Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 74 of 126
Found at i:22054494 original size:26 final size:27
Alignment explanation
Indices: 22054456--22054512 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
22054446 CTTAGTTTTA
*
22054456 TTTAATTTAGGCTATTCTTTA-TATAAT
1 TTTAATTTAGGCTATTC-ATACTATAAT
*
22054483 TTTAATTT-GGCTTTTCATACTATAAT
1 TTTAATTTAGGCTATTCATACTATAAT
22054509 TTTA
1 TTTA
22054513 GATTATTACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 17 0.63
27 8 0.30
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTAATTTAGGCTATTCATACTATAAT
Found at i:22065381 original size:19 final size:20
Alignment explanation
Indices: 22065357--22065404 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
22065347 TTTTAATAAT
22065357 AATAAATAGAAAAGAAAT-A
1 AATAAATAGAAAAGAAATCA
**
22065376 AATAAATA-CCAAGAAATCA
1 AATAAATAGAAAAGAAATCA
22065395 AAT-AATAGAA
1 AATAAATAGAA
22065405 GCTGTCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (20 bp):
AATAAATAGAAAAGAAATCA
Found at i:22077963 original size:72 final size:72
Alignment explanation
Indices: 22077839--22077982 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 72
22077829 GCAGTCTAAA
* * *
22077839 GGAAAGCCCTAGCGGCTATCATATGAATGGAACACCTTTGTGGCAGACCCTGAAGAAAGAAATGG
1 GGAAAGCCCTAGCAGCTATCATATGAAGGGAACACCTTTGTGGCAAACCCTGAAGAAAGAAATGG
22077904 TGAGTAT
66 TGAGTAT
* * * ** *
22077911 GGAAAGCCCTGGCAGCTATCATCTGACGGGAATGCCTTTGTGGCAAATCCTGAAGAAAGAAATGG
1 GGAAAGCCCTAGCAGCTATCATATGAAGGGAACACCTTTGTGGCAAACCCTGAAGAAAGAAATGG
22077976 TGAGTAT
66 TGAGTAT
22077983 AGCAAACCCT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (72 bp):
GGAAAGCCCTAGCAGCTATCATATGAAGGGAACACCTTTGTGGCAAACCCTGAAGAAAGAAATGG
TGAGTAT
Found at i:22088954 original size:40 final size:40
Alignment explanation
Indices: 22088854--22089118 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
22088844 GCTCCTCGTT
* * * *
22088854 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
22088894 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
22088933 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
22088973 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
22089013 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
22089053 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
22089094 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
22089119 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:22089078 original size:80 final size:80
Alignment explanation
Indices: 22088821--22089118 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
22088811 AAATCACGTA
* ** * * *
22088821 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
22088883 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
22088899 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
22088962 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
22088979 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
22089043 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
22089059 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
22089119 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:22089127 original size:41 final size:41
Alignment explanation
Indices: 22089050--22089127 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22089040 TTTGTATCTC
* * *
22089050 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22089091 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22089128 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22096846 original size:40 final size:40
Alignment explanation
Indices: 22096802--22097063 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
22096792 GCTCCTCGTT
* *
22096802 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
22096842 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22096882 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22096921 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22096960 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
22096999 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
22097040 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22097064 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:22100044 original size:20 final size:23
Alignment explanation
Indices: 22100013--22100057 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
22100003 TTGTTTGTAC
22100013 TTAAGTACATTTT-GTT-GCATT
1 TTAAGTACATTTTAGTTAGCATT
22100034 TTAAG-ACATTTTAGTTAGCATT
1 TTAAGTACATTTTAGTTAGCATT
22100056 TT
1 TT
22100058 TAATATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (23 bp):
TTAAGTACATTTTAGTTAGCATT
Found at i:22115159 original size:31 final size:30
Alignment explanation
Indices: 22115121--22115194 Score: 132
Period size: 31 Copynumber: 2.5 Consensus size: 30
22115111 TAGTCCAACA
22115121 CATATATTTGGAAAAATTACCATTTTGCCC
1 CATATATTTGGAAAAATTACCATTTTGCCC
22115151 CTATATATTTGGAAAAATTACCATTTTGCCC
1 C-ATATATTTGGAAAAATTACCATTTTGCCC
22115182 C-TATATTTGGAAA
1 CATATATTTGGAAA
22115195 TTTACACAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
29 12 0.28
30 1 0.02
31 30 0.70
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.38
Consensus pattern (30 bp):
CATATATTTGGAAAAATTACCATTTTGCCC
Found at i:22126113 original size:30 final size:30
Alignment explanation
Indices: 22126079--22126139 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
22126069 CTAATGATTT
22126079 AGTACTGAATTTTGACGAATCTCAATTTCC
1 AGTACTGAATTTTGACGAATCTCAATTTCC
*
22126109 AGTACTGAATTTTGACGAATCTCGATTTCC
1 AGTACTGAATTTTGACGAATCTCAATTTCC
22126139 A
1 A
22126140 ACTAAGTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (30 bp):
AGTACTGAATTTTGACGAATCTCAATTTCC
Found at i:22127324 original size:25 final size:25
Alignment explanation
Indices: 22127296--22127375 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
22127286 AAAATTATTT
22127296 ACTTTACTTTTAACAGAAAAGTAAA
1 ACTTTACTTTTAACAGAAAAGTAAA
** * * **
22127321 ACTTT-CTCTCCAATAG-AAATTATTT
1 ACTTTACT-TTTAACAGAAAAGTA-AA
22127346 ACTTTACTTTTAACAGAAAAGTAAA
1 ACTTTACTTTTAACAGAAAAGTAAA
22127371 ACTTT
1 ACTTT
22127376 CTCTCCAATA
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
24 7 0.18
25 25 0.64
26 7 0.18
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (25 bp):
ACTTTACTTTTAACAGAAAAGTAAA
Found at i:22127362 original size:50 final size:50
Alignment explanation
Indices: 22127287--22127389 Score: 206
Period size: 50 Copynumber: 2.1 Consensus size: 50
22127277 GGACTCAAAA
22127287 AAATTATTTACTTTACTTTTAACAGAAAAGTAAAACTTTCTCTCCAATAG
1 AAATTATTTACTTTACTTTTAACAGAAAAGTAAAACTTTCTCTCCAATAG
22127337 AAATTATTTACTTTACTTTTAACAGAAAAGTAAAACTTTCTCTCCAATAG
1 AAATTATTTACTTTACTTTTAACAGAAAAGTAAAACTTTCTCTCCAATAG
22127387 AAA
1 AAA
22127390 CTGCTAGAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.37
Consensus pattern (50 bp):
AAATTATTTACTTTACTTTTAACAGAAAAGTAAAACTTTCTCTCCAATAG
Found at i:22127388 original size:25 final size:25
Alignment explanation
Indices: 22127310--22127389 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
22127300 TACTTTTAAC
22127310 AGAAAAGTAAAACTTTCTCTCCAAT
1 AGAAAAGTAAAACTTTCTCTCCAAT
* ** ** *
22127335 AG-AAATTATTTACTTTACT-TTTAAC
1 AGAAAAGTA-AAACTTT-CTCTCCAAT
22127360 AGAAAAGTAAAACTTTCTCTCCAAT
1 AGAAAAGTAAAACTTTCTCTCCAAT
22127385 AGAAA
1 AGAAA
22127390 CTGCTAGAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 8
0.66 0.20 0.14
Matches are distributed among these distances:
24 7 0.18
25 25 0.64
26 7 0.18
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (25 bp):
AGAAAAGTAAAACTTTCTCTCCAAT
Found at i:22127816 original size:16 final size:16
Alignment explanation
Indices: 22127795--22127825 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22127785 AAACATCATA
*
22127795 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
22127811 AATTAAATAATTTTC
1 AATTAAATAATTTTC
22127826 TTAACCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:22129575 original size:261 final size:261
Alignment explanation
Indices: 22129107--22129633 Score: 1000
Period size: 261 Copynumber: 2.0 Consensus size: 261
22129097 CCAACCCATT
22129107 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
1 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
* *
22129172 GGTCGACCATAGAAATGAGACAATCAAGGGATTTTCATGCAATCTTCAAAACCCTCTCAAGCCCT
66 GGTCGACCATAGAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
22129237 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
131 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
*
22129302 AGTTCACATTCTCTCATCTCCTTTCCTCTCCTTTTCACACAAAAAGCCATTCATTCTCCCCATTC
196 AGTTCACATTCTCTCATCTCCTTTCCTCTCCTTTTCACACAAAAAACCATTCATTCTCCCCATTC
22129367 C
261 C
22129368 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
1 CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
*
22129433 GGTCGACCATAGAAATGAGAAAATCAAGGGATTTTCCTGCAATCTTCAAAAACCTCTCAAGCCCT
66 GGTCGACCATAGAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
22129498 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
131 CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
* *
22129563 AGTTCGCATTCTCTCATCTCCTTTCCTCTCTTTTTCACACAAAAAACCATTCATTCTCCCCATTC
196 AGTTCACATTCTCTCATCTCCTTTCCTCTCCTTTTCACACAAAAAACCATTCATTCTCCCCATTC
22129628 C
261 C
22129629 CCATA
1 CCATA
22129634 GCTAGCAATA
Statistics
Matches: 260, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
261 260 1.00
ACGTcount: A:0.31, C:0.33, G:0.07, T:0.30
Consensus pattern (261 bp):
CCATAAATAGGGGAGAATCTATCAACAAATCAACTATTTCTTCAACCATACATCCCACAATTCCT
GGTCGACCATAGAAATGAGAAAATCAAGGGATTTTCATGCAATCTTCAAAAACCTCTCAAGCCCT
CCATCCACTATAAATACCACATTTCACTTCACTTTCCATCATACCTCAGCCATCATTCATCTCTC
AGTTCACATTCTCTCATCTCCTTTCCTCTCCTTTTCACACAAAAAACCATTCATTCTCCCCATTC
C
Found at i:22140468 original size:24 final size:24
Alignment explanation
Indices: 22140441--22140487 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
22140431 AGTCCTTACA
22140441 AACCCTAAACAAAAACCCTTAAAG
1 AACCCTAAACAAAAACCCTTAAAG
* *
22140465 AACCCTAAACCATAACCCTTAAA
1 AACCCTAAACAAAAACCCTTAAA
22140488 AGCCTAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (24 bp):
AACCCTAAACAAAAACCCTTAAAG
Found at i:22143172 original size:3 final size:3
Alignment explanation
Indices: 22143164--22143200 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22143154 TGCCTATGGC
