Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 101 of 120
Found at i:14158867 original size:94 final size:94
Alignment explanation
Indices: 14158737--14158910 Score: 262
Period size: 94 Copynumber: 1.9 Consensus size: 94
14158727 TTTTAGCCCC
* *
14158737 AACCAACTTTTTTTATAATTGGTTGGGAATCCTAACCATGGTTAATGTTTAACTCTTTAAATGAC
1 AACCAACTTTTTTTATAATTGGTTGGAAATCCTAACCATGGTTAATGTTTAACTCTTCAAATGAC
14158802 TTTAT-CAAAGTATTGTCAATGTTAACCCT
66 TTTATCCAAA-TATTGTCAATGTTAACCCT
* * *
14158831 AACCAACTTTTTTTATAATTGGTT-GAAATTCTTAACCATGGTTAATTTTTAACTCTTCAAATGG
1 AACCAACTTTTTTTATAATTGGTTGGAAA-TCCTAACCATGGTTAATGTTTAACTCTTCAAATGA
*
14158895 TTTTATCCAAATATTG
65 CTTTATCCAAATATTG
14158911 CCTCAAAGTT
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
93 3 0.04
94 65 0.90
95 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (94 bp):
AACCAACTTTTTTTATAATTGGTTGGAAATCCTAACCATGGTTAATGTTTAACTCTTCAAATGAC
TTTATCCAAATATTGTCAATGTTAACCCT
Found at i:14160087 original size:19 final size:20
Alignment explanation
Indices: 14160056--14160097 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
14160046 TTTAAAGGAT
14160056 ATTTATTTAATTT-TTCAAA
1 ATTTATTTAATTTATTCAAA
14160075 ATTT-TTTATATTTATTCAAA
1 ATTTATTTA-ATTTATTCAAA
14160095 ATT
1 ATT
14160098 GAACTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 9 0.43
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTATTTAATTTATTCAAA
Found at i:14162309 original size:16 final size:19
Alignment explanation
Indices: 14162276--14162311 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 19
14162266 AAAATATAAT
14162276 ATAATGATATATTATAAAA
1 ATAATGATATATTATAAAA
14162295 ATAAT-ATA-ATT-TAAAA
1 ATAATGATATATTATAAAA
14162311 A
1 A
14162312 ATTATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 3 0.18
19 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
ATAATGATATATTATAAAA
Found at i:14162324 original size:19 final size:20
Alignment explanation
Indices: 14162295--14162339 Score: 67
Period size: 19 Copynumber: 2.3 Consensus size: 20
14162285 TATTATAAAA
14162295 ATAATATAATTTAA-AAAATT
1 ATAA-ATAATTTAATAAAATT
14162315 ATAAATAATTTAATAAAATT
1 ATAAATAATTTAATAAAATT
14162335 A-AAAT
1 ATAAAT
14162340 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATAATTTAATAAAATT
Found at i:14162452 original size:25 final size:24
Alignment explanation
Indices: 14162406--14162464 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
14162396 ACAAAACATG
* *
14162406 ATATAAATATAATATTTTATATATT
1 ATATTAATATAATATTTCATAT-TT
14162431 ATATTAATATAA-ATTATCATATTT
1 ATATTAATATAATATT-TCATATTT
14162455 A-ATTTAATAT
1 ATA-TTAATAT
14162465 TTTTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 1 0.03
24 13 0.43
25 16 0.53
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTAATATAATATTTCATATTT
Found at i:14163372 original size:20 final size:20
Alignment explanation
Indices: 14163347--14163386 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
14163337 TAACAAAATC
14163347 TTTTAATTT-ATTAATTTTAA
1 TTTTAATTTCATT-ATTTTAA
14163367 TTTTAATTTCATTATTTTAA
1 TTTTAATTTCATTATTTTAA
14163387 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTAATTTCATTATTTTAA
Found at i:14171649 original size:3 final size:3
Alignment explanation
Indices: 14171641--14171667 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14171631 AACGTAAACA
14171641 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
14171668 TTTATAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14172378 original size:8 final size:8
Alignment explanation
Indices: 14172365--14172404 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
14172355 TTATTTGAAT
14172365 TTAAATAA
1 TTAAATAA
14172373 TTAAAT--
1 TTAAATAA
*
14172379 TAAAAT-A
1 TTAAATAA
14172386 TTAAATAA
1 TTAAATAA
14172394 TTAAATAA
1 TTAAATAA
14172402 TTA
1 TTA
14172405 TTTAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 5 0.18
7 5 0.18
8 18 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTAAATAA
Found at i:14189529 original size:2 final size:2
Alignment explanation
Indices: 14189522--14189556 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14189512 GGGAAGACTG
14189522 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
14189557 GGGGGGGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14191129 original size:288 final size:288
Alignment explanation
Indices: 14190607--14191175 Score: 926
Period size: 288 Copynumber: 2.0 Consensus size: 288
14190597 AGGACTCATT
* *
14190607 TCTTTGAAGCTGTCCTCGTTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCATGACTAACCTG
1 TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCATGACTAACCTG
* * *
14190672 AAGATCAGCCGGACAGATATACTCTACTGTATTATCTATCCCATTGTTCTTCATGAATATATCAG
66 AAGATCAGCCGGACAGATATACTCTACTGAATTATCTATCCCATTGTGCTTAATGAATATATCAG
*
14190737 AACTAACTTCAACAGACCCTGGACTAGACAAATTCTGAAACGTTTCATGTACATCACTAGCTAGA
131 AACTAACTTCAACAGACCCTGGACTAGACAAATTCTGAAACGTTTCATGTACATCACAAGCTAGA
*
14190802 GAGTTGGATCCACGATTTTGAGAAGTATATGAGTTTGGACTTGGACTAAAGGCAGAAGAGGATAC
196 GAGTTGGATCCACGATTTTGAGAAGTATAAGAGTTTGGACTTGGACTAAAGGCAGAAGAGGATAC
*
14190867 TGGTGACTGCACAATGGATGCTGAACTG
261 CGGTGACTGCACAATGGATGCTGAACTG
* *
14190895 TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAATCCTCTTTAAAGCTTGACTAACCTG
1 TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCATGACTAACCTG
* * *
14190960 AAGATCAGCTGGA-ATGGTATACTCTACTGAATTATCTATCTCATTGTGCTTAAT-AACTATATC
66 AAGATCAGCCGGACA-GATATACTCTACTGAATTATCTATCCCATTGTGCTTAATGAA-TATATC
* * * *
14191023 AGAACTAACTTCAACAGACCCTGGACTAGACAAATTCTGATATGTTTGATGTACATCGCAAGCTA
129 AGAACTAACTTCAACAGACCCTGGACTAGACAAATTCTGAAACGTTTCATGTACATCACAAGCTA
* * *
14191088 GAGAGTTGGATCCAGGATTTTGAGAATTATAAGAGTTTGGACTTGGACTAAAGGCAGAGGAGGAT
194 GAGAGTTGGATCCACGATTTTGAGAAGTATAAGAGTTTGGACTTGGACTAAAGGCAGAAGAGGAT
14191153 ACCGGTGACTGCACAATGGATGC
259 ACCGGTGACTGCACAATGGATGC
14191176 CAAACTGTGC
Statistics
Matches: 259, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
287 3 0.01
288 256 0.99
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (288 bp):
TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCATGACTAACCTG
AAGATCAGCCGGACAGATATACTCTACTGAATTATCTATCCCATTGTGCTTAATGAATATATCAG
AACTAACTTCAACAGACCCTGGACTAGACAAATTCTGAAACGTTTCATGTACATCACAAGCTAGA
GAGTTGGATCCACGATTTTGAGAAGTATAAGAGTTTGGACTTGGACTAAAGGCAGAAGAGGATAC
CGGTGACTGCACAATGGATGCTGAACTG
Found at i:14196547 original size:288 final size:288
Alignment explanation
Indices: 14196025--14196601 Score: 933
Period size: 288 Copynumber: 2.0 Consensus size: 288
14196015 AGGACTCATT
* *
14196025 TCTTTGAAGCTGTCCTCGTTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCGTGACTAACCTG
1 TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCGTGACTAACCTG
* * * * * *
14196090 AAGATCAGCTGGACAGATATACTCTACTGTATTCTCTATCCCATTGTTCTTCATGAATATATCAG
66 AAGATCAGCCGGACAGATATACTCTAATGAATTATCTATCCCATTGTGCTTAATGAATATATCAG
*
14196155 AACTAACTTCAACAGACCCTGGACTAGACAAATTCTGATACGTTTCATGTACATCACTAGCTAGA
131 AACTAACTTCAACAGACCCTGGACTAGACAAATTCTGATACGTTTCATGTACATCACAAGCTAGA
* *
14196220 GAGTTGGATCCACGATTTTGAGAAGTATATGAGTTTGGACTTGGACTAAAGGTAGAAGAGGATAC
196 GAGTTGGATCCACGATTTTGAGAAGTATAAGAGTTTGGACTTGGACTAAAGGCAGAAGAGGATAC
* *
14196285 TGGTGACCGCACAATGGATGCTGAACTG
261 TGGTGACCACACAATGGATGCCGAACTG
*
14196313 TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCTTGACTAACCTG
1 TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCGTGACTAACCTG
* *
14196378 AAGATCAGCCGGA-ATGGTATACTCTAATGAATTATCTATCTCATTGTGCTTAAT-AACTATATC
66 AAGATCAGCCGGACA-GATATACTCTAATGAATTATCTATCCCATTGTGCTTAATGAA-TATATC
* * *
14196441 AGAACTAACTTCAACAGACCCTGGACTAGACAAATTCTGATATGTTTGATGTACATCGCAAGCTA
129 AGAACTAACTTCAACAGACCCTGGACTAGACAAATTCTGATACGTTTCATGTACATCACAAGCTA
* *
14196506 GAGAGTTGGATCCAGGATTTTGAGAATTATAAGAGTTTGGACTTGGACTAAAGGCAGAAGAGGAT
194 GAGAGTTGGATCCACGATTTTGAGAAGTATAAGAGTTTGGACTTGGACTAAAGGCAGAAGAGGAT
14196571 ACTGGTGACCACACAATGGATGCCGAACTG
259 ACTGGTGACCACACAATGGATGCCGAACTG
14196601 T
1 T
14196602 GCTTAGCCTG
Statistics
Matches: 266, Mismatches: 21, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
287 3 0.01
288 263 0.99
