGTTTACTATCTGTTTAGCTCTCATGAGCTTAAGTTCAGCCTTCGGG
846 TTGTGTTTACTATCTGTTTAGCTCTCATGAGCTTAAGTTCAGCCTTCGGG
6001982 CTTCTGAAAA
Statistics
Matches: 895, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
895 895 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (895 bp):
GGAAAAGTATCAAAATGTCCCTGAATTTTGGTATTTCTGTAATTTAGCCTTGTAATTTTGTCTAA
CTTGAATTATATTCTTAAATGCTTGAAATGTATGTTATTGATGTGAATATGATTTGAATGTTCAT
TATATGAAAATTGATGAAACATTGATATAGTTTATAAAAAGGGGAAGAAATCCCGGTTGAATGAA
AGAAAAATTCGATGGATCTCTGAAAAGGAATTGATGGTAAAAAGGATCTAGCCCGGATGGGTGAT
CCTATCCTGATATAGGCCTCCCGAAGAATATGTGGAAAATGGATTTAGCCTAGACGGGTAATCCG
AATTAGGGTCTGAATTGAGCCTGGATTGGTAATTCAGATCCAAGCTCATTAGAGTAATTGTCATT
GCAGGGGATTTAGCCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGGATTT
AGCCTGGACTGGTAATCCCGCTATAAGGACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAAT
GTGTACACATGAATATGAATTGACGGACTCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCA
TCGAAATTCCAAGTAGTTCAACGGGATAAATATGGAAAATAATAAGGGTAATAGAAAATATGGAA
TTGAATTATTATTGGAAATATATTATCGAATTTAATACCCAGTTTGGATTGAACGCGGGATTGAG
TACAATCGTTCTGTGCCAAAGGATGAATTGACAGATAAGACCATAACTGGGCTATGGCATTACAA
ATGTAAAGGAGGAATTGACAGTAAATTACCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTT
TTGTGTTTACTATCTGTTTAGCTCTCATGAGCTTAAGTTCAGCCTTCGGG
Found at i:6003153 original size:822 final size:822
Alignment explanation
Indices: 6001570--6003214 Score: 3290
Period size: 822 Copynumber: 2.0 Consensus size: 822
6001560 CGCTATAAGG
6001570 ACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAATGTGTACACATGAATATGAATTGACGGAC
1 ACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAATGTGTACACATGAATATGAATTGACGGAC
6001635 TCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCATCGAAATTCCAAGTAGTTCAACGGGATA
66 TCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCATCGAAATTCCAAGTAGTTCAACGGGATA
6001700 AATATGGAAAATAATAAGGGTAATAGAAAATATGGAATTGAATTATTATTGGAAATATATTATCG
131 AATATGGAAAATAATAAGGGTAATAGAAAATATGGAATTGAATTATTATTGGAAATATATTATCG
6001765 AATTTAATACCCAGTTTGGATTGAACGCGGGATTGAGTACAATCGTTCTGTGCCAAAGGATGAAT
196 AATTTAATACCCAGTTTGGATTGAACGCGGGATTGAGTACAATCGTTCTGTGCCAAAGGATGAAT
6001830 TGACAGATAAGACCATAACTGGGCTATGGCATTACAAATGTAAAGGAGGAATTGACAGTAAATTA
261 TGACAGATAAGACCATAACTGGGCTATGGCATTACAAATGTAAAGGAGGAATTGACAGTAAATTA
6001895 CCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTTTTGTGTTTACTATCTGTTTAGCTCTCAT
326 CCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTTTTGTGTTTACTATCTGTTTAGCTCTCAT
6001960 GAGCTTAAGTTCAGCCTTCGGGCTTCTGAAAACGATGTACTCATATCCGTAAGTCGTTCTTCGAT
391 GAGCTTAAGTTCAGCCTTCGGGCTTCTGAAAACGATGTACTCATATCCGTAAGTCGTTCTTCGAT
6002025 ACAGAAAGAAACGGTAAAAGACTTTTGTGGTTGAATTGAAAGATTTATAGATTATTATTGGTATT
456 ACAGAAAGAAACGGTAAAAGACTTTTGTGGTTGAATTGAAAGATTTATAGATTATTATTGGTATT
6002090 GATCTAAAATAAATGTAACCATTGATATTTAAATGATATAACGGGTAAAGTTTTGAAGTGAGATA
521 GATCTAAAATAAATGTAACCATTGATATTTAAATGATATAACGGGTAAAGTTTTGAAGTGAGATA
6002155 ACATGAGAACTATTACCGGTATGTACGCGAAATTCATAAAAATGATGGTACATGAAATATTGAAA
586 ACATGAGAACTATTACCGGTATGTACGCGAAATTCATAAAAATGATGGTACATGAAATATTGAAA
6002220 TAATGAAATGAATGATATATACCTATTAAGAAACTATAAGAGAATGATATGTATCATGACATGTA
651 TAATGAAATGAATGATATATACCTATTAAGAAACTATAAGAGAATGATATGTATCATGACATGTA
6002285 AATGTATGATTATCTTTAATATGTTGAAACAAGAAAATTATGCATGATGAGTTTATATGTAATGT
716 AATGTATGATTATCTTTAATATGTTGAAACAAGAAAATTATGCATGATGAGTTTATATGTAATGT
6002350 GTGCAAGTACACTAATCAGTATTGTTGCTTGATGCTTAGGCA
781 GTGCAAGTACACTAATCAGTATTGTTGCTTGATGCTTAGGCA
6002392 ACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAATGTGTACACATGAATATGAATTGACGGAC
1 ACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAATGTGTACACATGAATATGAATTGACGGAC
6002457 TCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCATCGAAATTCCAAGTAGTTCAACGGGATA
66 TCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCATCGAAATTCCAAGTAGTTCAACGGGATA
6002522 AATATGGAAAATAATAAGGGTAATAGAAAATATGGAATTGAATTATTATTGGAAATATATTATCG
131 AATATGGAAAATAATAAGGGTAATAGAAAATATGGAATTGAATTATTATTGGAAATATATTATCG
6002587 AATTTAATACCCAGTTTGGATTGAACGCGGGATTGAGTACAATCGTTCTGTGCCAAAGGATGAAT
196 AATTTAATACCCAGTTTGGATTGAACGCGGGATTGAGTACAATCGTTCTGTGCCAAAGGATGAAT
6002652 TGACAGATAAGACCATAACTGGGCTATGGCATTACAAATGTAAAGGAGGAATTGACAGTAAATTA
261 TGACAGATAAGACCATAACTGGGCTATGGCATTACAAATGTAAAGGAGGAATTGACAGTAAATTA
6002717 CCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTTTTGTGTTTACTATCTGTTTAGCTCTCAT
326 CCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTTTTGTGTTTACTATCTGTTTAGCTCTCAT
6002782 GAGCTTAAGTTCAGCCTTCGGGCTTCTGAAAACGATGTACTCATATCCGTAAGTCGTTCTTCGAT
391 GAGCTTAAGTTCAGCCTTCGGGCTTCTGAAAACGATGTACTCATATCCGTAAGTCGTTCTTCGAT
6002847 ACAGAAAGAAACGGTAAAAGACTTTTGTGGTTGAATTGAAAGATTTATAGATTATTATTGGTATT
456 ACAGAAAGAAACGGTAAAAGACTTTTGTGGTTGAATTGAAAGATTTATAGATTATTATTGGTATT
6002912 GATCTAAAATAAATGTAACCATTGATATTTAAATGATATAACGGGTAAAGTTTTGAAGTGAGATA
521 GATCTAAAATAAATGTAACCATTGATATTTAAATGATATAACGGGTAAAGTTTTGAAGTGAGATA
6002977 ACATGAGAACTATTACCGGTATGTACGCGAAATTCATAAAAATGATGGTACATGAAATATTGAAA
586 ACATGAGAACTATTACCGGTATGTACGCGAAATTCATAAAAATGATGGTACATGAAATATTGAAA
6003042 TAATGAAATGAATGATATATACCTATTAAGAAACTATAAGAGAATGATATGTATCATGACATGTA
651 TAATGAAATGAATGATATATACCTATTAAGAAACTATAAGAGAATGATATGTATCATGACATGTA
6003107 AATGTATGATTATCTTTAATATGTTGAAACAAGAAAATTATGCATGATGAGTTTATATGTAATGT
716 AATGTATGATTATCTTTAATATGTTGAAACAAGAAAATTATGCATGATGAGTTTATATGTAATGT
6003172 GTGCAAGTACACTAATCAGTATTGTTGCTTGATGCTTAGGCA
781 GTGCAAGTACACTAATCAGTATTGTTGCTTGATGCTTAGGCA
6003214 A
1 A
6003215 GTGCCAAGCT
Statistics
Matches: 823, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
822 823 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (822 bp):
ACGAGGTTCGCGGGAGTGTGCTCTCTGAAATGGAAATGTGTACACATGAATATGAATTGACGGAC
TCGGATTTGTACACTTAGGTGTACCCCTGAAAATCCATCGAAATTCCAAGTAGTTCAACGGGATA
AATATGGAAAATAATAAGGGTAATAGAAAATATGGAATTGAATTATTATTGGAAATATATTATCG
AATTTAATACCCAGTTTGGATTGAACGCGGGATTGAGTACAATCGTTCTGTGCCAAAGGATGAAT
TGACAGATAAGACCATAACTGGGCTATGGCATTACAAATGTAAAGGAGGAATTGACAGTAAATTA
CCCAAGTAAACCGATGTTCAGCATTTGTTGCAGACTTTTGTGTTTACTATCTGTTTAGCTCTCAT
GAGCTTAAGTTCAGCCTTCGGGCTTCTGAAAACGATGTACTCATATCCGTAAGTCGTTCTTCGAT
ACAGAAAGAAACGGTAAAAGACTTTTGTGGTTGAATTGAAAGATTTATAGATTATTATTGGTATT
GATCTAAAATAAATGTAACCATTGATATTTAAATGATATAACGGGTAAAGTTTTGAAGTGAGATA
ACATGAGAACTATTACCGGTATGTACGCGAAATTCATAAAAATGATGGTACATGAAATATTGAAA
TAATGAAATGAATGATATATACCTATTAAGAAACTATAAGAGAATGATATGTATCATGACATGTA
AATGTATGATTATCTTTAATATGTTGAAACAAGAAAATTATGCATGATGAGTTTATATGTAATGT
GTGCAAGTACACTAATCAGTATTGTTGCTTGATGCTTAGGCA
Found at i:6003661 original size:42 final size:42
Alignment explanation
Indices: 6003599--6003681 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
6003589 TTCATGGGTA
* *
6003599 TTGTGGTATCAATATTGGGTTATCCTTGATATGTATAGATTC
1 TTGTGGTACCAATATCGGGTTATCCTTGATATGTATAGATTC
6003641 TTGTGGTACCAATATCGGGTTATCCTTGATATGTATAGATT
1 TTGTGGTACCAATATCGGGTTATCCTTGATATGTATAGATT
6003682 TAATATTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (42 bp):
TTGTGGTACCAATATCGGGTTATCCTTGATATGTATAGATTC
Found at i:6007865 original size:62 final size:62
Alignment explanation
Indices: 6007795--6007918 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
6007785 TATGGATTTT
6007795 ACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCAACTCACTTAATTCTAA
1 ACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCAACTCACTTAATTCTAA
