Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 163 of 770
Found at i:48082003 original size:11 final size:11
Alignment explanation
Indices: 48081987--48082023 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
48081977 TTTGGGCCCA
48081987 GCCCGAACCCG
1 GCCCGAACCCG
48081998 GCCCGAACCCG
1 GCCCGAACCCG
*
48082009 GCCCG-GCCCG
1 GCCCGAACCCG
48082019 GCCCG
1 GCCCG
48082024 GCCCATGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.11, C:0.57, G:0.32, T:0.00
Consensus pattern (11 bp):
GCCCGAACCCG
Found at i:48083786 original size:46 final size:46
Alignment explanation
Indices: 48083719--48083993 Score: 433
Period size: 46 Copynumber: 6.0 Consensus size: 46
48083709 GGAGTGTGCT
48083719 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
48083765 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
48083811 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
48083857 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * ***
48083903 CGTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * * *
48083949 CATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
48083994 TCATGTCAAA
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 215 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:48085389 original size:21 final size:20
Alignment explanation
Indices: 48085352--48085390 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48085342 TTGGGATCAT
*
48085352 TTTCACTTGGTTAAAAATAA
1 TTTCACTTGCTTAAAAATAA
*
48085372 TTTCACTTGACTTTAAAAT
1 TTTCACTTG-CTTAAAAAT
48085391 TGTTTCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTCACTTGCTTAAAAATAA
Found at i:48086289 original size:16 final size:17
Alignment explanation
Indices: 48086252--48086294 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
48086242 AAATTTAAAC
48086252 ATTTT-ATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
48086268 AGTTTAATTAAAATAAT
1 ATTTTAATTAAAATAAT
*
48086285 -TTTTATTTAA
1 ATTTTAATTAA
48086295 TAAATTATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAATTAAAATAAT
Found at i:48094943 original size:5 final size:5
Alignment explanation
Indices: 48094933--48094958 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48094923 ACTAGAATTC
48094933 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
48094959 TGGGTTGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:48095388 original size:5 final size:5
Alignment explanation
Indices: 48095378--48095403 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48095368 ACTAGAATTC
48095378 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
48095404 TGGGTTGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:48095578 original size:445 final size:445
Alignment explanation
Indices: 48094749--48095638 Score: 1771
Period size: 445 Copynumber: 2.0 Consensus size: 445
48094739 GCTAACAAAA
48094749 TTTAAGGTTGGGGTATGGGTTTGTTTACTTTGAAAAGATGTACGCACCGAACATAACCGTGCCCA
1 TTTAAGGTTGGGGTATGGGTTTGTTTACTTTGAAAAGATGTACGCACCGAACATAACCGTGCCCA
*
48094814 CGCCACGATTTTATTTCAACTACTAAAAAATGATTGCCTTCGTCCATGCTTCTGGAAAATAACAT
66 CGCCACGATTTTATTTCAACTACTAAAAAATGATTGCCTTCGTCCATGCTTCTGGAAAATAACAC
48094879 AATCAAATGGATTAAAATAATATTTTATTTTATTCTCAAGCTAAACTAGAATTCAAAATAAAATA
131 AATCAAATGGATTAAAATAATATTTTATTTTATTCTCAAGCTAAACTAGAATTCAAAATAAAATA
48094944 AAATAAAATAAAATATGGGTTGCCTCTCATAAAGCACTTTTGTTTAATGTCCTTAGCTCGACGAC
196 AAATAAAATAAAATATGGGTTGCCTCTCATAAAGCACTTTTGTTTAATGTCCTTAGCTCGACGAC
48095009 CTAAAAATTTAATTGTTCGGCTCTTCGAAGAATAATTCCTTTGCCATGTGTACTTGAAAATTCTC
261 CTAAAAATTTAATTGTTCGGCTCTTCGAAGAATAATTCCTTTGCCATGTGTACTTGAAAATTCTC
48095074 GTAAAAGGGTTTTAACCTTTGACCATTGACTTTAAGCATTTCTCAGACTCCTTACATTTAATCTC
326 GTAAAAGGGTTTTAACCTTTGACCATTGACTTTAAGCATTTCTCAGACTCCTTACATTTAATCTC
48095139 AACTGCACCATGAGGAAATAATTTAGTAATAACAAAAGGACTAAGCCATTTGATT
391 AACTGCACCATGAGGAAATAATTTAGTAATAACAAAAGGACTAAGCCATTTGATT
48095194 TTTAAGGTTGGGGTATGGGTTTGTTTACTTTGAAAAGATGTACGCACCGAACATAACCGTGCCCA
1 TTTAAGGTTGGGGTATGGGTTTGTTTACTTTGAAAAGATGTACGCACCGAACATAACCGTGCCCA
48095259 CGCCACGATTTTATTTCAACTACTAAAAAATGATTGCCTTCGTCCATGCTTCTGGAAAATAACAC
66 CGCCACGATTTTATTTCAACTACTAAAAAATGATTGCCTTCGTCCATGCTTCTGGAAAATAACAC
48095324 AATCAAATGGATTAAAATAATATTTTATTTTATTCTCAAGCTAAACTAGAATTCAAAATAAAATA
131 AATCAAATGGATTAAAATAATATTTTATTTTATTCTCAAGCTAAACTAGAATTCAAAATAAAATA
48095389 AAATAAAATAAAATATGGGTTGCCTCTCATAAAGCACTTTTGTTTAATGTCCTTAGCTCGACGAC
196 AAATAAAATAAAATATGGGTTGCCTCTCATAAAGCACTTTTGTTTAATGTCCTTAGCTCGACGAC
48095454 CTAAAAATTTAATTGTTCGGCTCTTCGAAGAATAATTCCTTTGCCATGTGTACTTGAAAATTCTC
261 CTAAAAATTTAATTGTTCGGCTCTTCGAAGAATAATTCCTTTGCCATGTGTACTTGAAAATTCTC
48095519 GTAAAAGGGTTTTAACCTTTGACCATTGACTTTAAGCATTTCTCAGACTCCTTACATTTAATCTC
326 GTAAAAGGGTTTTAACCTTTGACCATTGACTTTAAGCATTTCTCAGACTCCTTACATTTAATCTC
48095584 AACTGCACCATGAGGAAATAATTTAGTAATAACAAAAGGACTAAGCCATTTGATT
391 AACTGCACCATGAGGAAATAATTTAGTAATAACAAAAGGACTAAGCCATTTGATT
48095639 CGATGTTTAC
Statistics
Matches: 444, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
445 444 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (445 bp):
TTTAAGGTTGGGGTATGGGTTTGTTTACTTTGAAAAGATGTACGCACCGAACATAACCGTGCCCA
CGCCACGATTTTATTTCAACTACTAAAAAATGATTGCCTTCGTCCATGCTTCTGGAAAATAACAC
AATCAAATGGATTAAAATAATATTTTATTTTATTCTCAAGCTAAACTAGAATTCAAAATAAAATA
AAATAAAATAAAATATGGGTTGCCTCTCATAAAGCACTTTTGTTTAATGTCCTTAGCTCGACGAC
CTAAAAATTTAATTGTTCGGCTCTTCGAAGAATAATTCCTTTGCCATGTGTACTTGAAAATTCTC
GTAAAAGGGTTTTAACCTTTGACCATTGACTTTAAGCATTTCTCAGACTCCTTACATTTAATCTC
AACTGCACCATGAGGAAATAATTTAGTAATAACAAAAGGACTAAGCCATTTGATT
Found at i:48099746 original size:28 final size:28
Alignment explanation
Indices: 48099685--48099782 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
48099675 TCACAAATTG
** * *
48099685 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
48099714 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
48099742 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
48099770 GCACTAAGTGTGC
1 GCACTAAGTGTGC
48099783 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:48107428 original size:28 final size:28
Alignment explanation
Indices: 48107367--48107464 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
48107357 TCACAAATTG
** * *
48107367 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
48107396 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
48107424 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
48107452 GCACTAAGTGTGC
1 GCACTAAGTGTGC
48107465 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:48115760 original size:28 final size:29
Alignment explanation
Indices: 48115728--48115826 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
48115718 ATAATAAGCC
*
48115728 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
48115756 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
48115784 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
48115813 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48115827 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:48123700 original size:94 final size:93
Alignment explanation
Indices: 48123577--48123763 Score: 338
Period size: 94 Copynumber: 2.0 Consensus size: 93
48123567 GAGTTCTTAG
**
48123577 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAATCCAGTC
1 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
*
48123642 ATTAGTAGTACTTTTAGTTCCTTTGGGTT
66 ATTACTAGTAC-TTTAGTTCCTTTGGGTT
48123671 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
1 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
48123736 ATTACTAGTACTTTAGTTCCTTTGGGTT
66 ATTACTAGTACTTTAGTTCCTTTGGGTT
48123764 CGACATTCCA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
93 17 0.19
94 73 0.81
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (93 bp):
TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
ATTACTAGTACTTTAGTTCCTTTGGGTT
Found at i:48130589 original size:50 final size:50
Alignment explanation
Indices: 48130514--48130690 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
48130504 CCATGGAAAC
48130514 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
48130564 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
48130614 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
48130664 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
48130691 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:48130907 original size:31 final size:31
Alignment explanation
Indices: 48130668--48130907 Score: 372
Period size: 31 Copynumber: 7.7 Consensus size: 31
48130658 AAATGACAAC
*
48130668 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
48130699 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
48130730 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
48130761 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
48130792 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
48130823 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* ** *
48130854 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
48130885 TGAATAGTGGTAGCTTTGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
48130908 AAGTGACAAG
Statistics
Matches: 193, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 193 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:48131001 original size:47 final size:48
Alignment explanation
Indices: 48130931--48131054 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
48130921 CAAGTGATTT
* *
48130931 CTGTATAAGACCATATCTAGGATATGGCATC-GTTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAG-TGAGATATATGACTA
* * *
48130978 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
48131026 C-GTGTAAGACCATAGCTGGGCTATGGCAT
1 CTGTATAAGACCATATCTGGGATATGGCAT
48131055 TATTATGTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 62 0.94
48 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:48137287 original size:2 final size:2
Alignment explanation
Indices: 48137280--48137316 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