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (288 bp):
TCTTTAAAGCTGTCCTCATTCAAACTTAACTGCTCCTCAAGCCTCTTTAAAGCGTGACTAACCTG
AAGATCAGCCGGACAGATATACTCTAATGAATTATCTATCCCATTGTGCTTAATGAATATATCAG
AACTAACTTCAACAGACCCTGGACTAGACAAATTCTGATACGTTTCATGTACATCACAAGCTAGA
GAGTTGGATCCACGATTTTGAGAAGTATAAGAGTTTGGACTTGGACTAAAGGCAGAAGAGGATAC
TGGTGACCACACAATGGATGCCGAACTG
Found at i:14207375 original size:2 final size:2
Alignment explanation
Indices: 14207368--14207392 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14207358 AATATACTCT
14207368 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14207393 TTAATTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14211929 original size:79 final size:79
Alignment explanation
Indices: 14211798--14211960 Score: 299
Period size: 79 Copynumber: 2.1 Consensus size: 79
14211788 ATTCTTCTCC
*
14211798 ACAAGGCACCTACGTCCTCTCTCTTGGTTGTCTACACCAAGGCTTCAATCCATTAATTGAAAAAA
1 ACAAGGCACCTACGTCCTCTCTCTTGGTTGTCCACACCAAGGCTTCAATCCATTAATTGAAAAAA
* *
14211863 ATTTTTTACAAGAT
66 AATTCTTACAAGAT
14211877 ACAAGGCACCTACGTCCTCTCTCTTGGTTGTCCACACCAAGGCTTCAATCCATTAATTGAAAAAA
1 ACAAGGCACCTACGTCCTCTCTCTTGGTTGTCCACACCAAGGCTTCAATCCATTAATTGAAAAAA
14211942 AATTCTTACAAGAT
66 AATTCTTACAAGAT
14211956 ACAAG
1 ACAAG
14211961 CCTATCTTGT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (79 bp):
ACAAGGCACCTACGTCCTCTCTCTTGGTTGTCCACACCAAGGCTTCAATCCATTAATTGAAAAAA
AATTCTTACAAGAT
Found at i:14216671 original size:13 final size:14
Alignment explanation
Indices: 14216645--14216673 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14216635 TATACTTATG
14216645 TAATTATAATATTT
1 TAATTATAATATTT
14216659 TAATTAT-ATATTT
1 TAATTATAATATTT
14216672 TA
1 TA
14216674 TTCGAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:14217584 original size:25 final size:26
Alignment explanation
Indices: 14217523--14217589 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
14217513 AATTTTTTAT
* *
14217523 ATTTTAAATTTATATTTTATATTAAAA
1 ATTTAAAATTTA-ATTTTATATAAAAA
*
14217550 ATTATGAAATTTAATTTTATA-AAAAA
1 ATT-TAAAATTTAATTTTATATAAAAA
14217576 ATTTAAAATTTAAT
1 ATTTAAAATTTAAT
14217590 ATTAAATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 10 0.28
26 7 0.19
27 11 0.31
28 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTTAAAATTTAATTTTATATAAAAA
Found at i:14225256 original size:41 final size:41
Alignment explanation
Indices: 14225211--14225290 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
14225201 TTGGGCTTAT
*
14225211 TTTCTCTTTAAGTGTAAGTTGCATAAATTAGAGTTGATGGG
1 TTTCTCTTTAAGTGTAAGTTGCACAAATTAGAGTTGATGGG
* * *
14225252 TTTCTTTTTTAGTGTAAGTTGCACAAATTTGAGTTGATG
1 TTTCTCTTTAAGTGTAAGTTGCACAAATTAGAGTTGATG
14225291 TGTAATCAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (41 bp):
TTTCTCTTTAAGTGTAAGTTGCACAAATTAGAGTTGATGGG
Found at i:14226965 original size:23 final size:24
Alignment explanation
Indices: 14226939--14226997 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 24
14226929 AAAATTTTCA
* * *
14226939 GCCTTCATTGCTAA-CTTTTTTAG
1 GCCTTCATTGCGAATCCTGTTTAG
14226962 GCCTTCATTGCCGAATCCTGTTTAG
1 GCCTTCATTG-CGAATCCTGTTTAG
14226987 GCCTTCATTGC
1 GCCTTCATTGC
14226998 CGAACCCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.32
24 4 0.13
25 17 0.55
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (24 bp):
GCCTTCATTGCGAATCCTGTTTAG
Found at i:14230654 original size:22 final size:22
Alignment explanation
Indices: 14230628--14230671 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14230618 TGTATATTTA
14230628 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
14230650 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCTCTAGAATTAAG
14230672 GAAGATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (22 bp):
TATTTGTATCTCTAGAATTAAG
Found at i:14233768 original size:16 final size:16
Alignment explanation
Indices: 14233744--14233777 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14233734 ATACGAGAAC
14233744 AAAAATAAAATAAAAT
1 AAAAATAAAATAAAAT
* *
14233760 AAAACTAAAATACAAT
1 AAAAATAAAATAAAAT
14233776 AA
1 AA
14233778 CAAAAAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAATAAAATAAAAT
Found at i:14233788 original size:20 final size:20
Alignment explanation
Indices: 14233745--14233803 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
14233735 TACGAGAACA
* *
14233745 AAAATAAAATAAAATAAAACT
1 AAAATACAATAACA-AAAACT
*
14233766 AAAATACAATAACAAAAAGT
1 AAAATACAATAACAAAAACT
* *
14233786 AAAAAACAAAAACAAAAA
1 AAAATACAATAACAAAAA
14233804 ACATGCATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.78, C:0.08, G:0.02, T:0.12
Consensus pattern (20 bp):
AAAATACAATAACAAAAACT
Found at i:14235647 original size:20 final size:19
Alignment explanation
Indices: 14235610--14235647 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14235600 TATATATCGT
*
14235610 ATTATATCAATCTTTAAAA
1 ATTATATCAATATTTAAAA
14235629 ATTATATCAATAATTTAAA
1 ATTATATCAAT-ATTTAAA
14235648 TTTCATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTATATCAATATTTAAAA
Found at i:14236204 original size:11 final size:11
Alignment explanation
Indices: 14236184--14236238 Score: 50
Period size: 9 Copynumber: 5.5 Consensus size: 11
14236174 TTTTATTTTT
*
14236184 ATAAATTATTA
1 ATAAAATATTA
14236195 ATAAAATATT-
1 ATAAAATATTA
14236205 A-AAAAT-TTA
1 ATAAAATATTA
*
14236214 A-AAAATATAA
1 ATAAAATATTA
14236224 ATAAAAT-TT-
1 ATAAAATATTA
14236233 ATAAAA
1 ATAAAA
14236239 ATTTATACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 2 0.05
9 17 0.45
10 5 0.13
11 14 0.37
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATAAAATATTA
Found at i:14236241 original size:10 final size:10
Alignment explanation
Indices: 14236204--14236245 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
14236194 AATAAAATAT
14236204 TAAAAATTTA
1 TAAAAATTTA
*
14236214 -AAAAATATA
1 TAAAAATTTA
*
14236223 AATAAAATTTA
1 TA-AAAATTTA
14236234 TAAAAATTTA
1 TAAAAATTTA
14236244 TA
1 TA
14236246 CATCGTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 8 0.30
10 11 0.41
11 8 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:14237168 original size:21 final size:21
Alignment explanation
Indices: 14237144--14237220 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
14237134 TAGATACATG
*
14237144 ATAAGATTAATTTTAATAAAA
1 ATAAGATTAATATTAATAAAA
*
14237165 AT-A-A-TAATAATAATAAAA
1 ATAAGATTAATATTAATAAAA
* *
14237183 ATAAAATTAAATATT-ATAATA
1 ATAAGATT-AATATTAATAAAA
*
14237204 ATAAGATTAAAATTAAT
1 ATAAGATTAATATTAAT
14237221 GATAGAATGT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 14 0.31
19 2 0.04
20 7 0.16
21 17 0.38
22 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (21 bp):
ATAAGATTAATATTAATAAAA
Found at i:14237171 original size:9 final size:9
Alignment explanation
Indices: 14237157--14237186 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
14237147 AGATTAATTT
14237157 TAATAAAAA
1 TAATAAAAA
*
14237166 TAATAATAA
1 TAATAAAAA
14237175 TAATAAAAA
1 TAATAAAAA
14237184 TAA
1 TAA
14237187 AATTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAATAAAAA
Found at i:14237185 original size:24 final size:26
Alignment explanation
Indices: 14237158--14237207 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
14237148 GATTAATTTT
14237158 AATAAAAAT-AATA-ATAATAATAAA
1 AATAAAAATAAATATATAATAATAAA
*
14237182 AATAAAATTAAATATTATAATAATAA
1 AATAAAAATAAATA-TATAATAATAA
14237208 GATTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 8 0.36
25 4 0.18
27 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (26 bp):
AATAAAAATAAATATATAATAATAAA
Found at i:14237354 original size:27 final size:27
Alignment explanation
Indices: 14237315--14237386 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
14237305 TTATACATAT
* *
14237315 TAAAAATATTAAATAATTTAATATTTA
1 TAAAATTAATAAATAATTTAATATTTA
14237342 TAAAATTAATAAATAATTTAATATTTA
1 TAAAATTAATAAATAATTTAATATTTA
14237369 TAAAATTAATAAATAATT
1 TAAAATTAATAAATAATT
14237387 GATAAATATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAAATTAATAAATAATTTAATATTTA
Found at i:14237379 original size:15 final size:15
Alignment explanation