6007857 ACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCAACTCACTTAATTCTAA
1 ACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCAACTCACTTAATTCTAA
6007919 CAATCTCCAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.48
Consensus pattern (62 bp):
ACTTTTATTTTATTTTACCACTGTATTTTATTTAAATAAGGATTCAACTCACTTAATTCTAA
Found at i:6007973 original size:29 final size:29
Alignment explanation
Indices: 6007936--6007992 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
6007926 CACCTTGACA
* * *
6007936 TGAATTCTCAATGAACAAGTTCTTCATCG
1 TGAACTCTCAACGAACAAGTTCTCCATCG
6007965 TGAACTCTCAACGAACAAGTTCTCCATC
1 TGAACTCTCAACGAACAAGTTCTCCATC
6007993 TTTTCCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (29 bp):
TGAACTCTCAACGAACAAGTTCTCCATCG
Found at i:6008599 original size:27 final size:27
Alignment explanation
Indices: 6008569--6008622 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
6008559 CTTTCCAATG
6008569 TTTTTTACC-GAGATTTGCCATATATCT
1 TTTTTTACCAG-GATTTGCCATATATCT
* *
6008596 TTTTTTACCAGGATTTGTCATGTATCT
1 TTTTTTACCAGGATTTGCCATATATCT
6008623 GCTAATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (27 bp):
TTTTTTACCAGGATTTGCCATATATCT
Found at i:6026524 original size:120 final size:118
Alignment explanation
Indices: 6026312--6026540 Score: 413
Period size: 120 Copynumber: 1.9 Consensus size: 118
6026302 CAATGGTTTC
*
6026312 TGACCAGTTAAGGAGAAACTGAAGTACCTCTTGGCTGGTAAGAAGAGACATTCTGCTGGCGAATT
1 TGACCAGTTAAGGAGAAACTGAAGTACCTCTTGGCTGGTAAGAAGAGACATCCTGCTGGCGAATT
* *
6026377 GAACTTTCTGCAACATCAGACCTAGATGGATGCATAAGCTCTTCGTACCTTGA
66 GAACTTTCTGAAACATCAGAACTAGATGGATGCATAAGCTCTTCGTACCTTGA
6026430 NTGACCAGTTAAGGAGAAAACTGAAGTACCTCTTGGCTGGTAAGAAGAGACATCCTGCTGGCGAA
1 -TGACCAGTTAAGGAG-AAACTGAAGTACCTCTTGGCTGGTAAGAAGAGACATCCTGCTGGCGAA
6026495 TTGAACTTTCTGAAACATCAGAACTAGATGGATGCATAAGCTCTTC
64 TTGAACTTTCTGAAACATCAGAACTAGATGGATGCATAAGCTCTTC
6026541 CGAAGGAGAG
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
119 15 0.14
120 91 0.86
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (118 bp):
TGACCAGTTAAGGAGAAACTGAAGTACCTCTTGGCTGGTAAGAAGAGACATCCTGCTGGCGAATT
GAACTTTCTGAAACATCAGAACTAGATGGATGCATAAGCTCTTCGTACCTTGA
Found at i:6029097 original size:56 final size:56
Alignment explanation
Indices: 6028992--6029097 Score: 135
Period size: 58 Copynumber: 1.9 Consensus size: 56
6028982 CTATATACGA
* * * * *
6028992 AAATTTAATTAATTCTAATTAAATAAGTTAATAAAAAGTTATATGCTTAAATAGAC
1 AAATTTAATTAAGTCTAATTAAATAAATGAATAAAAAATCATATGCTTAAATAGAC
6029048 AAATTTAATTAAGTCTAAAATTAAATAAATGAATAAAAAATCA-AT-CTTAA
1 AAATTTAATTAAGTCT--AATTAAATAAATGAATAAAAAATCATATGCTTAA
6029098 CCCCTCTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
56 20 0.47
57 2 0.05
58 21 0.49
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (56 bp):
AAATTTAATTAAGTCTAATTAAATAAATGAATAAAAAATCATATGCTTAAATAGAC
Found at i:6031100 original size:30 final size:32
Alignment explanation
Indices: 6031040--6031103 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
6031030 CACTTATTTT
6031040 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
6031073 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
6031104 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:6031363 original size:41 final size:41
Alignment explanation
Indices: 6031318--6031842 Score: 973
Period size: 41 Copynumber: 12.8 Consensus size: 41
6031308 ACCGGCTCTT
*
6031318 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031359 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031400 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031441 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031482 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031523 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031564 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031605 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031646 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031687 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031728 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
6031769 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
6031810 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
6031843 TAACGATAAA
Statistics
Matches: 476, Mismatches: 4, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
39 2 0.00
40 2 0.00
41 467 0.98
42 2 0.00
43 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:6035108 original size:15 final size:16
Alignment explanation
Indices: 6035078--6035110 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6035068 TAATATGGAA
*
6035078 AATGGGAGTTTGTTTT
1 AATGGGAGTTTATTTT
6035094 AATGGG-GTTTATTTT
1 AATGGGAGTTTATTTT
6035109 AA
1 AA
6035111 GATTGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (16 bp):
AATGGGAGTTTATTTT
Found at i:6045836 original size:19 final size:19
Alignment explanation
Indices: 6045812--6045848 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6045802 AAAAAATTAT
6045812 ATACTTTTTTTTTCAATTG
1 ATACTTTTTTTTTCAATTG
6045831 ATACTTTTTTTTTCAATT
1 ATACTTTTTTTTTCAATT
6045849 TTCAGTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.03, T:0.65
Consensus pattern (19 bp):
ATACTTTTTTTTTCAATTG
Found at i:6056403 original size:3 final size:3
Alignment explanation
Indices: 6056395--6056471 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
6056385 CTTCTCTAAC
6056395 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6056443 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6056472 GCCCCAACTG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6073519 original size:11 final size:10
Alignment explanation
Indices: 6073488--6073517 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
6073478 TCGATTCAAT
6073488 TCGAAAAAAA
1 TCGAAAAAAA
6073498 TCGAAAAAAA
1 TCGAAAAAAA
6073508 TCGAAAAAAA
1 TCGAAAAAAA
6073518 ATTTGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (10 bp):
TCGAAAAAAA
Found at i:6074108 original size:19 final size:18
Alignment explanation
Indices: 6074049--6074110 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
6074039 ATTTTTGAAT
*
6074049 TATTGAATGATTTTAGCTT
1 TATTGAATGATTTT-GCTC
*
6074068 TATTTGCATCTG-TTTTGCTC
1 TA-TTG-A-ATGATTTTGCTC
6074088 TATTGAATGATTTTCGCTC
1 TATTGAATGATTTT-GCTC
6074107 TATT
1 TATT
6074111 TTCCTTCTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 13 0.37
20 8 0.23
21 5 0.14
22 2 0.06
ACGTcount: A:0.19, C:0.13, G:0.15, T:0.53
Consensus pattern (18 bp):
TATTGAATGATTTTGCTC
Found at i:6074533 original size:17 final size:17
Alignment explanation
Indices: 6074508--6074559 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
6074498 CAATTCCCAA
*
6074508 AGTAATAATGTAATATT
1 AGTAATAATATAATATT
* *
6074525 AGTATTAATATTATATT
1 AGTAATAATATAATATT
*
6074542 AGTAATAACATAATATT
1 AGTAATAATATAATATT
6074559 A
1 A
6074560 ATAGAGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (17 bp):
AGTAATAATATAATATT
Found at i:6074971 original size:90 final size:90
Alignment explanation
Indices: 6074864--6075075 Score: 354
Period size: 90 Copynumber: 2.4 Consensus size: 90
6074854 CTTCAATTAA
*
6074864 TTAATTTATACTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTT-AAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
6074928 CGATAGCTTAACAGACTTTTTTTAGT
66 CG-TAGCTTAACAGACTTTTTTTAGT