48137270 TCATGACATG
48137280 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48137317 GACTAGTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48139732 original size:27 final size:26
Alignment explanation
Indices: 48139702--48139804 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 26
48139692 ATTACCAAAG
48139702 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CGTTT
* * *
48139729 TACCCTTGGTTTACAGAATTACAGTTT
1 TACCCTCGATTTACAAAATTAC-GTTT
* * *
48139756 TACCCACGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CGTTT
**
48139783 TACCCTTAATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
48139805 TAAATACCCT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.03
27 60 0.95
28 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACGTTT
Found at i:48139749 original size:54 final size:53
Alignment explanation
Indices: 48139689--48139936 Score: 153
Period size: 54 Copynumber: 4.6 Consensus size: 53
48139679 CTCAATTTGT
* * **
48139689 AAAATTACCAAAGTACCCTCGATTTACAAAATTATCGTTTTACCCTTGGTTTAC
1 AAAATTACCAAA-TACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTAC
* ** * *
48139743 AGAATTA-CAGTTTTACCCACGATTTACAGAATTACCATTTTACCCTTAATTTAC
1 AAAATTACCA--AATACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTAC
* * * *** * **
48139797 AAAATTACTAAATACCCTTGGTTTAC-AAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAATACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTAC
* *** *** * **
48139849 AAAATTACCAAAATACCACTAG-TTTGTGAAATTACCAAAATACCCTCAATTTGT
1 AAAATTACC-AAATACC-CTCGATTTACAAAATTACCATTTTACCCTTAATTTAC
48139903 AAAATTACCAGAATACCC-CTGATTTACAAAATTA
1 AAAATTACCA-AATACCCTC-GATTTACAAAATTA
48139937 TAGAAATACC
Statistics
Matches: 152, Mismatches: 33, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
52 27 0.18
53 26 0.17
54 98 0.64
55 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33
Consensus pattern (53 bp):
AAAATTACCAAATACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTAC
Found at i:48139944 original size:54 final size:52
Alignment explanation
Indices: 48139763--48139949 Score: 171
Period size: 54 Copynumber: 3.5 Consensus size: 52
48139753 TTTTACCCAC
*** ** * *
48139763 GATTTACAGAATTACCATTTTACCCTTAATTTACAAAATTACTAAATACCCTT
1 GATTTACA-AATTACCAAAATACCCTTAATTTGTAAAATTACCAAATACCCCT
* * *
48139816 GGTTTACAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACT
1 GATTTACAAATTACCAAAATACCCTTAATTTGTAAAATTACC-AAATACCCCT
** *
48139869 -AGTTTGTGAAATTACCAAAATACCCTCAATTTGTAAAATTACCAGAATACCCCT
1 GA-TTT-ACAAATTACCAAAATACCCTTAATTTGTAAAATTACCA-AATACCCCT
*
48139923 GATTTACAAAATTA-TAGAAATACCCTT
1 GATTTAC-AAATTACCA-AAATACCCTT
48139950 GACTTTCAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
52 27 0.25
53 20 0.19
54 59 0.55
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (52 bp):
GATTTACAAATTACCAAAATACCCTTAATTTGTAAAATTACCAAATACCCCT
Found at i:48140007 original size:27 final size:27
Alignment explanation
Indices: 48139783--48140010 Score: 151
Period size: 27 Copynumber: 8.4 Consensus size: 27
48139773 ATTACCATTT
**
48139783 TACCCTTAATTTACAAAATTACT-AAA
1 TACCCTTGGTTTACAAAATTACTAAAA
*
48139809 TACCCTTGGTTTAC-AAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* ** *
48139835 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *** *
48139862 TACCAC-TAGTTTGTGAAATTACCAAAA
1 TACC-CTTGGTTTACAAAATTACTAAAA
*** ** * *
48139889 TACCCTCAATTTGTAAAATTACCAGAA
1 TACCCTTGGTTTACAAAATTACTAAAA
* *
48139916 TACCCCTGATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACTA-AAA
* *
48139943 TACCCTTGACTTTCAAAAAATTA-TAGAAA
1 TACCCTTG-GTTT-ACAAAATTACTA-AAA
* *
48139972 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACTAAAA
48139999 TACCCTTGGTTT
1 TACCCTTGGTTT
48140011 GTAGATTTAC
Statistics
Matches: 168, Mismatches: 26, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
25 7 0.04
26 28 0.17
27 104 0.62
28 8 0.05
29 21 0.12
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACTAAAA
Found at i:48140094 original size:27 final size:27
Alignment explanation
Indices: 48140051--48140124 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
48140041 AAATGACTAA
*
48140051 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
48140078 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
48140105 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
48140125 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:48140128 original size:27 final size:27
Alignment explanation
Indices: 48140064--48140128 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
48140054 ACCCCTAATA
*
48140064 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
48140091 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
48140118 GGTAAAATGAC
1 GGTAAAATGAC
48140129 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:48140475 original size:21 final size:21
Alignment explanation
Indices: 48140449--48140503 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
48140439 TGGTAAGTTG
48140449 GGCCTCAATAGGCTGGAATCC
1 GGCCTCAATAGGCTGGAATCC
48140470 GGCCTCAATAGGCTGGAATCC
1 GGCCTCAATAGGCTGGAATCC
*
48140491 GGCC-CAATGGGCT
1 GGCCTCAATAGGCT
48140504 TTCGGGCCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.22, C:0.29, G:0.31, T:0.18
Consensus pattern (21 bp):
GGCCTCAATAGGCTGGAATCC
Found at i:48141025 original size:25 final size:25
Alignment explanation
Indices: 48140958--48141027 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
48140948 AGGAAGTGTT
* * *
48140958 AAAAGGGCTCTGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACAG
48140983 AAAAGGGCTTTGCCCCAGTTTATCAG
1 AAAAGGGCTTTGCCCCAGTTTA-CAG
48141009 -AAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
48141028 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 39 0.95
26 2 0.05
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACAG
Found at i:48141040 original size:24 final size:23
Alignment explanation
Indices: 48140958--48141054 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 23
48140948 AGGAAGTGTT
* * *
48140958 AAAAGGGCTCTGCCCCAATTTACC
1 AAAAGGGCTTTGCCCC-AGTTATC
48140982 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
48141007 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
48141031 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
48141055 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
23 4 0.06
24 14 0.23
25 44 0.71
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:48141234 original size:42 final size:42
Alignment explanation
Indices: 48141175--48141267 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
48141165 TAGTCTACCC
* *
48141175 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
48141217 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
48141259 AAATGGGCT
1 AAATGGGCT
48141268 AAGGGCCATA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.32
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
Found at i:48141336 original size:31 final size:31
Alignment explanation
Indices: 48141289--48141372 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
48141279 CGTTTACAGT
* *
48141289 AAAGGCATCGGTCCAGTGATATGATTTATGA
1 AAAGGCTTCGGACCAGTGATATGATTTATGA
* *
48141320 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGACCAGTGATATGATTTATGA
48141351 AAAGGCTTCGGACCAGT-ATATG
1 AAAGGCTTCGGACCAGTGATATG
48141373 TCAAGGCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGACCAGTGATATGATTTATGA
Found at i:48144342 original size:79 final size:81
Alignment explanation
Indices: 48144224--48144406 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
48144214 TACTCGTTCA
* * *
48144224 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
48144287 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
48144304 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
48144367 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
48144383 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
48144407 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:48144406 original size:40 final size:40
Alignment explanation
Indices: 48144203--48144406 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
48144193 TCGAATTTAA
** *
48144203 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48144243 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48144283 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48144322 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48144362 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48144402 CCGGA
1 CCGGA
48144407 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48146956 original size:27 final size:27
Alignment explanation
Indices: 48146937--48147093 Score: 233
Period size: 27 Copynumber: 5.8 Consensus size: 27
48146927 ATTACCAAAG
*
48146937 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
48146964 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
48146991 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
48147018 TACCCTCAATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
48147045 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
48147072 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
48147094 TAAAATACCC
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 118 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:48146984 original size:54 final size:54
Alignment explanation
Indices: 48146926--48147121 Score: 239
Period size: 54 Copynumber: 3.6 Consensus size: 54
48146916 CAATTTGTAA
*
48146926 AATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAG
1 AATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAG
*** * * **
48146980 AATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAG
1 AATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAG
* ** *
48147034 AATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAG
* * * * *
