Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, 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: 3376434
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 18
Found at i:978405 original size:19 final size:19
Alignment explanation
Indices: 978381--978428 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
978371 TTACATTCAC
978381 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
978400 ATACAAAATTATGAATCGT
1 ATACAAAATTATAAATCGT
978419 ATACAAAATT
1 ATACAAAATT
978429 TCCCCTACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:980465 original size:198 final size:199
Alignment explanation
Indices: 979996--981782 Score: 2266
Period size: 199 Copynumber: 9.0 Consensus size: 199
979986 GGGTAATTTA
* *
979996 AAAAAGTATCGACACAACTTT-AAACAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACA
1 AAAAAGTATCGACACAAATTTCAAA-AGTGTCGATACATTATGTAGACCTATTTTCTAATTAACC
* * * * *
980060 AGTATATTTCTATCGGTTACATTGAAAATTTACCTATTACATTATATTTATCGGTTTCGACGTTT
65 GGTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * * * *
980125 ATGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTAGGCATTCTTTC
130 TTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCATTCATTC
*
980190 TGGTC
195 TGGAC
* * * * * *
980195 AAAATGTATCGGCACAAATTTAAAAAATGTCGATACATTATGTAGACCTATTTTCAAATTAACCA
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
980260 GTATATTTCTACCGATTACATTGTAAAGTTGCCTATTACATTATAATTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * * * *
980325 TGGGATTGATACAATTT-TAAATGAATCGACACTTTATGCGTGCACTCTTTTAGTCATTCATTAT
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCATTCATTCT
980389 GGAC
196 GGAC
* * * * * **
980393 AAAAAGTATCGACATAAAATCCACAAGTGTCGATACATGATGTAGACCTATTCACTAATTAACCG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
980458 ATATATTTCTACCGGTTACATTGGAAATTTACCTATTATATTATAATTATCGATTTCGATGTTAT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
** * * * * * * * *
980523 TATGATCGATACTTTTTATAAATGTATCGAAACTTTATTTGTACACCCCGTTGGGCATTCTTTCT
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCATTCATTCT
*
980588 GGTC
196 GGAC
* * * *
980592 AAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATTAACTG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * ** *
980657 TTATATTTCTACCGATTACATTGTAAAGTTACCTATTACATTATAATTATCAATTTTGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * *
980722 TGGGATCGATACAATTT-TAAATGTATCAACACTTTATGCGTGCACTCTTTTAGGTATTCATTCT
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCATTCATTCT
980786 GGAC
196 GGAC
* * *
980790 AAAAAGTATCGACACAAATTACACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * * * *
980855 GCATATTTCTACCGGTTACATTGTAAAGTTGCCTATTACATTATAATTATAGGTTTCTATATTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * *
980920 TGGGATCGATACAATTT-TAAATATATCGACACTTTATGCGTGCACTCTTTTAGGCATTCATTCT
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCATTCATTCT
*
980984 GGAT
196 GGAC
* * * * *
980988 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTCTCTAATTAATCG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * *
981053 GTATATTTCTACCGGTTAGATTGGAAATTTACCTATTACATTATATTTATCAGTTTCGATATTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
981118 TGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCA-TCTCGTTGGGCATTCATTC
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACTCT-GTTAGGCATTCATTC
981182 TGGAC
195 TGGAC
* * * *
981187 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTCTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * *
981252 GTATATTTCTACCGGTTACATTGGAAATTTACTTATTGCATTATATTTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* *
981317 TAGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACATC-GTTGGGCATTCATTC
131 TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCAC-TCTGTTAGGCATTCATTC
*
981381 TGGTC
195 TGGAC
* * * * *
981386 AAAACGTATCGACACAAATTT-AAAATGTATCAATACATTATGTATACCTATTTTCTAAATAACC
1 AAAAAGTATCGACACAAATTTCAAAA-GTGTCGATACATTATGTAGACCTATTTTCTAATTAACC
* *
981450 GGTATATTTCTACCGGTTACATTGGAAATTGACCTATTACATTATAATTATC-TTATTCGATGTT
65 GGTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGT-TTCGATGTT
* *
981514 TTTGGGATCGATACTTTTTATAAATGTATCGACAC-TTATTCGTGCACCTCGGTT-GGTCATTCA
129 TTTGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCA-CTCTGTTAGG-CATTCA
981577 TTCTGGAC
192 TTCTGGAC
* * *
981585 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTTTGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
* * * * *
981649 GTATATATCTATCGGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * *
981714 TGGGATCGATA-GTTTTAAAAAATGTATCGACACTTTATTCGTGCACCTCGGATGGGCATTCATT
131 TGGGATCGATACATTTT-ATAAATGTATCGACACTTTATTCGTGCA-CTCTGTTAGGCATTCATT
981778 CTGGA
194 CTGGA
981783 GATTACTGAA
Statistics
Matches: 1388, Mismatches: 184, Indels: 32
0.87 0.11 0.02
Matches are distributed among these distances:
197 4 0.00
198 653 0.47
199 724 0.52
200 5 0.00
201 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (199 bp):
AAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TGGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACTCTGTTAGGCATTCATTCT
GGAC
Found at i:980735 original size:397 final size:398
Alignment explanation
Indices: 979996--981781 Score: 2345
Period size: 397 Copynumber: 4.5 Consensus size: 398
979986 GGGTAATTTA
* * * * *
979996 AAAAAGTATCGACACAACTT-TAAACAGTGTCGATACATTATGTAGACCTATTTTCTAATTAACA
1 AAAAAGTATCGACACAAATTCCACA-AGTGTCGATACATGATGTAGACCTATTTTCTAATTAACC
* * * * *
980060 AGTATATTTCTATCGGTTACATTGAAAATTTACCTATTACATTATATTTATCGGTTTCGACGTTT
65 GGTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT
* * * * *
980125 ATGGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTACACCCCGTTAGGCATTCTTTC
130 TTAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCATTC
* * * * *
980190 TGGTCAAAATGTATCGGCACAAATTTAAAAAATGTCGATACATTATGTAGACCTATTTTCAAATT
195 TGGTCAAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATT
** * * *
980255 AACCAGTATATTTCTACCGATTACATTGTAAAGTTGCCTATTACATTATAATTATCGGTTTCGAT
260 AACTGGTATATTTCTACCGATTACATTGGAAAGTTACCTATTACATTATAATTATCAGTTTCGAT
* * *
980320 GTTTTTGGGATTGATACAATTT-TAAATGAATCGACACTTTATGCGTGCACTCTTTTAGTCATTC
325 GTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTCTGTTAGTCATTC
*
980384 ATTATGGAC
390 ATTCTGGAC
* * **
980393 AAAAAGTATCGACATAAAATCCACAAGTGTCGATACATGATGTAGACCTATTCACTAATTAACCG
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
* * * *
980458 ATATATTTCTACCGGTTACATTGGAAATTTACCTATTATATTATAATTATCGATTTCGATGTTAT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * *
980523 TATGATCGATACTTTTTATAAATGTATCGAAACTTTATTTGTACACCCCGTTGGGCATTCTTTCT
131 TAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCATTCT
980588 GGTCAAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATTA
196 GGTCAAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATTA
* * * *
980653 ACTGTTATATTTCTACCGATTACATTGTAAAGTTACCTATTACATTATAATTATCAATTTTGATG
261 ACTGGTATATTTCTACCGATTACATTGGAAAGTTACCTATTACATTATAATTATCAGTTTCGATG
* *
980718 TTTTTGGGATCGATACAATTT-TAAATGTATCAACACTTTATGCGTGCACTCTTTTAGGT-ATTC
326 TTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTCTGTTA-GTCATTC
980781 ATTCTGGAC
390 ATTCTGGAC
*
980790 AAAAAGTATCGACACAAATTACACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
* * * * * * *
980855 GCATATTTCTACCGGTTACATTGTAAAGTTGCCTATTACATTATAATTATAGGTTTCTATATTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* ** * * * ** *
980920 TGGGATCGATACAATTT-TAAATATATCGACACTTTATGCGTGCACTCTTTTAGGCATTCATTCT
131 TAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCATTCT
* ** * * * *
980984 GGAT-AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTCTCTAATT
196 GG-TCAAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATT
* * * *
981048 AA-TCGGTATATTTCTACCGGTTAGATTGGAAATTTACCTATTACATTATATTTATCAGTTTCGA
260 AACT-GGTATATTTCTACCGATTACATTGGAAAGTTACCTATTACATTATAATTATCAGTTTCGA
* ** * * *
981112 TATTTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATTCGTGCA-TCTCGTTGGGCAT
324 TGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTCT-GTTAGTCAT
981176 TCATTCTGGAC
388 TCATTCTGGAC
*
981187 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTCTCTAATTAACCG
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
* * *
981252 GTATATTTCTACCGGTTACATTGGAAATTTACTTATTGCATTATATTTATCGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* **
981317 TAGGATCGATACATTTTATAAATGTATCGACACTTTATTCGTGCACATCGTTGGGCATTCATTCT
131 TAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCATTCT
* * * *
981382 GGTCAAAACGTATCGACACAAATTTAAAATGTATCAATACATTATGTATACCTATTTTCTAAATA
196 GGTCAAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATTA
* * *
981447 ACCGGTATATTTCTACCGGTTACATTGGAAA-TTGACCTATTACATTATAATTATC-TTATTCGA
261 ACTGGTATATTTCTACCGATTACATTGGAAAGTT-ACCTATTACATTATAATTATCAGT-TTCGA
** * * *
981510 TGTTTTTGGGATCGATACTTTTTATAAATGTATCGACAC-TTATTCGTGCACCTCGGTTGGTCAT
324 TGTTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCA-CTCTGTTAGTCAT
981574 TCATTCTGGAC
388 TCATTCTGGAC
** * * **
981585 AAAAAGTATCGACAC-AATTTAAAAAGTGTCGATATATTTTGTAGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
* * * * *
981649 GTATATATCTATCGGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTT
66 GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * * * *
981714 TGGGATCGATAGTTTTAAAAAATGTATCGACACTTTATTCGTGCACCTCGGATGGGCATTCATTC
131 TAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACC-CCGTTGGGCATTCATTC
981779 TGG
195 TGG
981782 AGATTACTGA
Statistics
Matches: 1217, Mismatches: 157, Indels: 29
0.87 0.11 0.02
Matches are distributed among these distances:
395 1 0.00
396 170 0.14
397 807 0.66
398 237 0.19
399 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (398 bp):
AAAAAGTATCGACACAAATTCCACAAGTGTCGATACATGATGTAGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
TAGGATCGATACTTTTTATAAATGTATCGACACTTTATTCGTGCACCCCGTTGGGCATTCATTCT
GGTCAAAACGTATCGACACAAATTTAAAAAGTATCGATACATTATGTAGACCTATTTTCTAATTA
ACTGGTATATTTCTACCGATTACATTGGAAAGTTACCTATTACATTATAATTATCAGTTTCGATG
TTTTTGGGATCGATACAATTTATAAATGTATCGACACTTTATGCGTGCACTCTGTTAGTCATTCA
TTCTGGAC
Found at i:984479 original size:3 final size:3
Alignment explanation
Indices: 984471--984517 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
984461 ACTTGTTTGG
* * *
984471 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC ATC ATC ATC CTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
984518 TGACCGCTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:984655 original size:3 final size:3
Alignment explanation
Indices: 984647--984693 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