6074954 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
* * * *
6075019 TGTAGTTTAACATACTTTTTTTTGT
66 CGTAGCTTAACAGACTTTTTTTAGT
*
6075044 TTAATTTATGCTGTTGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
6075076 AATTTTTAAT
Statistics
Matches: 115, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 111 0.97
91 4 0.03
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (90 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAA
CGTAGCTTAACAGACTTTTTTTAGT
Found at i:6077897 original size:5 final size:5
Alignment explanation
Indices: 6077887--6077917 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6077877 GAACAAATAT
*
6077887 ATTCG ATTCG ATTCG ATTCG ATTCT ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
6077918 ATTTCATCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (5 bp):
ATTCG
Found at i:6079237 original size:50 final size:50
Alignment explanation
Indices: 6079178--6079274 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
6079168 TCATATGCAG
* *
6079178 TGGTCCACTTTATCAATCATCCAATAAGATGTTTTCACCCTATTGAAGTA
1 TGGTCCACTTTATCAAGCATCCAATAAAATGTTTTCACCCTATTGAAGTA
* * *
6079228 TGGTCCACTTTGTCAAGCATCCCATAAAATGTTTTCACTCTATTGAA
1 TGGTCCACTTTATCAAGCATCCAATAAAATGTTTTCACCCTATTGAA
6079275 TCTACTATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (50 bp):
TGGTCCACTTTATCAAGCATCCAATAAAATGTTTTCACCCTATTGAAGTA
Found at i:6084888 original size:124 final size:125
Alignment explanation
Indices: 6084495--6085056 Score: 774
Period size: 125 Copynumber: 4.5 Consensus size: 125
6084485 GATAAAATCA
* * * * * * * *
6084495 AAGCAGGATGATTTATCAGAAGGATTTTTGCAGTCGCGCCCACTTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
6084560 AGGTCCTGG-AAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
* * * * * *
6084620 AAGCAGGATGCTATATGCGAAGAATTTGTGAAATCGAGCCCTCATGGACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
6084685 TGGTCCTGGAAGAAATAATTTCGAGTTTACGTTTCTGAGCAAATAGTATAAAATCGCTTC
66 AGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * *
6084745 TACCATGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
6084810 AGGTCCT-GAAAAAATTATTTCGAGTTGATGTTTCTGAGCAAATAGTATAAAAACGCTTC
66 AGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * * *
6084869 AAGCAGGATGCTATT-TGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCACTTTTGCTATAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
6084933 TTA-GTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
65 -TAGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
*
6084994 -TGCTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
1 AAGC-AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
6085057 ATAGCATGTT
Statistics
Matches: 382, Mismatches: 49, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
124 110 0.29
125 236 0.62
126 36 0.09
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:6084968 original size:249 final size:250
Alignment explanation
Indices: 6084498--6085056 Score: 886
Period size: 249 Copynumber: 2.2 Consensus size: 250
6084488 AAAATCAAAG
* * * * * * * *
6084498 CAGGATGATTTATCAGAAGGATTTTTGCAGTCGCGCCCACTTGTACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
* *
6084563 TCCTGGAAAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
66 TCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
* * ** *
6084628 TGCTATATGCGAAGAATTTGTGAAATCGAGCCCTCATGGACGTGCTTTTGCTACAGTTGGTCCTG
131 TGCTATATGAGAAGAATTTCTGAAATCGAGCCCTCATGGACGCACTTTTGCTACAGTTAGTCCTG
*
6084693 GAAGAAATAATTTCGAGTTTACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
196 GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
*
6084748 CATGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
* *
6084813 TCCTGAAAAAATTATTTCGAGTTGATGTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGA
66 TCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
* * * *
6084877 TGCTATTTGAGAAGAATTTCTGAAATCGCGCCCTCGTGGACGCACTTTTGCTATAGTTAGTCCTG
131 TGCTATATGAGAAGAATTTCTGAAATCGAGCCCTCATGGACGCACTTTTGCTACAGTTAGTCCTG
*
6084942 GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTGC
196 GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
*
6084997 TAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
6085057 ATAGCATGTT
Statistics
Matches: 283, Mismatches: 26, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
249 186 0.66
250 97 0.34
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (250 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
TCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
TGCTATATGAGAAGAATTTCTGAAATCGAGCCCTCATGGACGCACTTTTGCTACAGTTAGTCCTG
GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
Found at i:6087738 original size:23 final size:25
Alignment explanation
Indices: 6087689--6087747 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
6087679 TATACAAGTA
* *
6087689 AATTATGAAACTATGTACGTATATAT
1 AATTATAAAAATATGTAC-TATATAT
6087715 -ATTATAAAAATATGTA-TATATAT
1 AATTATAAAAATATGTACTATATAT
6087738 AAATTATAAA
1 -AATTATAAA
6087748 GTTTTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 7 0.24
25 22 0.76
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (25 bp):
AATTATAAAAATATGTACTATATAT
Found at i:6087828 original size:21 final size:21
Alignment explanation
Indices: 6087804--6087845 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6087794 GGGTATAAAT
*
6087804 AGGTAAATAAAAATAATAATA
1 AGGTAAACAAAAATAATAATA
* *
6087825 AGGTAAGCAATAATAATAATA
1 AGGTAAACAAAAATAATAATA
6087846 CTATATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (21 bp):
AGGTAAACAAAAATAATAATA
Found at i:6089678 original size:88 final size:88
Alignment explanation
Indices: 6089546--6089755 Score: 197
Period size: 88 Copynumber: 2.4 Consensus size: 88
6089536 ATCTGATGTG
* * * * * *** * * *
6089546 ATCTATTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCTACTGTAACTTCA
1 ATCTACTCCACTATAACCTCAGGGAGATAAGATCCCTGGCTTTAATACACTCCACTGTAACATCA
* * *
6089611 GATAGTTAGGAT-TACTAGCTTCA
66 GAGAGATAAGATAT-CTAGCTTCA
** * **
6089634 ATCTACTCCGTTATAATCTCAGGGAGATAAGATCCCTGGCTTTAATATGCTCCACTGTAACATCA
1 ATCTACTCCACTATAACCTCAGGGAGATAAGATCCCTGGCTTTAATACACTCCACTGTAACATCA
* *
6089699 GGGAGATAAGATATCTGGCTTCA
66 GAGAGATAAGATATCTAGCTTCA
* *
6089722 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
1 ATCTACTCCACTATAACCTCAGGGAGATAAGATC
6089756 TGAAATTCTT
Statistics
Matches: 95, Mismatches: 26, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
88 94 0.99
89 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (88 bp):
ATCTACTCCACTATAACCTCAGGGAGATAAGATCCCTGGCTTTAATACACTCCACTGTAACATCA
GAGAGATAAGATATCTAGCTTCA
Found at i:6089702 original size:44 final size:44
Alignment explanation
Indices: 6089652--6089755 Score: 163
Period size: 44 Copynumber: 2.4 Consensus size: 44
6089642 CGTTATAATC
*
6089652 TCAGGGAGATAAGATCCCTGGCTTTAATATGCTCCACTGTAACA
1 TCAGGGAGATAAGATCCCTGGCTTCAATATGCTCCACTGTAACA
** * *
6089696 TCAGGGAGATAAGATATCTGGCTTCAATCTGCTCCACTGTAACC
1 TCAGGGAGATAAGATCCCTGGCTTCAATATGCTCCACTGTAACA
6089740 TCAGGGAGATAAGATC
1 TCAGGGAGATAAGATC
6089756 TGAAATTCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
TCAGGGAGATAAGATCCCTGGCTTCAATATGCTCCACTGTAACA
Found at i:6089948 original size:87 final size:86
Alignment explanation
Indices: 6089647--6090536 Score: 293
Period size: 85 Copynumber: 10.3 Consensus size: 86
6089637 TACTCCGTTA
* * * * * *