48147088 AATTACTAAAATACCCTTGGTTTACAAAATTACC
1 AATTACCAAATTACCCTCGATTTACAGAATTACC
48147122 AAAATACCCT
Statistics
Matches: 119, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 119 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.37
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAG
Found at i:48147102 original size:27 final size:27
Alignment explanation
Indices: 48146924--48147323 Score: 189
Period size: 27 Copynumber: 14.8 Consensus size: 27
48146914 CTCAATTTGT
* *
48146924 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ****
48146951 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **** * *
48146978 AGAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTTGATTTAC
* *** **
48147005 AGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* * *** *
48147032 AGAATTATCATTTTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* ****
48147059 AGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *
48147086 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* **
48147113 AAAATTACCAAAATACCCTAG-TTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
* **
48147139 AAAATTACCAAAATACCACTAG-TTTGT
1 AAAATTACCAAAATACC-CTTGATTTAC
* * ** **
48147166 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
*
48147193 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
*
48147220 AAAATTA-TAGAAATACCCTTGACTTT-C
1 AAAATTACCA-AAATACCCTTGA-TTTAC
* * *
48147247 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACCA-AAATACCCTTGATTTAC
** * **
48147276 AAAATTACTGAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
* * *
48147303 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
48147324 TAGGATGAAA
Statistics
Matches: 314, Mismatches: 51, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
26 23 0.07
27 263 0.84
28 7 0.02
29 21 0.07
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAC
Found at i:48147103 original size:81 final size:81
Alignment explanation
Indices: 48146924--48147122 Score: 254
Period size: 81 Copynumber: 2.5 Consensus size: 81
48146914 CTCAATTTGT
* * * *
48146924 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGT
*
48146989 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** *
48147005 AGAATTACCATTTTACCCTCAATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGT
*
48147070 TTTACCCTTGATTTAC
66 TTTACCCTCGATTTAC
* *** *
48147086 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTCAATTTACAGAATTACCA
48147123 AAATACCCTA
Statistics
Matches: 98, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:48147130 original size:81 final size:81
Alignment explanation
Indices: 48146924--48147226 Score: 218
Period size: 81 Copynumber: 3.8 Consensus size: 81
48146914 CTCAATTTGT
* * * **** *
48146924 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
*
48146989 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* *** * * ***
48147005 AGAATTACCATTTTACCCTCAATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
*
48147070 TTTACCCTTGATTTAC
66 TTTACCCTCGATTTAC
* *** * * *
48147086 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTAGTTTGTA-A-AATTACCA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATT-TACAGAATTACCG
*** * **
48147149 AAATACCACTAG-TTTGT
65 TTTTACC-CTCGATTTAC
* * ** *
48147166 GAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTGATTTACAAAATTA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTC-GATTTACAGAATTA
48147227 TAGAAATACC
Statistics
Matches: 175, Mismatches: 42, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
79 2 0.01
80 55 0.31
81 116 0.66
82 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:48148263 original size:25 final size:24
Alignment explanation
Indices: 48148225--48148294 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 24
48148215 AGGAAGTGTT
*
48148225 AAAAGGGCTCTGCCCCAGTTTAC-C
1 AAAAGGGCTTTGCCCCAGTTT-CTC
48148249 GAAAAGGGCTTTGCCCCAGTTTCTC
1 -AAAAGGGCTTTGCCCCAGTTTCTC
48148274 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
48148295 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
24 2 0.05
25 40 0.95
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTCTC
Found at i:48148500 original size:42 final size:42
Alignment explanation
Indices: 48148441--48148531 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
48148431 GTAGTCTCCC
* * *
48148441 AAATGGGCTTGTATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
48148483 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
48148525 AAATGGG
1 AAATGGG
48148532 ATAAGGGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
Found at i:48148589 original size:30 final size:31
Alignment explanation
Indices: 48148555--48148637 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
48148545 CATTTACAGT
*
48148555 AAAGGCATCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGACCAGTGATATGATTTATGA
* *
48148585 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGACCAGTGATATGATTTATGA
48148616 AAAGGCTTCGGACCAGT-ATATG
1 AAAGGCTTCGGACCAGTGATATG
48148638 TCAAGGCTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 15 0.31
31 34 0.69
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGACCAGTGATATGATTTATGA
Found at i:48150908 original size:27 final size:27
Alignment explanation
Indices: 48150889--48151044 Score: 174
Period size: 27 Copynumber: 5.8 Consensus size: 27
48150879 ATTACAAAAG
*
48150889 TACCCTCGATTTACAGAATTATC-GTTT
1 TACCCTCGATTTACAGAATTA-CAATTT
* * **
48150916 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACAATTT
* *
48150943 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACAATTT
*
48150970 TACCCTCAATTTACAGAATTATC-ATTT
1 TACCCTCGATTTACAGAATTA-CAATTT
**
48150997 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACAATTT
*
48151024 TACCCTTGATTTACA-AATTAC
1 TACCCTCGATTTACAGAATTAC
48151045 TAAAATACCC
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
26 8 0.07
27 106 0.92
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACAATTT
Found at i:48150935 original size:54 final size:54
Alignment explanation
Indices: 48150876--48151072 Score: 211
Period size: 54 Copynumber: 3.7 Consensus size: 54
48150866 CTCAATTTGT
* *
48150876 AAAATTACAAAAGTACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTAC
1 AAAATTACAAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTAC
**** * * **
48150930 AAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTAC
1 AAAATTACAAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTAC
* **
48150984 AGAATTATC-ATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTA-CAAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTAC
* * *
48151038 -AAATTACTAAAA-TACCCTTGGTTTACAAAATTACC
1 AAAATTAC-AAAATTACCCTCGATTTACAGAATTACC
48151073 AAAATACCCT
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 25 0.21
54 91 0.77
55 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAATTACAAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTAC
Found at i:48150982 original size:81 final size:80
Alignment explanation
Indices: 48150889--48151044 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 80
48150879 ATTACAAAAG
* * *
48150889 TACCCTCGATTTACAGAATTATCGTTTTACCCTTGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
*
48150954 TATAGAATTACCATTT
66 TACA-AATTACCATTT
* *
48150970 TACCCTCAATTTACAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATT
1 TACCCTCAATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
48151035 TACAAATTAC
66 TACAAATTAC
48151045 TAAAATACCC
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 6 0.09
81 63 0.91
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (80 bp):
TACCCTCAATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
TACAAATTACCATTT
Found at i:48151076 original size:27 final size:27
Alignment explanation
Indices: 48151024--48151275 Score: 161
Period size: 27 Copynumber: 9.3 Consensus size: 27
48151014 ATTACCGTTT
* *
48151024 TACCCTTGATTTAC-AAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
48151050 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* **
48151077 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** *** *
48151104 TACCAGTGGTTTGTGAAATTACCGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* *** **
48151131 TATCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
48151158 TACCCCTGATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* *
48151185 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
48151214 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
** * *
48151241 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
48151268 CACCCTTG
1 TACCCTTG
48151276 TAGGATGAAA
Statistics
Matches: 181, Mismatches: 38, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
26 14 0.08
27 139 0.77
28 7 0.04
29 21 0.12
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:48151114 original size:54 final size:54
Alignment explanation
Indices: 48151038--48151267 Score: 212
Period size: 54 Copynumber: 4.2 Consensus size: 54
48151028 CTTGATTTAC
* *
48151038 AAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTA
* *** * * * *
48151092 AAATTACCAAAATACCAGTGGTTTGTGAAATTACCGAAATATCCTCAATTTGTA
1 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTA
** * * * *
48151146 AAATTACCAAAATACCCCTGATTTACAAAATTA-TAGAAATACCCTTGACTTTCTAA
1 AAATTACCAAAATACCATTGGTTTACAAAATTACCA-AAATACCCTT-AGTTTGT-A
* ** *
48151202 AAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTA
1 AAATTACCA-AAATACCATTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTA
* *
48151256 GATTTACCAAAA
1 AAATTACCAAAA
48151268 CACCCTTGTA
Statistics
Matches: 137, Mismatches: 33, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
54 87 0.64
55 11 0.08
56 38 0.28
57 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCTTAGTTTGTA
Found at i:48151347 original size:27 final size:27
Alignment explanation
Indices: 48151293--48151370 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