984637 ACTTGTTTGG
* * *
984647 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC ATC ATC ATC CTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
984694 TGACCGCTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.28, C:0.34, G:0.00, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:984706 original size:176 final size:175
Alignment explanation
Indices: 984433--984783 Score: 693
Period size: 176 Copynumber: 2.0 Consensus size: 175
984423 TACAAGTTTT
984433 CTTGCAGGCGGCGTTGCAGACACGATATACTTGTTTGGATCATCATCATCATCATCATCATCTTC
1 CTTGCAGGCGGCGTTGCAGACACGATATACTTGTTTGGATCATCATCATCATCATCATCATCTTC
984498 ATCTTCATCATCATCCTCATTGACCGCTTGGTTGTCCACATCTAATAAAAGAAAATAAAATACAT
66 ATCTTCATCATCATCCTCATTGACCGCTTGGTTGTCCACATCTAATAAAAGAAAATAAAATACAT
984563 TTTACAACGTGTAAATGTTTGAGAAACATAAATAATTAATTACCTA
131 TTTACAACGTGTAAATGTTT-AGAAACATAAATAATTAATTACCTA
984609 CTTGCAGGCGGCGTTGCAGACACGATATACTTGTTTGGATCATCATCATCATCATCATCATCTTC
1 CTTGCAGGCGGCGTTGCAGACACGATATACTTGTTTGGATCATCATCATCATCATCATCATCTTC
984674 ATCTTCATCATCATCCTCATTGACCGCTTGGTTGTCCACATCTAATAAAAGAAAATAAAATACAT
66 ATCTTCATCATCATCCTCATTGACCGCTTGGTTGTCCACATCTAATAAAAGAAAATAAAATACAT
984739 TTTACAACGTGTAAATGTTTAGAAACATAAATAATTAATTACCTA
131 TTTACAACGTGTAAATGTTTAGAAACATAAATAATTAATTACCTA
984784 ACTCGTTTGA
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
175 25 0.14
176 150 0.86
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (175 bp):
CTTGCAGGCGGCGTTGCAGACACGATATACTTGTTTGGATCATCATCATCATCATCATCATCTTC
ATCTTCATCATCATCCTCATTGACCGCTTGGTTGTCCACATCTAATAAAAGAAAATAAAATACAT
TTTACAACGTGTAAATGTTTAGAAACATAAATAATTAATTACCTA
Found at i:986554 original size:201 final size:201
Alignment explanation
Indices: 986207--987378 Score: 1788
Period size: 201 Copynumber: 5.8 Consensus size: 201
986197 CGCGAAATTT
* * * *
986207 CAAAAAGTATCGACACAAATTCAAAAAATGTCGATACATTATGTAGACATATTCTCTCTTAAAAC
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * ** * * * **
986272 CGATATATTTATATTGGTTACATT-AGAAATTTACCTGTTACATTTTAATTATCCGTTTCGATGT
66 TGGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTCGATGT
*
986336 TTTTGGGATCGATACTTTTTATAAATGTATCGACACGTTATGCGTGCACCTAGTTTGGGCATTCA
130 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCA
*
986401 TTATGGA
195 TTCTGGA
* * *
986408 CGAAAAGTATCGAAACAAATTTAAAAAGTGTCGATACATTATGTATACCTATTCTCTCATAAAAC
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* ** * * *
986473 CGGTATATTTATACTTGTTACATTGAAAAATTATCTATTACATTATAATTATGGGTTTTGATATT
66 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* *
986538 TTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATTCGTGCACCTAGTTTGGGCATTCAT
131 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
986603 TCTGGA
196 TCTGGA
986609 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* *
986674 TGGTATATTTATACCGGGTTACATTGAAAAATTACCTATTACATTATATTTATGGGTTTTGATGT
66 TGGTATATTTATACC-GGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
* ** * *
986739 TTTTGGGATCGATAGTTTTTATAAATGTATCGACACTTTATGTATGCACCTAGTTTAGACATTCA
130 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCA
986804 TTCTGGA
195 TTCTGGA
* * * *
986811 CAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTTTGTAGACATATTCTCTCTTAAAAC
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* *
986876 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTAGATTATAATTATGAGTTTCGATGTT
66 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* *
986941 TTTGGGATTGATACTTTTCATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
131 TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
987006 TCTGGA
196 TCTGGA
* *
987012 CAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAA
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCAT-AAAA
* * * *
987077 ATAGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATAT
65 CTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGT
* *
987142 TTTTGGGATCGATACGTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTCA
130 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCA
987207 TTCTGGA
195 TTCTGGA
* * * * *
987214 CAAAACGTATCGACACAAATTTTAAAAGTGTCAATATATTATGTAAACCTATTCTCTCATAAAAC
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
*
987279 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGCTTCGATGTT
66 TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
* * *
987344 TTTGAGATCGATACGTTTTATAAATGTATCAACAC
131 TTTGGGATCGATACTTTTTATAAATGTATCGACAC
987379 ATCTGTTTAC
Statistics
Matches: 887, Mismatches: 81, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
201 516 0.58
202 371 0.42
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (201 bp):
CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTCGATGTT
TTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGGCATTCAT
TCTGGA
Found at i:986956 original size:403 final size:402
Alignment explanation
Indices: 986207--987378 Score: 1808
Period size: 403 Copynumber: 2.9 Consensus size: 402
986197 CGCGAAATTT
* * * *
986207 CAAAAAGTATCGACACAAATTCAAAAAATGTCGATACATTATGTAGACATATTCTCTCTTAAAAC
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
* * ** * * * ** *
986272 CGATATATTTATATTGGTTACATT-AGAAATTTACCTGTTACATTTTAATTATCCGTTTCGATGT
66 TGGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATTATAATTATGGGTTTTGATGT
* * *
986336 TTTTGGGATCGATACTTTTTATAAATGTATCGACACGTTATGCGTGCACCTAGTTTGGGCATTCA
130 TTTTGGGATCGATAGTTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTCA
* * * *
986401 TTATGGACGAAAAGTATCGAAACAAATTTAAAAAGTGTCGATACATTATGTATACCTATTCTCTC
195 TTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAAACCTATTCTCTC
* ** *
986466 ATAAAACCGGTATATTTATACTTGTTACATTGAAAAATTATCTATTACATTATAATTATGGGTTT
260 ATAAAACTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
* * *
986531 TGATATTTTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATTCGTGCACCTAGTTTGGG
325 CGATGTTTTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGG
986596 CATTCATTCTGGA
390 CATTCATTCTGGA
986609 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
*
986674 TGGTATATTTATACCGGGTTACATTGAAAAATTACCTATTACATTATATTTATGGGTTTTGATGT
66 TGGTATATTTATACC-GGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATGT
* * *
986739 TTTTGGGATCGATAGTTTTTATAAATGTATCGACACTTTATGTATGCACCTAGTTTAGACATTCA
130 TTTTGGGATCGATAGTTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTCA
* * * *
986804 TTCTGGACAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTTTGTAGACATATTCTCTC
195 TTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAAACCTATTCTCTC
* * *
986869 TTAAAACTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTAGATTATAATTATGAGTTT
260 ATAAAACTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTT
* * *
986934 CGATGTTTTTGGGATTGATACTTTTCATAAATGTATCGACACTTTATGCGTGCACCTAGTTTGGG
325 CGATGTTTTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGG
986999 CATTCATTCTGGA
390 CATTCATTCTGGA
* *
987012 CAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAAA
1 CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCAT-AAAA
* * *
987077 ATAGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATAT
65 CTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATGT
987142 TTTTGGGATCGATACG-TTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTC
130 TTTTGGGATCGATA-GTTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTC
* * * *
987206 ATTCTGGACAAAACGTATCGACACAAATTTTAAAAGTGTCAATATATTATGTAAACCTATTCTCT
194 ATTCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAAACCTATTCTCT
*
987271 CATAAAACTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGCT
259 CATAAAACTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTT
* *
987336 TCGATGTTTTTGAGATCGATACGTTTTATAAATGTATCAACAC
324 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCAACAC
987379 ATCTGTTTAC
Statistics
Matches: 699, Mismatches: 67, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
402 72 0.10
403 607 0.87
404 20 0.03
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (402 bp):
CAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAAC
TGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTTGATGTT
TTTGGGATCGATAGTTTTTATAAATGTATCGACACTTTATGTGTGCACCTAGTTTGGGCATTCAT
TCTGGACAAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAAACCTATTCTCTCA
TAAAACTGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTATAATTATGGGTTTC
GATGTTTTTGGGATCGATACTTTTTATAAATGTATCAACACTTTATGCGTGCACCTAGTTTGGGC
ATTCATTCTGGA
Found at i:987872 original size:19 final size:19
Alignment explanation
Indices: 987827--987875 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
987817 TTACATTCAC
987827 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
* *
987846 ATGCAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
*
987865 ATATAAAATTA
1 ATACAAAATTA
987876 ACCCTACACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:989447 original size:18 final size:18
Alignment explanation
Indices: 989424--989462 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
989414 TCCTCCTCAT
989424 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
989442 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
989460 TTC
1 TTC
989463 ATATTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:989673 original size:25 final size:25
Alignment explanation
Indices: 989645--989700 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
989635 CCATCTTAAG
989645 TTCACCCCTCAACACCTCAACTTGT
1 TTCACCCCTCAACACCTCAACTTGT
989670 TTCACCCCTCAACACCTCAACTTGT
1 TTCACCCCTCAACACCTCAACTTGT
989695 TTCACC
1 TTCACC
989701 ACTCCATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.45, G:0.04, T:0.29
Consensus pattern (25 bp):
TTCACCCCTCAACACCTCAACTTGT
Found at i:990187 original size:22 final size:23
Alignment explanation
Indices: 990159--990214 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
990149 AACCTGCATT
*
990159 TATAATAAAAT-TTATCATTTTA
1 TATAATAAAATACTATCATTTTA
*
990181 TATAATAACTATACTATCATTTTA
1 TATAATAA-AATACTATCATTTTA
*
990205 TATAAAAAAA
1 TATAATAAAA
990215 CAAAAACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAAAATACTATCATTTTA
Found at i:992016 original size:29 final size:29
Alignment explanation
Indices: 991983--992041 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
991973 GATTTCAAAA
991983 ACTCGTCTATTTTATCTATTTTTTAGAGG
1 ACTCGTCTATTTTATCTATTTTTTAGAGG
992012 ACTCGTCTATTTTATCTATTTTTTAGAGG
1 ACTCGTCTATTTTATCTATTTTTTAGAGG
992041 A
1 A
992042 TATTTAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.51
Consensus pattern (29 bp):
ACTCGTCTATTTTATCTATTTTTTAGAGG
Found at i:992549 original size:182 final size:181