6089647 TAATCTCAGGGAGATAAGATCCCTGGCTTTAATATGCTCCACTGTAACATCAGGGAGATAAGATA
1 TAATCTCAAGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATA
** *
6089712 TCTGGCTTCAATCTGCTCCACTG
66 -CT-GCTTGGATCTACTCCACTG
* * ** * ** *
6089735 TAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTCCACTGTAACCTCAGGGAGCTAAGA
1 TAATCTCAAGGAGATAAGATCT-CTA-GCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA
* * *
6089800 -CCTG-ATGCGATCTACTCTACTG
64 TACTGCTTG-GATCTACTCCACTG
* * * * * * * *
6089822 TAA-CTTC-AGAATGATGAGATCCTTTA-TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGG
1 TAATC-TCAAGGA-GATAAGAT-CTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
* *
6089884 ATAGTGTCTTGGATCTACTCCGCTG
63 ATACTG-CTTGGATCTACTCCACTG
* *
6089909 TAATCTCAAGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAATAT-
1 TAATCTCAAGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATA
*
6089973 CTGAAATTTTTTGG-TCTACTCCACTG
66 CTG------CTTGGATCTACTCCACTG
* * * * * * * * * *
6089999 TAATCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTACTGTAACTTCA-GAATGGTGAGAT
1 TAATCTCAAGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGA-GATAAGAT
* ** ** **
6090060 CCTTTATTTTAATCCGCTCCACTG
65 AC--TGCTTGGATCTACTCCACTG
* * * *
6090084 TAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-
1 TAATCTCAAGGAGATAAGATCT-CTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
* * * *
6090147 CCTGATAT-GATTTACTCTACTG
65 ACTGCT-TGGATCTACTCCACTG
* * * * * * * *
6090169 TAA-CTTC-AGAGAGATAAAATCCTTTA-TTTTAATCCGCTCCACTGTAATCTCAGGGAGACAGG
1 TAATC-TCAAG-GAGATAAGAT-CTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
** ** **
6090231 ATTACTAGCTTCAATCTGTTCCGTTG
63 A-TACT-GCTTGGATCTACTCCACTG
* * * * * * * * * *
6090257 TAATCTTAGGGAGATAAGA-C-CT-GATACGATCTACTCTACTGTAACTTCAGAGAGATAAAAT-
1 TAATCTCAAGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATA
** ** **
6090318 CTTTTATTTTAATCCGCTCCACTG
66 C---TGCTTGGATCTACTCCACTG
* ** * * *
6090342 TAATCTCAGGGAGATAAGAT-TACTAGCTTCAATCCACTCCGCTGTAATCTCAGAGAGATAAGA-
1 TAATCTCAAGGAGATAAGATCT-CTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAT
* * ** *
6090405 CCTGATACGATCTACTCTACTG
65 ACTGCTTGGATCTACTCCACTG
* * * ** *
6090427 TAA-CTTC-AGAGAGATAAGATTCTTTA-TTTTAATCCACTCCACTGTAATCTCAGGGAGATAAG
1 TAATC-TCAAG-GAGATAAGA-TCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG
** * *
6090489 ATTACTAGCTTTAATCTGCTCCGCTG
63 A-TACT-GCTTGGATCTACTCCACTG
* *
6090515 TAACCTCAGGGAGATAAGATCT
1 TAATCTCAAGGAGATAAGATCT
6090537 GAAATTCTTC
Statistics
Matches: 585, Mismatches: 161, Indels: 113
0.68 0.19 0.13
Matches are distributed among these distances:
83 1 0.00
84 8 0.01
85 226 0.39
86 22 0.04
87 121 0.21
88 134 0.23
89 7 0.01
90 61 0.10
91 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (86 bp):
TAATCTCAAGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATA
CTGCTTGGATCTACTCCACTG
Found at i:6089977 original size:218 final size:219
Alignment explanation
Indices: 6089647--6090146 Score: 738
Period size: 218 Copynumber: 2.3 Consensus size: 219
6089637 TACTCCGTTA
* ** * * * * *
6089647 TAATCTCAGGGAGATAAGATCCCTGGCTTTAATATGCTCCACTGTAA-CATCAGGGAGATAAGAT
1 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATC-TCAGGGAGATAAGAT
* * *
6089711 ATCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGCTC
65 ATCTAGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTC
*
6089776 CACTGTAACCTCAGGGAGCTAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAATGATGAGA
130 CACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAATGATGAGA
6089841 TCCTTTATTTTAATCCGCTCCACTG
195 TCCTTTATTTTAATCCGCTCCACTG
* ** *
6089866 TAA-CTTCAGGGAGATAGGA-TAGT-GTCTTGGATCTACTCCGCTGTAATCTCAAGGAGATAAGA
1 TAATC-TCAGGGAGATAGGATTACTAG-CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGA
* * * *
6089928 TCTCTAGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAATATCTGAAATTTTTTGGTCTACT
64 TATCTAGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACT
* *
6089993 CCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAATGGTGAG
129 CCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAATGATGAG
6090058 ATCCTTTATTTTAATCCGCTCCACTG
194 ATCCTTTATTTTAATCCGCTCCACTG
*
6090084 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
1 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGA
6090147 CCTGATATGA
Statistics
Matches: 250, Mismatches: 25, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
217 1 0.00
218 194 0.78
219 54 0.22
220 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (219 bp):
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATA
TCTAGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
ACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAATGATGAGAT
CCTTTATTTTAATCCGCTCCACTG
Found at i:6090123 original size:44 final size:44
Alignment explanation
Indices: 6090070--6090534 Score: 255
Period size: 44 Copynumber: 10.8 Consensus size: 44
6090060 CCTTTATTTT
* *
6090070 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
6090114 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA--CCT-GATAT-
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCT-TC
* * * * * * * * *
6090155 GATTTACTCTACTGTAA-CTTCAGAGAGATAAAATCCT-TTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * *
6090199 AATCCGCTCCACTGTAATCTCAGGGAGACAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* ** * * * *
6090243 AATCTGTTCCGTTGTAATCTTAGGGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * ** * *
6090284 GATCTACTCTACTGTAA-CTTCAGAGAGATAAAATCTTTTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-TACTAGCTTC
*
6090328 AATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
** * * * * *
6090372 AATCCACTCCGCTGTAATCTCAGAGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * *
6090413 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATT-CTTTA-TTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAC--TAGCTTC
** *
6090457 AATCCACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* *
6090501 AATCTGCTCCGCTGTAACCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
6090535 CTGAAATTCT
Statistics
Matches: 312, Mismatches: 82, Indels: 54
0.70 0.18 0.12
Matches are distributed among these distances:
40 3 0.01
41 81 0.26
42 9 0.03
43 8 0.03
44 207 0.66
45 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:6090165 original size:129 final size:129
Alignment explanation
Indices: 6089991--6090538 Score: 873
Period size: 129 Copynumber: 4.2 Consensus size: 129
6089981 TTTTGGTCTA
* * *
6089991 CTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGA-ATGGT
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA-GAT
* * *
6090055 GAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
65 AAAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* *
6090120 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATATGATTTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* *
6090185 AAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGACAGGATTACTAGCTTCAATCTG
66 AAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* * *
6090249 TTCCGTTGTAATCTTAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* **
6090314 AAATCTTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCCA
66 AAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
*
6090378 CTCCGCTGTAATCTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* * * *