Indices: 14237332--14237379 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
14237322 ATTAAATAAT
14237332 TTAATATTTATAAAA
1 TTAATATTTATAAAA
* *
14237347 TTAATA--AAT-AAT
1 TTAATATTTATAAAA
14237359 TTAATATTTATAAAA
1 TTAATATTTATAAAA
14237374 TTAATA
1 TTAATA
14237380 AATAATTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 8 0.31
13 2 0.08
14 2 0.08
15 14 0.54
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAATATTTATAAAA
Found at i:14239027 original size:19 final size:19
Alignment explanation
Indices: 14238981--14239035 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
14238971 ATTAAAAAAA
* **
14238981 TATATTTAAATAAAAATTT
1 TATATTTAATTAAATTTTT
* *
14239000 AATAATTAATTAAATTTTT
1 TATATTTAATTAAATTTTT
14239019 TATATTTAATTACAATT
1 TATATTTAATTA-AATT
14239036 AATTAAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATTTAATTAAATTTTT
Found at i:14239131 original size:30 final size:30
Alignment explanation
Indices: 14239005--14239131 Score: 125
Period size: 30 Copynumber: 4.3 Consensus size: 30
14238995 AATTTAATAA
* * *
14239005 TTAATTAAATTTTT-TATATTTAATTACAA
1 TTAATTAAATTTTTATATATTTATTTTCAT
* *
14239034 TTAATTAAA-TTTTATATAATTTATTTTGAA
1 TTAATTAAATTTTTATAT-ATTTATTTTCAT
* * * *
14239064 TTAGTTAAATATTTAAATATATAATTTT-AT
1 TTAATTAAATTTTTATATAT-TTATTTTCAT
14239094 TTAATTAAATTTTTATATATTTATTTTCAT
1 TTAATTAAATTTTTATATATTTATTTTCAT
*
14239124 TTTATTAA
1 TTAATTAA
14239132 TTTCTCGATT
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
28 4 0.05
29 18 0.22
30 46 0.57
31 12 0.15
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (30 bp):
TTAATTAAATTTTTATATATTTATTTTCAT
Found at i:14239884 original size:21 final size:22
Alignment explanation
Indices: 14239846--14239897 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 22
14239836 CCTGAAATTA
14239846 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
14239868 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
14239889 AT-AAATATT
1 ATAAAATATT
14239898 TTAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 11 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:14239940 original size:21 final size:20
Alignment explanation
Indices: 14239914--14239954 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14239904 TATCATTATA
14239914 TAAATATATATAA-TAAAAAAT
1 TAAATA-AT-TAATTAAAAAAT
14239935 TAAATAATTAATTAAAAAAT
1 TAAATAATTAATTAAAAAAT
14239955 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATAATTAATTAAAAAAT
Found at i:14240994 original size:22 final size:24
Alignment explanation
Indices: 14240969--14241017 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
14240959 TTTTAAAGAC
14240969 TAATATT-T-ACTTATTAATAATA
1 TAATATTATAACTTATTAATAATA
*
14240991 TAATATTATCAATTTATTAATAATA
1 TAATATTAT-AACTTATTAATAATA
14241016 TA
1 TA
14241018 TAAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 1 0.04
25 15 0.65
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TAATATTATAACTTATTAATAATA
Found at i:14242943 original size:2 final size:2
Alignment explanation
Indices: 14242936--14242976 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
14242926 CTTATTTATC
14242936 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14242977 CATGGTAGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14243994 original size:2 final size:2
Alignment explanation
Indices: 14243989--14244018 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14243979 ACACACACAC
14243989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14244019 TCTAATAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14248558 original size:2 final size:2
Alignment explanation
Indices: 14248553--14248582 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14248543 ATATATTCTC
14248553 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14248583 TGGTAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14249239 original size:133 final size:129
Alignment explanation
Indices: 14248848--14249366 Score: 930
Period size: 129 Copynumber: 4.0 Consensus size: 129
14248838 CAACGCAAAA
* *
14248848 TTTACAATTCATCCAAGGAAGAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
1 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
*
14248913 AAACAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGAC
66 AAGCAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGAC
14248977 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
1 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
*
14249042 AAGCAAATTAAACTGATTAAATAGAAGTTACAAGAGAAGATTAAAAGCTTTTTGTGTAAAAGAC
66 AAGCAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGAC
14249106 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
1 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
*
14249171 AAGCAAATTAAACTGATTAATTAAATAGAAGTTACAAGAGAAGATTAAAAGCTTTTTGTGTAAAA
66 AAGCAAATTAAACTG----ATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAA
14249236 GAC
127 GAC
*
14249239 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGTTGGAAGATCCTGTAAACTTTT
1 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
* *
14249304 AAGCAAACTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTATAAAAGA
66 AAGCAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGA
14249367 TTTTGAATAT
Statistics
Matches: 378, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
129 251 0.66
133 127 0.34
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (129 bp):
TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
AAGCAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGAC
Found at i:14249309 original size:262 final size:258
Alignment explanation
Indices: 14248848--14249366 Score: 930
Period size: 262 Copynumber: 2.0 Consensus size: 258
14248838 CAACGCAAAA
* *
14248848 TTTACAATTCATCCAAGGAAGAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
1 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
14248913 AAACAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGACT
66 AAACAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGACT
14248978 TTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTTA
131 TTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTTA
* * *
14249043 AGCAAATTAAACTGATTAAATAGAAGTTACAAGAGAAGATTAAAAGCTTTTTGTGTAAAAGAC
196 AGCAAACTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTATAAAAGAC
14249106 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
1 TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
* *
14249171 AAGCAAATTAAACTGATTAATTAAATAGAAGTTACAAGAGAAGATTAAAAGCTTTTTGTGTAAAA
66 AAACAAATTAAACTG----ATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAA
*
14249236 GACTTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGTTGGAAGATCCTGTAAACT
127 GACTTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACT
14249301 TTTAAGCAAACTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTATAAAAG
192 TTTAAGCAAACTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTATAAAAG
14249366 A
257 A
14249367 TTTTGAATAT
Statistics
Matches: 249, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
258 77 0.31
262 172 0.69
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (258 bp):
TTTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTT
AAACAAATTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTGTAAAAGACT
TTACAATCCATCCAAGGAACAGAAACTTGCAGCTTAACAAAGATGGAAGATCCTGTAAACTTTTA
AGCAAACTAAACTGATTAAATAGAAGTTACAAAAGAAGATTAAAAGCTTTTTGTATAAAAGAC
Found at i:14251986 original size:23 final size:25
Alignment explanation
Indices: 14251956--14252007 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
14251946 TTGACAGAAC
* *
14251956 TATTAAAATATT-AAATTAA-TTAT
1 TATTAAAACATTAAAAATAATTTAT
14251979 TATTAAAACATTAAAAATAATTTAT
1 TATTAAAACATTAAAAATAATTTAT
14252004 TATT
1 TATT
14252008 CAACTAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.44
24 6 0.24
25 8 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTAAAACATTAAAAATAATTTAT
Found at i:14252219 original size:29 final size:28
Alignment explanation
Indices: 14252154--14252219 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 28
14252144 TATTCATATG
*
14252154 TTAAAATATTTACAATAGAATTGTTATT
1 TTAAAATATTTAAAATAGAATTGTTATT
*