Alignment explanation
Indices: 992193--992854 Score: 904
Period size: 182 Copynumber: 3.7 Consensus size: 181
992183 TTATTACGCG
* * * * *
992193 TACTTAT-TAAAGTATCGACACTTTCAATA-ATCTGGTATCGCTTTACTGG--TTGTCATTTCGA
1 TACTTATATAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCATTTCAA
* *
992254 GACCAGTTTTGTCATATTTTTACGTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCG
66 GACCGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCG
* *
992319 AAACTTTATATGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
131 ACACTTTATAAGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
* ** *
992370 TACTTATATGAAAGTATCGACACTTTTAATATATCCGGTAGCGTTTTACCAGTTTTGTCATTTCA
1 TACTTATAT-AAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCATTTCA
* * *
992435 AGACTGGTTTAGTCATATTTTTACCTGTTATATCGTTATGGATCGATACATTTTTATAAAGTATC
65 AGACCGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATC
*
992500 GACACTTTATAAGCGCTATTACTGCTTCTCTTTGAAATTCCCAAAGTGTCGA
130 GACACTTTATAAGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
* * * *
992552 TACTTATATTAAAATATCGACACTTTCAATATATTCGGTATCACTTTACCGGTTTTGTCATTTCG
1 TACTTATA-TAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCATTTCA
* * * *
992617 AGACCGGTTTTGTCATATTTTTACTTGTTATATCGTTATAGATTGATACATTTTTATAAAGTATT
65 AGACCGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATC
* *
992682 GACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCTCAAAGTGTCGA
130 GACACTTTATAAGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
* ** * * *
992734 TACTTATTTCAATCTAATCGATACTTTCAACATATTCGGTAGCACTTTACCGGTTTTGTCATAAT
1 TACTTATAT-AAAGT-ATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCAT--T
* * *
992799 T-AA-ACCGGTTTTGTCATATTTTTACATGTTATATTGATATGAATCGATACATTTTT
62 TCAAGACCGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTT
992855 TATTTGGATC
Statistics
Matches: 431, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
177 7 0.02
178 1 0.00
179 20 0.05
180 15 0.03
181 1 0.00
182 293 0.68
183 91 0.21
184 1 0.00
185 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (181 bp):
TACTTATATAAAGTATCGACACTTTCAATATATCCGGTAGCACTTTACCGGTTTTGTCATTTCAA
GACCGGTTTTGTCATATTTTTACATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCG
ACACTTTATAAGCGCTATTACTGCTTCTCTTTTAAATTCCCAAAGTGTCGA
Found at i:995416 original size:30 final size:30
Alignment explanation
Indices: 995380--995468 Score: 133
Period size: 30 Copynumber: 3.0 Consensus size: 30
995370 ACGCTCTCAG
995380 CCCATAAACATCACACAACAATCCTCTTAA
1 CCCATAAACATCACACAACAATCCTCTTAA
* *
995410 CCCATAAACATCACACATCAATCCTCTCAA
1 CCCATAAACATCACACAACAATCCTCTTAA
* * *
995440 CCCGTAAACATCACCCAATAATCCTCTTA
1 CCCATAAACATCACACAACAATCCTCTTA
995469 TTTTTTATTC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.39, C:0.38, G:0.01, T:0.21
Consensus pattern (30 bp):
CCCATAAACATCACACAACAATCCTCTTAA
Found at i:995947 original size:106 final size:106
Alignment explanation
Indices: 995693--995901 Score: 330
Period size: 106 Copynumber: 2.0 Consensus size: 106
995683 TTTTTAAAAA
****
995693 AAATTATTGTGGTATATTTTAATTAATATATTATTTATTTAATTAGGCTTATTTCAACTTTTTTT
1 AAATTATTGTGGTATAAAAAAATTAATATATTATTTATTTAATTAGGCTTATTTCAACTTTTTTT
*
995758 TTTGCAGATATAAAAATGTCTCCCTTTCAAACTTATTTAAT
66 TTTGCAGACATAAAAATGTCTCCCTTTCAAACTTATTTAAT
****
995799 AAATTATTGTGGTATATTTTAATTAATATATTATTTATTTAATTAGGCTTATTTCAAC-TTTTTT
1 AAATTATTGTGGTATAAAAAAATTAATATATTATTTATTTAATTAGGCTTATTTCAACTTTTTTT
995863 TTTGCAGACATAAAAATGTCTCCCTTTCAAACTTATTTA
66 TTTGCAGACATAAAAATGTCTCCCTTTCAAACTTATTTA
995902 CGTTTATTTT
Statistics
Matches: 102, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
105 44 0.43
106 58 0.57
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.50
Consensus pattern (106 bp):
AAATTATTGTGGTATAAAAAAATTAATATATTATTTATTTAATTAGGCTTATTTCAACTTTTTTT
TTTGCAGACATAAAAATGTCTCCCTTTCAAACTTATTTAAT
Found at i:1002240 original size:3 final size:3
Alignment explanation
Indices: 1002232--1002259 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1002222 TCTTGGTCGC
1002232 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1002260 GGTCTCATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:1004020 original size:3 final size:3
Alignment explanation
Indices: 1004012--1004061 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
1004002 TTTTTACCCA
*
1004012 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1004060 TA
1 TA
1004062 AATATATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1005382 original size:83 final size:83
Alignment explanation
Indices: 1005258--1005800 Score: 960
Period size: 83 Copynumber: 6.5 Consensus size: 83
1005248 GAATTTGCCA
* *
1005258 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACAAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
1005323 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
*
1005341 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
*
1005406 TGGAAGATGAATGTGCTC
66 TGGAAGATGAATGTGTTC
* *
1005424 ATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
1005489 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
1005507 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
1005572 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* *
1005590 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACAAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
* *
1005655 TAGAAAATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* *
1005673 ATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
1005738 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* *
1005756 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATTTGGTTTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
1005801 GTAAGAACTA
Statistics
Matches: 438, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 438 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAATCATTGAATT
TGGAAGATGAATGTGTTC
Found at i:1006757 original size:112 final size:113
Alignment explanation
Indices: 1006553--1007065 Score: 887
Period size: 112 Copynumber: 4.6 Consensus size: 113
1006543 ATTGACATTT
1006553 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1006618 ATTTGTTCAACCTTTTGTCTGAA-TCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
1006665 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1006730 A-TTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
1006777 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1006842 ATTTGTTCAACC-TTTGTCTGAATTCA-CACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
*
1006888 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * * *
1006953 ATTTGTTCAACCTTTTG-CTCAAATCTATTACTTGATGGGTTATTTTT-
66 ATTTGTTCAACCTTTTGTCTGAATTC-ATCACTTGATGGATTATTTTTG
* * *
1007000 TCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG-AGAAAGTTCATAATGAGAAG
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAG
1007064 AA
65 AA
1007066 CTCATCAAAA
Statistics
Matches: 388, Mismatches: 7, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
111 125 0.32
112 236 0.61
113 27 0.07
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (113 bp):
CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
Found at i:1006942 original size:223 final size:224
Alignment explanation
Indices: 1006523--1007065 Score: 898
Period size: 223 Copynumber: 2.4 Consensus size: 224
1006513 TAGCAAAGAT
* * **
1006523 TCAAATCTATCATTTGATGTATTGACATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCACTTGATGGATT-ATTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1006588 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATCATCACTTGAT
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATCATCACTTGAT
*
1006653 GGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
130 GGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
1006718 ATAATGAGAAGAA-TTGTTCAACCTTTTGTC
195 ATAATGAGAAGAATTTGTTCAACCTTTTG-C
* *
1006748 TGAATTC-ATCACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCTATCACTTGATGGATTATTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGA
1006812 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACC-TTTGTCTGAATTCA-CACTTGA
65 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAA-TCATCACTTGA
1006875 TGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
129 TGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
1006940 CATAATGAGAAGAATTTGTTCAACCTTTTGC
194 CATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
1006971 TCAAATCTATTACTTGATGGGTTATTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TCAAATCTATCACTTGATGGATTATTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
*
1007036 GAAAGAAG-AGAAAGTTCATAATGAGAAGAA
66 GAAGGAAGAAG-AAGTTCATAATGAGAAGAA
1007066 CTCATCAAAA
Statistics
Matches: 299, Mismatches: 14, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
222 2 0.01
223 165 0.55
224 127 0.42
225 5 0.02
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (224 bp):
TCAAATCTATCACTTGATGGATTATTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATCATCACTTGATG
GATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:1007330 original size:3 final size:3
Alignment explanation
Indices: 1007317--1007373 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
1007307 TTTTTACCCA
1007317 TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1007364 TAT TAT TAT T
1 TAT TAT TAT T
1007374 TTTAAATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1009557 original size:18 final size:17
Alignment explanation
Indices: 1009534--1009584 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
1009524 TTCTTGTCAA
1009534 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
1009551 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
1009569 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
1009585 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:1021506 original size:83 final size:83
Alignment explanation
Indices: 1021382--1022005 Score: 1095
Period size: 83 Copynumber: 7.5 Consensus size: 83
1021372 GAATTTGCCA
* * *
1021382 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACAAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1021447 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
1021465 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
*
1021530 TGGAAGATGAATGTGCTC
66 TGGAAGATGAATGTGTTC
*
1021548 ATAGAATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1021613 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
1021631 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1021696 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* *
1021714 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1021779 TGGAAGATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* * *