22143164 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22143201 AGGAAAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22155807 original size:29 final size:29
Alignment explanation
Indices: 22155744--22155811 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
22155734 TAATCAACCG
22155744 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
22155773 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
22155802 CGCACACTTA
1 CGCACACTTA
22155812 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:22155924 original size:174 final size:174
Alignment explanation
Indices: 22155633--22155960 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
22155623 AACTCAAGGT
* *
22155633 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
22155698 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
22155763 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
22155807 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
22155872 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
22155937 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
22155961 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:22155952 original size:29 final size:30
Alignment explanation
Indices: 22155913--22155991 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
22155903 CTTAATAATC
22155913 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
22155943 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
22155972 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
22155992 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:22157714 original size:61 final size:62
Alignment explanation
Indices: 22157602--22157724 Score: 142
Period size: 61 Copynumber: 2.0 Consensus size: 62
22157592 TTTTTAAAAA
* * * * * ** *
22157602 TTTTAGAATTAGGACTAAATTGATAGATTTTGTGAATGTTGAGGGTCAAATTTATT-AATTT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAGGCTCAAATTTATTGAATTT
*
22157663 TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAGTGCT-AAATTTGTTGAATTT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAG-GCTCAAATTTATTGAATTT
22157725 GAATGTGTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
61 44 0.86
62 7 0.14
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (62 bp):
TTTTAGAATTAGAACTAAAATGAAAAATTTTGTAAATACTGAGGCTCAAATTTATTGAATTT
Found at i:22158125 original size:4 final size:4
Alignment explanation
Indices: 22158116--22158151 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
22158106 AAGCATGAGT
22158116 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
22158152 CTACACTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:22159514 original size:13 final size:13
Alignment explanation
Indices: 22159498--22159527 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22159488 CTTTTACCTT
*
22159498 TTAATTTTCTTAG
1 TTAATTTACTTAG
22159511 TTAATTTACTTAG
1 TTAATTTACTTAG
22159524 TTAA
1 TTAA
22159528 AATCTAGTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:22169578 original size:40 final size:40
Alignment explanation
Indices: 22169261--22169564 Score: 431
Period size: 40 Copynumber: 7.7 Consensus size: 40
22169251 TTGAATGATG
* * *
22169261 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
** * *
22169300 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22169340 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
22169379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
22169419 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
22169459 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22169499 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
22169540 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
22169565 AACGAGGAGC
Statistics
Matches: 246, Mismatches: 12, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
39 53 0.22
40 183 0.74
41 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22174013 original size:24 final size:27
Alignment explanation
Indices: 22173974--22174027 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
22173964 TTCTCCTAAA
22173974 TTTCAAATTTATTTG-ATTATTTAAT-T
1 TTTCAAATTTATTTGAATTA-TTAATAT
22174000 TTTC-AATTTA-TTGAATTATTAATAT
1 TTTCAAATTTATTTGAATTATTAATAT
22174025 TTT
1 TTT
22174028 ATGCAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (27 bp):
TTTCAAATTTATTTGAATTATTAATAT
Found at i:22176322 original size:21 final size:22
Alignment explanation
Indices: 22176278--22176324 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22176268 AAATTTAGTA
*
22176278 TATTTTAAATTTATTACAATAT
1 TATTTTAAATTTATAACAATAT
22176300 TATTTT-AATATTATAAC-ATAT
1 TATTTTAAAT-TTATAACAATAT
22176321 TATT
1 TATT
22176325 GTTCTAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTTATAACAATAT
Found at i:22179482 original size:18 final size:18
Alignment explanation
Indices: 22179447--22179482 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22179437 AAGCGCCGGA
*
22179447 AGTCACCATGGAGCCGAT
1 AGTCACCATGGAACCGAT
*
22179465 AGTCACCATGGAATCGAT
1 AGTCACCATGGAACCGAT
22179483 GCAAAAGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (18 bp):
AGTCACCATGGAACCGAT
Found at i:22183920 original size:88 final size:88
Alignment explanation
Indices: 22183704--22184320 Score: 871
Period size: 88 Copynumber: 7.0 Consensus size: 88
22183694 AACAGATCAG
* * * *
22183704 TGAAGATAGCAGATCTTGCCTTCCTACATTGATAGCGAAGCAGATCGAAGACA-AAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
* * *
22183768 CCATTGGTTGCAGTGGAGCTA-GT
66 CCCTCGGTTGTAGTGGAGC-AGGT
* *
22183791 TGAAGATAGCAGATCTTGCCTTCCTACATCAACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
*
22183856 CTCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
22183879 TGAAGATAGCAGATCTTGCCTTCCTGCACCGATAGCAAAGCAGATCGAAGACACAAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
* * *
22183944 CCATCGGTTGCAGTGGAGCTGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
22183967 TGAAGATAGCAGATCTTGCCTTCCTGCATCAACAGTGAAGTAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
*
22184032 CCCTTGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
22184055 TGAAGATAGCAAATCTTGCCTTCTTGCATCGACAGCGAAGCAGATTGAAGACACAAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
*
22184120 CCCTCGGTTGTAGTAGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* ** * * *
22184143 TGAAGATAGTAGATCTTGCAGTCCTGCATCAACAGCGAAGCAGATCGAAGATACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
22184208 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
22184231 TGAAGATAACAGATCTTGCTTTCCTGCATCGACAGTGAAGTAGATCGAAGGCACAA-TCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGT-CTTGCC
22184295 TCCCTCGGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
22184319 TG
1 TG
22184321 GAAACTACAA
Statistics
Matches: 470, Mismatches: 57, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
87 51 0.11
88 419 0.89
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAGTCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:22185754 original size:21 final size:22
Alignment explanation
Indices: 22185710--22185756 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22185700 AAATTTAGTA
*
22185710 TATTTTAAATTTATTACAATAT
1 TATTTTAAATTTATAACAATAT
22185732 TATTTT-AATATTATAAC-ATAT
1 TATTTTAAAT-TTATAACAATAT
22185753 TATT
1 TATT
22185757 GTTCTAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTAAATTTATAACAATAT
Found at i:22190979 original size:14 final size:14
Alignment explanation
Indices: 22190951--22190984 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
22190941 ACATGTTTCA
*
22190951 TAATT-ATTTTCTT
1 TAATTAATTTTATT
22190964 TAATTAATTTTATT
1 TAATTAATTTTATT
22190978 TAATTAA
1 TAATTAA
22190985 GAGATCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TAATTAATTTTATT
Found at i:22194921 original size:44 final size:44
Alignment explanation
Indices: 22194855--22194942 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
22194845 AAAGTTCAGG
*
22194855 TAAAAGCATAATAAACAGATTCAGGTGAGTTGTAAGGGTTAAGA
1 TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
22194899 TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
1 TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
22194943 ATATCTCAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.25
Consensus pattern (44 bp):
TAAAAGCATAATAAACAAATTCAGGTGAGTTGTAAGGGTTAAGA
Found at i:22195591 original size:101 final size:101
Alignment explanation
Indices: 22195469--22195671 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
22195459 AAAATCACCA
*
22195469 AAAATAGTAGAAATGGAATTAGAGAGTGAATGAGATATAAAATTAAATCTTATCGAGTCTATTTT
1 AAAATAGTAGAAATGGAATTAGAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
22195534 CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
66 CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
*
22195570 AAAATAGTAGAAATGGGATTAGAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
1 AAAATAGTAGAAATGGAATTAGAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
*
22195635 CACATGAAAGAAACGATGTAGGCAAATGAATTATAT
66 CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
22195671 A
1 A
22195672 TTACGAGATA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.29
Consensus pattern (101 bp):
AAAATAGTAGAAATGGAATTAGAGAGTGAATGACATATAAAATTAAATCTTATCGAGTCTATTTT
CACATGAAAGAAACGATGTAGGAAAATGAATTATAT
Found at i:22202890 original size:25 final size:25
Alignment explanation
Indices: 22202853--22202900 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
22202843 ATGTGACTCT
*
22202853 GTATGTTTTCTTTGTGGCATATTTA
1 GTATGTTTCCTTTGTGGCATATTTA
22202878 GTATGTTTCCTTTGTGGCATATT
1 GTATGTTTCCTTTGTGGCATATT
22202901 CTATTTAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.15, C:0.10, G:0.21, T:0.54
Consensus pattern (25 bp):
GTATGTTTCCTTTGTGGCATATTTA
Found at i:22208470 original size:14 final size:14
Alignment explanation
Indices: 22208451--22208480 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22208441 TTTCATCCAA
*
22208451 ATTCACATATTCAC
1 ATTCACATATGCAC
22208465 ATTCACATATGCAC
1 ATTCACATATGCAC
22208479 AT
1 AT
22208481 AATTCAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (14 bp):
ATTCACATATGCAC
Found at i:22219643 original size:36 final size:36
Alignment explanation
Indices: 22219602--22219742 Score: 174