6090443 AGATTCTTTATTTTAATCCACTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTTAATCTG
66 AAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
* *
6090507 CTCCGCTGTAACCTCAGGGAGATAAGATCTGA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGA
6090539 AATTCTTCGG
Statistics
Matches: 386, Mismatches: 32, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
129 385 1.00
130 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (129 bp):
CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
AAATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
Found at i:6091789 original size:7 final size:7
Alignment explanation
Indices: 6091777--6091823 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
6091767 TTAGCCTCTC
6091777 CATTTTT
1 CATTTTT
6091784 CA-TTTT
1 CATTTTT
*
6091790 CATTTAT
1 CATTTTT
6091797 CATTTTT
1 CATTTTT
*
6091804 CA-TTCT
1 CATTTTT
6091810 CATTTTT
1 CATTTTT
6091817 CATTTTT
1 CATTTTT
6091824 TTTACTCAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 11 0.32
7 23 0.68
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:6091799 original size:13 final size:14
Alignment explanation
Indices: 6091777--6091821 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 14
6091767 TTAGCCTCTC
*
6091777 CATTTTTCA-TTTT
1 CATTTATCATTTTT
6091790 CATTTATCATTTTT
1 CATTTATCATTTTT
*
6091804 CA-TTCTCATTTTT
1 CATTTATCATTTTT
6091817 CATTT
1 CATTT
6091822 TTTTTACTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 20 0.71
14 8 0.29
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (14 bp):
CATTTATCATTTTT
Found at i:6091831 original size:20 final size:20
Alignment explanation
Indices: 6091777--6091823 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
6091767 TTAGCCTCTC
*
6091777 CATTTTTCATTTTCATTTAT
1 CATTTTTCATTCTCATTTAT
*
6091797 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTAT
6091817 CATTTTT
1 CATTTTT
6091824 TTTACTCAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTAT
Found at i:6097129 original size:2 final size:2
Alignment explanation
Indices: 6097124--6097164 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
6097114 TTATAAAAAA
* * *
6097124 AT AT AT AT AT AT AT AT GT AG AT AT AT AT AG AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6097165 AGTTATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6097264 original size:23 final size:25
Alignment explanation
Indices: 6097215--6097273 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
6097205 TATACAAGTA
*
6097215 AATTATGAAAATATGTACGTATATAT
1 AATTATAAAAATATGTAC-TATATAT
6097241 -ATTATAAAAATATGTA-TATATAT
1 AATTATAAAAATATGTACTATATAT
6097264 AAATTATAAA
1 -AATTATAAA
6097274 GTTTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.23
25 23 0.77
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (25 bp):
AATTATAAAAATATGTACTATATAT
Found at i:6097352 original size:21 final size:21
Alignment explanation
Indices: 6097328--6097369 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6097318 CGGTATAAAT
*
6097328 AGGTAAATAAAAATAATAATA
1 AGGTAAACAAAAATAATAATA
* *
6097349 AGGTAAGCAATAATAATAATA
1 AGGTAAACAAAAATAATAATA
6097370 CTATATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (21 bp):
AGGTAAACAAAAATAATAATA
Found at i:6100297 original size:22 final size:22
Alignment explanation
Indices: 6100272--6100331 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
6100262 AAGTTAAGGT
*
6100272 TTTAGGGTTTATGGTTTTTAAG
1 TTTAGGGTTTATAGTTTTTAAG
6100294 TTTAGGGTTTATAGTTTTTAAG
1 TTTAGGGTTTATAGTTTTTAAG
* *
6100316 TTCAAGGTTTA-AGTTT
1 TTTAGGGTTTATAGTTT
6100332 GGGGTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.22, C:0.02, G:0.23, T:0.53
Consensus pattern (22 bp):
TTTAGGGTTTATAGTTTTTAAG
Found at i:6100310 original size:29 final size:29
Alignment explanation
Indices: 6100255--6100310 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
6100245 TAAGGGTTAG
* *
6100255 GGTTTTAAAGTTAAGGTTTTAGGGTTTAT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
* * *
6100284 GGTTTTTAAGTTTAGGGTTTATAGTTT
1 GGTTTTAAAGTTAAGGGTTTAGAGTTT
6100311 TTAAGTTCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (29 bp):
GGTTTTAAAGTTAAGGGTTTAGAGTTTAT
Found at i:6100325 original size:44 final size:44
Alignment explanation
Indices: 6100272--6101154 Score: 191
Period size: 44 Copynumber: 19.7 Consensus size: 44
6100262 AAGTTAAGGT
*
6100272 TTTAGGGTTTATGGTTTTTAAGTTTAGGGTTTATAGTTTTTAAG
1 TTTAAGGTTTATGGTTTTTAAGTTTAGGGTTTATAGTTTTTAAG
* * * *
6100316 TTCAAGGTTTAAGTTTGGGGTTTTTAAATTAAAAGTTAGAGTTT-TGAG-GTTTAAGG
1 TTTAAGGTTT-A---T--GGTTTTT-AAGT-----TTAGGGTTTAT-AGTTTTTAA-G
6100372 TTTAAGGTTTGA-GGTTTTTTAAGTTTAGGGTTTA-ATGTTTTTAAG
1 TTTAAGGTTT-ATGG-TTTTTAAGTTTAGGGTTTATA-GTTTTTAAG
* * ** *
6100417 TTTAAGGTTT-GGGTTTTTTAAGTTTAGAGTTTAGGGTTTTTAGG
1 TTTAAGGTTTATGG-TTTTTAAGTTTAGGGTTTATAGTTTTTAAG
* * * *
6100461 TTTAAGGTTTA-GGGTTTTGAGTTTAAGGTTTA-AGATTTTTTAGG
1 TTTAAGGTTTATGGTTTTTAAGTTTAGGGTTTATAG--TTTTTAAG
* * *
6100505 TTTAGGGTTTAGGGTTTTTTAAGTTAAGGG-TTAGT-GTTTTTAA-
1 TTTAAGGTTTATGG-TTTTTAAGTTTAGGGTTTA-TAGTTTTTAAG
* * *
6100548 TTTAAGGGTTATGGTTTTTAAGTTAAGGG-TTA-AGATTAGGGTTAGAG
1 TTTAAGGTTTATGGTTTTTAAGTTTAGGGTTTATAG-TT---TTTA-AG
* * * * *
6100595 TTTTAAAG-TTAAGG-TTTTAGGGTTTAAGGTTTTTAAG--TTTAAGG
1 -TTTAAGGTTTATGGTTTTTA-AGTTTAGGGTTTAT-AGTTTTTAA-G
* * * ** **
6100639 TTTAAAGTTT-TTGTGTTTTATGGTTTAGGGTTTAGGGTTTAAAAG
1 TTTAAGGTTTATGGT-TTTTA-AGTTTAGGGTTTATAGTTTTTAAG
* * * *
6100684 TTAAAGG-TTA-GTGTTTTTAGGTTTAAGGTTTATGGTTTTTAAG
1 TTTAAGGTTTATG-GTTTTTAAGTTTAGGGTTTATAGTTTTTAAG
* * * *
6100727 -TTAAGGGTTAAGGTTTTTAGGTTTAGGG-TTAGGGTTAGGGGGTTTTAAG
1 TTTAAGGTTTATGGTTTTTAAGTTTAGGGTTTA----TA---GTTTTTAAG
* * * *
6100776 TTTTAGGTTTAGGGTTTTATGTTTTAAAGTTTAGGGTTTATAATTTTTAGG
1 TTTAAGGTTTATGG-----T-TTTT-AAGTTTAGGGTTTATAGTTTTTAAG
* * *
6100827 TTTAAAGTTTGA-GGTTTTTAAGTTAAGGG-TTAGCA-TTTTTAAG
1 TTTAAGGTTT-ATGGTTTTTAAGTTTAGGGTTTA-TAGTTTTTAAG
* * * * *
6100870 -CTAAGGGTTA-GG--ATT-AGTGTTAGGGTTTTAAAG--TTAAAG
1 TTTAAGGTTTATGGTTTTTAAGT-TTAGGG-TTTATAGTTTTTAAG
* * *
6100909 TTTTAGTGTTTA-GGATTTTTAAGTTTAGGGTTTA-AGGTTTTAAA
1 TTTAAG-GTTTATGG-TTTTTAAGTTTAGGGTTTATAGTTTTTAAG
** * ** * * *
6100953 TTTGGGGTTTGTGG-TTTTAAAATTA-AGTATTA-AGGGTTTTAGG
1 TTTAAGGTTTATGGTTTTTAAGTTTAGGGT-TTATA-GTTTTTAAG
** * * *
6100996 TTT-AGAGTTTGGGGTTTTT-AGTTAAAGG-TTAGAGTTTTTAAG
1 TTTAAG-GTTTATGGTTTTTAAGTTTAGGGTTTATAGTTTTTAAG
* * ** * *
6101038 TTTAGGGTTAAAT-GTTTTTAAGTTTAAAGTTTAGAGTTTTTAGG
1 TTTAAGGTT-TATGGTTTTTAAGTTTAGGGTTTATAGTTTTTAAG
** * *
6101082 TTTAAGG--TGGGGTTTTTAGGTTTAGGGTTTGA-GGTTTTTAAG
1 TTTAAGGTTTATGGTTTTTAAGTTTAGGGTTT-ATAGTTTTTAAG
*
6101124 TTAAAGG-TTATGGTTTTTTAA-TTTAAGGGTT
1 TTTAAGGTTTATGG-TTTTTAAGTTT-AGGGTT
6101155 AGGATTAGGG
Statistics
Matches: 628, Mismatches: 116, Indels: 190
0.67 0.12 0.20
Matches are distributed among these distances:
38 3 0.00
39 12 0.02
40 4 0.01
41 15 0.02
42 103 0.16
43 127 0.20
44 153 0.24
45 60 0.10
46 28 0.04
47 11 0.02
48 9 0.01
49 8 0.01
50 24 0.04
51 24 0.04
52 1 0.00
54 2 0.00
55 7 0.01
56 25 0.04
57 9 0.01
58 3 0.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (44 bp):
TTTAAGGTTTATGGTTTTTAAGTTTAGGGTTTATAGTTTTTAAG
Found at i:6100374 original size:7 final size:7
Alignment explanation
Indices: 6100362--6100494 Score: 53
Period size: 7 Copynumber: 18.3 Consensus size: 7
6100352 TAGAGTTTTG