1021797 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTTGACAGAACAAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
* *
1021862 TAGAAAATGAATGTGTTC
66 TGGAAGATGAATGTGTTC
* *
1021880 ATAGAATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
*
1021945 TGGAAGATAAATGTGTTC
66 TGGAAGATGAATGTGTTC
* *
1021963 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATTTGGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1022006 TGGTAAGAAC
Statistics
Matches: 517, Mismatches: 24, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 517 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (83 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
TGGAAGATGAATGTGTTC
Found at i:1022944 original size:113 final size:113
Alignment explanation
Indices: 1022763--1023281 Score: 916
Period size: 113 Copynumber: 4.6 Consensus size: 113
1022753 ATTGACATTT
1022763 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1022828 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
1022876 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1022941 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
1022989 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1023054 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
66 ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
*
1023102 CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
* * * * *
1023167 ATTTGTTCAACCTTTT-TGCTCAAATCTATTACTTGATGGGTTATTTTTT
66 ATTTGTTCAACCTTTTGT-CTGAATTC-ATCACTTGATGGATTATTTTTG
* * *
1023216 TCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG-AGAAAGTTCATAATGAGAAG
1 CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAG
1023280 AA
65 AA
1023282 CTCGTCAAAA
Statistics
Matches: 395, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
112 1 0.00
113 314 0.79
114 80 0.20
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (113 bp):
CCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
Found at i:1023541 original size:3 final size:3
Alignment explanation
Indices: 1023533--1023605 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
1023523 TTTTTACCCA
1023533 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1023580 TAT TAT TAT TAT TAT TAT CAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
1023606 AATATATATT
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1024492 original size:30 final size:30
Alignment explanation
Indices: 1024465--1024534 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
1024455 TTTAGAGAGA
1024465 AGCGAGAGAAAATTCTCTCTCTCAGAGAAG
1 AGCGAGAGAAAATTCTCTCTCTCAGAGAAG
1024495 AGCGAGAGAAAATTCTCTCTCTCAGAGAAG
1 AGCGAGAGAAAATTCTCTCTCTCAGAGAAG
*
1024525 AGAGAGAGAA
1 AGCGAGAGAA
1024535 GGAAAATGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (30 bp):
AGCGAGAGAAAATTCTCTCTCTCAGAGAAG
Found at i:1025094 original size:19 final size:20
Alignment explanation
Indices: 1025062--1025099 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
1025052 ATTTTATTTG
**
1025062 TTTATATTTTTAAA-ATATT
1 TTTATATTCATAAATATATT
1025081 TTTATATTCATAAATATAT
1 TTTATATTCATAAATATAT
1025100 ATATAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTATATTCATAAATATATT
Found at i:1033783 original size:186 final size:183
Alignment explanation
Indices: 1033493--1033855 Score: 600
Period size: 186 Copynumber: 2.0 Consensus size: 183
1033483 ATTAAATGTT
* * *
1033493 TTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAATATTTCAG
1 TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
1033558 ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATTATTAATT
66 ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATTATTAATT
* * *
1033623 GGGTTTTAAATGGTTTGAGCTTAGTCCATATGTTATATATAATATATATAATA
131 GAGTTTTAAATGGTTTGAGCTGAGCCCATATGTTATATATAATATATATAATA
*
1033676 TTTTTAATTAAAAAATACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTT
1 TTTTTAATTAAAAAA-A-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
* * *
1033741 ATATAATTTTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTA
64 AGATAA-ATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATTATTA
*
1033806 ATTGAGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATAT
128 ATTGAGTTTTAAATGGTTTGAGCTGAGCCCATATGTTATATATAATATAT
1033856 TTTAATTTTA
Statistics
Matches: 166, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
183 14 0.08
184 1 0.01
185 49 0.30
186 102 0.61
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (183 bp):
TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAATCTTAAATTATTAATT
GAGTTTTAAATGGTTTGAGCTGAGCCCATATGTTATATATAATATATATAATA
Found at i:1034930 original size:23 final size:26
Alignment explanation
Indices: 1034882--1034936 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
1034872 ATGAGAAAAA
1034882 AGAAA-AAAATAATTTATATATATTT
1 AGAAATAAAATAATTTATATATATTT
*
1034907 ATAAATAAAAT-ATTTAT-T-TATTT
1 AGAAATAAAATAATTTATATATATTT
1034930 AGAAATA
1 AGAAATA
1034937 TCAGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 11 0.41
24 1 0.04
25 10 0.37
26 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
AGAAATAAAATAATTTATATATATTT
Found at i:1036628 original size:3 final size:3
Alignment explanation
Indices: 1036620--1036655 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
1036610 ATTATTTATT
*
1036620 TAA TAA TAA TATA TCA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
1036656 TAAATATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 28 0.93
4 2 0.07
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1037090 original size:123 final size:120
Alignment explanation
Indices: 1036864--1037978 Score: 694
Period size: 123 Copynumber: 9.7 Consensus size: 120
1036854 GATGTAATCT
* * ** *
1036864 AGCAAAAAGTTGAAGAAATTCTTCTCATTATGAACTTATTC-T--T-TTCAGATGAGTTCTTCTC
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
** * *
1036925 ATTATGAAC--AAT-TGGAAATGTTGATGTTGATCTATCTGCTTCTGTGATAGAGTTA
66 ATTATGAACTTTCTCTGGAAA-ATT-ATGTTGATCTATCT-CTTCTGTGATAGAATTA
* * * *
1036980 AACAAAAGGTTAAATAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTC
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
*
1037045 ATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTGTGATA-AAGTCA
66 ATTATGAACTTTCTCTGGAAAA-TT-ATGTTGATCTATCT-CTTCTGTGATAGAA-TTA
*
1037103 TGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTC-TCAAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTC-AGATGAGTTCTTCT
*
1037167 CATTATGAACTTTCTCTGGAAAAATTAATGTTGATCTATCTCTTTCTGTGATAGAATCA
65 CATTATGAACTTTCTCTGG-AAAATT-ATGTTGATCTATCTC-TTCTGTGATAGAATTA
* * * * * *
1037226 TGAAAAAGATTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCT
* * * **
1037291 CATTATGAACTCTAC-CTGG--CA--ATGTTGATCCA--TC--AAGTGAT-GAATTCA
65 CATTATGAACT-TTCTCTGGAAAATTATGTTGATCTATCTCTTCTGTGATAGAATT-A
* * *
1037339 AGCAAAAAGTGGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCT
* * ** * * *
1037404 CATTATGAACTCT-TCTGG--AA--ATGTTGATCCA--TC--GAGTGATGGATTTG
65 CATTATGAACTTTCTCTGGAAAATTATGTTGATCTATCTCTTCTGTGATAGAATTA
1037451 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTTCTTCAGATGAGTTCTTC
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC--TCTTCAGATGAGTTCTTC
* ** * * * * * **
1037516 TTATTATGAACTCGCCCTGG--CA--ATGCTG--GT-TC-ATTGAGTGATA-AATTCA
64 TCATTATGAACTTTCTCTGGAAAATTATGTTGATCTATCTCTTCTGTGATAGAATT-A
* *
1037565 AGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTTTCAGATGAGTTCT
1 AGC-AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTC---TTCAGATGAGTTCT
** * * * ***
1037629 TCTCATTATGAACTCGAC-CTGG--CA--ATGCTGATCCA--TC--GAATGAT-GAATTCA
62 TCTCATTATGAACT-TTCTCTGGAAAATTATGTTGATCTATCTCTTCTGTGATAGAATT-A
* *
1037680 AGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTC
1 AGC-AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTC
*** * *
1037744 TCATTATGAACCGAC-CTGG--CA--A---TG--CTATC-CATC-GAATGAT-G-ATTCA
64 TCATTATGAACTTTCTCTGGAAAATTATGTTGATCTATCTCTTCTG--TGATAGAATT-A
* *
1037790 AGCAAAAAGTTGAACAAG-T-TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCT
* * * * *** *
1037853 CATTATGAACTTGAC-CTGG--CA--ATGCTGA-CCA--TC--GAATGAT-GAA-TC
65 CATTATGAACTT-TCTCTGGAAAATTATGTTGATCTATCTCTTCTGTGATAGAATTA
* *
1037898 AGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTC
1 AGC-AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTC
1037962 TCATTATGAACTCTTCT
64 TCATTATGAACT-TTCT
1037979 AGAAATGTTG
Statistics
Matches: 863, Mismatches: 78, Indels: 121
0.81 0.07 0.11
Matches are distributed among these distances:
107 2 0.00
108 68 0.08
109 27 0.03
110 75 0.09
111 6 0.01
112 85 0.10
113 141 0.16
114 55 0.06
115 100 0.12
116 39 0.05
117 1 0.00
118 10 0.01
119 1 0.00
120 26 0.03
121 1 0.00
122 5 0.01
123 180 0.21
124 37 0.04
125 4 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (120 bp):
AGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAATTATGTTGATCTATCTCTTCTGTGATAGAATTA
Found at i:1037734 original size:341 final size:331
Alignment explanation
Indices: 1037229--1037974 Score: 1127
Period size: 341 Copynumber: 2.2 Consensus size: 331
1037219 AGAATCATGA
* * *
1037229 AAAAGATTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
1037294 TATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAAGTGGAACAAGTT
65 TATGAACTCGACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGCAAAAAGTGGAACAAGTT
* **
1037359 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-TTCTGGA
130 CTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-CGACCTGGA
* * ** *
1037423 AATGTTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTT
194 AATGCT-ATCCATCGAATGAT-GATTCAAGCAAAAAGTTGAACAAG-T-TTCTCATTATGAACTT
* * * ** *
1037488 CTTCTTCCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGCCCTGGCAATGCTGGTTCATTGA
255 ATTCTTCC-TTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCT-GACCATCGA
*
1037553 GTGATAAATTCAAGCG
318 ATGATAAA-TC-AGCG
*
1037569 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTTTCAGATGAGTTCTTCTCA
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTT-C-CTTCTTCAGATGAGTTCTTCTCA
* *
1037634 TTATGAACTCGACCTGGCAATGCTGATCCATCGAA-TGATGAATTCAAGCGAAAAGTTGAACAAG
64 TTATGAACTCGACCTGGCAATGCTGATCCATC-AAGTGATGAATTCAAGCAAAAAGTGGAACAAG
1037698 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCGACCTGG
128 TTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCGACCTGG
*
1037763 CAATGCTATCCATCGAATGATGATTCAAGCAAAAAGTTGAACAAGTTTCTCATTATGAACTTATT
193 AAATGCTATCCATCGAATGATGATTCAAGCAAAAAGTTGAACAAGTTTCTCATTATGAACTTATT
*
1037828 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGCTGACCATCGAATGAT
258 CTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGACCATCGAATGAT
*
1037893 GAATCAGCG
323 AAATCAGCG
1037902 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1037967 ATGAACTC
66 ATGAACTC
1037975 TTCTAGAAAT
Statistics
Matches: 375, Mismatches: 27, Indels: 17
0.89 0.06 0.04
Matches are distributed among these distances:
331 32 0.09
332 1 0.00
333 43 0.11
334 2 0.01
335 12 0.03
336 43 0.11
337 23 0.06
338 1 0.00
339 53 0.14
340 20 0.05
341 143 0.38
342 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (331 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGCAAAAAGTGGAACAAGTTC
TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCGACCTGGAAA
TGCTATCCATCGAATGATGATTCAAGCAAAAAGTTGAACAAGTTTCTCATTATGAACTTATTCTT
CCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGACCATCGAATGATAAA
TCAGCG
Found at i:1038141 original size:441 final size:449
Alignment explanation
Indices: 1037229--1038197 Score: 1210
Period size: 441 Copynumber: 2.2 Consensus size: 449
1037219 AGAATCATGA
* * *
1037229 AAAAGATTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
1037294 TATGAACTCTACCTGGCAATGTTGATCCATCAAGTGATGAATTCAAGCAAAAAGTGGAACAAGTT
65 TATGAACTCGACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGCAAAAAGTGGAACAAGTT
* *
1037359 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTGGAA
130 CTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCTGGAA
* * * * *
1037424 ATGTTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
195 ATGCTGATCCATCGAATGATGGATATCAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTA
* * * * * *
1037489 TTCTTCCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGCCCTGGCAATGCTGGTTCATTGAG
260 TTCTTCCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTAGAAATGCTGATCCATTGAA
* * ** * * ***
1037554 TGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTTTCA
325 TGATAAATTCAAGCAAAAAGTTGAACAAGTTC-TCTCATCA-GAAC-TATTCAACATATAAATCA
* * *
1037619 GATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
387 AATGAATGCTTCTC--TATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
1037684 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
1037749 ATGAAC-CGACCTGGCAATGCT-ATCCATCGAA-TGATG-ATTCAAGCAAAAAGTTGAACAAG-T
66 ATGAACTCGACCTGGCAATGCTGATCCATC-AAGTGATGAATTCAAGCAAAAAGTGGAACAAGTT
1037809 -TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TGACCTGG
130 CTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT--CCTGG
* *
1037872 CAATGCTGA-CCATCGAATGAT-GA-ATCAGCGAAAA-GTTGAACAAGTTCTTCTCATTATGAAC
193 AAATGCTGATCCATCGAATGATGGATATCAGC-AAAAGGTTGAACAAGCTCTTCTCATTATGAAC
** *
1037933 TTATTCTTCC-TTCTTCAGATGAGTTCTTCTCATTATGAACTC-TTCTAGAAATGTTGATCCATT
257 TTATTCTTCCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTAGAAATGCTGATCCATT
* * * *
1037996 GAATGATGGATTTCAACTTTGCTAAAATATTTG-A-AA-TTC-CT-GTCA-AA-TATTCAACATG
322 GAATGAT-AAATTCAA----GC-AAAA-AGTTGAACAAGTTCTCTCATCAGAACTATTCAACAT-
* *
1038054 GATAAAATGAAATGAAATGC-TC-C-ATGAACTTGACCTGGCAATGCTGATCCATCGAATGATGA
379 -AT-AAATCAAATG-AATGCTTCTCTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGA
1038116 ATTCAAGCG
441 ATTCAAGCG
1038125 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1038190 ATGAACTC
66 ATGAACTC
1038198 TTCTAGAAAT
Statistics
Matches: 456, Mismatches: 42, Indels: 45
0.84 0.08 0.08
Matches are distributed among these distances:
441 118 0.26
442 8 0.02
444 4 0.01
445 27 0.06
446 42 0.09
447 41 0.09
448 7 0.02
449 68 0.15
450 16 0.04
451 26 0.06
452 16 0.04
453 15 0.03
454 63 0.14
455 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (449 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGACCTGGCAATGCTGATCCATCAAGTGATGAATTCAAGCAAAAAGTGGAACAAGTTC
TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCCTGGAAA
TGCTGATCCATCGAATGATGGATATCAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTAT
TCTTCCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGCCCTAGAAATGCTGATCCATTGAAT
GATAAATTCAAGCAAAAAGTTGAACAAGTTCTCTCATCAGAACTATTCAACATATAAATCAAATG
AATGCTTCTCTATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG
Found at i:1038242 original size:223 final size:223
Alignment explanation
Indices: 1037636--1038295 Score: 863
Period size: 223 Copynumber: 3.0 Consensus size: 223
1037626 TCTTCTCATT
*
1037636 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
1 ATGAACTTGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
** * *
1037701 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-CGACCTGGCA
66 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-TTCTAGAA
* * * * *
1037765 ATGCT-ATCCATCGAATGAT-GA-TTCAA----GC-AAAA-AGTTGAACAAGTTTCTCATTATGA
130 ATGTTGATCCATTGAATGATGGATTTCAACTTTGCTAAAATATTTG-A-AA--TTC-C--TGTCA
* ** * *** * * *** * *
1037821 ACTTATTCTTCCTTCTTCAGATG-A-GTTCTTCTCATT
188 A-ATATTCAACATGGATAAAATGAATGAAATGCTCA-C
1037857 ATGAACTTGACCTGGCAATGCTGA-CCATCGAATGATGAA-TC-AGCGAAAAGTTGAACAAGTTC
1 ATGAACTTGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
1037919 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTAGAAA
66 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTAGAAA
1037984 TGTTGATCCATTGAATGATGGATTTCAACTTTGCTAAAATATTTGAAATTCCTGTCAAATATTCA
131 TGTTGATCCATTGAATGATGGATTTCAACTTTGCTAAAATATTTGAAATTCCTGTCAAATATTCA
1038049 ACATGGATAAAATGAAATGAAATGCTC-C
196 ACATGGATAAAATG-AATGAAATGCTCAC
1038077 ATGAACTTGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
1 ATGAACTTGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
1038142 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTAGAAA
66 TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTAGAAA
1038207 TGTTGATCCATTGAATGATGGATTTCAACTTTGCT-AAATATTTGAAA-TCCTGTCAAAT-TTCA
131 TGTTGATCCATTGAATGATGGATTTCAACTTTGCTAAAATATTTGAAATTCCTGTCAAATATTCA
1038269 ACATGGATAAAATGAATGAAAATGCTC
196 ACATGGATAAAATGAATG-AAATGCTC
1038296 TATTTTGCAA
Statistics
Matches: 398, Mismatches: 24, Indels: 35
0.87 0.05 0.08
Matches are distributed among these distances:
218 83 0.21
219 32 0.08
220 71 0.18
221 55 0.14
222 20 0.05
223 124 0.31
225 4 0.01
226 5 0.01
227 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (223 bp):
ATGAACTTGACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
TTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCTAGAAA
TGTTGATCCATTGAATGATGGATTTCAACTTTGCTAAAATATTTGAAATTCCTGTCAAATATTCA
ACATGGATAAAATGAATGAAATGCTCAC
Found at i:1038667 original size:22 final size:22
Alignment explanation
Indices: 1038637--1038678 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1038627 TTTCATCTTG
*
1038637 AAAGAGAATCTGTCATCTTTAA
1 AAAGAGAATCTATCATCTTTAA
*
1038659 AAAGGGAATCTATCATCTTT
1 AAAGAGAATCTATCATCTTT
1038679 GAAGAGTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (22 bp):
AAAGAGAATCTATCATCTTTAA
Found at i:1041310 original size:115 final size:114
Alignment explanation
Indices: 1040883--1041317 Score: 692
Period size: 114 Copynumber: 3.8 Consensus size: 114
1040873 CATGCAGTTC
* * * * *
1040883 ATCTTTCAACTCCAATGATTGGTTCTGAGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
* * **
1040948 CTTCCAGAAGATGCTATTGAGTC-TCTTTATTTCTACTATGAGCAAATTC
66 CTTCCAGAAGATGCTATTGGGTCTTC-TTATTTCTACTATGAGCACATGG
*
1040997 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACTAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
* * * *
1041062 CCTCCAGAAGATGCTATTGGGCCTCCTTATTTCTACCATGAGCACATGG
66 CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
* *
1041111 ATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
1041176 CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
66 CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
*
1041225 ATCTTTCAAATCCAATGATTGGTTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGAAC
1 ATCTTTCAAATCCAATGATTGG-TTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
1041290 ACTTCCAGAAGATGCTATTGGGTCTTCT
65 ACTTCCAGAAGATGCTATTGGGTCTTCT
1041318 ACTATGAGCA
Statistics
Matches: 295, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
114 226 0.77
115 69 0.23
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (114 bp):
ATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
Found at i:1046649 original size:14 final size:14
Alignment explanation
Indices: 1046616--1046668 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
1046606 GTGCAATACA
* *
1046616 AAATGCAAAGATGCC
1 AAATGTAAATATG-C
1046631 AAATGTAAATATGC
1 AAATGTAAATATGC
* *
1046645 AAATGTAAAAATGT
1 AAATGTAAATATGC
1046659 AAATGTAAAT
1 AAATGTAAAT
1046669 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 22 0.67
15 11 0.33
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.25
Consensus pattern (14 bp):
AAATGTAAATATGC
Found at i:1048895 original size:24 final size:24
Alignment explanation
Indices: 1048859--1048905 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
1048849 GAAAAAAAGA
1048859 AAAAAAATAATTTATATATATTTAT
1 AAAAAAATAATTTAT-TATATTTAT
*
1048884 AAAAAAAT-ATTTATTTTATTTA
1 AAAAAAATAATTTATTATATTTA
1048906 GAAATATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAAAAATAATTTATTATATTTAT
Found at i:1049085 original size:17 final size:17
Alignment explanation
Indices: 1049059--1049103 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
1049049 CCTTTTTTCG
* *
1049059 ATATTGAAAATAAATAA
1 ATATTAAAAAAAAATAA
1049076 ATATTAAAAAAAAATAA
1 ATATTAAAAAAAAATAA
1049093 ATATTAAAAAA
1 ATATTAAAAAA
1049104 TAATTTATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
ATATTAAAAAAAAATAA
Found at i:1049105 original size:31 final size:36
Alignment explanation
Indices: 1049070--1049134 Score: 86
Period size: 33 Copynumber: 1.9 Consensus size: 36
1049060 TATTGAAAAT
1049070 AAATAA-ATAT-TAAAAAAA-A-ATAAA-TATTAAA
1 AAATAATATATGTAAAAAAACATATAAATTATTAAA
*
1049101 AAATAATTTATGTAAAAAAACATATAAATTATTA
1 AAATAATATATGTAAAAAAACATATAAATTATTA
1049135 TTTATTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 6 0.21
32 3 0.11
33 8 0.29
34 1 0.04
35 5 0.18
36 5 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (36 bp):
AAATAATATATGTAAAAAAACATATAAATTATTAAA
Found at i:1050590 original size:3 final size:3
Alignment explanation
Indices: 1050582--1050631 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
1050572 ATTATTTATT
* *
1050582 TAA TAA TAA TATA TCA TAA TAA TAA TAA TAA TTA TAA T-A TAAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
1050628 TAA T
1 TAA T
1050632 CAAATTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 2 0.05
3 34 0.85
4 4 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1052535 original size:16 final size:16
Alignment explanation
Indices: 1052514--1052576 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 16
1052504 AAAACATTGT
*
1052514 TTATAATATAAATGTA