Period size: 36 Copynumber: 3.7 Consensus size: 36
22219592 ACACTTCTCT
22219602 GATCAAGTGAAAAAGTGATAAGTGCTATACTTATCC
1 GATCAAGTGAAAAAGTGATAAGTGCTATACTTATCC
* *
22219638 GATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCT
1 GATCAAGTGAAAAAGTGATAA--G-T-GC-TA--T--ACTTATCC
22219683 GATCAAGTGAAAAAGTGATAAGTGCTATACTTATCC
1 GATCAAGTGAAAAAGTGATAAGTGCTATACTTATCC
*
22219719 GATCAAGTGACAAAGTGATAAGTG
1 GATCAAGTGAAAAAGTGATAAGTG
22219743 ATAGCTTAGC
Statistics
Matches: 91, Mismatches: 5, Indels: 18
0.80 0.04 0.16
Matches are distributed among these distances:
36 50 0.55
38 2 0.02
39 1 0.01
40 4 0.04
41 4 0.04
42 1 0.01
43 2 0.02
45 27 0.30
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (36 bp):
GATCAAGTGAAAAAGTGATAAGTGCTATACTTATCC
Found at i:22219687 original size:45 final size:45
Alignment explanation
Indices: 22219625--22219787 Score: 195
Period size: 45 Copynumber: 3.9 Consensus size: 45
22219615 AGTGATAAGT
*
22219625 GCTATACTTATCCGATCAAGTGACAAAGTGATAAGTGATAGCTTA
1 GCTACACTTATCCGATCAAGTGACAAAGTGATAAGTGATAGCTTA
* *
22219670 GCTACACTTATCTGATCAAGTGAAAAAGTGATAA--G-T-GC-TA
1 GCTACACTTATCCGATCAAGTGACAAAGTGATAAGTGATAGCTTA
22219710 --T--ACTTATCCGATCAAGTGACAAAGTGATAAGTGATAGCTTA
1 GCTACACTTATCCGATCAAGTGACAAAGTGATAAGTGATAGCTTA
* * *
22219751 GCTACACTTATCTGATC-AGGGACAAA-TGATAAATGAT
1 GCTACACTTATCCGATCAAGTGACAAAGTGATAAGTGAT
22219788 CATACGTAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 27 0.27
38 2 0.02
39 1 0.01
40 4 0.04
41 4 0.04
42 1 0.01
43 12 0.12
44 8 0.08
45 42 0.42
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (45 bp):
GCTACACTTATCCGATCAAGTGACAAAGTGATAAGTGATAGCTTA
Found at i:22219688 original size:81 final size:81
Alignment explanation
Indices: 22219556--22219768 Score: 363
Period size: 81 Copynumber: 2.6 Consensus size: 81
22219546 GAGTACTTCT
* * * * * *
22219556 GATCAAGAGATAAAGTGATAAGTGGTCGCTTTAGCCACACTTCTCTGATCAAGTGAAAAAGTGAT
1 GATCAAGTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
22219621 AAGTGCTATACTTATCC
65 AAGTGCTATACTTATCC
22219638 GATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
1 GATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
22219703 AGTGCTATACTTATCC
66 AGTGCTATACTTATCC
22219719 GATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCA
1 GATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCA
22219769 GGGACAAATG
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
81 100 0.80
82 25 0.20
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (81 bp):
GATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATA
AGTGCTATACTTATCC
Found at i:22223840 original size:43 final size:43
Alignment explanation
Indices: 22223683--22223841 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
22223673 TATGATTTAT
22223683 CATGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATT-AGA-TTA
* * * * * *
22223727 CGTGTAACACCAAGTCTGGGACATCGGCATCG-TA-TACGATTT
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTA-GATTA
* * *
22223769 CGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATTAGATTA
*
22223812 CATGTAAGGCCACGTCTGGGACGTTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
22223842 TGTAAGAGCT
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
42 29 0.32
43 33 0.36
44 29 0.32
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATATTAGATTA
Found at i:22224817 original size:31 final size:31
Alignment explanation
Indices: 22224774--22224834 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
22224764 TATAGGCTAT
22224774 TTTTAATATACTGGTTTTAGAATTTGTGTAG
1 TTTTAATATACTGGTTTTAGAATTTGTGTAG
*
22224805 TTTTGATATACTGGTTTTAGAATTTGTGTA
1 TTTTAATATACTGGTTTTAGAATTTGTGTA
22224835 TATATATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.52
Consensus pattern (31 bp):
TTTTAATATACTGGTTTTAGAATTTGTGTAG
Found at i:22226153 original size:21 final size:22
Alignment explanation
Indices: 22226112--22226157 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
22226102 TTTTACACTC
*
22226112 AAACTAATATAAATAAGGCATGA
1 AAACTAATATAAATAAAGCAT-A
22226135 AAACT-ATAT-AATAAAGCATA
1 AAACTAATATAAATAAAGCATA
22226155 AAA
1 AAA
22226158 TCACATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 4 0.18
23 5 0.23
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.22
Consensus pattern (22 bp):
AAACTAATATAAATAAAGCATA
Found at i:22227023 original size:12 final size:12
Alignment explanation
Indices: 22227006--22227041 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
22226996 CTCAATCCAC
*
22227006 CATTTCATATTT
1 CATTTCACATTT
22227018 CATTTCACATTT
1 CATTTCACATTT
22227030 CATTTC-CATTT
1 CATTTCACATTT
22227041 C
1 C
22227042 TCATAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (12 bp):
CATTTCACATTT
Found at i:22229715 original size:15 final size:16
Alignment explanation
Indices: 22229695--22229726 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
22229685 ACTCTAAAAG
22229695 TTAAAAAAAT-ATTTT
1 TTAAAAAAATCATTTT
22229710 TTAAAAAAATCATTTT
1 TTAAAAAAATCATTTT
22229726 T
1 T
22229727 AGCCCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAAAAATCATTTT
Found at i:22232396 original size:15 final size:16
Alignment explanation
Indices: 22232376--22232405 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22232366 GGCATCGACC
22232376 TCATATAAA-TATAAA
1 TCATATAAACTATAAA
22232391 TCATATAAACTATAA
1 TCATATAAACTATAA
22232406 TACGCTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (16 bp):
TCATATAAACTATAAA
Found at i:22233845 original size:21 final size:20
Alignment explanation
Indices: 22233812--22233855 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
22233802 AAATTTTTAT
*
22233812 AAAATTCTAAAATTTCTAAAA
1 AAAAATCTAAAA-TTCTAAAA
*
22233833 AAAAATCTTAAATTCTAAAA
1 AAAAATCTAAAATTCTAAAA
22233853 AAA
1 AAA
22233856 TGAGCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAATCTAAAATTCTAAAA
Found at i:22240102 original size:86 final size:87
Alignment explanation
Indices: 22239963--22240542 Score: 569
Period size: 86 Copynumber: 6.7 Consensus size: 87
22239953 GAAAATAAAA
* * *
22239963 AAATTAAAATTAAATAAAATCTATTTC-AGGAATTTATTCCCACCGTTCAACAGATTTTATTCCA
1 AAATTAAAATTAAATAAAATCTGTTTCGA-G-ATTTATTCCCTCCGTTTAACAGATTTTATTCCA
22240027 TTTTTTATTTTGTTTCCAAACGAG
64 TTTTTTATTTTGTTTCCAAACGAG
* * * * *
22240051 -TACTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGCTCAACAGATTTTATT-CTTT
1 AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATTCCATT
*
22240114 TTTATATTTTATTTCCAAACGAG
66 TTT-TATTTTGTTTCCAAACGAG
* * * *
22240137 -TATTAAAATTAAATAAAATATGTTTCGGGATTTATT-CCTGCCGTTCAACAGATTTTATTCCAT
1 AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCT-CCGTTTAACAGATTTTATTCCAT
* *
22240200 TTTTGATTTTGTTGCCAAACGAG
65 TTTTTATTTTGTTTCCAAACGAG
* * *
22240223 AAATTAAAAATTAAATAAAATCTATTTCGAGATTTATTCCCACCGTTTAACAGATTTTATTACAT
1 AAATT-AAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATTCCAT
* *
22240288 TTTTTATTTTGTTGCCAAATGAG
65 TTTTTATTTTGTTTCCAAACGAG
* * * *
22240311 AAATTATAATTAAAATTGAATAATCTGTTTCGGGATTTATTCCAGT-CGTTTAACATATTTTATT
1 AAATTAAAATT-AAA-T-AA-AATCTGTTTCGAGATTTATTCC-CTCCGTTTAACAGATTTTATT
* * * **
22240375 CGA-TTTTAAATTTGTTTCCAAAATAG
61 CCATTTTTTATTTTGTTTCCAAACGAG
* * * *
22240401 -AATT-AAATTGAAT-AATTTTGTTTCGAGATTTA-TCCCTGCCGTTTAACAGATTTTATTCGA-
1 AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCT-CCGTTTAACAGATTTTATTCCAT
**
22240461 TTTCGATTTTGTTTCCAAACGAG
65 TTTTTATTTTGTTTCCAAACGAG
* * * * * *
22240484 AAGACTT--AATCAAAT-AATTCTGTTTCGGGATTTATTCCCGCCGCTTAACAAATTTTATT
1 AA-A-TTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATT
22240543 TTCATTTTGT
Statistics
Matches: 418, Mismatches: 56, Indels: 39
0.81 0.11 0.08
Matches are distributed among these distances:
81 1 0.00
82 3 0.01
83 53 0.13
84 2 0.00
85 50 0.12
86 120 0.29
87 40 0.10
88 84 0.20
89 7 0.02
90 20 0.05
91 38 0.09
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (87 bp):
AAATTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCCTCCGTTTAACAGATTTTATTCCATT
TTTTATTTTGTTTCCAAACGAG
Found at i:22240427 original size:174 final size:174
Alignment explanation
Indices: 22239963--22240542 Score: 598
Period size: 174 Copynumber: 3.4 Consensus size: 174
22239953 GAAAATAAAA
* * *
22239963 AAATTAAAATT-AAATAA-AATCTATTTCAGGAATTTATTCCCA-CCGTTCAACAGATTTTATTC
1 AAATTATAATTAAAATAATAATCTGTTTC-GGGATTTATT-CCAGCCGTTCAACAGATTTTATTC
* * * *
22240025 CATTTTTTATTTTGTTTCCAAACGAGTACTAAAATTAAATAAAATCTGTTTCGAGATTTATTCCC
64 CATTTTTAATTTTGTTTCCAAACGAGAAATTAAATTAAATAAAATCTGTTTCGAGATTTATTCCC
* * * * *
22240090 TCCGCTCAACAGATTTTATTCTTTTTTATATTTTATTTCCAAACGAG
129 ACCGTTTAACAGATTTTATTCATTTTT-TATTTTGTTTCCAAACGAG
* * * *
22240137 -TATTAAAATT-AAATAA-AATATGTTTCGGGATTTATTCCTGCCGTTCAACAGATTTTATTCCA
1 AAATTATAATTAAAATAATAATCTGTTTCGGGATTTATTCCAGCCGTTCAACAGATTTTATTCCA
* * *
22240199 TTTTTGATTTTGTTGCCAAACGAGAAATTAAAAATTAAATAAAATCTATTTCGAGATTTATTCCC
66 TTTTTAATTTTGTTTCCAAACGAGAAATT--AAATTAAATAAAATCTGTTTCGAGATTTATTCCC
* *
22240264 ACCGTTTAACAGATTTTATTACATTTTTTATTTTGTTGCCAAATGAG
129 ACCGTTTAACAGATTTTATT-CATTTTTTATTTTGTTTCCAAACGAG
* * *
22240311 AAATTATAATTAAAATTGAATAATCTGTTTCGGGATTTATTCCAGTCGTTTAACATATTTTATTC
1 AAATTATAATTAAAA-T-AATAATCTGTTTCGGGATTTATTCCAGCCGTTCAACAGATTTTATTC
* * ** * * *
22240376 GA-TTTTAAATTTGTTTCCAAAATAG-AATTAAATTGAAT-AATTTTGTTTCGAGATTTA-TCCC
64 CATTTTTAATTTTGTTTCCAAACGAGAAATTAAATTAAATAAAATCTGTTTCGAGATTTATTCCC
* **
22240437 TGCCGTTTAACAGATTTTATTCGA-TTTCGATTTTGTTTCCAAACGAG
129 -ACCGTTTAACAGATTTTATTC-ATTTTTTATTTTGTTTCCAAACGAG
* * * *
22240484 AAGACT-TAA-TCAAATAAT--TCTGTTTCGGGATTTATTCCCGCCGCTT-AACAAATTTTATT
1 AA-ATTATAATTAAAATAATAATCTGTTTCGGGATTTATTCCAGCCG-TTCAACAGATTTTATT
22240543 TTCATTTTGT
Statistics
Matches: 348, Mismatches: 45, Indels: 32
0.82 0.11 0.08
Matches are distributed among these distances:
168 35 0.10
169 2 0.01
170 3 0.01
171 3 0.01
172 59 0.17
173 52 0.15
174 104 0.30
175 22 0.06
176 3 0.01
177 5 0.01
178 20 0.06
179 40 0.11
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (174 bp):
AAATTATAATTAAAATAATAATCTGTTTCGGGATTTATTCCAGCCGTTCAACAGATTTTATTCCA
TTTTTAATTTTGTTTCCAAACGAGAAATTAAATTAAATAAAATCTGTTTCGAGATTTATTCCCAC
CGTTTAACAGATTTTATTCATTTTTTATTTTGTTTCCAAACGAG
Found at i:22251073 original size:18 final size:18