6100362 AGGTTTA
1 AGGTTTA
6100369 AGGTTTA
1 AGGTTTA
*
6100376 AGGTTTG
1 AGGTTTA
6100383 AGGTTTTTTA
1 AGG---TTTA
6100393 A-GTTTA
1 AGGTTTA
*
6100399 GGGTTTA
1 AGGTTTA
*
6100406 ATGTTTTTA
1 A-G-GTTTA
6100415 A-GTTTA
1 AGGTTTA
6100421 AGGTTT-
1 AGGTTTA
*
6100427 GGGTTTTTTA
1 AGG---TTTA
6100437 A-GTTT-
1 AGGTTTA
6100442 AGAGTTTA
1 AG-GTTTA
* *
6100450 GGGTTTTT
1 AGG-TTTA
6100458 AGGTTTA
1 AGGTTTA
6100465 AGGTTTA
1 AGGTTTA
*
6100472 GGGTTT-
1 AGGTTTA
*
6100478 TGAGTTTA
1 AG-GTTTA
6100486 AGGTTTA
1 AGGTTTA
6100493 AG
1 AG
6100495 ATTTTTTAGG
Statistics
Matches: 94, Mismatches: 15, Indels: 34
0.66 0.10 0.24
Matches are distributed among these distances:
5 1 0.01
6 15 0.16
7 56 0.60
8 8 0.09
9 10 0.11
10 4 0.04
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.50
Consensus pattern (7 bp):
AGGTTTA
Found at i:6100415 original size:22 final size:22
Alignment explanation
Indices: 6100365--6100578 Score: 161
Period size: 22 Copynumber: 9.7 Consensus size: 22
6100355 AGTTTTGAGG
* *
6100365 TTTAAGGTTTAAGGTTTGAGGTT
1 TTTAA-GTTTAGGGTTTAAGGTT
*
6100388 TTTTAAGTTTAGGGTTTAATGTT
1 -TTTAAGTTTAGGGTTTAAGGTT
* *
6100411 TTTAAGTTTAAGGTTT-GGGTTT
1 TTTAAGTTTAGGGTTTAAGG-TT
* *
6100433 TTTAAGTTTAGAGTTTAGGGTT
1 TTTAAGTTTAGGGTTTAAGGTT
* * *
6100455 TTTAGGTTTAAGGTTT-AGGGT
1 TTTAAGTTTAGGGTTTAAGGTT
* * *
6100476 TTTGAGTTTAAGGTTTAAGATTT
1 TTTAAGTTTAGGGTTTAAG-GTT
* *
6100499 TTTAGGTTTAGGGTTTAGGGTTT
1 TTTAAGTTTAGGGTTTAAGG-TT
*
6100522 TTTAAGTTAAGGG-TT-AGTGTT
1 TTTAAGTTTAGGGTTTAAG-GTT
*
6100543 TTTAA-TTTAAGGG-TTATGGTT
1 TTTAAGTTT-AGGGTTTAAGGTT
*
6100564 TTTAAGTTAAGGGTT
1 TTTAAGTTTAGGGTT
6100579 AAGATTAGGG
Statistics
Matches: 152, Mismatches: 28, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.01
21 44 0.29
22 55 0.36
23 46 0.30
24 5 0.03
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
TTTAAGTTTAGGGTTTAAGGTT
Found at i:6100623 original size:15 final size:15
Alignment explanation
Indices: 6100603--6100680 Score: 54
Period size: 15 Copynumber: 5.3 Consensus size: 15
6100593 AGTTTTAAAG
6100603 TTAAGGTTTTAGGGT
1 TTAAGGTTTTAGGGT
*
6100618 TTAAGGTTTTTA-AGT
1 TTAAGG-TTTTAGGGT
**
6100633 TTAAGG-TTTAAAGT
1 TTAAGGTTTTAGGGT
** *
6100647 TTTTGTGTTTTATGGT
1 TTAAG-GTTTTAGGGT
*
6100663 TT-AGGGTTTAGGGT
1 TTAAGGTTTTAGGGT
6100677 TTAA
1 TTAA
6100681 AAGTTAAAGG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
13 4 0.08
14 16 0.32
15 17 0.34
16 13 0.26
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (15 bp):
TTAAGGTTTTAGGGT
Found at i:6100671 original size:23 final size:23
Alignment explanation
Indices: 6100621--6100671 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 23
6100611 TTAGGGTTTA
6100621 AGGTTTTTAAG-TTTAAGGTTTA
1 AGGTTTTTAAGTTTTAAGGTTTA
* ** *
6100643 AAGTTTTTGTGTTTTATGGTTTA
1 AGGTTTTTAAGTTTTAAGGTTTA
*
6100666 GGGTTT
1 AGGTTT
6100672 AGGGTTTAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (23 bp):
AGGTTTTTAAGTTTTAAGGTTTA
Found at i:6100707 original size:43 final size:43
Alignment explanation
Indices: 6100654--6100762 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 43
6100644 AGTTTTTGTG
6100654 TTTTATGGTTTAGGGTTTAGGGTTTAAAAGTTAAAGGTT-AGTGT
1 TTTTA-GGTTTAGGGTTTAGGGTTTAAAAGTTAAAGGTTAAG-GT
* * ** *
6100698 TTTTAGGTTTAAGGTTTATGGTTTTTAAGTTAAGGGTTAAGGT
1 TTTTAGGTTTAGGGTTTAGGGTTTAAAAGTTAAAGGTTAAGGT
6100741 TTTTAGGTTTAGGG-TTAGGGTT
1 TTTTAGGTTTAGGGTTTAGGGTT
6100763 AGGGGGTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 7 0.12
43 43 0.75
44 7 0.12
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (43 bp):
TTTTAGGTTTAGGGTTTAGGGTTTAAAAGTTAAAGGTTAAGGT
Found at i:6100711 original size:21 final size:21
Alignment explanation
Indices: 6100687--6100758 Score: 69
Period size: 21 Copynumber: 3.4 Consensus size: 21
6100677 TTAAAAGTTA
6100687 AAGGTTAGTGTTTTTAGGTTT
1 AAGGTTAGTGTTTTTAGGTTT
*
6100708 AAGGTTTA-TGGTTTTTAAG-TT
1 AAGG-TTAGT-GTTTTTAGGTTT
6100729 AAGGGTTAAG-GTTTTTAGGTTT
1 AA-GGTT-AGTGTTTTTAGGTTT
*
6100751 AGGGTTAG
1 AAGGTTAG
6100759 GGTTAGGGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
20 2 0.05
21 23 0.55
22 17 0.40
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
AAGGTTAGTGTTTTTAGGTTT
Found at i:6100790 original size:21 final size:21
Alignment explanation
Indices: 6100766--6100830 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
6100756 TAGGGTTAGG
6100766 GGGTTTTAAGTTTTAGGTTTA
1 GGGTTTTAAGTTTTAGGTTTA
* *
6100787 GGGTTTTATGTTTTAAAGTTTA
1 GGGTTTTAAGTTTT-AGGTTTA
*
6100809 GGGTTTATAATTTTTAGGTTTA
1 GGGTTT-TAAGTTTTAGGTTTA
6100831 AAGTTTGAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.35
22 18 0.49
23 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.54
Consensus pattern (21 bp):
GGGTTTTAAGTTTTAGGTTTA
Found at i:6100865 original size:21 final size:21
Alignment explanation
Indices: 6100841--6100880 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6100831 AAGTTTGAGG
*
6100841 TTTTTAAGTTAAGGGTTAGCA
1 TTTTTAAGCTAAGGGTTAGCA
6100862 TTTTTAAGCTAAGGGTTAG
1 TTTTTAAGCTAAGGGTTAG
6100881 GATTAGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.25, T:0.42
Consensus pattern (21 bp):
TTTTTAAGCTAAGGGTTAGCA
Found at i:6100951 original size:21 final size:21
Alignment explanation
Indices: 6100770--6101125 Score: 81
Period size: 22 Copynumber: 16.8 Consensus size: 21
6100760 GTTAGGGGGT
*
6100770 TTTAA-GTTTTAGGTTTAGGG
1 TTTAAGGTTTTAAGTTTAGGG
* *
6100790 TTTTATGTTTTAAAGTTTAGGG
1 TTTAAGGTTTT-AAGTTTAGGG
** * **
6100812 TTTATAATTTTTAGGTTTAAAG
1 TTTA-AGGTTTTAAGTTTAGGG
* *
6100834 TTTGAGGTTTTTAAGTTAAGGG
1 TTTAAGG-TTTTAAGTTTAGGG
* * *
6100856 -TT-AGCATTTTTAAGCTAAGGG
1 TTTAAG--GTTTTAAGTTTAGGG
*
6100877 -TT-AGG-ATT-AGTGTTAGGG
1 TTTAAGGTTTTAAGT-TTAGGG
* * *
6100895 TTTTAAAG-TTAAAGTTTTAGTG
1 -TTTAAGGTTTTAAG-TTTAGGG
6100917 TTT-AGGATTTTTAAGTTTAGGG
1 TTTAAGG--TTTTAAGTTTAGGG
* *
6100939 TTTAAGGTTTTAAATTTGGGG
1 TTTAAGGTTTTAAGTTTAGGG
** ** *
6100960 TTTGTGGTTTTAAAATTA-AG
1 TTTAAGGTTTTAAGTTTAGGG
* *
6100980 TATTAAGGGTTTTAGGTTTAGAG
1 T-TTAA-GGTTTTAAGTTTAGGG
** * * *
6101003 TTTGGGGTTTTTAGTTAAAGG
1 TTTAAGGTTTTAAGTTTAGGG
*
6101024 -TTAGAGTTTTTAAGTTTAGGG
1 TTTA-AGGTTTTAAGTTTAGGG
* * **
6101045 TTAAATGTTTTTAAGTTTAAAG
1 TTTAA-GGTTTTAAGTTTAGGG
* * *
6101067 TTTAGAGTTTTTAGGTTTAAGG
1 TTTA-AGGTTTTAAGTTTAGGG
** *
6101089 --TGGGGTTTTTAGGTTTAGGG
1 TTTAAGG-TTTTAAGTTTAGGG
*
6101109 TTTGAGGTTTTTAAGTT
1 TTTAAGG-TTTTAAGTT
6101126 AAAGGTTATG
Statistics
Matches: 245, Mismatches: 65, Indels: 50
0.68 0.18 0.14
Matches are distributed among these distances:
17 2 0.01
18 7 0.03
19 1 0.00
20 28 0.11
21 83 0.34
22 106 0.43
23 18 0.07
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (21 bp):
TTTAAGGTTTTAAGTTTAGGG
Found at i:6101014 original size:22 final size:22
Alignment explanation
Indices: 6100985--6101121 Score: 88
Period size: 22 Copynumber: 6.5 Consensus size: 22
6100975 TTAAGTATTA
6100985 AGGG-TTTTAGGTTTAGAGTTT
1 AGGGTTTTTAGGTTTAGAGTTT
* * *
6101006 GGGGTTTTTA-G-TTAAAGGTT
1 AGGGTTTTTAGGTTTAGAGTTT
* * * *
6101026 AGAGTTTTTAAGTTTAGGGTTA
1 AGGGTTTTTAGGTTTAGAGTTT
** * *
6101048 AATGTTTTTAAGTTTAAAGTTT
1 AGGGTTTTTAGGTTTAGAGTTT
* *
6101070 AGAGTTTTTAGGTTTA-AG-GT
1 AGGGTTTTTAGGTTTAGAGTTT
* *
6101090 GGGGTTTTTAGGTTTAGGGTTT
1 AGGGTTTTTAGGTTTAGAGTTT
6101112 -GAGGTTTTTA
1 AG-GGTTTTTA
6101122 AGTTAAAGGT
Statistics
Matches: 88, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