48151283 AAATGACTAA
* * *
48151293 AATACCCCTAATA-GGTAAAAAGATCGT
1 AATACCCCT-GTAGGGTAAAATGACCGT
*
48151320 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAATGACCGT
* *
48151347 AATACCCTTGTATGGTAAAATGAC
1 AATACCCCTGTAGGGTAAAATGAC
48151371 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGACCGT
Found at i:48152218 original size:25 final size:24
Alignment explanation
Indices: 48152180--48152249 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
48152170 AGGAAGTGTT
* *
48152180 AAAAAGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
* *
48152204 GAAAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
48152229 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
48152250 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:48152262 original size:24 final size:24
Alignment explanation
Indices: 48152178--48152262 Score: 82
Period size: 25 Copynumber: 3.5 Consensus size: 24
48152168 GGAGGAAGTG
* *
48152178 TTAAAAAGGCTCTGCCCCAGTTTA
1 TTAAAAGGGCTTTGCCCCAGTTTA
** *
48152202 CCGAAAAGGGCTTTGCCCTAGTTTA
1 -TTAAAAGGGCTTTGCCCCAGTTTA
*
48152227 TCAGAAAGGGCTTTGCCCCAG-TTA
1 TTA-AAAGGGCTTTGCCCCAGTTTA
48152251 TTAAAAGAGGCT
1 TTAAAAG-GGCT
48152263 AGGCCTCCAG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 35 0.71
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
TTAAAAGGGCTTTGCCCCAGTTTA
Found at i:48152456 original size:42 final size:42
Alignment explanation
Indices: 48152397--48152488 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
48152387 TAGTCTCCTC
* * *
48152397 AAATGGGCTTTCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
48152439 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
48152481 AAATGGGC
1 AAATGGGC
48152489 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGACATTG
Found at i:48152559 original size:31 final size:31
Alignment explanation
Indices: 48152512--48152595 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
48152502 CGTTTACAGT
* *
48152512 AAAGGCATCGGTCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
48152543 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
48152574 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
48152596 TCACGACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:48154863 original size:63 final size:63
Alignment explanation
Indices: 48154759--48154965 Score: 186
Period size: 67 Copynumber: 3.2 Consensus size: 63
48154749 CATCATGTGT
*
48154759 ACAAGAGAGCTACAAGGCATTATGATGTAGCTAGGTCGCATGGGTGATACATGTGTACACCATGT
1 ACAAGAGAGCTAC--GGGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACATGTGTACACCATGT
48154824 AG
62 AG
* * * * *
48154826 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGT-GATACA--TG-TGTACACCATGT
48154891 AG
62 AG
* * * * * *
48154893 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGGGATATA-TGTAGCTAGGTCGCATGGGTGATAC-ATGTGTACACCATGTAG
48154955 TACAAGAGAGC
1 -ACAAGAGAGC
48154966 CGAACTATAT
Statistics
Matches: 117, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
62 1 0.01
63 39 0.33
64 8 0.07
65 6 0.05
66 17 0.15
67 44 0.38
68 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (63 bp):
ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACATGTGTACACCATGTAG
Found at i:48159843 original size:44 final size:44
Alignment explanation
Indices: 48159707--48159898 Score: 171
Period size: 44 Copynumber: 4.4 Consensus size: 44
48159697 ATGCCAACTT
* * * * *
48159707 CCCAGACGTGGTCTTACACGT-AA-TTCAGTATCAATGCCTCTGT
1 CCCAGACATGGTCTTACACGTAAATTTCA-AATCGATGCCTGTGC
* * * * *
48159750 CCCAAACAGGGTCTTATACG-AAA--TCAGATACGATGCC-GATGT
1 CCCAGACATGGTCTTACACGTAAATTTCAAAT-CGATGCCTG-TGC
* *
48159792 CCTAGACATGGTCTTACACGTAAATTTCAAATCGATGTCTGTGC
1 CCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGTGC
* *
48159836 CCCAGACATGGTCTTACATGTAAATTTCAAATCGATGCCTGTGT
1 CCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGTGC
**
48159880 CCCAGACACCGTCTTACAC
1 CCCAGACATGGTCTTACAC
48159899 AATAATTCAG
Statistics
Matches: 121, Mismatches: 21, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.02
42 28 0.23
43 21 0.17
44 64 0.53
45 6 0.05
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (44 bp):
CCCAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGTGC
Found at i:48163953 original size:15 final size:13
Alignment explanation
Indices: 48163924--48163950 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48163914 GGTCTACAGG
48163924 GACACGCCCGTGT
1 GACACGCCCGTGT
48163937 GACACGCCCGTGT
1 GACACGCCCGTGT
48163950 G
1 G
48163951 TGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:48179736 original size:14 final size:13
Alignment explanation
Indices: 48179717--48179771 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
48179707 TGAATCCTCC
48179717 TATTTTTTTATTCT
1 TATTTTTTTATT-T
48179731 TA--TTTTTATTT
1 TATTTTTTTATTT
48179742 TATTTTATTTATTT
1 TATTTT-TTTATTT
*
48179756 T-TCTTTTT-TTT
1 TATTTTTTTATTT
48179767 TATTT
1 TATTT
48179772 CAATTTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
11 7 0.20
12 13 0.37
13 5 0.14
14 10 0.29
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:48179742 original size:20 final size:19
Alignment explanation
Indices: 48179719--48179790 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
48179709 AATCCTCCTA
48179719 TTTTTTTATTCTTATTTTTAT
1 TTTTTTTA-T-TTATTTTTAT
*
48179740 TTTATTTTATTTATTTTTCTT
1 TTT-TTTTATTTATTTTT-AT
*
48179761 TTTTTTTATTTCAATTTTA-
1 TTTTTTTATTT-ATTTTTAT
*
48179780 TTATTTTATTT
1 TTTTTTTATTT
48179791 TGAAAGACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 10 0.23
20 16 0.36
21 13 0.30
22 5 0.11
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTTATTTATTTTTAT
Found at i:48179754 original size:4 final size:5
Alignment explanation
Indices: 48179722--48179791 Score: 56
Period size: 5 Copynumber: 13.8 Consensus size: 5
48179712 CCTCCTATTT
* *
48179722 TTTTA TTCTTA TTTTTA TTTTA TTTTA -TTTA TTTTTC TTTTT TTTTA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA
*
48179769 TTTCAA TTTTA --TTA TTTTA TTTT
1 TTT-TA TTTTA TTTTA TTTTA TTTT
48179792 GAAAGACATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
3 3 0.06
4 4 0.08
5 31 0.58
6 13 0.25
7 2 0.04
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:48179762 original size:25 final size:25
Alignment explanation
Indices: 48179717--48179771 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
48179707 TGAATCCTCC
48179717 TATTTTTTTATTCTTATTTTTATTT
1 TATTTTTTTATTCTTATTTTTATTT
* *
48179742 TATTTTATTTATTTTTCTTTTT-TTT
1 TATTTT-TTTATTCTTATTTTTATTT
48179767 TATTT
1 TATTT
48179772 CAATTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.82
Consensus pattern (25 bp):
TATTTTTTTATTCTTATTTTTATTT
Found at i:48184082 original size:40 final size:40
Alignment explanation
Indices: 48184038--48184117 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
48184028 ATTTTTTGAT
48184038 TCTTAAGTGCTGTTTTGGTATTTTGGAAACGAGTTTCTAA
1 TCTTAAGTGCTGTTTTGGTATTTTGGAAACGAGTTTCTAA
* *
48184078 TCTTAAGTGTTGTTTTGGTATTTTGGAAATGAGTTTCTAA
1 TCTTAAGTGCTGTTTTGGTATTTTGGAAACGAGTTTCTAA
48184118 CACCGAGATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.23, C:0.07, G:0.23, T:0.47
Consensus pattern (40 bp):
TCTTAAGTGCTGTTTTGGTATTTTGGAAACGAGTTTCTAA
Found at i:48193116 original size:40 final size:40
Alignment explanation
Indices: 48193056--48193199 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
48193046 TATTCGAATG
* *
48193056 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
48193096 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
*
48193136 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
48193176 ATATTCAGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
48193200 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.02
40 85 0.96
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:48193189 original size:80 final size:79
Alignment explanation
Indices: 48193056--48193235 Score: 231
Period size: 80 Copynumber: 2.3 Consensus size: 79
48193046 TATTCGAATG
* * * * *
48193056 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCAGGACTAAGACCCGAAGGC-
* *
48193121 TTTGTGCGAGTTGCT
65 CTTGTGCGAGTGGCT
48193136 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATTCAGG-CTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATA-TCAGGACTAAGACCCGAAGGC
*
48193200 CTTGTGCGAGTGGTT
65 CTTGTGCGAGTGGCT
*
48193215 ATAT-CTGGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
48193236 ATACTTGGGT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
77 1 0.01
78 14 0.16
79 16 0.18
80 54 0.61
81 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACCATATCAGGACTAAGACCCGAAGGCC
TTGTGCGAGTGGCT
Found at i:48200407 original size:40 final size:40
Alignment explanation
Indices: 48200363--48200629 Score: 346
Period size: 40 Copynumber: 6.7 Consensus size: 40
48200353 GCTACTTGCT
*
48200363 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
48200403 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
48200443 CAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
48200483 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
48200522 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
48200562 CAAATGCCTTCGGGACTTAGCCCGGAATTA-A-TCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTATAGTAACTCGCA
* * *
48200602 CAAATGTCTTCGGGACTTAACCCCGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA
48200630 GCATCCGAAT
Statistics
Matches: 205, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
38 4 0.02
39 32 0.16
40 167 0.81
41 1 0.00
43 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:48200541 original size:119 final size:120
Alignment explanation
Indices: 48200363--48200620 Score: 364
Period size: 119 Copynumber: 2.2 Consensus size: 120
48200353 GCTACTTGCT
* * *
48200363 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
*