1 TTATAATATAAATATA
**
1052530 TTATAA-ATATGTA-A
1 TTATAATATAAATATA
1052544 TTATAA-AT--A--TA
1 TTATAATATAAATATA
1052555 TTATAATATAAATATA
1 TTATAATATAAATATA
1052571 TTATAA
1 TTATAA
1052577 GTAATATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
11 7 0.19
12 2 0.05
14 10 0.27
15 4 0.11
16 14 0.38
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TTATAATATAAATATA
Found at i:1052583 original size:14 final size:16
Alignment explanation
Indices: 1052545--1052576 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1052535 AATATGTAAT
1052545 TATAAATATATTATAA
1 TATAAATATATTATAA
1052561 TATAAATATATTATAA
1 TATAAATATATTATAA
1052577 GTAATATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAAATATATTATAA
Found at i:1056155 original size:29 final size:30
Alignment explanation
Indices: 1056114--1056186 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 30
1056104 TGACTTAAAA
*
1056114 TTTATTCAAATTA-GAGGATAGAATAAACAT
1 TTTATT-ATATTATGAGGATAGAATAAACAT
*
1056144 TTTATTATATTATTTGATGATAGAATAAACAT
1 TTTATTATATTA--TGAGGATAGAATAAACAT
1056176 TTTATTATATT
1 TTTATTATATT
1056187 CTTTGATGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 5 0.13
30 6 0.16
32 27 0.71
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (30 bp):
TTTATTATATTATGAGGATAGAATAAACAT
Found at i:1056169 original size:32 final size:32
Alignment explanation
Indices: 1056130--1056209 Score: 133
Period size: 32 Copynumber: 2.5 Consensus size: 32
1056120 CAAATTAGAG
1056130 GATAGAATAAACATTTTATTATATTATTTGAT
1 GATAGAATAAACATTTTATTATATTATTTGAT
*
1056162 GATAGAATAAACATTTTATTATATTCTTTGAT
1 GATAGAATAAACATTTTATTATATTATTTGAT
*
1056194 GATAGCATAAGACATT
1 GATAGAATAA-ACATT
1056210 ACTATGTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 40 0.89
33 5 0.11
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.42
Consensus pattern (32 bp):
GATAGAATAAACATTTTATTATATTATTTGAT
Found at i:1058851 original size:23 final size:23
Alignment explanation
Indices: 1058825--1058898 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
1058815 AAGTGCTACG
1058825 TAGAAATGTCCCGAAGGACCACA
1 TAGAAATGTCCCGAAGGACCACA
*
1058848 TAGATATGTCCCGAAGGACCACA
1 TAGAAATGTCCCGAAGGACCACA
*
1058871 TAGAAATGTCCCGAAGGATCACA
1 TAGAAATGTCCCGAAGGACCACA
1058894 TAGAA
1 TAGAA
1058899 CCCTCGACTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCACA
Found at i:1059368 original size:2 final size:2
Alignment explanation
Indices: 1059361--1059408 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1059351 TGCACGTAAC
1059361 AT AT AT AT AT AT 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 AT AT AT AT AT AT
1059403 AT AT AT
1 AT AT AT
1059409 GCATGTACTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1061143 original size:10 final size:10
Alignment explanation
Indices: 1061128--1061154 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
1061118 AATTAGCGAT
1061128 TTTGAATTAA
1 TTTGAATTAA
1061138 TTTGAATTAA
1 TTTGAATTAA
1061148 TTTGAAT
1 TTTGAAT
1061155 AGGAGTCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (10 bp):
TTTGAATTAA
Found at i:1061849 original size:2 final size:2
Alignment explanation
Indices: 1061842--1061881 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
1061832 AAATGCTATT
*
1061842 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA -A AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1061882 CAAAAAATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1063409 original size:3 final size:3
Alignment explanation
Indices: 1063403--1063450 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
1063393 TATTATTATA
* * * *
1063403 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AGT GAT AAT AAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1063451 TAAAACCCGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1063423 original size:15 final size:15
Alignment explanation
Indices: 1063405--1063444 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
1063395 TTATTATAAA
1063405 TAATAATAATAATAG
1 TAATAATAATAATAG
1063420 TAATAATAATAATAG
1 TAATAATAATAATAG
*
1063435 TGATAATAAT
1 TAATAATAAT
1063445 TATAATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:1064050 original size:66 final size:66
Alignment explanation
Indices: 1063971--1064458 Score: 508
Period size: 66 Copynumber: 7.3 Consensus size: 66
1063961 GCTAATTTTT
1063971 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1064036 G
66 G
* *
1064037 TCTCAAGAGAAACTGTCTCAAGCGAAACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1064102 G
66 G
* ** * **
1064103 TTTCAAGAGAAATTGTCTCAAGCGAGACGGAATTTGTTTCAAGAGAAACTGTCTCAAGCGAGACA
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAA---AG---
**
1064168 AAATT-TG
60 -GTTTATG
** ** * * * *
1064175 TTTCAAGAGAAACAATCTCAA---AG----GTTTATATTTAAAGAGAAACGATCTCAAGCGAGAC
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATT-TGTTTCAAGGGAAACAATCTCAA---AG--
*
1064233 GAAATT-TG
60 G--TTTATG
* *
1064241 TTTTAAGAGAAACTGTCTCAAGCGAGTCAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1064306 G
66 G
* *
1064307 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATTTCAAATGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1064372 G
66 G
* * * *
1064373 TTTCAAGAGAAATTGTCTCAAGCGAGATAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTTA
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGGTTTA
1064438 TG
65 TG
* *
1064440 TTTTAAGAAAAACTGTCTC
1 TTTCAAGAGAAACTGTCTC
1064459 TTTAACATCC
Statistics
Matches: 357, Mismatches: 46, Indels: 37
0.81 0.10 0.08
Matches are distributed among these distances:
64 1 0.00
65 4 0.01
66 254 0.71
67 47 0.13
69 8 0.02
72 39 0.11
73 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (66 bp):
TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
G
Found at i:1064053 original size:15 final size:15
Alignment explanation
Indices: 1064035--1064064 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1064025 CAAAGGTTTA
1064035 TGTCTCAAGAGAAAC
1 TGTCTCAAGAGAAAC
*
1064050 TGTCTCAAGCGAAAC
1 TGTCTCAAGAGAAAC
1064065 AAAATTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (15 bp):
TGTCTCAAGAGAAAC
Found at i:1064145 original size:102 final size:101
Alignment explanation
Indices: 1064039--1064355 Score: 517
Period size: 102 Copynumber: 3.1 Consensus size: 101
1064029 GGTTTATGTC
*
1064039 TCAAGAGAAACTGTCTCAAGCGAAACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTATGT
1 TCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTATGT
*
1064104 TTCAAGAGAAATTGTCTCAAGCGAGACGGAATTTGTT
66 TTCAAGAGAAA-TGTCTCAAGCGAGACGAAATTTGTT
* *
1064141 TCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTATAT
1 TCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTATGT
* *
1064206 TTAAAGAGAAACGATCTCAAGCGAGACGAAATTTGTT
66 TTCAAGAGAAATG-TCTCAAGCGAGACGAAATTTGTT
* *
1064243 TTAAGAGAAACTGTCTCAAGCGAGTCAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTATGT
1 TCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTATGT
*
1064308 TTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTT
66 TTCAAGAGAAA-TGTCTCAAGCGAGACGAAATTTGTT
*
1064345 TCAAGGGAAAC
1 TCAAGAGAAAC
1064356 AATTTCAAAT
Statistics
Matches: 198, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
101 1 0.01
102 196 0.99
103 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (101 bp):
TCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTATGT
TTCAAGAGAAATGTCTCAAGCGAGACGAAATTTGTT
Found at i:1064228 original size:168 final size:161
Alignment explanation
Indices: 1063971--1064458 Score: 593
Period size: 168 Copynumber: 2.9 Consensus size: 161
1063961 GCTAATTTTT
1063971 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
* * *
1064036 GTCTCAAGAGAAACTGTCTCAAGCGAAACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTA
66 GTTTCAAGAGAAAC-GTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTA
*
1064101 TGTTTCAAGAGAAATTGTCTCAAGCGAGACGGAATT-TG
130 TGTTTCAAGAGAAACTGTCTC-A---A-A-GG-ATTATG
*
1064139 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
* * * * ** *
1064204 ATTTAAAGAGAAACGATCTCAAGCGAGACGAAATTTGTTTTAAGAGAAACTGTCTCAAGCGAGTC
66 GTTTCAAGAGAAACG-TCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAA-AG-GT-
* ** *
1064269 AAAATT-TGTTTCAAGGGAAACAATCTCAAAGGTTTATG
127 ----TTATGTTTCAAGAGAAACTGTCTCAAAGGATTATG
* *
1064307 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATTTCAAATGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
* * *
1064372 GTTTCAAGAGAAATTGTCTCAAGCGAGATAAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTTT
66 GTTTCAAGAGAAA-CGTCTCAAGCGAGACAAAA-TTTGTTTCAAGAGAAACAATCTCAAAGGTTT
* *
1064437 ATGTTTTAAGAAAAACTGTCTC
129 ATGTTTCAAGAGAAACTGTCTC
1064459 TTTAACATCC
Statistics
Matches: 274, Mismatches: 34, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
162 2 0.01
163 16 0.06
167 5 0.02
168 204 0.74
169 24 0.09
170 3 0.01
173 1 0.00
174 17 0.06
175 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (161 bp):
TTTCAAGAGAAACTGTCTCAAGCGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTAT
GTTTCAAGAGAAACGTCTCAAGCGAGACAAAATTTGTTTCAAGAGAAACAATCTCAAAGGTTTAT
GTTTCAAGAGAAACTGTCTCAAAGGATTATG
Found at i:1072801 original size:13 final size:14
Alignment explanation
Indices: 1072768--1072808 Score: 66
Period size: 13 Copynumber: 2.9 Consensus size: 14
1072758 GGAAGGGGTA
1072768 GTATCGATACCATGG
1 GTATCGATACCAT-G
1072783 GTATCGATACCAT-
1 GTATCGATACCATG
1072796 GTATCGATACCAT
1 GTATCGATACCAT
1072809 TGTTGGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.50
15 13 0.50
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (14 bp):
GTATCGATACCATG
Found at i:1073444 original size:10 final size:10
Alignment explanation
Indices: 1073429--1073496 Score: 64
Period size: 10 Copynumber: 6.1 Consensus size: 10
1073419 CATTTAATAA
1073429 ATAAACGAAC
1 ATAAACGAAC
1073439 ATAAACGAAC
1 ATAAACGAAC
*
1073449 ACGAACGAACGAAC
1 A--TA--AACGAAC
1073463 ATAAACGAACAC
1 ATAAACG-A-AC
1073475 AATAAACGAAC
1 -ATAAACGAAC
1073486 ATAAACGAAC
1 ATAAACGAAC
1073496 A
1 A
1073497 ACACAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
10 26 0.53
11 3 0.06
12 5 0.10
13 7 0.14
14 8 0.16
ACGTcount: A:0.59, C:0.22, G:0.12, T:0.07
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1073464 original size:24 final size:23
Alignment explanation
Indices: 1073431--1073496 Score: 105
Period size: 23 Copynumber: 2.8 Consensus size: 23
1073421 TTTAATAAAT
1073431 AAACGAACATAAACGAACACGAAC
1 AAACGAACATAAACGAACAC-AAC
* *
1073455 GAACGAACATAAACGAACACAAT
1 AAACGAACATAAACGAACACAAC
1073478 AAACGAACATAAACGAACA
1 AAACGAACATAAACGAACA