20 30 0.34
21 9 0.10
22 49 0.56
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (22 bp):
AGGGTTTTTAGGTTTAGAGTTT
Found at i:6101057 original size:64 final size:64
Alignment explanation
Indices: 6100989--6101129 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 64
6100979 GTATTAAGGG
* * * *
6100989 TTTTAGGTTTAGAGTTTGGGGTTTTTA-GTTAAAGGTTAGAGTTTTTAAGTTTAGGGTTAAATGT
1 TTTTAAGTTTAAAGTTTAGAGTTTTTAGGTTAAAGG-TAGAGTTTTTAAGTTTAGGGTTAAATGT
* * * * ** *
6101053 TTTTAAGTTTAAAGTTTAGAGTTTTTAGGTTTAAGGTGGGGTTTTTAGGTTTAGGGTTTGAGGT
1 TTTTAAGTTTAAAGTTTAGAGTTTTTAGGTTAAAGGTAGAGTTTTTAAGTTTAGGGTTAAATGT
6101117 TTTTAAG-TTAAAG
1 TTTTAAGTTTAAAG
6101130 GTTATGGTTT
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
63 6 0.09
64 52 0.80
65 7 0.11
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (64 bp):
TTTTAAGTTTAAAGTTTAGAGTTTTTAGGTTAAAGGTAGAGTTTTTAAGTTTAGGGTTAAATGT
Found at i:6101131 original size:42 final size:42
Alignment explanation
Indices: 6101051--6101131 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
6101041 AGGGTTAAAT
* *
6101051 GTTTTTAAGTTTAAAGTTTAGAGTTTTTAGGTTTAAGGTGGG
1 GTTTTTAAGTTTAAAGTTTAGAGTTTTTAAGTTAAAGGTGGG
* **
6101093 GTTTTTAGGTTTAGGGTTT-GAGGTTTTTAAGTTAAAGGT
1 GTTTTTAAGTTTAAAGTTTAGA-GTTTTTAAGTTAAAGGT
6101132 TATGGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (42 bp):
GTTTTTAAGTTTAAAGTTTAGAGTTTTTAAGTTAAAGGTGGG
Found at i:6101132 original size:22 final size:22
Alignment explanation
Indices: 6101002--6101154 Score: 86
Period size: 22 Copynumber: 7.1 Consensus size: 22
6100992 TAGGTTTAGA
*
6101002 GTTTGGGGTTTTT-AGTTAAAG
1 GTTTGAGGTTTTTAAGTTAAAG
* * *
6101023 GTTAGA-GTTTTTAAGTTTAGG
1 GTTTGAGGTTTTTAAGTTAAAG
** *
6101044 GTTAAATGTTTTTAAGTTTAAA-
1 GTTTGAGGTTTTTAAG-TTAAAG
* *
6101066 GTTT-AGAGTTTTTAGGTTTAAG
1 GTTTGAG-GTTTTTAAGTTAAAG
* * * *
6101088 G--TGGGGTTTTTAGGTTTAGG
1 GTTTGAGGTTTTTAAGTTAAAG
6101108 GTTTGAGGTTTTTAAGTTAAAG
1 GTTTGAGGTTTTTAAGTTAAAG
* * *
6101130 GTTATG-GTTTTTTAATTTAAGG
1 GTT-TGAGGTTTTTAAGTTAAAG
6101152 GTT
1 GTT
6101155 AGGATTAGGG
Statistics
Matches: 103, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
20 22 0.21
21 21 0.20
22 55 0.53
23 5 0.05
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
GTTTGAGGTTTTTAAGTTAAAG
Found at i:6101142 original size:64 final size:63
Alignment explanation
Indices: 6101029--6101151 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 63
6101019 AAAGGTTAGA
* * *
6101029 GTTTTTAAGTTTAGGGTTAAATGTTTTTAAGTTTAAAGTTTAGAGTTTTTAGGTTTAAGGTGGG
1 GTTTTTAAGTTTAGGGTTAAAGGTTTTTAAGTTTAAAGGTTAGAGTTTTTA-ATTTAAGGTGGG
* **
6101093 GTTTTTAGGTTTAGGGTTTGAGGTTTTTAAG-TTAAAGGTTATG-GTTTTTTAATTTAAGG
1 GTTTTTAAGTTTAGGGTTAAAGGTTTTTAAGTTTAAAGGTTA-GAG-TTTTTAATTTAAGG
6101152 GTTAGGATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
63 17 0.33
64 34 0.67
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.50
Consensus pattern (63 bp):
GTTTTTAAGTTTAGGGTTAAAGGTTTTTAAGTTTAAAGGTTAGAGTTTTTAATTTAAGGTGGG
Found at i:6101202 original size:7 final size:7
Alignment explanation
Indices: 6101190--6101258 Score: 57
Period size: 7 Copynumber: 9.9 Consensus size: 7
6101180 TAAAGTTTTA
6101190 AGGTTTG
1 AGGTTTG
6101197 AGGTTTG
1 AGGTTTG
* *
6101204 GGGTTTT
1 AGGTTTG
* **
6101211 AAGTTAA
1 AGGTTTG
*
6101218 AGGTTGG
1 AGGTTTG
* *
6101225 ATGTTTT
1 AGGTTTG
*
6101232 AGGTTTA
1 AGGTTTG
6101239 AGGTTTG
1 AGGTTTG
6101246 AGGTTTG
1 AGGTTTG
6101253 AGGTTT
1 AGGTTT
6101259 TTAAGTTTAG
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
AGGTTTG
Found at i:6101244 original size:35 final size:36
Alignment explanation
Indices: 6101159--6101244 Score: 93
Period size: 35 Copynumber: 2.4 Consensus size: 36
6101149 AGGGTTAGGA
* * *
6101159 TTAGGGTTAAGGTTTTAAAGTTAAAGTTTTAAGGTT
1 TTAGGTTTAAGGTTTTAAAGTTAAAGGTTGAAGGTT
* ** * *
6101195 TGAGGTTTGGGGTTTT-AAGTTAAAGGTTGGATGTT
1 TTAGGTTTAAGGTTTTAAAGTTAAAGGTTGAAGGTT
6101230 TTAGGTTTAAGGTTT
1 TTAGGTTTAAGGTTT
6101245 GAGGTTTGAG
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
35 27 0.69
36 12 0.31
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.45
Consensus pattern (36 bp):
TTAGGTTTAAGGTTTTAAAGTTAAAGGTTGAAGGTT
Found at i:6101272 original size:22 final size:22
Alignment explanation
Indices: 6101247--6101356 Score: 91
Period size: 22 Copynumber: 5.0 Consensus size: 22
6101237 TAAGGTTTGA
*
6101247 GGTTTGAGGTTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAAGTTTAG
*
6101269 GGTTATGAGGTTTTTAAGTTTAG
1 GGTT-TAAGGTTTTTAAGTTTAG
* *
6101292 GATTTTAAAG---TTAAGGTTTTAG
1 G-GTTTAAGGTTTTTAA-G-TTTAG
* **
6101314 GGGTTAATATTTTTAAGTTTAG
1 GGTTTAAGGTTTTTAAGTTTAG
*
6101336 GGTTTATGGTTTTTAAGTTTA
1 GGTTTAAGGTTTTTAAGTTTA
6101357 AGATTTAGAG
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
20 4 0.06
21 5 0.07
22 32 0.46
23 23 0.33
24 6 0.09
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (22 bp):
GGTTTAAGGTTTTTAAGTTTAG
Found at i:6102734 original size:20 final size:21
Alignment explanation
Indices: 6102695--6102734 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6102685 CTTTTATTTT
6102695 TAAATATCTATATAATAATTG
1 TAAATATCTATATAATAATTG
6102716 TAAA-ATCTAATATAA-AATT
1 TAAATATCT-ATATAATAATT
6102735 TACCGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAATATCTATATAATAATTG
Found at i:6103781 original size:11 final size:11
Alignment explanation
Indices: 6103765--6103800 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
6103755 GAAATCAGGA
6103765 AGGAAATTGAG
1 AGGAAATTGAG
6103776 AGGAAATTGAG
1 AGGAAATTGAG
*
6103787 AGAAAATTTGAG
1 AGGAAA-TTGAG
6103799 AG
1 AG
6103801 AAGATTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:6103799 original size:12 final size:12
Alignment explanation
Indices: 6103771--6103808 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6103761 AGGAAGGAAA
*
6103771 TTGAGAGGAAA-
1 TTGAGAGAAAAT
6103782 TTGAGAGAAAAT
1 TTGAGAGAAAAT
*
6103794 TTGAGAGAAGAT
1 TTGAGAGAAAAT
6103806 TTG
1 TTG
6103809 TTTATGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.42, C:0.00, G:0.32, T:0.26
Consensus pattern (12 bp):
TTGAGAGAAAAT
Found at i:6105311 original size:6 final size:6
Alignment explanation
Indices: 6105302--6105363 Score: 124
Period size: 6 Copynumber: 10.3 Consensus size: 6
6105292 AAACACACAC
6105302 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
6105350 ACATAT ACATAT AC
1 ACATAT ACATAT AC
6105364 CAACTAAGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:6111367 original size:23 final size:23
Alignment explanation
Indices: 6111341--6111385 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6111331 TGGCAAGCAA
6111341 ACAGAACAATCAAAGCCTAGAAG
1 ACAGAACAATCAAAGCCTAGAAG
6111364 ACAGAACAATCAAAGCCTAGAA
1 ACAGAACAATCAAAGCCTAGAA
6111386 ACTACCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.22, G:0.16, T:0.09
Consensus pattern (23 bp):
ACAGAACAATCAAAGCCTAGAAG
Found at i:6113221 original size:31 final size:29
Alignment explanation
Indices: 6113152--6113227 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
6113142 TTATCTCAAC
*
6113152 TTATATTTTAGTCATTTATGTTTAAAATG
1 TTATATTTTAGTCATTTATGCTTAAAATG
**
6113181 TTATATTTTAGTCATTTAT-CTTATCATG
1 TTATATTTTAGTCATTTATGCTTAAAATG
6113209 TTGTAATATTTTAGTCATT
1 -T-T-ATATTTTAGTCATT
6113228 AAGCCATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 6 0.15