Alignment explanation
Indices: 22251050--22251085 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22251040 CAACCATTAC
22251050 AACCCATTTGGATGCTCA
1 AACCCATTTGGATGCTCA
22251068 AACCCATTTGGATGCTCA
1 AACCCATTTGGATGCTCA
22251086 CAGTGAGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (18 bp):
AACCCATTTGGATGCTCA
Found at i:22251635 original size:60 final size:61
Alignment explanation
Indices: 22251500--22251656 Score: 160
Period size: 60 Copynumber: 2.6 Consensus size: 61
22251490 CCCCCCCCCC
* * * *
22251500 CTGAACTTGGCAACTT-TTTCCACTTTAGGGCCTGAAACTTTTTTTTGGTCCATGTTAAGCC
1 CTGAACTTGGCAA-TTGTTCCCACATTAGGGCCTGAAACTTTTTTTTGGTCCAAGTTAAGCA
* * * * * *
22251561 CTAAACTTGACAATTGTTCCCACATTGGGGCTTG-AACTTTTTTTTTGTCCAAGTTAATCA
1 CTGAACTTGGCAATTGTTCCCACATTAGGGCCTGAAACTTTTTTTTGGTCCAAGTTAAGCA
* *
22251621 CTGAGCTTGGCAATTGTTCACGA-ATT-GGGCCTGAAA
1 CTGAACTTGGCAATTGTTC-CCACATTAGGGCCTGAAA
22251657 TTTAGGGTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
59 6 0.08
60 45 0.58
61 27 0.35
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (61 bp):
CTGAACTTGGCAATTGTTCCCACATTAGGGCCTGAAACTTTTTTTTGGTCCAAGTTAAGCA
Found at i:22251759 original size:58 final size:60
Alignment explanation
Indices: 22251666--22251812 Score: 183
Period size: 58 Copynumber: 2.5 Consensus size: 60
22251656 ATTTAGGGTT
* *
22251666 TTCAAGGACTAATTTGGACAAAGAAAAAAGGTTCAAG-CTCCAAAGTGGGAACAACTGCCAAG
1 TTCAAGGACTAACTTGGA-ACA-AAAAAAGGTTCAAGCCT-CAAAGTGGGAACAACTGCCAAG
* * * *
22251728 TTC-AGGACTAACTTGG-ATAAAAAAAGGTTCAAGCCTCAATGTTGGAACAATTGCCAAG
1 TTCAAGGACTAACTTGGAACAAAAAAAGGTTCAAGCCTCAAAGTGGGAACAACTGCCAAG
*
22251786 TTCAAGGCCTAACTTGGAACAAAAAAA
1 TTCAAGGACTAACTTGGAACAAAAAAA
22251813 AACTTTAAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
58 36 0.48
59 16 0.21
60 8 0.11
61 12 0.16
62 3 0.04
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (60 bp):
TTCAAGGACTAACTTGGAACAAAAAAAGGTTCAAGCCTCAAAGTGGGAACAACTGCCAAG
Found at i:22257015 original size:30 final size:30
Alignment explanation
Indices: 22256981--22257040 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22256971 GGCCCGTTTT
* * *
22256981 TTAAATAAATACCAAAAATTTATTTTAAAA
1 TTAAAAAAAAACCAAAAATGTATTTTAAAA
**
22257011 TTAAAAAAAAATTAAAAATGTATTTTAAAA
1 TTAAAAAAAAACCAAAAATGTATTTTAAAA
22257041 AAATTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (30 bp):
TTAAAAAAAAACCAAAAATGTATTTTAAAA
Found at i:22257046 original size:11 final size:11
Alignment explanation
Indices: 22257032--22257092 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
22257022 TTAAAAATGT
22257032 ATTTTAAAAAA
1 ATTTTAAAAAA
22257043 ATTTT---AAA
1 ATTTTAAAAAA
22257051 A--TTAAAAAA
1 ATTTTAAAAAA
22257060 ATTTTTAAAAAAA
1 A-TTTT-AAAAAA
**
22257073 ATTTTAAAAGT
1 ATTTTAAAAAA
22257084 ATTTTAAAA
1 ATTTTAAAA
22257093 TTAAAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
6 2 0.05
8 4 0.10
9 4 0.10
11 18 0.44
12 6 0.15
13 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
ATTTTAAAAAA
Found at i:22257047 original size:41 final size:40
Alignment explanation
Indices: 22257002--22257109 Score: 130
Period size: 41 Copynumber: 2.7 Consensus size: 40
22256992 CCAAAAATTT
**
22257002 ATTTTAAAATTAAAAAAAAATTAAAAATGTATTTTAAAAAA
1 ATTTTAAAATTAAAAAAAAATTAAAAA-AAATTTTAAAAAA
** **
22257043 ATTTTAAAATTAAAAAAATTTTTAAAAAAAATTTTAAAAGT
1 ATTTTAAAATTAAAAAAA-AATTAAAAAAAATTTTAAAAAA
22257084 ATTTTAAAATT--AAAAAAATTAAAAAA
1 ATTTTAAAATTAAAAAAAAATTAAAAAA
22257110 TTAAAATATT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
38 8 0.14
39 5 0.09
41 38 0.66
42 7 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (40 bp):
ATTTTAAAATTAAAAAAAAATTAAAAAAAATTTTAAAAAA
Found at i:22257057 original size:17 final size:17
Alignment explanation
Indices: 22257035--22257115 Score: 63
Period size: 17 Copynumber: 4.4 Consensus size: 17
22257025 AAAATGTATT
22257035 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
22257052 TTAAAAAAATTTTTAAAAAAAA
1 TTAAAAAAA-TTTT----AAAA
**
22257074 TTTTAAAAGTATTTTAAAA
1 --TTAAAAAAATTTTAAAA
**
22257093 TTAAAAAAATTAAAAAA
1 TTAAAAAAATTTTAAAA
22257110 TTAAAA
1 TTAAAA
22257116 TATTTATTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
17 28 0.55
18 4 0.08
19 4 0.08
22 4 0.08
23 4 0.08
24 7 0.14
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:22257067 original size:29 final size:31
Alignment explanation
Indices: 22257018--22257081 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
22257008 AAATTAAAAA
**
22257018 AAAATTAAAAATGTATTTT-AAAAAAATTTT
1 AAAATTAAAAAAATATTTTAAAAAAAATTTT
22257048 AAAATTAAAAAAAT-TTTTAAAAAAAATTTT
1 AAAATTAAAAAAATATTTTAAAAAAAATTTT
22257078 AAAA
1 AAAA
22257082 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (31 bp):
AAAATTAAAAAAATATTTTAAAAAAAATTTT
Found at i:22257072 original size:13 final size:12
Alignment explanation
Indices: 22257052--22257081 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22257042 AATTTTAAAA
*
22257052 TTAAAAAAATTT
1 TTAAAAAAAATT
22257064 TTAAAAAAAATT
1 TTAAAAAAAATT
22257076 TTAAAA
1 TTAAAA
22257082 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAAAAAAATT
Found at i:22257493 original size:9 final size:9
Alignment explanation
Indices: 22257479--22257509 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22257469 GTTAAACGAA
22257479 TCGAGTTAT
1 TCGAGTTAT
*
22257488 TCGAGTTAA
1 TCGAGTTAT
22257497 TCGAGTTAT
1 TCGAGTTAT
22257506 TCGA
1 TCGA
22257510 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22257580 original size:9 final size:9
Alignment explanation
Indices: 22257563--22257599 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22257553 TGAGTTTTCA
22257563 AATTCGAAT
1 AATTCGAAT
*
22257572 AACTCGAAT
1 AATTCGAAT
22257581 AATTCGAAT
1 AATTCGAAT
22257590 AATTCGAAT
1 AATTCGAAT
22257599 A
1 A
22257600 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22272939 original size:22 final size:21
Alignment explanation
Indices: 22272914--22272957 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
22272904 TGATAAACTT
22272914 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
22272936 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
22272957 T
1 T
22272958 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:22279013 original size:18 final size:19
Alignment explanation
Indices: 22278977--22279014 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
22278967 TTCTATAAAT
22278977 ATTTTCTACAACAATTAAAAG
1 ATTTTCTACAAC-A-TAAAAG
22278998 ATTTTCTACAAC-TAAAA
1 ATTTTCTACAACATAAAA
22279015 ATATTCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (19 bp):
ATTTTCTACAACATAAAAG
Found at i:22298060 original size:18 final size:17
Alignment explanation
Indices: 22298025--22298057 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22298015 TATTTTTGTA
22298025 AAACAATATTTATAAAC
1 AAACAATATTTATAAAC
22298042 AAACATATATTT-TAAA
1 AAACA-ATATTTATAAA
22298058 ACATTTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
AAACAATATTTATAAAC
Found at i:22299772 original size:17 final size:16
Alignment explanation
Indices: 22299736--22299782 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
22299726 AATTTAGAAC
*
22299736 AATTTTTGAATTAGTG
1 AATTTTTGATTTAGTG
*
22299752 AATTTTGTGATTTATTG
1 AATTTT-TGATTTAGTG
22299769 AATTTTATGATTTA
1 AATTTT-TGATTTA
22299783 AAAAGAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 6 0.22
17 21 0.78
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (16 bp):
AATTTTTGATTTAGTG
Found at i:22300225 original size:159 final size:159
Alignment explanation
Indices: 22299936--22300253 Score: 609
Period size: 159 Copynumber: 2.0 Consensus size: 159
22299926 AGGTCCAACT
22299936 ATTGAATTCATTAGTTTTTGATTCCATGGGTGATTTTGTAAGTTACCATGAATAAATCCTAGAAT
1 ATTGAATTCATTAGTTTTTGATTCCATGGGTGATTTTGTAAGTTACCATGAATAAATCCTAGAAT
22300001 TCTATGATCAATTACTATAGATTTGAAGTTTTAATTTCATTATATTATGATCTTATTAAGTGATT
66 TCTATGATCAATTACTATAGATTTGAAGTTTTAATTTCATTATATTATGATCTTATTAAGTGATT
22300066 TTAGTAGAAAATGTTTTTAGGACCTAATA
131 TTAGTAGAAAATGTTTTTAGGACCTAATA
*
22300095 ATTGAATTCATTAGTTTTTGATTCCATGGGTGATTTTGTAAGTTACCATGAATAAATTCTAGAAT
1 ATTGAATTCATTAGTTTTTGATTCCATGGGTGATTTTGTAAGTTACCATGAATAAATCCTAGAAT
* *
22300160 TTTATGATGAATTACTATAGATTTGAAGTTTTAATTTCATTATATTATGATCTTATTAAGTGATT
66 TCTATGATCAATTACTATAGATTTGAAGTTTTAATTTCATTATATTATGATCTTATTAAGTGATT
22300225 TTAGTAGAAAATGTTTTTAGGACCTAATA
131 TTAGTAGAAAATGTTTTTAGGACCTAATA
22300254 GTGAAAAAGT
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 156 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.45
Consensus pattern (159 bp):
ATTGAATTCATTAGTTTTTGATTCCATGGGTGATTTTGTAAGTTACCATGAATAAATCCTAGAAT
TCTATGATCAATTACTATAGATTTGAAGTTTTAATTTCATTATATTATGATCTTATTAAGTGATT
TTAGTAGAAAATGTTTTTAGGACCTAATA
Found at i:22300870 original size:46 final size:46
Alignment explanation
Indices: 22300800--22300984 Score: 298
Period size: 46 Copynumber: 4.0 Consensus size: 46
22300790 CATGGCAAAG
*
22300800 TGTGAAACGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* * *
22300846 TGTGAAAAGCAGGTATGGTGTTTCAGTGAAGAAAATCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
22300892 TGTGACAAGTAGGTATGGTATTTCCGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
* *
22300938 TGTGAAAAGTAGGTATGGTATTTCTGTGAAGAAAACCATACCGAGT
1 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
22300984 T
1 T
22300985 ATAGCAATGT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
Found at i:22307306 original size:21 final size:21
Alignment explanation
Indices: 22307282--22307322 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22307272 ATCATATAAA
22307282 TTATAACTCATAATTATTTTT
1 TTATAACTCATAATTATTTTT
* **
22307303 TTATAATTTTTAATTATTTT
1 TTATAACTCATAATTATTTT
22307323 CCAAAATCAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATAACTCATAATTATTTTT
Found at i:22307817 original size:50 final size:50
Alignment explanation
Indices: 22307756--22307997 Score: 225
Period size: 50 Copynumber: 4.8 Consensus size: 50
22307746 TATCATTCGA
* * *
22307756 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
* * * *
22307806 TTCACGTAGTAGCCTGCACATGGTACTACACACGTGACCATTAA-TATCCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AACTTTCCGG
* * * * * * *
22307857 TACATGTAGTATCCTGCACATAGTATTACACACGTGATCGAAGCTATCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACTTTCCGG
* * * * * *** * *
22307908 TACGCATAGTAGCCTGCATATAGTACTACACATGCGACCTTTCATTCCAG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
*
22307958 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
22307998 TCACTTTCAC
Statistics
Matches: 149, Mismatches: 39, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
50 75 0.50
51 70 0.47
52 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCCGG
Found at i:22307894 original size:101 final size:101
Alignment explanation
Indices: 22307753--22307994 Score: 292
Period size: 101 Copynumber: 2.4 Consensus size: 101
22307743 TATTATCATT
* * * *
22307753 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAACT-TTTCGGTTCACGTAGT
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCT-GGTACACATAGT
* *
22307816 AGCCTGCACATGGTACTACACACGTGACCATTAATATC
65 AGCCTGCACATAGTACTACACACGCGACCATTAAT-TC
* * * * * *
22307854 CGATACATGTAGTATCCTGCACATAGTATTACACACGTGATCGAAGCTATCTGGTACGCATAGTA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCTGGTACACATAGTA
* * * *
22307919 GCCTGCATATAGTACTACACATGCGACCTTTCATTC
66 GCCTGCACATAGTACTACACACGCGACCATTAATTC
22307955 C-AGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 CGA-TACACGTAGTAGCCTACACATAGTACTACACACGTGA
22307995 CCATCACTTT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 1 0.01
101 74 0.62
102 42 0.35
103 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCTGGTACACATAGTA
GCCTGCACATAGTACTACACACGCGACCATTAATTC
Found at i:22317179 original size:23 final size:23
Alignment explanation
Indices: 22317153--22317196 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
22317143 GAAGGTGATG
22317153 GAGACAAAGATGAAGATGAAGCC
1 GAGACAAAGATGAAGATGAAGCC
* *
22317176 GAGATAGAGATGAAGATGAAG
1 GAGACAAAGATGAAGATGAAG
22317197 ACTACTGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.07, G:0.34, T:0.11
Consensus pattern (23 bp):
GAGACAAAGATGAAGATGAAGCC
Found at i:22334777 original size:43 final size:43
Alignment explanation
Indices: 22334710--22334847 Score: 138
Period size: 43 Copynumber: 3.3 Consensus size: 43
22334700 TGTGATTTTG
* *
22334710 TGTAAGACCATGTATGAGACATTGGCATCGATATGAGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
* * * *
22334753 TGTAAGACCATGTCTGGGATATTGGAACCG-TAT-ATGATT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGA-GATTACA
* ** * **
22334794 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATGTGACAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
22334837 TGTAAGACCAT
1 TGTAAGACCAT
22334848 ATCTAGGATA
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
41 26 0.35
42 12 0.16
43 36 0.49
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACA
Found at i:22343357 original size:31 final size:31
Alignment explanation
Indices: 22343321--22343758 Score: 263
Period size: 31 Copynumber: 14.3 Consensus size: 31
22343311 AAACTTATCT
22343321 TCATATACAAATCAATTTCAATAATGTATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
* * **
22343352 CCATATACAAATAAATTTCAGCAATGTATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
** * * **
22343383 TCATATATGAATCAATTTGACA-ACT-TATCT
1 TCATATACAAATCAATTTCA-ATAATGTATAA
*
22343413 TCATATACAAATCAATTTCGATAATGTATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
* * **
22343444 CCATATACAAATAAATTTCAGCAATGTATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
* ** *
22343475 TTATATATGAATCAATTTGGCAACTTAT-T-T--
1 TCATATACAAATCAATTT--CAA-TAATGTATAA
* * *
22343505 TCATATACAAATCAATTTCGATATTATATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
* * * *
22343536 CCATATACAAATGAATTTCAACAATGTTTAA
1 TCATATACAAATCAATTTCAATAATGTATAA
* * * * *
22343567 TTATATACGAATTAATTTGGCAACTTATCT-T--
1 TCATATACAAATCAATTT--CAA-TAATGTATAA
* *
22343598 T-ATATACAAATCAATTTCGATAATATATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
* * *
22343628 CCATATACAAATAAATTTCAGTAATGTATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
*** **
22343659 TCATATA-AGAATCAA-TTCGGCAACT-TATCT
1 TCATATACA-AATCAATTTCAATAA-TGTATAA
* *
22343689 TCATATACATATCAATTTCGATAATGTATAA
1 TCATATACAAATCAATTTCAATAATGTATAA
* * ** *
22343720 CCATATACAAATAAATTTCAGCAATGTACAA
1 TCATATACAAATCAATTTCAATAATGTATAA
*
22343751 TTATATAC
1 TCATATAC
22343759 GAATTAGTTT
Statistics
Matches: 302, Mismatches: 83, Indels: 44
0.70 0.19 0.10
Matches are distributed among these distances:
27 6 0.02
28 6 0.02
29 2 0.01
30 73 0.24
31 202 0.67
32 1 0.00
33 7 0.02
34 5 0.02
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (31 bp):
TCATATACAAATCAATTTCAATAATGTATAA
Found at i:22343419 original size:30 final size:30
Alignment explanation
Indices: 22343285--22343779 Score: 218
Period size: 31 Copynumber: 16.1 Consensus size: 30
22343275 CAACAATATA
* *
22343285 TATATTCATATACGAATCAAATTCGGA-AACT-
1 TATATTCATATACAAATC-AATT-TGACAA-TG
* * *
22343316 TATCTTCATATACAAATCAATTTCAATAATG
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
22343347 TATAACCATATACAAATAAATTTCAGCAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
* **
22343378 TATAATCATATATGAATCAATTTGACAACT-
1 TATATTCATATACAAATCAATTTGACAA-TG
* *
22343408 TATCTTCATATACAAATCAATTTCGATAATG
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
22343439 TATAACCATATACAAATAAATTTCAGCAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
** *
22343470 TATAATT-ATATATGAATCAATTTGGCAACT-
1 TAT-ATTCATATACAAATCAATTTGACAA-TG
* * * *
22343500 TATTTTCATATACAAATCAATTTCGATATTA
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
22343531 TATAACCATATACAAATGAATTTCAACAATG
1 TATATTCATATACAAATCAATTT-GACAATG
* * * *
22343562 TTTAATT-ATATACGAATTAATTTGGCAACT-
1 TAT-ATTCATATACAAATCAATTTGACAA-TG
* * * *
22343592 TATCTTTATATACAAATCAATTTCGATAATA
1 TATATTCATATACAAATCAATTT-GACAATG
** * * *
22343623 TATAACCATATACAAATAAATTTCAGTAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
* * *
22343654 TATAATCATATA-AGAATCAATTCGGCAACT-
1 TATATTCATATACA-AATCAATTTGACAA-TG
* * *
22343684 TATCTTCATATACATATCAATTTCGATAATG
1 TATATTCATATACAAATCAATTT-GACAATG
** * *
22343715 TATAACCATATACAAATAAATTTCAGCAATG
1 TATATTCATATACAAATCAATTTGA-CAATG
* * * * *
22343746 TACAATT-ATATACGAATTAGTTTGGCAATG
1 TA-TATTCATATACAAATCAATTTGACAATG
22343776 TATA
1 TATA
22343780 AAACAATCAA
Statistics
Matches: 343, Mismatches: 95, Indels: 54
0.70 0.19 0.11
Matches are distributed among these distances:
29 5 0.01
30 102 0.30
31 233 0.68
32 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (30 bp):
TATATTCATATACAAATCAATTTGACAATG
Found at i:22343448 original size:92 final size:92
Alignment explanation
Indices: 22343285--22343773 Score: 735
Period size: 92 Copynumber: 5.3 Consensus size: 92
22343275 CAACAATATA
* * * *
22343285 TATATTCATATACGAATCAAATTCGGAAACTTATCTTCATATACAAATCAATTTCAATAATGTAT
1 TATAATCATATACGAATC-AATTTGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTAT
22343350 AACCATATACAAATAAATTTCAGCAATG
65 AACCATATACAAATAAATTTCAGCAATG
* *
22343378 TATAATCATATATGAATCAATTTGACAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTTGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
22343443 ACCATATACAAATAAATTTCAGCAATG
66 ACCATATACAAATAAATTTCAGCAATG
* * * * *
22343470 TATAATTATATATGAATCAATTTGGCAACTTATTTTCATATACAAATCAATTTCGATATTATATA
1 TATAATCATATACGAATCAATTTGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
* *
22343535 ACCATATACAAATGAATTTCAACAATG
66 ACCATATACAAATAAATTTCAGCAATG
* * * * *
22343562 TTTAATTATATACGAATTAATTTGGCAACTTATCTTTATATACAAATCAATTTCGATAATATATA
1 TATAATCATATACGAATCAATTTGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
*
22343627 ACCATATACAAATAAATTTCAGTAATG
66 ACCATATACAAATAAATTTCAGCAATG
* * *
22343654 TATAATCATATAAGAATCAATTCGGCAACTTATCTTCATATACATATCAATTTCGATAATGTATA
1 TATAATCATATACGAATCAATTTGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
22343719 ACCATATACAAATAAATTTCAGCAATG
66 ACCATATACAAATAAATTTCAGCAATG
* * * *
22343746 TACAATTATATACGAATTAGTTTGGCAA
1 TATAATCATATACGAATCAATTTGGCAA
22343774 TGTATAAAAC
Statistics
Matches: 359, Mismatches: 37, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
92 343 0.96
93 16 0.04
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (92 bp):
TATAATCATATACGAATCAATTTGGCAACTTATCTTCATATACAAATCAATTTCGATAATGTATA
ACCATATACAAATAAATTTCAGCAATG
Found at i:22353047 original size:18 final size:17
Alignment explanation
Indices: 22353003--22353047 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 17
22352993 TATTTCATGT
22353003 TAATTAATATGTTAAAAA
1 TAATTAATAT-TTAAAAA
22353021 T-A-TAATATTTAAAAA
1 TAATTAATATTTAAAAA
22353036 TAATTAAATATT
1 TAATT-AATATT
22353048 AAATACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.33
16 7 0.29
17 2 0.08
18 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATTAATATTTAAAAA
Found at i:22354336 original size:194 final size:194
Alignment explanation
Indices: 22354007--22354396 Score: 633
Period size: 194 Copynumber: 2.0 Consensus size: 194
22353997 ATTTGATACT
*
22354007 AATATTTTTACCAAGTAACCAATTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGGT
1 AATATTTTTACCAAGTAACCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGGT
*
22354072 CCCAAGTAAGCATCTATAATTTTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATGATG
66 CCCAAGTAAGCATCCATAATTTTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATGATG
* * *
22354137 CCATTTGGTTTAGGTACCAAATTGAACATTGAAATCAAACTCAGGTAGCAAATTAGGATGAATG
131 CCATTTGGTTTAGGTACCAAAGTGAACATTGAAACCAAACTCAGGTAGCAAATTAGGACGAATG
* *
22354201 AATATTTTT-CTCAAGTACCCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTTTGG
1 AATATTTTTAC-CAAGTAACCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGG
* *
22354265 TCCC-AGTTAAGTATCCAT-ATTCTTTTTACTAGATTAGACATCAAATACTCGTTGGACCACATG
65 TCCCAAG-TAAGCATCCATAATT-TTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATG
* *
22354328 ATGCCATTTGGTTTAGGTACCAAAGTGAGCATTGAAGCCAAACTCAGGTAGCAAATTAGGACGAA
128 ATGCCATTTGGTTTAGGTACCAAAGTGAACATTGAAACCAAACTCAGGTAGCAAATTAGGACGAA
22354393 TG
193 TG
22354395 AA
1 AA
22354397 AACTTAGGTA
Statistics
Matches: 182, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
193 6 0.03
194 176 0.97
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (194 bp):
AATATTTTTACCAAGTAACCAAGTTTGACTTCAATGTTCTATTTAGTATCCGAGAATGTTATGGT