1073497 ACACAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.59, C:0.23, G:0.12, T:0.06
Consensus pattern (23 bp):
AAACGAACATAAACGAACACAAC
Found at i:1073772 original size:14 final size:14
Alignment explanation
Indices: 1073753--1073798 Score: 74
Period size: 14 Copynumber: 3.1 Consensus size: 14
1073743 GCCCTCTGTT
1073753 CGAACATAAATGAA
1 CGAACATAAATGAA
1073767 CGAACATAAATGAA
1 CGAACATAAATGAA
1073781 CGAACATATAATCGAA
1 CGAACATA-AAT-GAA
1073797 CG
1 CG
1073799 TTCACGAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 22 0.73
15 3 0.10
16 5 0.17
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:1078570 original size:23 final size:23
Alignment explanation
Indices: 1078502--1078570 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1078492 ACATTTTATA
* * *
1078502 TGGCACTTCTGTGTATTTCTACA
1 TGGCACTTCGGTGCATTTCTACG
* *
1078525 CGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
1078548 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
1078571 AGCTTTGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:1080334 original size:3 final size:3
Alignment explanation
Indices: 1080328--1080375 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
1080318 TATTATTAGA
* * *
1080328 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT GAT AAT AAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1080376 TAAAATCCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:1082315 original size:17 final size:16
Alignment explanation
Indices: 1082293--1082335 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 16
1082283 TTTTTGATTT
1082293 TTTAAAATAATATATTA
1 TTTAAAA-AATATATTA
1082310 TTT--AAAA-ATATTA
1 TTTAAAAAATATATTA
1082323 TTTAAAAAATATA
1 TTTAAAAAATATA
1082336 AACATGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.39
14 2 0.09
15 6 0.26
16 3 0.13
17 3 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTAAAAAATATATTA
Found at i:1089215 original size:60 final size:60
Alignment explanation
Indices: 1089142--1089261 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
1089132 AGGAAATAAG
1089142 GATTCAATTCCTATAAAGTTATGGTATGATAATCAAGTTACACTTCATTTCGTTTTTAAT
1 GATTCAATTCCTATAAAGTTATGGTATGATAATCAAGTTACACTTCATTTCGTTTTTAAT
1089202 GATTCAATTCCTATAAAGTTATGGTATGATAATCAAGTTACACTTCATTTCGTTTTTAAT
1 GATTCAATTCCTATAAAGTTATGGTATGATAATCAAGTTACACTTCATTTCGTTTTTAAT
1089262 CAAGTATTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (60 bp):
GATTCAATTCCTATAAAGTTATGGTATGATAATCAAGTTACACTTCATTTCGTTTTTAAT
Found at i:1089327 original size:47 final size:47
Alignment explanation
Indices: 1089258--1089351 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
1089248 ATTTCGTTTT
*
1089258 TAATCAAGTATTTCATGAACAAACGAAACACATTAAGATTAATTGTC
1 TAATCAAGTATTTCATGAACAAACGAAACACATCAAGATTAATTGTC
* * * *
1089305 TAATCAAGTTTTTTATGAACAAATGAAACACATCAAGATTGATTGTC
1 TAATCAAGTATTTCATGAACAAACGAAACACATCAAGATTAATTGTC
1089352 ATTTCATGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.32
Consensus pattern (47 bp):
TAATCAAGTATTTCATGAACAAACGAAACACATCAAGATTAATTGTC
Found at i:1090636 original size:36 final size:36
Alignment explanation
Indices: 1090589--1090673 Score: 152
Period size: 36 Copynumber: 2.4 Consensus size: 36
1090579 CTAAGCTAAC
*
1090589 ACCTCCTAACACCATATATGAATTATGCAATATGTA
1 ACCTCCTAACACCATATATGAATTATACAATATGTA
1090625 ACCTCCTAACACCATATATGAATTATACAATATGTA
1 ACCTCCTAACACCATATATGAATTATACAATATGTA
*
1090661 ACATCCTAACACC
1 ACCTCCTAACACC
1090674 TACTTTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.28
Consensus pattern (36 bp):
ACCTCCTAACACCATATATGAATTATACAATATGTA
Found at i:1120595 original size:2 final size:2
Alignment explanation
Indices: 1120588--1120617 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1120578 AAAAATGAAG
1120588 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
1120618 ACCGGATATT
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):
TA
Found at i:1120963 original size:28 final size:29
Alignment explanation
Indices: 1120886--1120966 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 29
1120876 AAAACTGTAG
*
1120886 AATTAAATTGAAAAATATATAAAATTCATGGT
1 AATTAAAATG-AAAATATA-AAAATTCA-GGT
*
1120918 AA-AAAAATGAAAATTATAAAAATT-A-GT
1 AATTAAAATGAAAA-TATAAAAATTCAGGT
1120945 AATTAAAATGTAAAATATAAAA
1 AATTAAAATG-AAAATATAAAA
1120967 CCTAAACGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 5 0.12
30 10 0.23
31 9 0.21
32 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (29 bp):
AATTAAAATGAAAATATAAAAATTCAGGT
Found at i:1121386 original size:29 final size:30
Alignment explanation
Indices: 1121346--1121403 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
1121336 TTTGCTTCTA
1121346 TCTCTAAAGAGAAAAAAGCTCT-ACCTCTC
1 TCTCTAAAGAGAAAAAAGCTCTGACCTCTC
* *
1121375 TCTCTAAAGAGAGAGAAGCTCTGACCTCT
1 TCTCTAAAGAGAAAAAAGCTCTGACCTCT
1121404 ATTTAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (30 bp):
TCTCTAAAGAGAAAAAAGCTCTGACCTCTC
Found at i:1124529 original size:81 final size:81
Alignment explanation
Indices: 1124180--1124511 Score: 574
Period size: 81 Copynumber: 4.1 Consensus size: 81
1124170 TCTTGTAGTG
*
1124180 ACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTATGCATTTGACAGAAAGGTGTCAAT
1 ACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
1124245 TATGCCAGTTAGATGA
66 TATGCCAGTTAGATGA
**
1124261 ACAATTAAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
1 ACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
*
1124326 TATGCCAGTTAGATAA
66 TATGCCAGTTAGATGA
* * * * *
1124342 ACGGTTAAGTATCGTTGAATAAAAGAATAATGACATAGTTGTGCATTTGACAGAAAGGTGTCAAT
1 ACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
1124407 TATGCCAGTTAGATGA
66 TATGCCAGTTAGATGA
*
1124423 ACGGTTAAGTACCGTTGAGTAAAAGAATAATGGGCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
1 ACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
1124488 TATGCCAGTTAGATGA
66 TATGCCAGTTAGATGA
1124504 ACGGTTAA
1 ACGGTTAA
1124512 ACACTATTGA
Statistics
Matches: 233, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 233 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
ACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAAT
TATGCCAGTTAGATGA
Found at i:1124540 original size:29 final size:29
Alignment explanation
Indices: 1124498--1124587 Score: 135
Period size: 29 Copynumber: 3.1 Consensus size: 29
1124488 TATGCCAGTT
*
1124498 AGATGAACGGTTAAACACTATTGAATAAA
1 AGATGAACGGTTAAACACTGTTGAATAAA
*
1124527 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTTAAACACTGTTGAATAAA
* * *
1124556 AGATGAATGGTTAAATACCGTTGAATAAA
1 AGATGAACGGTTAAACACTGTTGAATAAA
1124585 AGA
1 AGA
1124588 ATACTGAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (29 bp):
AGATGAACGGTTAAACACTGTTGAATAAA
Found at i:1128173 original size:41 final size:41
Alignment explanation
Indices: 1128116--1128198 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
1128106 TGTTTATATG
* *
1128116 AGAAACATATGCATTACCTTTCACCCCTTTGGAATTGTATA
1 AGAAACATATACATTACCTTCCACCCCTTTGGAATTGTATA
1128157 AGAAACATATACATTACCTTCCACCCCTTTGGAATTGTATA
1 AGAAACATATACATTACCTTCCACCCCTTTGGAATTGTATA
1128198 A
1 A
1128199 CCTGATTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (41 bp):
AGAAACATATACATTACCTTCCACCCCTTTGGAATTGTATA
Found at i:1131011 original size:17 final size:17
Alignment explanation
Indices: 1130969--1131014 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
1130959 TTGTTTTATG
*
1130969 TAAGAATTATTATGGAT
1 TAAGAATTCTTATGGAT
1130986 TAAGAATTCTTATGGAT
1 TAAGAATTCTTATGGAT
1131003 TAAGAATTCTTA
1 TAAGAATTCTTA
1131015 GTGATCAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (17 bp):
TAAGAATTCTTATGGAT
Found at i:1134235 original size:148 final size:148
Alignment explanation
Indices: 1133967--1134265 Score: 598
Period size: 148 Copynumber: 2.0 Consensus size: 148
1133957 AATATAAAAT
1133967 AAAAGGTGGTCGGATGCCACCACCAACCATTTCGTAGATGATGGTCGTTCGATCTCAAATTTCAT
1 AAAAGGTGGTCGGATGCCACCACCAACCATTTCGTAGATGATGGTCGTTCGATCTCAAATTTCAT
1134032 GTGTCGATTCATCTCGACCCTCTAAGTCTGAATCTGGTGGTTGTTTCACCAGAAAATGTCCCAAA
66 GTGTCGATTCATCTCGACCCTCTAAGTCTGAATCTGGTGGTTGTTTCACCAGAAAATGTCCCAAA
1134097 AGCCATATATATCGACTG
131 AGCCATATATATCGACTG
1134115 AAAAGGTGGTCGGATGCCACCACCAACCATTTCGTAGATGATGGTCGTTCGATCTCAAATTTCAT
1 AAAAGGTGGTCGGATGCCACCACCAACCATTTCGTAGATGATGGTCGTTCGATCTCAAATTTCAT
1134180 GTGTCGATTCATCTCGACCCTCTAAGTCTGAATCTGGTGGTTGTTTCACCAGAAAATGTCCCAAA
66 GTGTCGATTCATCTCGACCCTCTAAGTCTGAATCTGGTGGTTGTTTCACCAGAAAATGTCCCAAA
1134245 AGCCATATATATCGACTG
131 AGCCATATATATCGACTG
1134263 AAA
1 AAA
1134266 CTTTTCGACT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 151 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (148 bp):
AAAAGGTGGTCGGATGCCACCACCAACCATTTCGTAGATGATGGTCGTTCGATCTCAAATTTCAT
GTGTCGATTCATCTCGACCCTCTAAGTCTGAATCTGGTGGTTGTTTCACCAGAAAATGTCCCAAA
AGCCATATATATCGACTG
Found at i:1134588 original size:29 final size:30
Alignment explanation
Indices: 1134541--1134598 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
1134531 AAACATGAGT
* * *
1134541 AATTCGAAAGTTCAGTGAGTAAATTAGAAA
1 AATTCGAAAGTACAATGAGTAAAATAGAAA
1134571 AATT-GAAAGTACAATGAGTAAAATAGAA
1 AATTCGAAAGTACAATGAGTAAAATAGAA
1134599 GAGAGAGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (30 bp):
AATTCGAAAGTACAATGAGTAAAATAGAAA
Found at i:1135113 original size:39 final size:39
Alignment explanation
Indices: 1135070--1135180 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 39
1135060 TTTTAAAAAT
*
1135070 AATTTAGAATGTTAAGATTAAATACTTTAAGAAATTAAA
1 AATTTAGAATGTTAAGATTAAATAATTTAAGAAATTAAA
* * * **
1135109 AATTTAGAATGTTATGGTGAAATAATTTAAGAAATTAGG
1 AATTTAGAATGTTAAGATTAAATAATTTAAGAAATTAAA
*
1135148 AATTTAGAATGTTATA-ATTAAATAATTTGAGAA
1 AATTTAGAATGTTA-AGATTAAATAATTTAAGAA
1135181 TTAGGATAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.48, C:0.01, G:0.14, T:0.37
Consensus pattern (39 bp):
AATTTAGAATGTTAAGATTAAATAATTTAAGAAATTAAA
Found at i:1143543 original size:18 final size:18
Alignment explanation
Indices: 1143520--1143564 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
1143510 AGTTATTTTT
*
1143520 TTAAATAAAAGATAATAA
1 TTAAATAAAAGAAAATAA
*
1143538 TTAAATAAAATAAAATAA
1 TTAAATAAAAGAAAATAA
*
1143556 TTAATTAAA
1 TTAAATAAA
1143565 TAAATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
TTAAATAAAAGAAAATAA
Found at i:1143560 original size:22 final size:23
Alignment explanation
Indices: 1143522--1143568 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
1143512 TTATTTTTTT
1143522 AAATAAAAGATAATAATTAAATA
1 AAATAAAAGATAATAATTAAATA
1143545 AAAT-AAA-ATAATTAATTAAATA
1 AAATAAAAGATAA-TAATTAAATA
1143567 AA
1 AA