48200428 -TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCACA
66 AAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCACA
*
48200483 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
* * *
48200546 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAATCACT-AGCA
65 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATA-TAGTAACTCA-CA
*
48200602 CAAATGTCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
48200621 ACCCCGTTAG
Statistics
Matches: 124, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
118 3 0.02
119 102 0.82
120 19 0.15
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGGATATAGTAACTCACA
Found at i:48205934 original size:28 final size:29
Alignment explanation
Indices: 48205867--48205967 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
48205857 ATAGTGAATC
*
48205867 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
48205896 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
48205924 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
48205954 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48205968 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:48238755 original size:18 final size:18
Alignment explanation
Indices: 48238732--48238771 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
48238722 CCCACCTCTT
48238732 GCCCATATTGGGCCGTAA
1 GCCCATATTGGGCCGTAA
48238750 GCCC--ATTGGGCCGTAA
1 GCCCATATTGGGCCGTAA
48238766 GCCCAT
1 GCCCAT
48238772 TGGGCCCAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 16 0.80
18 4 0.20
ACGTcount: A:0.20, C:0.33, G:0.28, T:0.20
Consensus pattern (18 bp):
GCCCATATTGGGCCGTAA
Found at i:48238759 original size:16 final size:16
Alignment explanation
Indices: 48238738--48238777 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
48238728 TCTTGCCCAT
48238738 ATTGGGCCGTAAGCCC
1 ATTGGGCCGTAAGCCC
48238754 ATTGGGCCGTAAGCCC
1 ATTGGGCCGTAAGCCC
48238770 ATTGGGCC
1 ATTGGGCC
48238778 CAGTTTTGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (16 bp):
ATTGGGCCGTAAGCCC
Found at i:48257870 original size:40 final size:39
Alignment explanation
Indices: 48257797--48257961 Score: 163
Period size: 40 Copynumber: 4.2 Consensus size: 39
48257787 CGGATGATAA
* *
48257797 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATT--GGGCTAAGTCC
48257837 CGAAGGCATTTGTGCGAGTTACTATATATGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAT-TGGGCTAAGTCC
* * * **
48257877 GGAAGGCATTGGTGCGAGCTACTATATCCAGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAT-TGGGCTAAGTCC
* ** * *
48257917 CGAAGGCATTTGAGCGAG-TAGCTATATCCGGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATTGGGCTAAGTCC
48257956 CGAAGG
1 CGAAGG
48257962 TACTTGGTTT
Statistics
Matches: 108, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 17 0.16
40 88 0.81
41 2 0.02
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGTTACTATATTGGGCTAAGTCC
Found at i:48260631 original size:11 final size:11
Alignment explanation
Indices: 48260615--48260639 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48260605 AATATCTTAG
48260615 GCCCTTTTTAA
1 GCCCTTTTTAA
48260626 GCCCTTTTTAA
1 GCCCTTTTTAA
48260637 GCC
1 GCC
48260640 AAGTAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.32, G:0.12, T:0.40
Consensus pattern (11 bp):
GCCCTTTTTAA
Found at i:48264822 original size:26 final size:26
Alignment explanation
Indices: 48264793--48264900 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
48264783 TGGTACAAAT
*
48264793 TGATAATCGG-TTAGGTAAATGTTTCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
48264819 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
48264845 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
48264871 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
48264897 TGAT
1 TGAT
48264901 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:48266537 original size:27 final size:27
Alignment explanation
Indices: 48266497--48266637 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
48266487 AGGAAGCGTC
*
48266497 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
48266524 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
48266550 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* * *
48266578 CTGGTGGCACTGCCAC-ATATATTTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
48266605 CTGGTGGCTCTGCCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
48266632 CTGGTG
1 CTGGTG
48266638 ACTTCGTCAA
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 9 0.09
27 84 0.87
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:48266576 original size:54 final size:54
Alignment explanation
Indices: 48266494--48266637 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
48266484 TGGAGGAAGC
*
48266494 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
*
48266548 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATTT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
* * *
48266602 GTTCTGGTGGCTCTGCCACAA-TATCTATATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-GATCTGGTG
48266638 ACTTCGTCAA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 79 0.94
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
Found at i:48267496 original size:20 final size:20
Alignment explanation
Indices: 48267471--48267508 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48267461 GTTTATTCGC
*
48267471 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
48267491 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
48267509 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:48269165 original size:28 final size:28
Alignment explanation
Indices: 48269133--48269201 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48269123 GCGTAGATCA
48269133 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48269161 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48269189 CGATA-TACCCCTA
1 CGAAATTACCCCTA
48269202 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48275499 original size:20 final size:20
Alignment explanation
Indices: 48275474--48275511 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48275464 GTTTATTCGC
*
48275474 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
48275494 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
48275512 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:48277169 original size:28 final size:28
Alignment explanation
Indices: 48277137--48277205 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
48277127 GCGTAGATCA
48277137 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48277165 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48277193 CGATA-TACCCCTA
1 CGAAATTACCCCTA
48277206 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48285732 original size:39 final size:39
Alignment explanation
Indices: 48285648--48285800 Score: 225
Period size: 39 Copynumber: 3.9 Consensus size: 39
48285638 TATGGTAACC
** * *
48285648 CGCACAAAGGCCTTCGGGACTTAACCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
48285688 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48285727 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48285766 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
48285801 TCGAACATTC
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 88 0.85
40 15 0.15
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48285773 original size:78 final size:79
Alignment explanation
Indices: 48285617--48285799 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
48285607 TCGTTCAAAC
* * **
48285617 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
48285682 ACAATTTGCACAATT
65 ACAATTTGCACAATT
* ** *
48285697 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
48285761 CAATTTGCACAATT
66 CAATTTGCACAATT
48285775 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
48285800 CTCGAACATT
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
CAATTTGCACAATT
Found at i:48287059 original size:17 final size:19
Alignment explanation
Indices: 48287017--48287060 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48287007 ATAAAATTTT
*
48287017 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
48287036 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
48287054 AA-TATTA
1 AATTATTA
48287061 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:48288889 original size:28 final size:28
Alignment explanation
Indices: 48288856--48288952 Score: 144
Period size: 28 Copynumber: 3.5 Consensus size: 28
48288846 GCGTAGATCA
48288856 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
* *
48288884 TGAAATCACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
48288912 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
48288940 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
48288953 GGGTTTAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.13
28 52 0.83
ACGTcount: A:0.45, C:0.27, G:0.08, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:48306005 original size:39 final size:39
Alignment explanation
Indices: 48305961--48306273 Score: 522
Period size: 39 Copynumber: 8.1 Consensus size: 39
48305951 ATTATATTAT
* * *
48305961 CAGCACAAAGCCTGCGAGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48306000 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48306039 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
48306078 CAGCACGAAGCCTGCGGGACTTTGGCCC-GA-ATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
48306115 CAGCACGAAGCCTGCGAGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
48306154 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48306193 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48306232 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
48306271 CAG
1 CAG
48306274 TGTCTTGCAT
Statistics
Matches: 261, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
37 33 0.13
38 4 0.02
39 224 0.86
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:48306183 original size:154 final size:154