14252182 TTATTAATA-TTAAAATAGTAATAT-TTATT
1 TTA-AAATATTTAAAATAG-AAT-TGTTATT
14252211 ATTAAAATA
1 -TTAAAATA
14252220 AAAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
28 11 0.35
29 16 0.52
30 4 0.13
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (28 bp):
TTAAAATATTTAAAATAGAATTGTTATT
Found at i:14252574 original size:17 final size:17
Alignment explanation
Indices: 14252549--14252597 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
14252539 TAAAATTAAA
*
14252549 ATATTAAAATATTTTTT
1 ATATAAAAATATTTTTT
*
14252566 ATATAAAAATAATTTATT
1 ATATAAAAAT-ATTTTTT
*
14252584 ATTTAAAAAT-TTTT
1 ATATAAAAATATTTT
14252598 GAATTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 3 0.11
17 9 0.33
18 15 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATAAAAATATTTTTT
Found at i:14255009 original size:60 final size:58
Alignment explanation
Indices: 14254926--14255156 Score: 254
Period size: 60 Copynumber: 3.9 Consensus size: 58
14254916 GCTTTTATAC
*
14254926 AAGAAAAATTGATACTATC-AACTTTTTCCTTAAAAATATTTTTCTTCAAATTTTATTTTT
1 AAGAAAAATTGATACT-TCTAAC-TTTTCCTTAAAAATATTTTT-TTAAAATTTTATTTTT
* * *
14254986 AAGAAAAATCGATACTTCTAACTTTTCTTTAGAAATATATTTTTTAAAGATTTTATTTTT
1 AAGAAAAATTGATACTTCTAACTTTTCCTTAAAAATAT-TTTTTTAAA-ATTTTATTTTT
* * * *
14255046 AAGAAAAATTTATCCTT-TCAACTTTT-TTTGAAAAATA-TTTTTTAGAAATTTTATTTTC
1 AAGAAAAATTGATACTTCT-AACTTTTCCTT-AAAAATATTTTTTTA-AAATTTTATTTTT
* * *
14255104 AAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAAAATTTT
1 AAGAAAAATTGATACTTCTAACTTTTCCTTAAAAATATTTTTT-TAAAATTTT
14255157 CTTTATTCAT
Statistics
Matches: 147, Mismatches: 14, Indels: 21
0.81 0.08 0.12
Matches are distributed among these distances:
58 46 0.31
59 40 0.27
60 61 0.41
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (58 bp):
AAGAAAAATTGATACTTCTAACTTTTCCTTAAAAATATTTTTTTAAAATTTTATTTTT
Found at i:14255110 original size:118 final size:118
Alignment explanation
Indices: 14254926--14255156 Score: 306
Period size: 118 Copynumber: 1.9 Consensus size: 118
14254916 GCTTTTATAC
* *
14254926 AAGAAAAATTGATACTATCAACTTTTTCCTTAAAAATATTTTTCTTCAAATTTTATTTTTAAGAA
1 AAGAAAAATTGATACTATCAACTTTTT-CTTAAAAATATTTTTCTACAAATTTTATTTTCAAGAA
* * *
14254991 AAATCGATACTTCTAACTTTTCTTTAGAAATATATTTTTT-AAAGATTTTATTTTT
65 AAATCGATACTTCTAACTTTTCCTCA-AAA-ATATTTTTTGAAAAATTTTATTTTT
* * * *
14255046 AAGAAAAATTTATCCTTTCAACTTTTT-TTGAAAAATATTTTT-TAGAAATTTTATTTTCAAGAA
1 AAGAAAAATTGATACTATCAACTTTTTCTT-AAAAATATTTTTCTACAAATTTTATTTTCAAGAA
* *
14255109 AAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAAAATTTT
65 AAATCGATACTTCTAACTTTTCCTCAAAAATATTTTTTGAAAAATTTT
14255157 CTTTATTCAT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
116 9 0.09
117 11 0.11
118 42 0.43
119 12 0.12
120 24 0.24
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (118 bp):
AAGAAAAATTGATACTATCAACTTTTTCTTAAAAATATTTTTCTACAAATTTTATTTTCAAGAAA
AATCGATACTTCTAACTTTTCCTCAAAAATATTTTTTGAAAAATTTTATTTTT
Found at i:14255112 original size:58 final size:57
Alignment explanation
Indices: 14254925--14255156 Score: 243
Period size: 58 Copynumber: 3.9 Consensus size: 57
14254915 TGCTTTTATA
* *
14254925 CAAGAAAAATTGATACTATCAACTTTTTCCTT-AAAAATATTTTTCTTCAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTT--TTGAAAAATA-TTTT-TTAAAATTTTATTTT
* * *
14254985 TAAGAAAAATCGATAC-TTCTAACTTTTCTTTAGAAATATATTTTTTAAAGATTTTATTTT
1 CAAGAAAAATTGATACTTTC-AACTTTT-TTT-GAAAAATATTTTTTAAA-ATTTTATTTT
* * *
14255045 TAAGAAAAATTTATCCTTTCAACTTTTTTTGAAAAATATTTTTTAGAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTTTGAAAAATATTTTTTA-AAATTTTATTTT
* ** *
14255103 CAAGAAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAAAATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTTTGAAAAATATTTTTT--AAAATTTT
14255157 CTTTATTCAT
Statistics
Matches: 147, Mismatches: 16, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
58 61 0.41
59 20 0.14
60 56 0.38
61 10 0.07
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTTTTGAAAAATATTTTTTAAAATTTTATTTT
Found at i:14256930 original size:13 final size:14
Alignment explanation
Indices: 14256907--14256935 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14256897 AAAAAATGAT
14256907 AAATATGAAATAAA
1 AAATATGAAATAAA
14256921 AAAT-TGAAATAAA
1 AAATATGAAATAAA
14256934 AA
1 AA
14256936 TGAATAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (14 bp):
AAATATGAAATAAA
Found at i:14257462 original size:21 final size:21
Alignment explanation
Indices: 14257417--14257473 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
14257407 TGCAAATTGC
* *
14257417 AAGATTCGCATCCACA-TTTA
1 AAGATTCACATCCAAATTTTA
* *
14257437 AAGATTCTCATTCAAATTTTA
1 AAGATTCACATCCAAATTTTA
*
14257458 GAGATTCACATCCAAA
1 AAGATTCACATCCAAA
14257474 AGTTTAAAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (21 bp):
AAGATTCACATCCAAATTTTA
Found at i:14257544 original size:44 final size:42
Alignment explanation
Indices: 14257496--14257579 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
14257486 CTCATTCGAA
* * *
14257496 TTCAAAGGTTCACATTCAAGAAATCTTAAAGTTTCATATCTAAG
1 TTCAAAGGTTCACACT-AAAAAAT-TTAAAGATTCATATCTAAG
**
14257540 TTCAAAGGTTTTCACTAAAAAATTTAAAGATTCATATCTA
1 TTCAAAGGTTCACACTAAAAAATTTAAAGATTCATATCTA
14257580 GAAGTTGAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 16 0.46
43 6 0.17
44 13 0.37
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (42 bp):
TTCAAAGGTTCACACTAAAAAATTTAAAGATTCATATCTAAG
Found at i:14259296 original size:11 final size:11
Alignment explanation
Indices: 14259282--14259314 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
14259272 ATAAATCCCA
14259282 AACAAATCTCT
1 AACAAATCTCT
14259293 AACAAATCTCT
1 AACAAATCTCT
14259304 AACAAATCTCT
1 AACAAATCTCT
14259315 TATGAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AACAAATCTCT
Found at i:14259575 original size:25 final size:25
Alignment explanation
Indices: 14259546--14259614 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
14259536 TCAAACCAAG
* **
14259546 CTCTTCCCATATCTCGAACTGTCAA
1 CTCTTTCCATATCTCGAACCATCAA
* *
14259571 CTCTTTCCATGTCTCGAACCATCAG
1 CTCTTTCCATATCTCGAACCATCAA
*
14259596 CTCTTTCCACATCTCGAAC
1 CTCTTTCCATATCTCGAAC
14259615 ATTTGACTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.22, C:0.38, G:0.09, T:0.32
Consensus pattern (25 bp):
CTCTTTCCATATCTCGAACCATCAA
Found at i:14259624 original size:50 final size:50
Alignment explanation
Indices: 14259544--14259649 Score: 117
Period size: 50 Copynumber: 2.1 Consensus size: 50
14259534 TTTCAAACCA
*
14259544 AGCTCTTCCCATATCTCGAACTGTCAACTCTT-TCCATGTCTCGAACCATC
1 AGCTCTTCCCACATCTCGAACTGTCAACTCTTCT-CATGTCTCGAACCATC
* ** * **
14259594 AGCTCTTTCCACATCTCGAACAT-TTGACTCTTCTCATGTTTCGAACTTTC
1 AGCTCTTCCCACATCTCGAAC-TGTCAACTCTTCTCATGTCTCGAACCATC
14259644 AGCTCT
1 AGCTCT
14259650 GATACCACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
50 45 0.96
51 2 0.04
ACGTcount: A:0.21, C:0.33, G:0.10, T:0.36
Consensus pattern (50 bp):
AGCTCTTCCCACATCTCGAACTGTCAACTCTTCTCATGTCTCGAACCATC
Found at i:14260264 original size:52 final size:52
Alignment explanation
Indices: 14260181--14260284 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
14260171 TATAACCATA
*
14260181 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCTTGCAAGT
* * * * * *
14260233 CAAACTTACCTATTAAGAATC-CTTTTTCTCTTGGAATTTTTCTTTTGCAAGT
1 CAAACTTACCCATTAAGAATCTC-TCTCCTCTTAGAATTCTTCTCTTGCAAGT
14260285 ATTCTTGTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (52 bp):
CAAACTTACCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:14260334 original size:11 final size:11
Alignment explanation
Indices: 14260320--14260352 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
14260310 ATAAATCCCA
14260320 AACAAATCTCT
1 AACAAATCTCT
14260331 AACAAATCTCT
1 AACAAATCTCT
14260342 AACAAATCTCT
1 AACAAATCTCT
14260353 TATGAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (11 bp):
AACAAATCTCT
Found at i:14262247 original size:3 final size:3
Alignment explanation
Indices: 14262239--14262282 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
14262229 CAAAATATCA