CCCAAGTAAGCATCCATAATTTTTTTACTAGATTAGACATCAAAGACTCGTTGGACCACATGATG
CCATTTGGTTTAGGTACCAAAGTGAACATTGAAACCAAACTCAGGTAGCAAATTAGGACGAATG
Found at i:22354698 original size:3 final size:3
Alignment explanation
Indices: 22354619--22354679 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
22354609 AATATTCTCT
22354619 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22354667 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
22354680 CATCATTAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22355292 original size:39 final size:38
Alignment explanation
Indices: 22355230--22355306 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
22355220 ATAAATTAAT
* * *
22355230 TGTTATAATACATGATTTATCTCAGTTACATCCATATA
1 TGTTATAATACATAATATATCTCAATTACATCCATATA
* *
22355268 TGTTATATATTCATAATATATCTCAATTACATCGATATA
1 TGTTATA-ATACATAATATATCTCAATTACATCCATATA
22355307 AATATATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
38 7 0.21
39 26 0.79
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.43
Consensus pattern (38 bp):
TGTTATAATACATAATATATCTCAATTACATCCATATA
Found at i:22359207 original size:16 final size:16
Alignment explanation
Indices: 22359183--22359234 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
22359173 TGGTTCACTC
22359183 TAATGGAATAGAGTTG
1 TAATGGAATAGAGTTG
* *
22359199 TAATAGAATAAAGTTG
1 TAATGGAATAGAGTTG
*
22359215 TAATGGAATAGAGCTG
1 TAATGGAATAGAGTTG
22359231 TAAT
1 TAAT
22359235 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGTTG
Found at i:22359530 original size:59 final size:61
Alignment explanation
Indices: 22359401--22359516 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
22359391 TTGTTATTAA
** * *
22359401 ATTTTAATAGGATTATTATTAAATATATAATTTAATAAAAATAAAAAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATATAATTTAATAAAAATAAAAAAAAAATATAATCAT
22359462 ATTTTAATATAATTATTATTAAATA-A-AATTTAATAAAAATAAAAATAAAAATATA
1 ATTTTAATATAATTATTATTAAATATATAATTTAATAAAAATAAAAA-AAAAATATA
22359517 TAATTTAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 19 0.38
60 8 0.16
61 23 0.46
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (61 bp):
ATTTTAATATAATTATTATTAAATATATAATTTAATAAAAATAAAAAAAAAATATAATCAT
Found at i:22365001 original size:27 final size:27
Alignment explanation
Indices: 22364970--22365283 Score: 286
Period size: 27 Copynumber: 11.7 Consensus size: 27
22364960 ATTGGGCCTC
*
22364970 TAAAATTACTAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * * *
22364997 TAAAATGACTAAAATACCCTTGTTGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * *
22365024 TACAATAACCGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
22365051 TAAAATTA-TCGAAATACCC-CTGATAGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
* *
22365078 TAAAATTATTGAAATACCCTCAATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
22365105 TAAAATAACCGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
**
22365132 TAAAATTACCAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* *
22365159 TAAAATTA-TAGAAATA-CCTTGATGGA
1 TAAAATTACT-GAAATACCCTCGATGGG
* *
22365185 TAAAATTA-TCAAAATA-CCTCCGAAGGG
1 TAAAATTACT-GAAATACCCT-CGATGGG
* *
22365212 TAAAATTACTGAAATACCC-CTAAAGGG
1 TAAAATTACTGAAATACCCTC-GATGGG
* *
22365239 TAAAATTA-TCGAAATACCCCCGAAGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
22365266 TAAAATTA-TCGAAATACC
1 TAAAATTACT-GAAATACC
22365284 TTCAGGTTAA
Statistics
Matches: 243, Mismatches: 33, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
26 28 0.12
27 209 0.86
28 6 0.02
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATGGG
Found at i:22365047 original size:54 final size:54
Alignment explanation
Indices: 22364981--22365283 Score: 328
Period size: 54 Copynumber: 5.6 Consensus size: 54
22364971 AAAATTACTA
* * * * * *
22364981 AAATACCCTCGATGGGTAAAATGACTAAAATACCCTTGTTGGGTACAATAACCG
1 AAATACCCTCGATGGGTAAAATTACTGAAATACCCTTGATGGGTAAAATTATCG
* * *
22365035 AAATACCCTCGATGGGTAAAATTA-TCGAAATACCCCTGATAGGTAAAATTATTG
1 AAATACCCTCGATGGGTAAAATTACT-GAAATACCCTTGATGGGTAAAATTATCG
* * * * * *
22365089 AAATACCCTCAATGGGTAAAATAACCGAAATACCCTCGATGGGTAAAATTACCA
1 AAATACCCTCGATGGGTAAAATTACTGAAATACCCTTGATGGGTAAAATTATCG
* *
22365143 AAATACCCTCGATGGGTAAAATTA-TAGAAATA-CCTTGATGGATAAAATTATCA
1 AAATACCCTCGATGGGTAAAATTACT-GAAATACCCTTGATGGGTAAAATTATCG
* * * *
22365196 AAATA-CCTCCGAAGGGTAAAATTACTGAAATACCCCTAAAGGGTAAAATTATCG
1 AAATACCCT-CGATGGGTAAAATTACTGAAATACCCTTGATGGGTAAAATTATCG
* *
22365250 AAATACCCCCGAAGGGTAAAATTA-TCGAAATACC
1 AAATACCCTCGATGGGTAAAATTACT-GAAATACC
22365284 TTCAGGTTAA
Statistics
Matches: 210, Mismatches: 31, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.01
53 45 0.21
54 160 0.76
55 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (54 bp):
AAATACCCTCGATGGGTAAAATTACTGAAATACCCTTGATGGGTAAAATTATCG
Found at i:22367701 original size:25 final size:24
Alignment explanation
Indices: 22367673--22367734 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
22367663 AATTTCATGT
**
22367673 AAAGCCTTTGTGGCAAATTTTCTGG
1 AAAGCCTTTGTGG-AAATCCTCTGG
* *
22367698 AAAGCATTTGTGGGAATCCTCTGG
1 AAAGCCTTTGTGGAAATCCTCTGG
22367722 AAAGCC-TTGTGGA
1 AAAGCCTTTGTGGA
22367735 GAGTCCTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 6 0.19
24 13 0.42
25 12 0.39
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (24 bp):
AAAGCCTTTGTGGAAATCCTCTGG
Found at i:22370387 original size:62 final size:58
Alignment explanation
Indices: 22370291--22370417 Score: 173
Period size: 62 Copynumber: 2.1 Consensus size: 58
22370281 CTCACTTTAA
* * *
22370291 TATTAAATTAGTATAATACTTATAAAGATAAATATTAGATTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATAAAGATAAATATTAAATTAAATTTAATATTAAATC
* *
22370349 TTATTAAATTAATAGAATATTTATTTACAAGATTAATATTAAATTAAATTTAATATTAAATC
1 -TATTAAATTAATAGAATACTTA--TA-AAGATAAATATTAAATTAAATTTAATATTAAATC
22370411 TATTAAA
1 TATTAAA
22370418 ATAAAATTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
59 19 0.32
61 9 0.15
62 32 0.53
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATAAAGATAAATATTAAATTAAATTTAATATTAAATC
Found at i:22371147 original size:68 final size:66
Alignment explanation
Indices: 22371068--22371209 Score: 239
Period size: 68 Copynumber: 2.1 Consensus size: 66
22371058 TCAAGTTTGT
*
22371068 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAAATAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT--AAATAATAATTTGAT
22371133 AAA
64 AAA
*
22371136 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAAATAATAATTTGATAA
*
22371201 T
66 A
22371202 TTTACTAA
1 TTTACTAA
22371210 CAATTAATTT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 24 0.34
68 47 0.66
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAAATAATAATTTGATAA
A
Found at i:22371219 original size:16 final size:16
Alignment explanation
Indices: 22371198--22371239 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
22371188 AATAATTTGA
*
22371198 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
22371214 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
22371230 TAGTTTTAAT
1 TAATTTTAAT
22371240 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:22371223 original size:22 final size:23
Alignment explanation
Indices: 22371213--22371268 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
22371203 TTACTAACAA
* * *
22371213 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
22371235 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
22371258 TTAATTTTAAT
1 TTAATTTTAAT
22371269 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:22371228 original size:59 final size:65
Alignment explanation
Indices: 22371068--22371231 Score: 205
Period size: 68 Copynumber: 2.5 Consensus size: 65
22371058 TCAAGTTTGT
*
22371068 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAAATAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATA-AAATAATAATTTGAT
22371133 AAA
63 AAA
*
22371136 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAAT-AATTAATAATTTGATA
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATAAAATAATAATTTGATA
*
22371200 AT
64 AA
*
22371202 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
22371232 GTTTTAATTT
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 24 0.26
68 46 0.51
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (65 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATAAAATAATAATTTGATAAA
Found at i:22373074 original size:29 final size:29
Alignment explanation
Indices: 22373032--22373090 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
22373022 GTACTATTAT
*
22373032 CACAATACAATGTTATAGCTTTTTTCATA
1 CACAATACAATGTTATAACTTTTTTCATA
22373061 CACAATACAATGTTATAACTTTTTTCATA
1 CACAATACAATGTTATAACTTTTTTCATA
22373090 C
1 C
22373091 CAGGAATGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.41
Consensus pattern (29 bp):
CACAATACAATGTTATAACTTTTTTCATA
Found at i:22375925 original size:29 final size:29
Alignment explanation
Indices: 22375883--22375941 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
22375873 GTACTATTAT
*
22375883 CACAATACAATGTTATAGCTTTTTTCATA
1 CACAATACAATGTTATAACTTTTTTCATA
22375912 CACAATACAATGTTATAACTTTTTTCATA
1 CACAATACAATGTTATAACTTTTTTCATA
22375941 C
1 C
22375942 CAGGAATGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.05, T:0.41
Consensus pattern (29 bp):
CACAATACAATGTTATAACTTTTTTCATA
Found at i:22377470 original size:14 final size:14
Alignment explanation
Indices: 22377451--22377493 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
22377441 TTAAGAGAAT
22377451 TTTCTCTCTACAAC
1 TTTCTCTCTACAAC
* *
22377465 TTTCTCT-T-GAAT
1 TTTCTCTCTACAAC
22377477 TTTCTCTCTACAAC
1 TTTCTCTCTACAAC
22377491 TTT
1 TTT
22377494 AATAATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 12 0.52
ACGTcount: A:0.19, C:0.28, G:0.02, T:0.51
Consensus pattern (14 bp):
TTTCTCTCTACAAC
Found at i:22378061 original size:13 final size:15
Alignment explanation
Indices: 22378043--22378075 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22378033 AATCTTAATT
22378043 TTAATT-AATTTTA-
1 TTAATTAAATTTTAC
22378056 TTAATTAAATTTTAC
1 TTAATTAAATTTTAC
22378071 TTAAT
1 TTAAT
22378076 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 7 0.39
15 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATTAAATTTTAC
Found at i:22380511 original size:29 final size:28