Alignment explanation
Indices: 48305961--48306260 Score: 555
Period size: 154 Copynumber: 1.9 Consensus size: 154
48305951 ATTATATTAT
48305961 CAGCACAAAGCCTGCGAGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACAAAGCCTGCGAGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
48306026 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCT
66 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCT
*
48306091 GCGGGACTTTGGCCCGAATATTTC
131 GCGGGACTTTAGCCCGAATATTTC
* ** *
48306115 CAGCACGAAGCCTGCGAGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACAAAGCCTGCGAGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
48306180 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCT
66 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCT
48306245 GCGGGACTTTAGCCCG
131 GCGGGACTTTAGCCCG
48306261 GATACATTTC
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
154 141 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (154 bp):
CAGCACAAAGCCTGCGAGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCT
GCGGGACTTTAGCCCGAATATTTC
Found at i:48314935 original size:40 final size:40
Alignment explanation
Indices: 48314861--48315082 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
48314851 AACCCAAGTA
* *
48314861 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
48314900 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
48314940 CCTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
48314980 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
48315020 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
48315060 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48315083 CATTCGAATA
Statistics
Matches: 171, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.07
40 156 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:48317646 original size:40 final size:40
Alignment explanation
Indices: 48317593--48317761 Score: 259
Period size: 40 Copynumber: 4.2 Consensus size: 40
48317583 GTATTTGTGC
* *
48317593 GGGTTATTGTAACCGGGTTAAGTCCCGAAGGCATTCTTGT
1 GGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGT
* *
48317633 GGGTTATTATAACCGGGGTAAGTCTCGAAGGCATTCGTGT
1 GGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGT
* *
48317673 GGGTTATTATAACCGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGT
*
48317713 GGGTTATTATAACTGGGTTAAGTCCCGAAGGCATTCGTGCT
1 GGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTG-T
48317754 -GGTTATTA
1 GGGTTATTA
48317762 CATCCGAGCC
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (40 bp):
GGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGT
Found at i:48338707 original size:29 final size:29
Alignment explanation
Indices: 48338673--48338747 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
48338663 TACTCGATTT
*
48338673 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
48338702 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
48338731 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
48338748 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:48338764 original size:29 final size:29
Alignment explanation
Indices: 48338731--48338804 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
48338721 CCTTCGAGCT
48338731 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
48338760 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
48338789 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
48338805 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:48343662 original size:46 final size:46
Alignment explanation
Indices: 48343612--48343787 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
48343602 TGGTTGAGCA
*
48343612 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48343658 TCCGAACTCGTTGAGTTGAGTCCGAATTC-GTGA--GATGC-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48343703 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
48343751 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48343788 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 3 0.03
46 60 0.55
47 28 0.26
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48343768 original size:93 final size:93
Alignment explanation
Indices: 48343609--48343780 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
48343599 GGATGGTTGA
* * *
48343609 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48343674 TGAGTCCGAATTCGTGAGATGCAACTAG
66 TGAGTCCGAATTCGTGAGATGCAACTAG
* *
48343702 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
48343767 TGAGTCCGAGTTCG
66 TGAGTCCGAATTCG
48343781 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAATTCGTGAGATGCAACTAG
Found at i:48345627 original size:222 final size:222
Alignment explanation
Indices: 48345234--48345674 Score: 794
Period size: 222 Copynumber: 2.0 Consensus size: 222
48345224 TTTATTTAAA
48345234 CTAGGATGATTATTTTGATTGAATAATATTTATTCGATTCATGCTTATAATATTTGTGCCTTAGT
1 CTAGGATGATTATTTTGATTGAATAATATTTATTCGATTCATGCTTATAATATTTGTGCCTTAGT
* *
48345299 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAATTGCACCTGAAT
66 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
*
48345364 TAGCTGAGCGATCCTAACCAAACGACGGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
131 TAGCTGAGCGATCCTAACCAAACGACAGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
48345429 AGAT-CTTAACCCGATTAAATTGCAGGT
196 AGATGC-TAACCCGATTAAATTGCAGGT
*
48345456 CTAGGATGATTATTTTGATTGAATAATATTTATTTGATTCATGCTTATAATATTTGTGCCTTAGT
1 CTAGGATGATTATTTTGATTGAATAATATTTATTCGATTCATGCTTATAATATTTGTGCCTTAGT
48345521 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
66 CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
* * * *
48345586 TAGCTGAGTGATCCTAACCAGATGACAGCTAATGGACACATAATTGAAATGTGCATGCTCAATTT
131 TAGCTGAGCGATCCTAACCAAACGACAGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
48345651 AGATGCTAACCCGATTAAATTGCA
196 AGATGCTAACCCGATTAAATTGCA
48345675 AGTTGCATAA
Statistics
Matches: 210, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
222 209 1.00
223 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (222 bp):
CTAGGATGATTATTTTGATTGAATAATATTTATTCGATTCATGCTTATAATATTTGTGCCTTAGT
CGATCATGTTTTCAATTAAAATCAAGTCTGTATTTCGTTCGTACGTGATTGAAATGCACCTAAAT
TAGCTGAGCGATCCTAACCAAACGACAGCTAATGAACACATAATTGAAATGTGCATGCTCAATTT
AGATGCTAACCCGATTAAATTGCAGGT
Found at i:48356953 original size:33 final size:33
Alignment explanation
Indices: 48356927--48357079 Score: 243
Period size: 33 Copynumber: 4.6 Consensus size: 33
48356917 CCTTTCCAAG
*
48356927 TGGTACACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
*
48356960 TGGTATACACAAAGTATACCTTTCCTTTTTATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* *
48356993 TGATATACACAAAGTATACCTTCCCTTTTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
* * *
48357026 TGGTATACATAAATTATACCTTTCCTTGTCATA
1 TGGTATACACAAAGTATACCTTTCCTTTTCATA
48357059 TGGTATACACAAAGTATACCT
1 TGGTATACACAAAGTATACCT
48357080 AACATTTCCA
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 108 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (33 bp):
TGGTATACACAAAGTATACCTTTCCTTTTCATA
Found at i:48357124 original size:32 final size:33
Alignment explanation
Indices: 48357065--48357129 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
48357055 CATATGGTAT
*
48357065 ACACAAAGTATACCTAACATTTCCAAG-TGTAC
1 ACACAAAGTATACATAACATTTCCAAGTTGTAC
* * * *
48357097 ACACAAAGTGTACATAGCCTTTTCAAGTTGTAC
1 ACACAAAGTATACATAACATTTCCAAGTTGTAC
48357130 CATTTGGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (33 bp):
ACACAAAGTATACATAACATTTCCAAGTTGTAC
Found at i:48364641 original size:99 final size:99
Alignment explanation
Indices: 48364503--48364726 Score: 353
Period size: 99 Copynumber: 2.3 Consensus size: 99
48364493 GAGGTGTACA
* * *
48364503 TTCCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACC
1 TTCCTTTTCAAGTGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATACA
48364568 TTTCCTTTTCATATGATATACACAAAGTATACCT
66 TTTCCTTTTCATATGATATACACAAAGTATACCT
48364602 TTCCTTTTCATA-TGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATAC
1 TTCCTTTTCA-AGTGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATAC
*
48364666 ATTTCCTTTTCATATGGTATACACAAAGTATACCT
65 ATTTCCTTTTCATATGATATACACAAAGTATACCT
** * *
48364701 AACCTTTCCAAGTG-TACACACAAAGT
1 TTCCTTTTCAAGTGATATACACAAAGT
48364727 GTACATAGCC
Statistics
Matches: 115, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
98 12 0.10
99 102 0.89
100 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.37
Consensus pattern (99 bp):
TTCCTTTTCAAGTGATATACACAAAGTATACCTTCCCTTTTCATATGGTATACACAAAGTATACA
TTTCCTTTTCATATGATATACACAAAGTATACCT
Found at i:48364707 original size:33 final size:33
Alignment explanation
Indices: 48364503--48364700 Score: 344
Period size: 33 Copynumber: 6.0 Consensus size: 33
48364493 GAGGTGTACA
48364503 TTCCTTTTCA-AGTGGTATACACAAAGTATACCT
1 TTCCTTTTCATA-TGGTATACACAAAGTATACCT
48364536 TTCCTTTTCATATGGTATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
*
48364569 TTCCTTTTCATATGATATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
*
48364602 TTCCTTTTCATATGATATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
* *
48364635 TCCCTTTTCATATGGTATACACAAAGTATACAT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
48364668 TTCCTTTTCATATGGTATACACAAAGTATACCT
1 TTCCTTTTCATATGGTATACACAAAGTATACCT
48364701 AACCTTTCCA
Statistics
Matches: 158, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
33 157 0.99
34 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (33 bp):
TTCCTTTTCATATGGTATACACAAAGTATACCT
Found at i:48364707 original size:66 final size:65
Alignment explanation
Indices: 48364505--48364742 Score: 325
Period size: 66 Copynumber: 3.6 Consensus size: 65
48364495 GGTGTACATT
*
48364505 CCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACCTT
1 CCTTTTCAA-TGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTT
*
48364570 T
65 A
* * *
48364571 CCTTTTCATATGATATACACAAAGTATACCTTTCCTTTTCATATGATATACACAAAGTATACCTT
1 CCTTTTCA-ATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTT
*
48364636 C
65 A
*
48364637 CCTTTTCATATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTA
1 CCTTTTCA-ATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTT
48364702 A
65 A
* * * **
48364703 CCTTTCCAA-GTGTACACACAAAGTGTACATAGCCTTTTCA
1 CCTTTTCAATG-GTATACACAAAGTATACATTTCCTTTTCA
48364743 AGTTGTACCA
Statistics
Matches: 157, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
64 1 0.01
65 26 0.17
66 129 0.82
67 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
CCTTTTCAATGGTATACACAAAGTATACATTTCCTTTTCATATGGTATACACAAAGTATACCTTA
Found at i:48364739 original size:32 final size:33
Alignment explanation
Indices: 48364653--48364750 Score: 92
Period size: 32 Copynumber: 3.0 Consensus size: 33
48364643 CATATGGTAT
** * * *
48364653 ACACAAAGTATACATTTCCTTTTCATA-TGGTAT
1 ACACAAAGTATACATAACCTTTCCA-AGTTGTAC
*
48364686 ACACAAAGTATACCTAACCTTTCCAAG-TGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
* * *
48364718 ACACAAAGTGTACATAGCCTTTTCAAGTTGTAC
1 ACACAAAGTATACATAACCTTTCCAAGTTGTAC
48364751 CATTTGGGTA
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 27 0.51
33 26 0.49
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (33 bp):
ACACAAAGTATACATAACCTTTCCAAGTTGTAC
Found at i:48364980 original size:23 final size:23
Alignment explanation
Indices: 48364950--48364995 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
48364940 TATAAGTCAC
48364950 AAATCAATAATTGTTCATTACAT
1 AAATCAATAATTGTTCATTACAT
48364973 AAATCAATAATTGTTCATTACAT
1 AAATCAATAATTGTTCATTACAT
48364996 GTACTTACCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (23 bp):
AAATCAATAATTGTTCATTACAT
Found at i:48368492 original size:40 final size:40
Alignment explanation
Indices: 48368437--48368646 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48368427 AACATTGGAA
48368437 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48368477 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48368517 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
48368557 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
48368596 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48368637 CTATATCCGG
1 ATATATCCGG
48368647 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:48376609 original size:40 final size:40
Alignment explanation
Indices: 48376554--48376763 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
48376544 AACATTGGAA
48376554 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48376594 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
48376634 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
48376674 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
48376713 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
48376754 CTATATCCGG
1 ATATATCCGG
48376764 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:48379082 original size:27 final size:27
Alignment explanation
Indices: 48379052--48379106 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
48379042 ATAGGGAGAG
48379052 AAGTAAAACATCCTGAATGATGAATGA
1 AAGTAAAACATCCTGAATGATGAATGA
*
48379079 AAGTAAAACTTCCTGAATGATGAATGA
1 AAGTAAAACATCCTGAATGATGAATGA
48379106 A
1 A
48379107 CTCCTTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (27 bp):
AAGTAAAACATCCTGAATGATGAATGA
Found at i:48392899 original size:43 final size:42
Alignment explanation
Indices: 48392778--48392930 Score: 121
Period size: 43 Copynumber: 3.6 Consensus size: 42
48392768 AGCTTATACA
** * * ** * *
48392778 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATCAAATCATA-ATCG
* * * *
48392821 ATCCCACTGTCCCAGACAGGGCCTTACATCAAATCA-AATACG
1 ATGCCAATGTCCCAGACATGGTCTTACATCAAATCATAAT-CG
**
48392863 ATGCTGATGTCCCAGACATGGTCTTACA-CATTAATCATAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATCA--AATCATAATCG
*
48392906 ATGCCAATGTCCCAAACATGGTCTT
1 ATGCCAATGTCCCAGACATGGTCTT
48392931 TGTAATATCC
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 4 0.05
42 24 0.28
43 55 0.64
44 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATCAAATCATAATCG
Found at i:48394265 original size:46 final size:46
Alignment explanation
Indices: 48394215--48394390 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48394205 TGGTTGAGCA
48394215 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48394261 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48394306 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48394354 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48394391 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48394371 original size:93 final size:93
Alignment explanation
Indices: 48394212--48394383 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48394202 GGATGGTTGA
* *
48394212 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48394277 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48394305 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48394370 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
48394384 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48401824 original size:46 final size:46
Alignment explanation
Indices: 48401774--48401949 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48401764 TGGTTGAGCA
48401774 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48401820 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
48401865 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48401913 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48401950 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48401885 original size:93 final size:93
Alignment explanation
Indices: 48401771--48401942 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
48401761 GGATGGTTGA
* *
48401771 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48401836 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
48401864 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
48401929 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
48401943 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:48406340 original size:13 final size:14
Alignment explanation
Indices: 48406310--48406342 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48406300 AATATATCAA
*
48406310 TTATTATTTTTATG
1 TTATTATCTTTATG
48406324 TTATTATCTTT-TG
1 TTATTATCTTTATG
48406337 TTATTA
1 TTATTA
48406343 GATGAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (14 bp):
TTATTATCTTTATG
Found at i:48406609 original size:50 final size:50
Alignment explanation
Indices: 48406492--48406765 Score: 267
Period size: 50 Copynumber: 5.6 Consensus size: 50
48406482 TGTGGGAACA
* * *** * *
48406492 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT--TGTTAGGTCG
* *
48406544 CGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG
* * ** * *
48406594 CATGTTTAGTACTAAGTGCAGGCTACTATGCATACCCA-ATAGCT---TCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGTTAGGTCG
* * * *
48406641 -A--T-CACGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTA-GTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG
* *
48406688 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG
48406738 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
48406766 TGCATACCAG
Statistics
Matches: 180, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
43 3 0.02
44 28 0.16
46 1 0.01
47 5 0.03
50 106 0.59
51 4 0.02
52 33 0.18
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCG
Found at i:48406762 original size:144 final size:145
Alignment explanation
Indices: 48406500--48406773 Score: 469
Period size: 144 Copynumber: 1.9 Consensus size: 145
48406490 CACATGTGTA
* * * *
48406500 GTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAAGTGTAG
1 GTACTAAGTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAAGTGCAG
* *
48406565 GCTACTACGTGTACCAGATTGTTAGGTCGCATGTTTAGTACTAAGTGCAGGCTACTATGCATACC
65 GCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
48406630 CAATAGCTTCGATCAC
130 CAATAGCTTCGATCAC
*
48406646 GTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTAAGTGCAGG
1 GTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCAGG
48406710 CTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
66 CTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACC
48406774 AGAGAGCTTT
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
144 91 0.75
146 30 0.25
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (145 bp):
GTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGCAGG
CTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCC
AATAGCTTCGATCAC
Found at i:48409172 original size:25 final size:24
Alignment explanation
Indices: 48409144--48409223 Score: 106
Period size: 25 Copynumber: 3.2 Consensus size: 24
48409134 ATGCTCATAC
* *
48409144 GAGCTATGAACCGGTATGCTCTCAT
1 GAGCTA-GAATCGGTAAGCTCTCAT
48409169 GAGCTGAGAATCGGTAAGCTCTCAT
1 GAGCT-AGAATCGGTAAGCTCTCAT
* *
48409194 GAGCTAAAATCAGTAAGCTCTCAT
1 GAGCTAGAATCGGTAAGCTCTCAT
48409218 GAGCTA
1 GAGCTA
48409224 AAAGTAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
24 23 0.46
25 26 0.52
26 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (24 bp):
GAGCTAGAATCGGTAAGCTCTCAT
Found at i:48409209 original size:24 final size:24
Alignment explanation
Indices: 48409161--48409226 Score: 105
Period size: 24 Copynumber: 2.7 Consensus size: 24
48409151 GAACCGGTAT
* *
48409161 GCTCTCATGAGCTGAGAATCGGTAA
1 GCTCTCATGAGCT-AAAATCAGTAA
48409186 GCTCTCATGAGCTAAAATCAGTAA
1 GCTCTCATGAGCTAAAATCAGTAA
48409210 GCTCTCATGAGCTAAAA
1 GCTCTCATGAGCTAAAA
48409227 GTAATAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 26 0.67
25 13 0.33
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (24 bp):
GCTCTCATGAGCTAAAATCAGTAA
Found at i:48409234 original size:24 final size:24
Alignment explanation