29 20 0.49
30 1 0.02
31 14 0.34
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (29 bp):
TTATATTTTAGTCATTTATGCTTAAAATG
Found at i:6125624 original size:43 final size:43
Alignment explanation
Indices: 6125564--6125647 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
6125554 GTTTAACAGT
*
6125564 AAAAATCAGGCGCATACAGTCTGAAAATGAATGGAAGTCCTCA
1 AAAAATCAGGCGCATACAGTCTGAAAATGAATGAAAGTCCTCA
6125607 AAAAATCAGGCGCATACAGTCTGAAAATGAATGAAAGTCCT
1 AAAAATCAGGCGCATACAGTCTGAAAATGAATGAAAGTCCT
6125648 ACCCTAGTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (43 bp):
AAAAATCAGGCGCATACAGTCTGAAAATGAATGAAAGTCCTCA
Found at i:6132041 original size:16 final size:15
Alignment explanation
Indices: 6132013--6132051 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6132003 TTTTTAATGT
* *
6132013 TTATATAATATTATA
1 TTATATAAAATTAAA
6132028 TTATTATAAAATTAAA
1 TTA-TATAAAATTAAA
6132044 TTATATAA
1 TTATATAA
6132052 TATATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATATAAAATTAAA
Found at i:6132061 original size:23 final size:21
Alignment explanation
Indices: 6132022--6132067 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
6132012 TTTATATAAT
*
6132022 ATTATATTATTATAAAATTAA
1 ATTATATAATTATAAAATTAA
6132043 ATTATATAATATATCAAAATTAA
1 ATTATATAAT-TAT-AAAATTAA
6132066 AT
1 AT
6132068 GAAAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 10 0.45
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTATATAATTATAAAATTAA
Found at i:6136882 original size:25 final size:28
Alignment explanation
Indices: 6136818--6136885 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 28
6136808 AAGGTTCAAG
*
6136818 AGAGCC-A-ATATCGAGAAGCTCATGAA
1 AGAGCCTATATATCGAGAAGCTCACGAA
*
6136844 AGAGCCTTTA-ATCGAGAAGCTC-CG-A
1 AGAGCCTATATATCGAGAAGCTCACGAA
6136869 AGAG-CTATATATCGAGA
1 AGAGCCTATATATCGAGA
6136886 CACTCATAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 4 0.11
25 12 0.33
26 7 0.19
27 12 0.33
28 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (28 bp):
AGAGCCTATATATCGAGAAGCTCACGAA
Found at i:6137945 original size:30 final size:31
Alignment explanation
Indices: 6137883--6137946 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
6137873 TTATTTAATT
*
6137883 AATTTATCATCTTTTATTATTTCATCTTTCC
1 AATTTATCATCTTTTATTATTTAATCTTTCC
6137914 AATTTAATCAT-TTTCT-TTATTTAAT-TTTCC
1 AATTT-ATCATCTTT-TATTATTTAATCTTTCC
6137944 AAT
1 AAT
6137947 GATGAATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 16 0.53
32 6 0.20
ACGTcount: A:0.27, C:0.16, G:0.00, T:0.58
Consensus pattern (31 bp):
AATTTATCATCTTTTATTATTTAATCTTTCC
Found at i:6138273 original size:6 final size:6
Alignment explanation
Indices: 6138262--6138334 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
6138252 CACATATTAT
* * * *
6138262 TACACA TACACA CACACA CGTACACG TACACG TACACGA -ACACG TACACA
1 TACACA TACACA TACACA --TACACA TACACA TACAC-A TACACA TACACA
6138312 TACACA TACACA TACACA TACAC
1 TACACA TACACA TACACA TACAC
6138335 TTTTACTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
6 53 0.93
8 4 0.07
ACGTcount: A:0.44, C:0.36, G:0.07, T:0.14
Consensus pattern (6 bp):
TACACA
Found at i:6140062 original size:20 final size:20
Alignment explanation
Indices: 6140034--6140105 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
6140024 ATAGACACAT
*
6140034 TAAAAATATAAAAATAGAAA
1 TAAATATATAAAAATAGAAA
6140054 TAAATATATAAAAATTCAGAAA
1 TAAATATATAAAAA-T-AGAAA
**
6140076 -AAATATA-AAATCTAGAAA
1 TAAATATATAAAAATAGAAA
* *
6140094 AAAACATATAAA
1 TAAATATATAAA
6140106 TTATAAAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.11
19 7 0.16
20 19 0.43
21 8 0.18
22 5 0.11
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (20 bp):
TAAATATATAAAAATAGAAA
Found at i:6140092 original size:18 final size:17
Alignment explanation
Indices: 6140035--6140096 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 17
6140025 TAGACACATT
*
6140035 AAAAATATAAAAATAGAA
1 AAAAATATAAAATTAG-A
6140053 ATAAATATATAAAAATTCAGA
1 A-AAA-ATAT-AAAATT-AGA
6140074 AAAAATATAAAATCTAGA
1 AAAAATATAAAAT-TAGA
6140092 AAAAA
1 AAAAA
6140097 ACATATAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 14 0.37
19 8 0.21
20 7 0.18
21 7 0.18
22 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAATATAAAATTAGA
Found at i:6140095 original size:19 final size:18
Alignment explanation
Indices: 6140035--6140113 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 18
6140025 TAGACACATT
*
6140035 AAAAATATAAAAATAGAA
1 AAAAATATAAAATTAGAA
6140053 ATAAATATATAAAAATTCAG-A
1 A-AAA-ATAT-AAAATT-AGAA
6140074 AAAAATATAAAATCTAGAA
1 AAAAATATAAAAT-TAGAA
* *
6140093 AAAAACATATAAATTATAA
1 AAAAATATA-AAATTAGAA
6140112 AA
1 AA
6140114 CTAAAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
18 8 0.16
19 23 0.45
20 11 0.22
21 7 0.14
22 2 0.04
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAATATAAAATTAGAA
Found at i:6140347 original size:20 final size:18
Alignment explanation
Indices: 6140307--6140357 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
6140297 AAATTTAAAT
* *
6140307 ATTTTTTTAATTTTTTCA
1 ATTTTTATAATTTTTTAA
6140325 ATTTTTATATATTATTTTAA
1 ATTTTTATA-ATT-TTTTAA
*
6140345 ATTTTTAAAATTT
1 ATTTTTATAATTT
6140358 AAAATTATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 9 0.32
19 6 0.21
20 13 0.46
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTATAATTTTTTAA
Found at i:6140451 original size:20 final size:19
Alignment explanation
Indices: 6140397--6140452 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
6140387 AATAGTATAC
6140397 ATAAAAAAATAA-ATAATT
1 ATAAAAAAATAATATAATT
* *
6140415 ATAAAAACATAAGTATATTT
1 ATAAAAAAATAA-TATAATT
*
6140435 ATTAAAAATATAATATAA
1 A-TAAAAAAATAATATAA
6140453 ACATAATAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 11 0.35
20 10 0.32
21 10 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAAAAAAATAATATAATT
Found at i:6146730 original size:23 final size:25
Alignment explanation
Indices: 6146703--6146756 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 25
6146693 TTTGAAGATT
*
6146703 ATATTTAGCAAC-T-AAATATTTTG
1 ATATTTAGCAACATGAAATATTGTG
6146726 ATA-TTA-CAACATGAAATATTGTG
1 ATATTTAGCAACATGAAATATTGTG
*
6146749 AAATTTAG
1 ATATTTAG
6146757 TTGTTAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 4 0.16
22 4 0.16
23 14 0.56
24 3 0.12
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (25 bp):
ATATTTAGCAACATGAAATATTGTG
Found at i:6155297 original size:21 final size:22
Alignment explanation
Indices: 6155259--6155299 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6155249 TCATATTTGA
*
6155259 AATTAATTAAATATTTTCATAC
1 AATTAAATAAATATTTTCATAC
6155281 AATTAAATAAA-ATTTTCAT
1 AATTAAATAAATATTTTCAT
6155300 TGTATTACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTAAATAAATATTTTCATAC
Found at i:6156664 original size:25 final size:26
Alignment explanation
Indices: 6156611--6156673 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
6156601 ATTTGTACAT
6156611 ATTATAAAAAATGTATAAACATATGA
1 ATTATAAAAAATGTATAAACATATGA
*
6156637 ATTATAAAACATG-A-AAACATAAAT-A
1 ATTATAAAAAATGTATAAACAT--ATGA
6156662 ATTATAAAAAAT
1 ATTATAAAAAAT
6156674 ATGAATGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 6 0.18
25 13 0.39
26 14 0.42
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (26 bp):
ATTATAAAAAATGTATAAACATATGA
Done.