Alignment explanation
Indices: 22380472--22380541 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 28
22380462 ATATAAAAGA
* *
22380472 AAAACCTTTGTGGAAAATCTCTGTATAG
1 AAAACCTTTGTGGAAAACCTCTGTAGAG
* *
22380500 AAAAGCCTTTGTGGCAAACCTCTTTAGAG
1 AAAA-CCTTTGTGGAAAACCTCTGTAGAG
22380529 AAAACCTTTGTGG
1 AAAACCTTTGTGG
22380542 TGACTTCTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 13 0.35
29 24 0.65
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (28 bp):
AAAACCTTTGTGGAAAACCTCTGTAGAG
Found at i:22380515 original size:55 final size:57
Alignment explanation
Indices: 22380406--22380515 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 57
22380396 GGCAAACCTC
* *
22380406 TATAAAAGGAAGAGCCTTTGTGAGAAATCTCTATAAAGGAAAAACCTTTGTGGCATA
1 TATAAAAGGAAAAACCTTTGTGAGAAATCTCTATAAAGGAAAAACCTTTGTGGCATA
* * *
22380463 TATAAAA-GAAAAACCTTTGTG-GAAAATCTCTGTATA-GAAAAGCCTTTGTGGCA
1 TATAAAAGGAAAAACCTTTGTGAG-AAATCTCTATAAAGGAAAAACCTTTGTGGCA
22380516 AACCTCTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 17 0.36
56 23 0.49
57 7 0.15
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (57 bp):
TATAAAAGGAAAAACCTTTGTGAGAAATCTCTATAAAGGAAAAACCTTTGTGGCATA
Found at i:22386182 original size:16 final size:16
Alignment explanation
Indices: 22386127--22386182 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
22386117 ATCTAACCAA
*
22386127 TATGTCATTGCGCATT
1 TATGTCATTACGCATT
* *
22386143 TATGTCATTACACAAT
1 TATGTCATTACGCATT
* * *
22386159 AATATCATTATGCATT
1 TATGTCATTACGCATT
22386175 TATGTCAT
1 TATGTCAT
22386183 CTAACCAATA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (16 bp):
TATGTCATTACGCATT
Found at i:22386199 original size:32 final size:32
Alignment explanation
Indices: 22386115--22386199 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
22386105 TCAACCCATT
*
22386115 TCATCTAACCAATATGTCATTGCGCATTTATG
1 TCATCTAACCAATATGTCATTACGCATTTATG
* *
22386147 TCAT-T-ACACAATAATATCATTATGCATTTATG
1 TCATCTAAC-CAAT-ATGTCATTACGCATTTATG
22386179 TCATCTAACCAATATGTCATT
1 TCATCTAACCAATATGTCATT
22386200 CAAAGACACC
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 2 0.04
31 5 0.11
32 31 0.69
33 5 0.11
34 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (32 bp):
TCATCTAACCAATATGTCATTACGCATTTATG
Found at i:22386760 original size:40 final size:40
Alignment explanation
Indices: 22386706--22386937 Score: 233
Period size: 40 Copynumber: 5.8 Consensus size: 40
22386696 TATTCTTAGA
* *
22386706 GGTACCATAA-TAC-AATCAGGGGCACATATGTTCATTCAAA
1 GGTACCA-AAGTACAAAT-AGGGGCACATATGTGCATTCAAG
* ** *
22386746 GGTACCGAAGTACAAATAGGGGCATGTATGTGCATTCAGG
1 GGTACCAAAGTACAAATAGGGGCACATATGTGCATTCAAG
* *
22386786 GGTACTAAAGTACAAATAGGGACACATATGTGCATTC-AG
1 GGTACCAAAGTACAAATAGGGGCACATATGTGCATTCAAG
* * *
22386825 GGTATCAAAGTACAAATAGCGGCACGTATGTGCATTC-AG
1 GGTACCAAAGTACAAATAGGGGCACATATGTGCATTCAAG
* * * * *
22386864 GAGTATCGAAGTACAAATACGGGCA-AGTATGTGCATTTAGG
1 G-GTACCAAAGTACAAATAGGGGCACA-TATGTGCATTCAAG
*
22386905 GGTACC-AAGTACAAATAGGGGCACGTATGTGCA
1 GGTACCAAAGTACAAATAGGGGCACATATGTGCA
22386938 CTCACACAAT
Statistics
Matches: 160, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
39 62 0.39
40 93 0.58
41 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.23
Consensus pattern (40 bp):
GGTACCAAAGTACAAATAGGGGCACATATGTGCATTCAAG
Found at i:22386862 original size:79 final size:77
Alignment explanation
Indices: 22386725--22386937 Score: 259
Period size: 79 Copynumber: 2.7 Consensus size: 77
22386715 ATACAATCAG
* * * * *
22386725 GGGCACATATGTTCATTCAAAGGTACCGAAGTACAAATAGGGGCATGTATGTGCATTCAGGGGTA
1 GGGCACATATGTGCATTC-AGGGTA-CAAAGTACAAATAGGGGCACGTATGTGCATTCAGGAGTA
22386790 -CTAAAGTACAAATA
64 TC-AAAGTACAAATA
*
22386804 GGGACACATATGTGCATTCAGGGTATCAAAGTACAAATAGCGGCACGTATGTGCATTCAGGAGTA
1 GGG-CACATATGTGCATTCAGGGTA-CAAAGTACAAATAGGGGCACGTATGTGCATTCAGGAGTA
*
22386869 TCGAAGTACAAATA
64 TCAAAGTACAAATA
* *
22386883 CGGGCA-AGTATGTGCATTTAGGGGTACCAAGTACAAATAGGGGCACGTATGTGCA
1 -GGGCACA-TATGTGCATTCA-GGGTACAAAGTACAAATAGGGGCACGTATGTGCA
22386938 CTCACACAAT
Statistics
Matches: 118, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 94 0.80
80 23 0.19
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (77 bp):
GGGCACATATGTGCATTCAGGGTACAAAGTACAAATAGGGGCACGTATGTGCATTCAGGAGTATC
AAAGTACAAATA
Found at i:22387353 original size:21 final size:20
Alignment explanation
Indices: 22387327--22387367 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22387317 CAATATATTC
22387327 TAAATTCAACACATTTACCCA
1 TAAATTCAA-ACATTTACCCA
* *
22387348 TAAATTCTAGCATTTACCCA
1 TAAATTCAAACATTTACCCA
22387368 ATTTAACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.27, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAATTCAAACATTTACCCA
Found at i:22393250 original size:21 final size:20
Alignment explanation
Indices: 22393200--22393250 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
22393190 GTTAAGTTTT
*
22393200 GTTAAATTTTAATTTATTTA
1 GTTAAATTTTAATTAATTTA
**
22393220 GTTATGTTTTCAATTAATTTA
1 GTTAAATTTT-AATTAATTTA
*
22393241 TTTAAATTTT
1 GTTAAATTTT
22393251 TGAAATCCCC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (20 bp):
GTTAAATTTTAATTAATTTA
Found at i:22393973 original size:21 final size:21
Alignment explanation
Indices: 22393949--22394010 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
22393939 GCCACATGGT
22393949 CATGTCCTTCAGTCACACGGG
1 CATGTCCTTCAGTCACACGGG
22393970 CATGTTCCTT-AGTCACACGGG
1 CATG-TCCTTCAGTCACACGGG
* *
22393991 CGTGTGCTTCAGTCACACGG
1 CATGTCCTTCAGTCACACGG
22394011 TCGTGTATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.11
21 28 0.76
22 5 0.14
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.26
Consensus pattern (21 bp):
CATGTCCTTCAGTCACACGGG
Found at i:22394016 original size:21 final size:21
Alignment explanation
Indices: 22393941--22394012 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
22393931 ACAGTCTGGC
*
22393941 CACATGGTCATGTCCTTCAGT
1 CACACGGTCATGTCCTTCAGT
*
22393962 CACACGGGCATGTTCCTT-AGT
1 CACACGGTCATG-TCCTTCAGT
* * *
22393983 CACACGGGCGTGTGCTTCAGT
1 CACACGGTCATGTCCTTCAGT
22394004 CACACGGTC
1 CACACGGTC
22394013 GTGTATCTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
20 4 0.09
21 35 0.80
22 5 0.11
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.26
Consensus pattern (21 bp):
CACACGGTCATGTCCTTCAGT
Found at i:22394184 original size:20 final size:20
Alignment explanation
Indices: 22394141--22394177 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
22394131 ATACTCTACA
22394141 TGTTTAAGCTGTTATATACG
1 TGTTTAAGCTGTTATATACG
22394161 TGTTTAAG-TGTTATATA
1 TGTTTAAGCTGTTATATA
22394178 ATGTGTTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (20 bp):
TGTTTAAGCTGTTATATACG
Found at i:22396044 original size:30 final size:29
Alignment explanation
Indices: 22395861--22396155 Score: 171
Period size: 29 Copynumber: 10.3 Consensus size: 29
22395851 CAAAAAACGT
* * *
22395861 AAAAACCTTTGTGGTAAACCTCTGTAAAAAG
1 AAAAGCCTTTGTGGCAAATCTCTGT--AAAG
*
22395892 AAGAGCCTTTGTGGCAAATCTCTGTAAAGG
1 AAAAGCCTTTGTGGCAAATCTCTGTAAA-G
* * * * *
22395922 AAAAACCTTTATGGCGAACCTTTG-AATAG
1 AAAAGCCTTTGTGGCAAATCTCTGTAA-AG
* *
22395951 -AAAGCCTTTGTGG--AATATCT-AAAAG
1 AAAAGCCTTTGTGGCAAATCTCTGTAAAG
* * *
22395976 AAAAGCCTTTGAGGCAAACCTCTGTACAG
1 AAAAGCCTTTGTGGCAAATCTCTGTAAAG
* * *
22396005 AAAAACCTTTGTGGCAAATCTTTGTTAAGG
1 AAAAGCCTTTGTGGCAAATCTCTG-TAAAG
* *
22396035 AAAAGCCTTTGTGGGAAA-C-CTCTAAA-
1 AAAAGCCTTTGTGGCAAATCTCTGTAAAG
* * * *
22396061 CAGAGCCTTTGTGGC--ATATCT-AAAAG
1 AAAAGCCTTTGTGGCAAATCTCTGTAAAG
* * * * *
22396087 AAAAACCTTTCTGGAAAACCTCTGTATAG
1 AAAAGCCTTTGTGGCAAATCTCTGTAAAG
* * *
22396116 AAAAGCCTTTATGGCAAATCCCCGTAAAGG
1 AAAAGCCTTTGTGGCAAATCTCTGTAAA-G
*
22396146 AAAAACCTTT
1 AAAAGCCTTT
22396156 ATGGTGAACC
Statistics
Matches: 196, Mismatches: 53, Indels: 31
0.70 0.19 0.11
Matches are distributed among these distances:
24 1 0.01
25 5 0.03
26 42 0.21
27 3 0.02
28 21 0.11
29 54 0.28
30 49 0.25
31 21 0.11
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (29 bp):
AAAAGCCTTTGTGGCAAATCTCTGTAAAG
Found at i:22396106 original size:111 final size:112
Alignment explanation
Indices: 22395861--22396166 Score: 366
Period size: 111 Copynumber: 2.7 Consensus size: 112
22395851 CAAAAAACGT
* *
22395861 AAAAACCTTTGTGGTAAACCTCTGTAAAAAGAAGAGCCTTTGTGGCAAATCTCTGTAAAGGAAAA
1 AAAAACCTTTGTGGAAAACCTCTGTAAGAA-AA-A-CCTTTGTGGCAAATCTCTGTAAAGGAAAA
* *
22395926 ACCTTTATGGCGAACCTTTGAATAGAAAGCCTTTGTGGAATATCTAAAAG
63 ACCTTTATGGCGAACCTCTGAATACAAAGCCTTTGTGGAATATCTAAAAG
* * * * * *
22395976 AAAAGCCTTTGAGGCAAACCTCTGTACAGAAAAACCTTTGTGGCAAATCTTTGTTAAGGAAAAGC
1 AAAAACCTTTGTGGAAAACCTCTGTA-AGAAAAACCTTTGTGGCAAATCTCTGTAAAGGAAAAAC
* * *
22396041 CTTTGTGG-GAAACCTCT-AA-ACAGAGCCTTTGTGGCATATCTAAAAG
65 CTTTATGGCG-AACCTCTGAATACAAAGCCTTTGTGGAATATCTAAAAG
* * * * *
22396087 AAAAACCTTTCTGGAAAACCTCTGTATAGAAAAGCCTTTATGGCAAATCCCCGTAAAGGAAAAAC
1 AAAAACCTTTGTGGAAAACCTCTGTA-AGAAAAACCTTTGTGGCAAATCTCTGTAAAGGAAAAAC
*
22396152 CTTTATGGTGAACCT
65 CTTTATGGCGAACCT
22396167 TTGTAAAGAA
Statistics
Matches: 163, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
111 89 0.55
112 4 0.02
113 41 0.25
114 1 0.01
115 25 0.15
116 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (112 bp):
AAAAACCTTTGTGGAAAACCTCTGTAAGAAAAACCTTTGTGGCAAATCTCTGTAAAGGAAAAACC
TTTATGGCGAACCTCTGAATACAAAGCCTTTGTGGAATATCTAAAAG
Found at i:22396156 original size:30 final size:29
Alignment explanation
Indices: 22396083--22396177 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
22396073 GGCATATCTA
* *
22396083 AAAGAAAAACCTTTCTGGAAAACCTCTGT
1 AAAGAAAAACCTTTATGGAAAACCTCCGT
* * *
22396112 ATAGAAAAGCCTTTATGGCAAATCC-CCGT
1 AAAGAAAAACCTTTATGG-AAAACCTCCGT
** **
22396141 AAAGGAAAAACCTTTATGGTGAACCTTTGT
1 AAA-GAAAAACCTTTATGGAAAACCTCCGT
22396171 AAAGAAA
1 AAAGAAA
22396178 GCCCATTTGG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 27 0.53
30 24 0.47
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (29 bp):
AAAGAAAAACCTTTATGGAAAACCTCCGT
Found at i:22401464 original size:19 final size:19
Alignment explanation
Indices: 22401442--22401478 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22401432 AATTTTTTGA
22401442 ATTTTTTATAATTTTAAAT