Indices: 48409161--48409237 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
48409151 GAACCGGTAT
* **
48409161 GCTCTCATGAGCTGAGAATCGGTAA
1 GCTCTCATGAGCT-AAAATCAATAA
*
48409186 GCTCTCATGAGCTAAAATCAGTAA
1 GCTCTCATGAGCTAAAATCAATAA
48409210 GCTCTCATGAGCTAAAAGT-AATAA
1 GCTCTCATGAGCTAAAA-TCAATAA
48409234 GCTC
1 GCTC
48409238 ATACGAGCTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
24 34 0.71
25 14 0.29
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (24 bp):
GCTCTCATGAGCTAAAATCAATAA
Found at i:48414179 original size:27 final size:28
Alignment explanation
Indices: 48414122--48414191 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
48414112 AAACTTGTAC
*
48414122 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48414150 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
48414177 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48414192 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48414202 original size:27 final size:27
Alignment explanation
Indices: 48414122--48414203 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
48414112 AAACTTGTAC
* * *
48414122 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
48414150 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
48414177 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
48414204 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:48422116 original size:27 final size:28
Alignment explanation
Indices: 48422059--48422128 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
48422049 AAACTTGTAC
*
48422059 AGCACTAAGTGTGCGAGTTTGATCATGT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
48422087 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
48422114 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48422129 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:48422139 original size:27 final size:27
Alignment explanation
Indices: 48422059--48422140 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
48422049 AAACTTGTAC
* * *
48422059 AGCACTAAGTGTGCGAGTTTGA-TCATGT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
48422087 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
48422114 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
48422141 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.60
28 18 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:48425020 original size:20 final size:20
Alignment explanation
Indices: 48424996--48425080 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
48424986 ACATACGTGT
48424996 CCCTGTTTGTACTTTGGTAC
1 CCCTGTTTGTACTTTGGTAC
* * ***** *
48425016 TCCTGTTTGCACACACTTGC
1 CCCTGTTTGTACTTTGGTAC
* *
48425036 CCCTGTTTTTACTTCGGTAC
1 CCCTGTTTGTACTTTGGTAC
48425056 CCCTGTTTGTACTTTGGTAC
1 CCCTGTTTGTACTTTGGTAC
48425076 CCCTG
1 CCCTG
48425081 AACAGATTTA
Statistics
Matches: 46, Mismatches: 19, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.11, C:0.31, G:0.18, T:0.41
Consensus pattern (20 bp):
CCCTGTTTGTACTTTGGTAC
Found at i:48425040 original size:40 final size:40
Alignment explanation
Indices: 48424979--48425064 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
48424969 AACTACTGAA
* * * *
48424979 TGTTTGCACATACGTGTCCCTGTTTGTACTTTGGTACTCC
1 TGTTTGCACACACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
48425019 TGTTTGCACACACTTGCCCCTGTTTTTACTTCGGTACCCC
1 TGTTTGCACACACGTGCCCCTGTTTGTACTTCGGTACCCC
48425059 TGTTTG
1 TGTTTG
48425065 TACTTTGGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.42
Consensus pattern (40 bp):
TGTTTGCACACACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:48428600 original size:39 final size:39
Alignment explanation
Indices: 48428519--48428681 Score: 272
Period size: 39 Copynumber: 4.2 Consensus size: 39
48428509 TATGGTAACC
* *
48428519 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
48428559 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
48428598 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48428637 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
48428676 CGCACA
1 CGCACA
48428682 TTCATACACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48432877 original size:40 final size:39
Alignment explanation
Indices: 48432820--48433004 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 39
48432810 ATTAAATGAT
* * * *
48432820 ATCCGGGCTACGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
48432860 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
* **
48432900 ATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
48432940 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
48432980 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
48433005 CGTGCATGTG
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 119 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:48432956 original size:80 final size:80
Alignment explanation
Indices: 48432819--48433025 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
48432809 AATTAAATGA
* * * ** * * *
48432819 TATCCGGGCTACGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
48432884 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* * *
48432897 TAAATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
48432962 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* *
48432979 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGG
48433026 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
80 103 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:48433010 original size:40 final size:40
Alignment explanation
Indices: 48432818--48433025 Score: 195
Period size: 40 Copynumber: 5.2 Consensus size: 40
48432808 CAATTAAATG
* * * ** * *
48432818 ATATCCGGGCTACGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * * * *
48432858 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* * *
48432898 AAATCCGGGCTAAGACCTGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
48432938 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
48432978 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
48433018 ATATCCGG
1 ATATCCGG
48433026 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
39 4 0.03
40 134 0.94
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:48439577 original size:40 final size:39
Alignment explanation
Indices: 48439513--48439700 Score: 232
Period size: 39 Copynumber: 4.8 Consensus size: 39
48439503 GCTACTCGTT
* * * ** *
48439513 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
48439553 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
48439593 CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
48439632 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
48439671 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
48439701 CTCGAACATT
Statistics
Matches: 133, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 88 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:48439630 original size:39 final size:39
Alignment explanation
Indices: 48439549--48439701 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
48439539 TATGGTAACC
* *
48439549 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
48439589 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
48439628 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
48439667 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
48439702 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:48443583 original size:32 final size:32
Alignment explanation
Indices: 48443542--48443613 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
48443532 TCATCATTAT
*
48443542 TATGAATGCTATGCCTGATGGTAACTTGTAAG
1 TATGAATGCTATGCCTGATGGTAACTCGTAAG
48443574 TATGAATGCTATGCCTGATGGTAACTCGTAAG
1 TATGAATGCTATGCCTGATGGTAACTCGTAAG
*
48443606 TGTGAATG
1 TATGAATG
48443614 ATATTGTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (32 bp):
TATGAATGCTATGCCTGATGGTAACTCGTAAG
Found at i:48446150 original size:30 final size:30
Alignment explanation
Indices: 48446116--48446179 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
48446106 CCCGTGTGCG
48446116 ATTACTTCAGGCCGTGCTCGAGCCTGCCAA
1 ATTACTTCAGGCCGTGCTCGAGCCTGCCAA
48446146 ATTACTTCAGGCCGTGCTCGAGCCTGCCAA
1 ATTACTTCAGGCCGTGCTCGAGCCTGCCAA
48446176 ATTA
1 ATTA
48446180 ACACGGCCGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (30 bp):
ATTACTTCAGGCCGTGCTCGAGCCTGCCAA
Found at i:48448240 original size:121 final size:122
Alignment explanation
Indices: 48448073--48448314 Score: 353
Period size: 121 Copynumber: 2.0 Consensus size: 122
48448063 CTAGGCCATG
* *
48448073 TGGCTACATGATCGCGTCACACGGTCGTGTCTGGCGCGGTTCGCTTCTCCCACGGTCGTGTACCT
1 TGGCTACATGATCGCGTCACACGGACGTGTCTGGCGCGGTTCGCTTCTCCCACGGTCGTGCACCT
* * * * *
48448138 CT-TACATGCTCGTGTTATTTTGATCGTGTCGTCAACGGGTGCTAGACATGGGCGTA
66 CTGCACACGCTCATGTTATTTTGATCGTGTCGTCAACAGGTGCTAGAAATGGGCGTA
* * *
48448194 TGGCTACATGATCGTGTCGCAC-GACGGTGTCTGGCGCGGTTTGCTTCTCCCACGGTCGTGCACC
1 TGGCTACATGATCGCGTCACACGGAC-GTGTCTGGCGCGGTTCGCTTCTCCCACGGTCGTGCACC
* *
48448258 TCTGCACACGCTCATGTTATTTTGCTCGTGTCGTCCACAGGTGCTAGAAATGGGCGT
65 TCTGCACACGCTCATGTTATTTTGATCGTGTCGTCAACAGGTGCTAGAAATGGGCGT
48448315 GCCACATGCC
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
120 2 0.02
121 59 0.55
122 46 0.43
ACGTcount: A:0.14, C:0.27, G:0.29, T:0.30
Consensus pattern (122 bp):
TGGCTACATGATCGCGTCACACGGACGTGTCTGGCGCGGTTCGCTTCTCCCACGGTCGTGCACCT
CTGCACACGCTCATGTTATTTTGATCGTGTCGTCAACAGGTGCTAGAAATGGGCGTA
Found at i:48452987 original size:25 final size:21
Alignment explanation
Indices: 48452969--48453018 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
48452959 TATGATAGCT
48452969 TGATATCGATGGATGTATGATA
1 TGATAT-GATGGATGTATGATA
*
48452991 TGGTATGATGGATGTATGATA
1 TGATATGATGGATGTATGATA
*
48453012 TGGTATG
1 TGATATG
48453019 TATATTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.28, C:0.02, G:0.32, T:0.38
Consensus pattern (21 bp):
TGATATGATGGATGTATGATA
Done.