14262239 ATT ATT ATT ATT ATT ATT ATT ATT GCATT ATT A-T ATT -TT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT --ATT ATT ATT ATT ATT ATT AT
14262283 ATTTTATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 4 0.11
3 30 0.81
5 3 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14262470 original size:14 final size:15
Alignment explanation
Indices: 14262451--14262497 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 15
14262441 ATAATTTATC
14262451 ATTTATTTTATTTT-
1 ATTTATTTTATTTTA
14262465 ATTTATCTTTATTTATA
1 ATTTAT-TTTATTT-TA
14262482 ATGTTATTATTATTTT
1 AT-TTATT-TTATTTT
14262498 TTAAATTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
14 6 0.21
15 7 0.25
16 1 0.04
17 4 0.14
18 10 0.36
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (15 bp):
ATTTATTTTATTTTA
Found at i:14262491 original size:21 final size:21
Alignment explanation
Indices: 14262444--14262489 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
14262434 TCATTAAATA
*
14262444 ATTTATCATTTATTTTATTTT
1 ATTTATCATTTATTTTATGTT
14262465 ATTTATC-TTTATTTATAATGTT
1 ATTTATCATTTATTT-T-ATGTT
14262487 ATT
1 ATT
14262490 ATTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTATCATTTATTTTATGTT
Found at i:14262771 original size:5 final size:5
Alignment explanation
Indices: 14262687--14262782 Score: 52
Period size: 5 Copynumber: 18.2 Consensus size: 5
14262677 TGGTAATAGT
* * **
14262687 ATAAA ATAAT ATAAA ATAACA ATAATA ATAATA CTAACA ATATC ATAAA
1 ATAAA ATAAA ATAAA ATAA-A ATAA-A ATAA-A ATAA-A ATAAA ATAAA
* * *
14262736 A-AAA TAAAAA ATAAC ATAAAA ATCAAC ATAAA AT-AA ATAAA ATAAA
1 ATAAA -ATAAA ATAAA AT-AAA AT-AAA ATAAA ATAAA ATAAA ATAAA
14262782 A
1 A
14262783 AGAAAATTAA
Statistics
Matches: 70, Mismatches: 16, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
4 7 0.10
5 34 0.49
6 29 0.41
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:14262808 original size:20 final size:20
Alignment explanation
Indices: 14262731--14262808 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
14262721 TAACAATATC
*
14262731 ATAAAA-AAATAAAAAATAA
1 ATAAAATAAAAAAAAAATAA
* * *
14262750 CATAAAAATCAACATAAAATAA
1 -AT-AAAATAAAAAAAAAATAA
* *
14262772 ATAAAATAAAAAGAAAATTA
1 ATAAAATAAAAAAAAAATAA
14262792 ATAAAA-AGAAAAAAAAA
1 ATAAAATA-AAAAAAAAA
14262809 ACTATCAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
20 30 0.64
21 6 0.13
22 10 0.21
ACGTcount: A:0.78, C:0.04, G:0.03, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAAAAAAAATAA
Found at i:14263200 original size:10 final size:10
Alignment explanation
Indices: 14263171--14263203 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
14263161 AAATACTTTA
14263171 AAAAAAT-TT
1 AAAAAATCTT
14263180 AAAAAATTCTT
1 AAAAAA-TCTT
14263191 AAAAAATCTT
1 AAAAAATCTT
14263201 AAA
1 AAA
14263204 TTGATCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 6 0.27
10 8 0.36
11 8 0.36
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAAATCTT
Found at i:14263622 original size:119 final size:119
Alignment explanation
Indices: 14263488--14263724 Score: 357
Period size: 119 Copynumber: 2.0 Consensus size: 119
14263478 CTCCCTTCTC
* * *
14263488 ATGTTTTACAGAAATTAGCTCTATTTATAGAGTTTTTGGGATTCAAAACCCAAATCTCCTGGGAT
1 ATGTTTTACAAAAATTAGCTCTATTTATAGAGTTTTTGAGATTCAAAACCAAAATCTCCTGGGAT
* * * * * *
14263553 CTTTATACGCAAAATTCTTGAGGCATGTCCAATAACTTTTGGTTATTAGATTTA
66 CCTTATACGAAAAATTATGGAGACATGTCCAATAACTTTTGATTATTAGATTTA
*
14263607 ATGTTTTGCAAAAATTAGCTCTATTTATAGAGTTTTTGAGATTCAAAACCAAAATCTCCTGGGAT
1 ATGTTTTACAAAAATTAGCTCTATTTATAGAGTTTTTGAGATTCAAAACCAAAATCTCCTGGGAT
* * *
14263672 CCTTATATGAAAAATTATGGAGACATGTCCTATAACTTTTGATTATTGGATTT
66 CCTTATACGAAAAATTATGGAGACATGTCCAATAACTTTTGATTATTAGATTT
14263725 CATGCTGCCA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
119 105 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (119 bp):
ATGTTTTACAAAAATTAGCTCTATTTATAGAGTTTTTGAGATTCAAAACCAAAATCTCCTGGGAT
CCTTATACGAAAAATTATGGAGACATGTCCAATAACTTTTGATTATTAGATTTA
Found at i:14263849 original size:3 final size:3
Alignment explanation
Indices: 14263843--14263888 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
14263833 TTAATTGATG
14263843 ATA ATA ATA ATA AT- ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14263889 TTATTATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14264454 original size:2 final size:2
Alignment explanation
Indices: 14264447--14264482 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
14264437 CTGCCGACTT
14264447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14264483 AAATGTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14269276 original size:32 final size:31
Alignment explanation
Indices: 14269239--14269317 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
14269229 AAATATAAAA
*
14269239 ATATTTAAATTTAAATCAA-TCGATAAATTAA-
1 ATATTTAAATTTAAATCAATTCAAT-AA-TAAT
* *
14269270 ATTATTTAAATTTAATTTAATTCAATAATAAT
1 A-TATTTAAATTTAAATCAATTCAATAATAAT
14269302 ATATTTAAATTTAAAT
1 ATATTTAAATTTAAAT
14269318 TTTGTTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 18 0.44
32 19 0.46
33 4 0.10
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (31 bp):
ATATTTAAATTTAAATCAATTCAATAATAAT
Found at i:14277387 original size:7 final size:8
Alignment explanation
Indices: 14277370--14277395 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14277360 CTGTTCTGGA
14277370 TTTTTGTT
1 TTTTTGTT
14277378 TTTTTGTT
1 TTTTTGTT
14277386 TTTTTGTT
1 TTTTTGTT
14277394 TT
1 TT
14277396 GGTTTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTGTT
Found at i:14289588 original size:26 final size:26
Alignment explanation
Indices: 14289552--14289603 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14289542 TGATCACCCT
*
14289552 ACCTACCTCTCTTGAGGCGCTTGGTG
1 ACCTACCTCTCTTGAGGCACTTGGTG
14289578 ACCTACCTCTCTTGAGGCACTTGGTG
1 ACCTACCTCTCTTGAGGCACTTGGTG
14289604 TGGATCGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.31, G:0.25, T:0.31
Consensus pattern (26 bp):
ACCTACCTCTCTTGAGGCACTTGGTG
Found at i:14289679 original size:73 final size:73
Alignment explanation
Indices: 14289560--14289704 Score: 290
Period size: 73 Copynumber: 2.0 Consensus size: 73
14289550 CTACCTACCT
14289560 CTCTTGAGGCGCTTGGTGACCTACCTCTCTTGAGGCACTTGGTGTGGATCGAACGGTTTAGGCTT
1 CTCTTGAGGCGCTTGGTGACCTACCTCTCTTGAGGCACTTGGTGTGGATCGAACGGTTTAGGCTT
14289625 GTCACGTC
66 GTCACGTC
14289633 CTCTTGAGGCGCTTGGTGACCTACCTCTCTTGAGGCACTTGGTGTGGATCGAACGGTTTAGGCTT
1 CTCTTGAGGCGCTTGGTGACCTACCTCTCTTGAGGCACTTGGTGTGGATCGAACGGTTTAGGCTT
14289698 GTCACGT
66 GTCACGT
14289705 GTCAAGACTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.14, C:0.24, G:0.30, T:0.32
Consensus pattern (73 bp):
CTCTTGAGGCGCTTGGTGACCTACCTCTCTTGAGGCACTTGGTGTGGATCGAACGGTTTAGGCTT
GTCACGTC
Found at i:14293662 original size:29 final size:29
Alignment explanation
Indices: 14293623--14293681 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
14293613 TCCCAAAGAT
14293623 AACCCTCTATGGCATGAAAAATATTTATA
1 AACCCTCTATGGCATGAAAAATATTTATA
*
14293652 AACCCTCTATGGCATGAAATATATTTATA
1 AACCCTCTATGGCATGAAAAATATTTATA
14293681 A
1 A
14293682 CCACCTCGGC
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:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (29 bp):
AACCCTCTATGGCATGAAAAATATTTATA
Found at i:14293760 original size:46 final size:46
Alignment explanation
Indices: 14293699--14293790 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
14293689 GGCACCTCCA
14293699 CATTTACTGATAGATGTTAAACCCGAGTTAAATAAAACCAGCACCC
1 CATTTACTGATAGATGTTAAACCCGAGTTAAATAAAACCAGCACCC
14293745 CATTTACTGATAGATGTTAAACCCGAGTTAAATAAAACCAGCACCC
1 CATTTACTGATAGATGTTAAACCCGAGTTAAATAAAACCAGCACCC
14293791 TATTCAGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (46 bp):
CATTTACTGATAGATGTTAAACCCGAGTTAAATAAAACCAGCACCC
Found at i:14294195 original size:10 final size:10
Alignment explanation
Indices: 14294141--14294213 Score: 51
Period size: 10 Copynumber: 7.4 Consensus size: 10
14294131 CATTAAAAAC
*
14294141 AAAAATTCTA
1 AAAAATTTTA
*
14294151 AAAAGTTTTA
1 AAAAATTTTA
* *
14294161 AAAAAATCT-
1 AAAAATTTTA
* *
14294170 GAATATTTTAA
1 AAAAATTTT-A
14294181 AAAAATTTTA
1 AAAAATTTTA
*