1 ATTTTTTATAATTTTAAAT
*
22401461 ATTTTTTATATTTTTAAA
1 ATTTTTTATAATTTTAAA
22401479 ATTATTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTTTTATAATTTTAAAT
Found at i:22404664 original size:25 final size:25
Alignment explanation
Indices: 22404626--22404673 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
22404616 ACCTGTACAT
*
22404626 GTATGCTCATATGAGCTCTAAATCA
1 GTATGCTCATATGAGCTATAAATCA
22404651 GTATGCTC-TAATGAGCTATAAAT
1 GTATGCTCAT-ATGAGCTATAAAT
22404674 GATAAGCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (25 bp):
GTATGCTCATATGAGCTATAAATCA
Found at i:22412109 original size:25 final size:25
Alignment explanation
Indices: 22412081--22412137 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
22412071 CTATAAACAA
**
22412081 TAAGCTCATACGAGTTGAATATCAG
1 TAAGCTCATACGAACTGAATATCAG
* *
22412106 TAAGCTCATGCGAACTGAATATCGG
1 TAAGCTCATACGAACTGAATATCAG
*
22412131 TATGCTC
1 TAAGCTC
22412138 TCTTGAGCTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (25 bp):
TAAGCTCATACGAACTGAATATCAG
Found at i:22415099 original size:18 final size:18
Alignment explanation
Indices: 22415076--22415112 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22415066 AGTGTAAGAA
22415076 AACCGTTTTCAAATCGGG
1 AACCGTTTTCAAATCGGG
22415094 AACCGTTTTCAAATCGGG
1 AACCGTTTTCAAATCGGG
22415112 A
1 A
22415113 TTTTTTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (18 bp):
AACCGTTTTCAAATCGGG
Found at i:22431666 original size:72 final size:72
Alignment explanation
Indices: 22431508--22431673 Score: 181
Period size: 72 Copynumber: 2.3 Consensus size: 72
22431498 TCTATTAAAG
* *
22431508 ATAAGAAGTGTT-GTAATGAGAAAATACATGTGTTGTATCATTCCATTCACTCGTATAGGTTATT
1 ATAAGAAGT-TTGGTAATGAGAAAATAAATGTGTTGCATCATTCCATTCACTCGTATAGGTTATT
22431572 CGATTACT
65 CGATTACT
* ** *** ** * *
22431580 ATAAGAAGTGTGGTAATGAGAAAATAAATGTGTTGCATTGTTTGTTTCACTTTTATAGGTTTTTT
1 ATAAGAAGTTTGGTAATGAGAAAATAAATGTGTTGCATCATTCCATTCACTCGTATAGGTTATTC
*
22431645 TATTACT
66 GATTACT
* *
22431652 ATGAGAAGTTTGGTAACGAGAA
1 ATAAGAAGTTTGGTAATGAGAA
22431674 GGTGATTGTC
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
71 1 0.01
72 76 0.99
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (72 bp):
ATAAGAAGTTTGGTAATGAGAAAATAAATGTGTTGCATCATTCCATTCACTCGTATAGGTTATTC
GATTACT
Found at i:22431949 original size:20 final size:20
Alignment explanation
Indices: 22431921--22431958 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22431911 TTGAAACCAA
*
22431921 TAATTATGTGTGTGTTTCAC
1 TAATCATGTGTGTGTTTCAC
22431941 TAATCATGTGTGTGTTTC
1 TAATCATGTGTGTGTTTC
22431959 GCTACAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.11, G:0.21, T:0.50
Consensus pattern (20 bp):
TAATCATGTGTGTGTTTCAC
Found at i:22434977 original size:33 final size:33
Alignment explanation
Indices: 22434940--22435051 Score: 127
Period size: 33 Copynumber: 3.4 Consensus size: 33
22434930 ACCTATATTT
*
22434940 TGTGTTTACTATCGTAACAAACTTTCTTTGTTC
1 TGTGTTTACTATCGCAACAAACTTTCTTTGTTC
* * *
22434973 TGTGTTTACTATCGCAGCACACTTTCTCTGTTC
1 TGTGTTTACTATCGCAACAAACTTTCTTTGTTC
* ** *
22435006 TGTGTTTACTGTTC-CAACGGACTATCTTTGTTC
1 TGTGTTTACT-ATCGCAACAAACTTTCTTTGTTC
*
22435039 TATGTTTACTATC
1 TGTGTTTACTATC
22435052 CCTACGGACT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
32 2 0.03
33 62 0.94
34 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (33 bp):
TGTGTTTACTATCGCAACAAACTTTCTTTGTTC
Found at i:22435059 original size:33 final size:32
Alignment explanation
Indices: 22434964--22435065 Score: 105
Period size: 33 Copynumber: 3.1 Consensus size: 32
22434954 TAACAAACTT
* ** *
22434964 TCTTTGTTCTGTGTTTACTATCGCAGCACACTT
1 TCTTTGTTCTGTGTTTACTATCCCA-CGGACTA
* * *
22434997 TCTCTGTTCTGTGTTTACTGTTCCAACGGACTA
1 TCTTTGTTCTGTGTTTACT-ATCCCACGGACTA
*
22435030 TCTTTGTTCTATGTTTACTATCCCTACGGACTA
1 TCTTTGTTCTGTGTTTACTATCCC-ACGGACTA
22435063 TCT
1 TCT
22435066 CTGTGGATGC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 3 0.05
33 50 0.89
34 3 0.05
ACGTcount: A:0.16, C:0.25, G:0.15, T:0.45
Consensus pattern (32 bp):
TCTTTGTTCTGTGTTTACTATCCCACGGACTA
Found at i:22445435 original size:30 final size:30
Alignment explanation
Indices: 22445390--22445456 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
22445380 ATTTCCCCGG
* * * *
22445390 GCATCAGCATTGACTATTGTATAGGTATCT
1 GCATCGGCATCGACTATTGCATAGGCATCT
*
22445420 GCATCGGCATCGACTATTGCATGGGCATCT
1 GCATCGGCATCGACTATTGCATAGGCATCT
*
22445450 GTATCGG
1 GCATCGG
22445457 TACCGTCATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (30 bp):
GCATCGGCATCGACTATTGCATAGGCATCT
Found at i:22448438 original size:9 final size:9
Alignment explanation
Indices: 22448412--22448453 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
22448402 ACAATTCTCA
22448412 CAAATTCTCT
1 CAAATT-TCT
22448422 CAAAATTTCT
1 C-AAATTTCT
22448432 CAAATTTCT
1 CAAATTTCT
22448441 CACAA-TTCT
1 CA-AATTTCT
22448450 CAAA
1 CAAA
22448454 AAGCTCTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 2 0.07
9 16 0.53
10 7 0.23
11 5 0.17
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (9 bp):
CAAATTTCT
Found at i:22450981 original size:287 final size:287
Alignment explanation
Indices: 22450465--22451037 Score: 1146
Period size: 287 Copynumber: 2.0 Consensus size: 287
22450455 TTTAATAAAT
22450465 ATTACAAACTTTAAACCTTACCACCCTTTTATGATCACAAGCATATTTCCATCTAGACATTTATC
1 ATTACAAACTTTAAACCTTACCACCCTTTTATGATCACAAGCATATTTCCATCTAGACATTTATC
22450530 ATCTCAATGCTTAATTTTACAAATTTAATGTGGCATAATCCAGCCACAACTTGGCCAAAGCCTAA
66 ATCTCAATGCTTAATTTTACAAATTTAATGTGGCATAATCCAGCCACAACTTGGCCAAAGCCTAA
22450595 GCATACACACCTAACATGCTAGCCAATAAAAATATAGTATAAGCATTATAAGTATGAACAAGCAC
131 GCATACACACCTAACATGCTAGCCAATAAAAATATAGTATAAGCATTATAAGTATGAACAAGCAC
22450660 CACATTTATTTATGTATCAAACTTATCAACATGAGTTAATTCATAAACCATTTCTGACATTGCTA
196 CACATTTATTTATGTATCAAACTTATCAACATGAGTTAATTCATAAACCATTTCTGACATTGCTA
22450725 CATACCAAATCATATACCAAGTATACG
261 CATACCAAATCATATACCAAGTATACG
22450752 ATTACAAACTTTAAACCTTACCACCCTTTTATGATCACAAGCATATTTCCATCTAGACATTTATC
1 ATTACAAACTTTAAACCTTACCACCCTTTTATGATCACAAGCATATTTCCATCTAGACATTTATC
22450817 ATCTCAATGCTTAATTTTACAAATTTAATGTGGCATAATCCAGCCACAACTTGGCCAAAGCCTAA
66 ATCTCAATGCTTAATTTTACAAATTTAATGTGGCATAATCCAGCCACAACTTGGCCAAAGCCTAA
22450882 GCATACACACCTAACATGCTAGCCAATAAAAATATAGTATAAGCATTATAAGTATGAACAAGCAC
131 GCATACACACCTAACATGCTAGCCAATAAAAATATAGTATAAGCATTATAAGTATGAACAAGCAC
22450947 CACATTTATTTATGTATCAAACTTATCAACATGAGTTAATTCATAAACCATTTCTGACATTGCTA
196 CACATTTATTTATGTATCAAACTTATCAACATGAGTTAATTCATAAACCATTTCTGACATTGCTA
22451012 CATACCAAATCATATACCAAGTATAC
261 CATACCAAATCATATACCAAGTATAC
22451038 CATATACACA
Statistics
Matches: 286, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
287 286 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.30
Consensus pattern (287 bp):
ATTACAAACTTTAAACCTTACCACCCTTTTATGATCACAAGCATATTTCCATCTAGACATTTATC
ATCTCAATGCTTAATTTTACAAATTTAATGTGGCATAATCCAGCCACAACTTGGCCAAAGCCTAA
GCATACACACCTAACATGCTAGCCAATAAAAATATAGTATAAGCATTATAAGTATGAACAAGCAC
CACATTTATTTATGTATCAAACTTATCAACATGAGTTAATTCATAAACCATTTCTGACATTGCTA
CATACCAAATCATATACCAAGTATACG
Found at i:22452114 original size:46 final size:46
Alignment explanation
Indices: 22452039--22452153 Score: 176
Period size: 46 Copynumber: 2.5 Consensus size: 46
22452029 CCACACTAAT
* * *
22452039 ATGTAGCCAAAGCTACCACTAATACGTAGCTGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTGAA
*
22452085 ATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTGAA
* *
22452131 ATGCAGCTGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAT
22452154 CAATAACACT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTACCACTGAA
Found at i:22452151 original size:23 final size:23
Alignment explanation
Indices: 22452039--22452152 Score: 140
Period size: 23 Copynumber: 5.0 Consensus size: 23
22452029 CCACACTAAT
*
22452039 ATGTAGCCAAAGCTACCACT-AA
1 ATGTAGCCGAAGCTACCACTGAA
* * *
22452061 TACGTAGCTGTAGCTACCACTGAA
1 -ATGTAGCCGAAGCTACCACTGAA
*
22452085 ATGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAA
*
22452108 ATGTAGCCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGAA
* *
22452131 ATGCAGCTGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
22452153 TCAATAACAC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 75 0.97
24 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:22454489 original size:9 final size:9
Alignment explanation
Indices: 22454475--22454532 Score: 98
Period size: 9 Copynumber: 6.4 Consensus size: 9
22454465 TTTGGTTAAA
22454475 AATTAACCG
1 AATTAACCG
22454484 AATTAACCG
1 AATTAACCG
*
22454493 AATTAATCG
1 AATTAACCG
*
22454502 AATTACCCG
1 AATTAACCG
22454511 AATTAACCG
1 AATTAACCG
22454520 AATTAACCG
1 AATTAACCG
22454529 AATT
1 AATT
22454533 GAATCACTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:22454588 original size:11 final size:11
Alignment explanation
Indices: 22454572--22454596 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22454562 ACTTTTAGAC
22454572 TTTAGTTTTAG
1 TTTAGTTTTAG
22454583 TTTAGTTTTAG
1 TTTAGTTTTAG
22454594 TTT
1 TTT
22454597 TAGAATTTTG
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:0.00, G:0.16, T:0.68
Consensus pattern (11 bp):
TTTAGTTTTAG
Found at i:22455826 original size:42 final size:42
Alignment explanation
Indices: 22455746--22455827 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
22455736 CGTTTTTTCT
* * **
22455746 ATGCCATAGTCCAATTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
22455788 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
22455828 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 32 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:22455854 original size:47 final size:48
Alignment explanation
Indices: 22455787--22455879 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 48
22455777 TTTACATATT
* *
22455787 GATGCCATAGCCCAGCTATGGTCTTACACAG-TAGCACATATCACACC
1 GATGCCATAGCCCAGATATGGTCTTACACAGAAAGCACATATCACACC
* * * *
22455834 GATGCCATATCCCGGATATGGTCTTATACAGAAATCACATATCACA
1 GATGCCATAGCCCAGATATGGTCTTACACAGAAAGCACATATCACA
22455880 TGTTGTCATG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 27 0.69
48 12 0.31
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (48 bp):
GATGCCATAGCCCAGATATGGTCTTACACAGAAAGCACATATCACACC
Done.