14294191 AAAAATTAT-
1 AAAAATTTTA
*
14294200 AAAAACTTTA
1 AAAAATTTTA
14294210 AAAA
1 AAAA
14294214 TTCAAAAAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
9 12 0.26
10 27 0.59
11 7 0.15
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:14294234 original size:21 final size:23
Alignment explanation
Indices: 14294209--14294269 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
14294199 TAAAAACTTT
*
14294209 AAAAA-TTCAAAAAAAAAATCTC
1 AAAAATTTCAAAAAAAAAATCCC
* *
14294231 -AAAATTTTAATAAAAAAATCCC
1 AAAAATTTCAAAAAAAAAATCCC
14294253 AAAAATTTCAAAAAAAA
1 AAAAATTTCAAAAAAAA
14294270 TTTTGAAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 4 0.12
22 14 0.44
23 14 0.44
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.21
Consensus pattern (23 bp):
AAAAATTTCAAAAAAAAAATCCC
Found at i:14294735 original size:19 final size:19
Alignment explanation
Indices: 14294708--14294747 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
14294698 TTTAAGAAAA
*
14294708 TTTTGTTTTTATTA-ATTTT
1 TTTTATTTTT-TTAGATTTT
14294727 TTTTATTTTTTTAGATTTT
1 TTTTATTTTTTTAGATTTT
14294746 TT
1 TT
14294748 ATTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTATTTTTTTAGATTTT
Found at i:14294826 original size:37 final size:38
Alignment explanation
Indices: 14294785--14294857 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
14294775 TTTAGTTTCC
*
14294785 ATATATATATTAATTTTTATAA-TTTTAGAAATATTTA
1 ATATATATATTAATTTTTATAATTTTTAAAAATATTTA
* * *
14294822 ATATATTTTTTAATTTTTTTAATTTTTAAAAATATT
1 ATATATATATTAATTTTTATAATTTTTAAAAATATT
14294858 GTAGATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (38 bp):
ATATATATATTAATTTTTATAATTTTTAAAAATATTTA
Found at i:14294868 original size:37 final size:37
Alignment explanation
Indices: 14294794--14294879 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 37
14294784 CATATATATA
* * *
14294794 TTAATTTTTATAATTTTAGAAATATTTAATATATTTT
1 TTAATTTTTTTAATTTTAAAAATATTTAAGATATTTT
14294831 TTAATTTTTTTAATTTTTAAAAATATTGT-AGAT-TTTT
1 TTAATTTTTTTAA-TTTTAAAAATATT-TAAGATATTTT
14294868 TTAAATTTTTTT
1 TT-AATTTTTTT
14294880 TTTAATTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
37 18 0.42
38 24 0.56
39 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (37 bp):
TTAATTTTTTTAATTTTAAAAATATTTAAGATATTTT
Found at i:14295511 original size:17 final size:17
Alignment explanation
Indices: 14295489--14295522 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14295479 GAGCGTGCAA
14295489 CTTGACCTAACTTATCC
1 CTTGACCTAACTTATCC
14295506 CTTGACCTAACTTATCC
1 CTTGACCTAACTTATCC
14295523 TTTACACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (17 bp):
CTTGACCTAACTTATCC
Found at i:14296994 original size:1 final size:1
Alignment explanation
Indices: 14296988--14297017 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
14296978 TCCCAGGGAG
*
14296988 AAAAAAAAAAAAAAAAAAAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14297018 GGCCACCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:14299191 original size:21 final size:23
Alignment explanation
Indices: 14299149--14299192 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
14299139 AAGAAAAAAA
*
14299149 AAAAAGAAACAAAAAATCTTTTT
1 AAAAAGAAACAAAAAATATTTTT
*
14299172 AAAAA-AAA-AAAAATTATTTTT
1 AAAAAGAAACAAAAAATATTTTT
14299193 TATTTTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 3 0.16
23 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAAAGAAACAAAAAATATTTTT
Found at i:14301051 original size:2 final size:2
Alignment explanation
Indices: 14301044--14301102 Score: 50
Period size: 2 Copynumber: 30.0 Consensus size: 2
14301034 AGTTTCTGTC
* * * * *
14301044 TA TA TA TA TA TA TA TA TA TA TA -A T- TA CA GTT TC TG TC TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
14301085 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
14301103 ATTACAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
1 2 0.04
2 45 0.96
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14301078 original size:37 final size:37
Alignment explanation
Indices: 14301028--14301108 Score: 162
Period size: 37 Copynumber: 2.2 Consensus size: 37
14301018 ATAGAGCAGC
14301028 AATTACAGTTTCTGTCTATATATATATATATATATAT
1 AATTACAGTTTCTGTCTATATATATATATATATATAT
14301065 AATTACAGTTTCTGTCTATATATATATATATATATAT
1 AATTACAGTTTCTGTCTATATATATATATATATATAT
14301102 AATTACA
1 AATTACA
14301109 ATTTACTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (37 bp):
AATTACAGTTTCTGTCTATATATATATATATATATAT
Found at i:14307963 original size:16 final size:17
Alignment explanation
Indices: 14307921--14307963 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14307911 TTTCCATGTT
* *
14307921 AAAAGACAGAAACAAAG
1 AAAAGAGAGAAACAAAC
14307938 AAACAGAGAGAAA-AAAC
1 AAA-AGAGAGAAACAAAC
14307955 AAAAGAGAG
1 AAAAGAGAG
14307964 GCAAAGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 8 0.35
ACGTcount: A:0.70, C:0.09, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAGAGAAACAAAC
Found at i:14308681 original size:2 final size:2
Alignment explanation
Indices: 14308670--14308707 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
14308660 TGCTCTACTT
*
14308670 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14308708 CTTAGTTGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14310189 original size:19 final size:19
Alignment explanation
Indices: 14310167--14310219 Score: 74
Period size: 17 Copynumber: 2.9 Consensus size: 19
14310157 TTAATACATC
14310167 AAATATAAATTATATATGT
1 AAATATAAATTATATATGT
*
14310186 AAAT-TTAA-TATATATGT
1 AAATATAAATTATATATGT
*
14310203 ATATATAAATTATATAT
1 AAATATAAATTATATAT
14310220 AAAGTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
18 6 0.21
19 11 0.38
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (19 bp):
AAATATAAATTATATATGT
Found at i:14310229 original size:23 final size:23
Alignment explanation
Indices: 14310168--14310232 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
14310158 TAATACATCA
* *
14310168 AATATAAATTATATATGTAAATTT
1 AATATAAAGTA-ATATATAAATTT
*
14310192 AATATATATGT-ATATATAAA-TT
1 AATATA-AAGTAATATATAAATTT
14310214 ATATATAAAGTAATATATA
1 A-ATATAAAGTAATATATA
14310233 CATATAGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 6 0.18
23 20 0.59
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (23 bp):
AATATAAAGTAATATATAAATTT
Found at i:14310637 original size:42 final size:42
Alignment explanation
Indices: 14310567--14310653 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
14310557 GACGTGTCTC
*
14310567 TTATTTGAAACAACCTTCAATCATCTTAAACGC-TAGCTCTG
1 TTATTTGAAACAACCTTCAATCACCTTAAACGCTTAGCTCTG
* *
14310608 TTATTTGAAACAAACCTTTAATCACCTTAAATGCTTAGCTCTG
1 TTATTTGAAAC-AACCTTCAATCACCTTAAACGCTTAGCTCTG
14310651 TTA
1 TTA
14310654 AGTATAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 11 0.27
42 19 0.46
43 11 0.27
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (42 bp):
TTATTTGAAACAACCTTCAATCACCTTAAACGCTTAGCTCTG
Found at i:14312827 original size:24 final size:24
Alignment explanation
Indices: 14312800--14312846 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
14312790 ATTTTAATCC
*
14312800 TTACAAATTTTTTATACTTAAAAT
1 TTACAAATTTTATATACTTAAAAT
* *
14312824 TTACAACTTTTATGTACTTAAAA
1 TTACAAATTTTATATACTTAAAA
14312847 AAAATATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (24 bp):
TTACAAATTTTATATACTTAAAAT
Found at i:14314918 original size:16 final size:16
Alignment explanation
Indices: 14314888--14314925 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
14314878 TCAATCAATT
14314888 TATATA-TTAATGTTA
1 TATATATTTAATGTTA
*
14314903 TATATATTTCATGTTA
1 TATATATTTAATGTTA
*
14314919 AATATAT
1 TATATAT
14314926 AGAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (16 bp):
TATATATTTAATGTTA
Found at i:14315056 original size:13 final size:13
Alignment explanation
Indices: 14315024--14315049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14315014 AAATTTTACA
14315024 TTATTTTAAAATT
1 TTATTTTAAAATT
14315037 TTATTTTAAAATT
1 TTATTTTAAAATT
14315050 ATTTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTTTAAAATT
Found at i:14315619 original size:3 final size:3
Alignment explanation
Indices: 14315611--14315646 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14315601 TAAAAATGGA
*
14315611 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TGC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
14315647 GTTTAACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:14326361 original size:36 final size:36
Alignment explanation
Indices: 14326314--14326388 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
14326304 AGAACCTGGC
14326314 TTTACTAGTGGGGGCTGCGGAGACTATTTTGTCAGA
1 TTTACTAGTGGGGGCTGCGGAGACTATTTTGTCAGA
14326350 TTTACTAGTGGGGGCTGCGGAGACTATTTTGTCAGA
1 TTTACTAGTGGGGGCTGCGGAGACTATTTTGTCAGA
14326386 TTT
1 TTT
14326389 CATTGTGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.36
Consensus pattern (36 bp):
TTTACTAGTGGGGGCTGCGGAGACTATTTTGTCAGA
Found at i:14330581 original size:42 final size:42
Alignment explanation
Indices: 14330529--14330613 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
14330519 TCTGATTACA
14330529 TGATAATATTTTGATCTACTATTGATTTTTATATGTCATGTT
1 TGATAATATTTTGATCTACTATTGATTTTTATATGTCATGTT
14330571 TGATAATATTTTGATCTACTATTGATTTTTATATGTCATGTT
1 TGATAATATTTTGATCTACTATTGATTTTTATATGTCATGTT
14330613 T
1 T
14330614 AATCTGGAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (42 bp):
TGATAATATTTTGATCTACTATTGATTTTTATATGTCATGTT
Found at i:14336854 original size:27 final size:27
Alignment explanation
Indices: 14336824--14336882 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
14336814 TAGTAATTAA
*
14336824 ATTTAAATTTTAATTTTAATGAAATTT
1 ATTTAAATATTAATTTTAATGAAATTT
* * *
14336851 ATTT-AATATTATTTTTTATTAAATTT
1 ATTTAAATATTAATTTTAATGAAATTT
*
14336877 TTTTAA
1 ATTTAA
14336883 TCATAATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTTAAATATTAATTTTAATGAAATTT
Found at i:14339583 original size:5 final size:5
Alignment explanation
Indices: 14339575--14339607 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
14339565 TTTTTTTTCT
14339575 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
14339608 CTTATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:14339625 original size:10 final size:9
Alignment explanation
Indices: 14339565--14339627 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 9
14339555 TCGATTGTAG
14339565 TTTTTT-TT
1 TTTTTTATT
*
14339573 CTTTTTATT
1 TTTTTTATT
14339582 TTATTTTATT
1 TT-TTTTATT
14339592 TTATTTTATT
1 TT-TTTTATT
* *
14339602 TTATTTCTT
1 TTTTTTATT
14339611 ATTTTTTATT
1 -TTTTTTATT
14339621 CTTTTTT
1 -TTTTTT
14339628 TTTCCTTCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
8 5 0.11
9 8 0.18
10 32 0.71
ACGTcount: A:0.13, C:0.05, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTATT
Found at i:14339781 original size:20 final size:20
Alignment explanation
Indices: 14339756--14339812 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
14339746 TACATATTTA
14339756 ATTATATTCTTGCATGA-CAT
1 ATTATATT-TTGCATGATCAT
*
14339776 ATTATATTATTGCATGATGAT
1 ATTATATT-TTGCATGATCAT
14339797 ATTAT-TTTTGCATGAT
1 ATTATATTTTGCATGAT
14339813 TAATATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 9 0.26
20 18 0.53
21 7 0.21
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (20 bp):
ATTATATTTTGCATGATCAT
Found at i:14345834 original size:24 final size:23
Alignment explanation
Indices: 14345794--14345859 Score: 75
Period size: 22 Copynumber: 2.9 Consensus size: 23
14345784 TAACTTTTGG
14345794 ATGTGAAT-TTCTAAAATATTTTAA
1 ATGTGAATCTT-T-AAATATTTTAA
*
14345818 ATGTGAATCTTTGAA-ATTTTAA
1 ATGTGAATCTTTAAATATTTTAA
*
14345840 ATATGAATCTTTAAAT-TTTT
1 ATGTGAATCTTTAAATATTTT
14345860 CGAATGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 24 0.65
23 2 0.05
24 9 0.24
25 2 0.05
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.48
Consensus pattern (23 bp):
ATGTGAATCTTTAAATATTTTAA
Found at i:14345857 original size:21 final size:22
Alignment explanation
Indices: 14345811--14345858 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14345801 TTTCTAAAAT
*
14345811 ATTTTAAATGTGAATCTTTGAA
1 ATTTTAAATATGAATCTTTGAA
14345833 ATTTTAAATATGAATCTTT-AA
1 ATTTTAAATATGAATCTTTGAA
14345854 ATTTT
1 ATTTT
14345859 TCGAATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (22 bp):
ATTTTAAATATGAATCTTTGAA
Found at i:14345921 original size:90 final size:90
Alignment explanation
Indices: 14345756--14345922 Score: 223
Period size: 90 Copynumber: 1.9 Consensus size: 90
14345746 GAAATTTTCT
* * *
14345756 ATCTCTAAGTTTTTCGAATAAAAGTCTTTAACTTTTGGATGTGAATTTCTAAAATATTTTAAATG
1 ATCTCTAAATTTTTCGAATAAAAGTCTTTAACTTCTGGATGTGAATTTCAAAAATATTTTAAATG
* *
14345821 TGAATCTTTGAAATTTTAAATATGA
66 TAAATATTTGAAATTTTAAATATGA
* *
14345846 ATCTTTAAATTTTTCGAATGAAAA-TCTTTAACTTCTGGCTGTGAATTTCAAAAA-ATTTTTAAA
1 ATCTCTAAATTTTTCGAAT-AAAAGTCTTTAACTTCTGGATGTGAATTTCAAAAATA-TTTTAAA
14345909 TG-AAAGTATTTGAA
64 TGTAAA-TATTTGAA
14345923 TTCTGGGGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
89 3 0.04
90 60 0.90
91 4 0.06
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (90 bp):
ATCTCTAAATTTTTCGAATAAAAGTCTTTAACTTCTGGATGTGAATTTCAAAAATATTTTAAATG
TAAATATTTGAAATTTTAAATATGA
Found at i:14346965 original size:17 final size:18
Alignment explanation
Indices: 14346929--14346966 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
14346919 TTAATTTTAA
*
14346929 TTTGATTTAATTTAATTT
1 TTTGATTTAATTTAAGTT
*
14346947 TTTG-TTTAATTTTAGTT
1 TTTGATTTAATTTAAGTT
14346964 TTT
1 TTT
14346967 TTCTCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTGATTTAATTTAAGTT
Found at i:14347991 original size:13 final size:13
Alignment explanation
Indices: 14347969--14347993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14347959 CACTTTTTGA
14347969 TTTTATTTTATTG
1 TTTTATTTTATTG
14347982 TTTTATTTTATT
1 TTTTATTTTATT
14347994 CATTATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTG
Found at i:14347991 original size:18 final size:18
Alignment explanation
Indices: 14347962--14348008 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
14347952 TAATTTTCAC
*
14347962 TTTTTGATTTTATT-TTA
1 TTTTTTATTTTATTATTA
14347979 TTGTTTTATTTTATTCATTA
1 TT-TTTTATTTTATT-ATTA
14347999 TTTTTTATTT
1 TTTTTTATTT
14348009 CTTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 11 0.42
19 8 0.31
20 5 0.19
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTTTATTTTATTATTA
Found at i:14348225 original size:17 final size:18
Alignment explanation
Indices: 14348166--14348222 Score: 71
Period size: 17 Copynumber: 3.2 Consensus size: 18
14348156 TAACATATTA
*
14348166 TATTATTACATGATGATAT
1 TATTATTGCATGAT-ATAT
*
14348185 TATTTTTGCATGAT-TAT
1 TATTATTGCATGATATAT
*
14348202 TATTATTGCGTGATATAT
1 TATTATTGCATGATATAT
14348220 TAT
1 TAT
14348223 ATTATTTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 15 0.45
18 6 0.18
19 12 0.36
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (18 bp):
TATTATTGCATGATATAT
Found at i:14353856 original size:2 final size:2
Alignment explanation
Indices: 14353849--14353877 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14353839 CTCAATAATT
14353849 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14353878 CTCTTCTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14356176 original size:3 final size:3
Alignment explanation
Indices: 14356168--14356206 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
14356158 CAACTTTTAA
14356168 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14356207 GAAACAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14356322 original size:3 final size:3
Alignment explanation
Indices: 14356292--14356339 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
14356282 ACTTTACATG
14356292 ATA ATA A-A ATA A-A A-A ATA ACTAA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA ATA ATA ATA
14356336 ATA A
1 ATA A
14356340 AAAAAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.15
3 31 0.76
4 2 0.05
5 2 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:14370616 original size:21 final size:21
Alignment explanation
Indices: 14370592--14370633 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14370582 GAAAAAAGGG
*
14370592 TTGCAACAAAAAGTGGATAAA
1 TTGCAACAAAAAGGGGATAAA
14370613 TTGCAACAAAAAGGGGATAAA
1 TTGCAACAAAAAGGGGATAAA
14370634 AAGAAGAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.17
Consensus pattern (21 bp):
TTGCAACAAAAAGGGGATAAA
Found at i:14374258 original size:31 final size:31
Alignment explanation
Indices: 14374223--14374282 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
14374213 AATTTTATTC
*
14374223 ATTAATGAAAA-AATATTATTTAATTTATTTT
1 ATTAAT-AAAATAATATCATTTAATTTATTTT
14374254 ATTAATAAAATAATATCATTTAATTTATT
1 ATTAATAAAATAATATCATTTAATTTATT
14374283 AATAATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTAATAAAATAATATCATTTAATTTATTTT
Found at i:14380685 original size:70 final size:70
Alignment explanation
Indices: 14380565--14380704 Score: 190
Period size: 70 Copynumber: 2.0 Consensus size: 70
14380555 AAATTCACGA
* * *
14380565 AAAGTAGGATGCTTTGTCAGTTGACTCAATCAAGTCTAAAAAGTAAATATTCTTTCTAAATGTGT
1 AAAGCAGGATGCTCTGTCAGTTCACTCAATCAAGTCTAAAAAGTAAATATTCTTTCTAAATGTGT
14380630 ACAAG
66 ACAAG
* * * * * * *
14380635 AAAGCAGGATGCTCTGTCGGTTCACTGAATCATGTCTGAGAAGTAAATATTGTTTGTAAATGTGT
1 AAAGCAGGATGCTCTGTCAGTTCACTCAATCAAGTCTAAAAAGTAAATATTCTTTCTAAATGTGT
14380700 ACAAG
66 ACAAG
14380705 CAGCTGCCAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (70 bp):
AAAGCAGGATGCTCTGTCAGTTCACTCAATCAAGTCTAAAAAGTAAATATTCTTTCTAAATGTGT
ACAAG
Found at i:14384213 original size:14 final size:15
Alignment explanation
Indices: 14384184--14384224 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
14384174 GTTAATTAAT
*
14384184 ATATTTATATTTTAA
1 ATATTTATATTATAA
14384199 ATATTT-TATTATAA
1 ATATTTATATTATAA
*
14384213 AT-TTTAAATTAT
1 ATATTTATATTAT
14384225 TTGTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 3 0.13
14 14 0.61
15 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATATTTATATTATAA
Found at i:14384853 original size:34 final size:36
Alignment explanation
Indices: 14384815--14384889 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
14384805 CGCAAAACCG
**
14384815 TAAAAAAATTGT-AAATT-AAAAATATAATTTTTTT
1 TAAAAAAATTGTAAAATTAAAAAATATAAAATTTTT
*
14384849 TAAAAAATTTGTAAAATTAAAAAATATAAAATTTTT
1 TAAAAAAATTGTAAAATTAAAAAATATAAAATTTTT
14384885 TAAAA
1 TAAAA
14384890 TGAAAATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 11 0.31
35 5 0.14
36 20 0.56
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (36 bp):
TAAAAAAATTGTAAAATTAAAAAATATAAAATTTTT
Found at i:14384888 original size:25 final size:25
Alignment explanation
Indices: 14384851--14384905 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
14384841 ATTTTTTTTA
*
14384851 AAAAATTTGTAAAATTAAAAAATAT
1 AAAAATTTGTAAAATGAAAAAATAT
* * **
14384876 AAAATTTTTTAAAATGAAAATTTAT
1 AAAAATTTGTAAAATGAAAAAATAT
14384901 AAAAA
1 AAAAA
14384906 ATTATCAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAATTTGTAAAATGAAAAAATAT
Found at i:14384908 original size:11 final size:11
Alignment explanation
Indices: 14384892--14384946 Score: 53
Period size: 10 Copynumber: 5.3 Consensus size: 11
14384882 TTTTAAAATG
14384892 AAAATTTATAA
1 AAAATTTATAA
*
14384903 AAAA-TTATCA
1 AAAATTTATAA
14384913 AAAATTTA-AA
1 AAAATTTATAA
* *
14384923 AAACTTT-CAA
1 AAAATTTATAA
*
14384933 AAAATTTAGAA
1 AAAATTTATAA
14384944 AAA
1 AAA
14384947 TTGAAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
10 24 0.67
11 12 0.33
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (11 bp):
AAAATTTATAA
Found at i:14384924 original size:20 final size:20
Alignment explanation
Indices: 14384892--14384948 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
14384882 TTTTAAAATG
14384892 AAAATTTATAAAAAATTATC-A
1 AAAATTTA-AAAAAATT-TCAA
*
14384913 AAAATTTAAAAAACTTTCAA
1 AAAATTTAAAAAAATTTCAA
*
14384933 AAAATTTAGAAAAATT
1 AAAATTTAAAAAAATT
14384949 GAAATATACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 22 0.69
21 8 0.25
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATTTAAAAAAATTTCAA
Found at i:14385056 original size:19 final size:18
Alignment explanation
Indices: 14385028--14385064 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
14385018 ATTCCAAATT
*
14385028 TTCAAAAAATTTAAAAAA
1 TTCAAAAAATATAAAAAA
14385046 TTCATAAAAATATAAAAAA
1 TTCA-AAAAATATAAAAAA
14385065 ATTAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
TTCAAAAAATATAAAAAA
Found at i:14386084 original size:7 final size:7
Alignment explanation
Indices: 14386072--14386099 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14386062 TCTAGACGGT
14386072 TTCCAAG
1 TTCCAAG
14386079 TTCCAAG
1 TTCCAAG
14386086 TTCCAAG
1 TTCCAAG
14386093 TTCCAAG
1 TTCCAAG
14386100 GTCGAGCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
TTCCAAG
Found at i:14390804 original size:13 final size:14
Alignment explanation
Indices: 14390778--14390806 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14390768 TTTAATGTCA
14390778 TTTAAGTTTAATAT
1 TTTAAGTTTAATAT
14390792 TTTAAGTTT-ATAT
1 TTTAAGTTTAATAT
14390805 TT
1 TT
14390807 AAATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (14 bp):
TTTAAGTTTAATAT
Found at i:14390824 original size:20 final size:20
Alignment explanation
Indices: 14390801--14390849 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 20
14390791 TTTTAAGTTT
14390801 ATATTTAAATTTATTAAAT-A
1 ATATTTAAATTT-TTAAATCA
14390821 ATA--TAAATATTTTAAATCA
1 ATATTTAAAT-TTTTAAATCA
14390840 A-ATTTAAATT
1 ATATTTAAATT
14390850 ATTTTTGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
18 12 0.48
19 5 0.20
20 8 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATTTAAATTTTTAAATCA
Found at i:14392436 original size:15 final size:14
Alignment explanation
Indices: 14392416--14392461 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
14392406 AAAATTAATA
14392416 TAATATTATTTGATT
1 TAATATTATTT-ATT
*
14392431 TAATATTAATTA--
1 TAATATTATTTATT
14392443 TAATATTATTTTATT
1 TAATATTA-TTTATT
14392458 TAAT
1 TAAT
14392462 CCTATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 8 0.31
13 3 0.12
14 1 0.04
15 14 0.54
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TAATATTATTTATT
Found at i:14392473 original size:32 final size:27
Alignment explanation
Indices: 14392409--14392461 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14392399 TCAAACAAAA
14392409 ATTAA-TATAATATTATTTGATTTAAT
1 ATTAATTATAATATTATTTGATTTAAT
*
14392435 ATTAATTATAATATTATTTTATTTAAT
1 ATTAATTATAATATTATTTGATTTAAT
14392462 CCTATTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
ATTAATTATAATATTATTTGATTTAAT
Found at i:14392537 original size:2 final size:2
Alignment explanation
Indices: 14392530--14392567 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14392520 TCTAAGAATC
14392530 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
14392568 AGCTTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14393061 original size:19 final size:21
Alignment explanation
Indices: 14393028--14393072 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
14393018 ATGATGTGAC
14393028 ATTAATTTTAGTGATATGAT-
1 ATTAATTTTAGTGATATGATA
* *
14393048 ATTAA-TTTATTGATGTGATA
1 ATTAATTTTAGTGATATGATA
14393068 ATTAA
1 ATTAA
14393073 AATTAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (21 bp):
ATTAATTTTAGTGATATGATA
Found at i:14393071 original size:20 final size:20
Alignment explanation
Indices: 14393019--14393072 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
14393009 TTGATCATAA
*
14393019 TGATGTGACATTAATTTTAG
1 TGATGTGATATTAATTTTAG
* *
14393039 TGATATGATATTAA-TTTAT
1 TGATGTGATATTAATTTTAG
14393058 TGATGTGATAATTAA
1 TGATGTGAT-ATTAA
14393073 AATTAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (20 bp):
TGATGTGATATTAATTTTAG
Found at i:14393255 original size:17 final size:18
Alignment explanation
Indices: 14393229--14393271 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
14393219 TAAATTTAAA
*
14393229 AATATTTTAGTTCTT-TT
1 AATATATTAGTTCTTATT
*
14393246 AATATATTAGTTTTTATT
1 AATATATTAGTTCTTATT
14393264 ATATATAT
1 A-ATATAT
14393272 AATTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.59
18 3 0.14
19 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (18 bp):
AATATATTAGTTCTTATT
Done.