1143569 TTTAAACTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.17
22 15 0.65
23 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATAAAAGATAATAATTAAATA
Found at i:1144160 original size:15 final size:15
Alignment explanation
Indices: 1144142--1144173 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1144132 ATAAATTAGC
1144142 TAAGTTTGGCAATCA
1 TAAGTTTGGCAATCA
1144157 TAAGTTTGGCAATCA
1 TAAGTTTGGCAATCA
1144172 TA
1 TA
1144174 CTTAACATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (15 bp):
TAAGTTTGGCAATCA
Found at i:1151822 original size:23 final size:21
Alignment explanation
Indices: 1151775--1151853 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 21
1151765 TTTGTGCAGA
*
1151775 GTGTATCGATATCCCTTTAAC
1 GTGTATCGATACCCCTTTAAC
* *
1151796 GTGTATTGATACCCTCTTTGAAT
1 GTGTATCGATACCC-CTTT-AAC
*
1151819 GTGTATCGATACCCCTATAA-
1 GTGTATCGATACCCCTTTAAC
* *
1151839 GGGTACCGATACCCC
1 GTGTATCGATACCCC
1151854 CGTCGAGTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
20 13 0.27
21 14 0.29
22 7 0.14
23 15 0.31
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (21 bp):
GTGTATCGATACCCCTTTAAC
Found at i:1152328 original size:14 final size:13
Alignment explanation
Indices: 1152311--1152354 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
1152301 AAAAATACAT
1152311 ATTGATTTTCAAAC
1 ATTG-TTTTCAAAC
1152325 ATTGTTTTTCAAAC
1 ATTG-TTTTCAAAC
*
1152339 ATAGTTTTCAAA-
1 ATTGTTTTCAAAC
1152351 ATTG
1 ATTG
1152355 CCTATTAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
14 16 0.59
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.45
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:1154614 original size:73 final size:74
Alignment explanation
Indices: 1154440--1154621 Score: 213
Period size: 73 Copynumber: 2.4 Consensus size: 74
1154430 TAAATAGGGA
* * * * *
1154440 GGTATCGATACCCCTCATAGGGTGTACTGATACCCATATGGCAATTTTGGCTCCGAGAAAAAGAG
1 GGTACCGATACCCC-CATAGAG-GTACCGATACCCATATGGCAATTTTGGCTCAGAGAAAAAGAA
*
1154505 AATGCCCAATG
64 AATGCCCAACG
* * *
1154516 GGTACCGATACCCCCATAGAGGTACCGATACCCTTGTGTCAATTTTGGCTCAGAGAAAAA-AAAA
1 GGTACCGATACCCCCATAGAGGTACCGATACCCATATGGCAATTTTGGCTCAGAGAAAAAGAAAA
*
1154580 TGCCTAACG
66 TGCCCAACG
* * * *
1154589 GGTACTGATACCCTCTTTGAGGTACCGATACCC
1 GGTACCGATACCCCCATAGAGGTACCGATACCC
1154622 CTAGTCATTT
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
73 39 0.42
74 34 0.37
75 6 0.07
76 13 0.14
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (74 bp):
GGTACCGATACCCCCATAGAGGTACCGATACCCATATGGCAATTTTGGCTCAGAGAAAAAGAAAA
TGCCCAACG
Found at i:1158011 original size:15 final size:15
Alignment explanation
Indices: 1157979--1158016 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1157969 TAAAGCACCT
1157979 AAATAAA-TAAAATA
1 AAATAAAGTAAAATA
* *
1157993 AAATAAAGTTAAATG
1 AAATAAAGTAAAATA
1158008 AAATAAAGT
1 AAATAAAGT
1158017 GTACTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (15 bp):
AAATAAAGTAAAATA
Found at i:1161100 original size:18 final size:18
Alignment explanation
Indices: 1161079--1161120 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1161069 TTATTTTTTT
*
1161079 AATAAAAGATAAGAATTA
1 AATAAAAGAAAAGAATTA
*
1161097 AATAAAAGAAAATAATTA
1 AATAAAAGAAAAGAATTA
*
1161115 ATTAAA
1 AATAAA
1161121 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
AATAAAAGAAAAGAATTA
Found at i:1161968 original size:12 final size:12
Alignment explanation
Indices: 1161951--1161975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1161941 AATACTAAAC
1161951 AAATATAATATA
1 AAATATAATATA
1161963 AAATATAATATA
1 AAATATAATATA
1161975 A
1 A
1161976 TATTTAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATAATATA
Found at i:1164747 original size:2 final size:2
Alignment explanation
Indices: 1164740--1165006 Score: 314
Period size: 2 Copynumber: 137.0 Consensus size: 2
1164730 GTTGAAGGAA
1164740 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1164781 AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG -G AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1164821 AG AG AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
1164862 AG AG AG -G AG AG AG GG AG AG GG AG GG AG AG GG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * * *
1164903 GG AG AG GG AG AG GG AG AG GG AG AG GG AG AG GG AG GG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
1164945 -G GG AG -G GG AG AG GG AG GG AG GG AG GG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1164985 AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
1165007 TAGTGAATGT
Statistics
Matches: 222, Mismatches: 36, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
1 7 0.03
2 215 0.97
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1173594 original size:64 final size:64
Alignment explanation
Indices: 1173526--1173811 Score: 329
Period size: 64 Copynumber: 4.5 Consensus size: 64
1173516 AATTAAATTG
*
1173526 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGA
* * **
1173590 AACATCGAATGCATTTGATG---CGATGCACCGAT-CTATGCATCGATGCACCATGA--ATTAAA
1 AACATCGAATGCATTTGATGCATCGATGCA-C-ATACCATGCACCGATGCA-C-TGAGGATTTTA
1173649 TTG-
62 -TGA
*
1173652 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATG-A
* * ** *
1173717 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCA-CATACCATGCACCGATGCACTGAGGAT-TTTATG
1173780 A
64 A
*
1173781 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
1173812 TCTTAGTGCA
Statistics
Matches: 190, Mismatches: 17, Indels: 31
0.80 0.07 0.13
Matches are distributed among these distances:
61 7 0.04
62 40 0.21
63 11 0.06
64 70 0.37
65 57 0.30
66 5 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGA
Found at i:1173656 original size:62 final size:62
Alignment explanation
Indices: 1173485--1173672 Score: 233
Period size: 62 Copynumber: 3.0 Consensus size: 62
1173475 GTGATGCACT
1173485 GATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGCATC
1 GATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATG---C
* * ** *
1173550 GATGCA-C-ATACCATGCACCGATGCA-C-TGAGGATTTTA-TGAAACATCGAATGCATTTGATG
1 GATGCACCGAT-CTATGCATCGATGCACCATGA--ATTAAATTG-AACATCGAATGCATTTCATG
1173610 C
62 C
1173611 GATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGC
1 GATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGC
1173673 ATCGATGCAC
Statistics
Matches: 104, Mismatches: 10, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
61 7 0.07
62 41 0.39
63 10 0.10
64 40 0.38
65 6 0.06
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (62 bp):
GATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTCATGC
Found at i:1173710 original size:126 final size:128
Alignment explanation
Indices: 1173476--1173811 Score: 511
Period size: 126 Copynumber: 2.6 Consensus size: 128
1173466 TTTTTCATAG
1173476 TGATGCACTGATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATT
1 TGATG-AC-GATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATT
1173541 TCATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATG-AAACATCGAATGCATT
64 TCATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATT
1173605 TGATG-CGATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTC
1 TGATGACGATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTC
1173669 ATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATT
66 ATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATT
* * ** **
1173732 TGATGCATCGATGCACC-AGCCATGCATCGATGCACTC-TG-GCTATTTTGAAACATCGAATGCA
1 TGATG-A-CGATGCACCGATCTATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGCA
* *
1173794 CTTGATGCATCGATGCAC
62 TTTCATGCATCGATGCAC
1173812 TCTTAGTGCA
Statistics
Matches: 193, Mismatches: 8, Indels: 12
0.91 0.04 0.06
Matches are distributed among these distances:
126 104 0.54
127 22 0.11
128 5 0.03
129 52 0.27
130 10 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (128 bp):
TGATGACGATGCACCGATCTATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATTTC
ATGCATCGATGCACATACCATGCACCGATGCACTGAGGATTTTATGAAAACATCGAATGCATT
Found at i:1175238 original size:51 final size:50
Alignment explanation
Indices: 1175178--1175279 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 50
1175168 TTCCAAAATC
1175178 ATGGCAATCCAAGAAGACTGTAATCATCGAGGCTAAGAACCTAAAGTCCTT
1 ATGGCAATCCAAGAAGACTGTAATCATCGAGGCTAAGAACCT-AAGTCCTT
1175229 ATGGCAATCCAAGAAGACTGTAATCATCGAGGCTAAGAACCTAAGTCCTT
1 ATGGCAATCCAAGAAGACTGTAATCATCGAGGCTAAGAACCTAAGTCCTT
1175279 A
1 A
1175280 ACTCTTGAAG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 9 0.18
51 42 0.82
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (50 bp):
ATGGCAATCCAAGAAGACTGTAATCATCGAGGCTAAGAACCTAAGTCCTT
Found at i:1175837 original size:20 final size:21
Alignment explanation
Indices: 1175814--1175854 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1175804 TGAGAAATTG
1175814 TTTTT-AAAATAT-AAAAATGA
1 TTTTTCAAAAT-TGAAAAATGA
1175834 TTTTTCAAAATTGAAAAATGA
1 TTTTTCAAAATTGAAAAATGA
1175855 AAATAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTTTCAAAATTGAAAAATGA
Found at i:1177116 original size:6 final size:6
Alignment explanation
Indices: 1177101--1180073 Score: 4566
Period size: 6 Copynumber: 513.2 Consensus size: 6
1177091 GTTCTATTCT
*
1177101 TGTATG TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177147 TGTATA TG--TA TGTATA TGTATA TGTATA TGTATGA TG--TA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTAT-A TGTATA TGTATA
1177192 TGTATA TGTATA TGTATA TGTATA --TATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
* * *
1177238 --TATA TATATG TATATA TGTATA TGTATA TGTATA TGTATA TG--TA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177282 TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA --TATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177326 TG--TA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TG--TA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177370 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TG--TATA TGTATA TGTATA
1177420 TGTATA TGTATA TGTATA TGTATA TGTATATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TG--TATA TGTATA TGTATA TGTATA
*
1177470 TGTATA TG--TA TGTATA TGTATA TGTATA TGTATA TGTATA -GTCTA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177515 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177563 TGTATA TGTATA TGTATA TGTATA TGTATA TG--TA TGTATA TGTA-A
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
1177608 TGTATA TGTATA GGTATA TGTA-A TGTATA --T-TA TGTATA TGTATATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TG--TATA
1177654 TGTAT- TGT-TA TGTATA TGTATA TGTATA TGTATA TGTATATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TG--TATA TGTATA
*
1177702 TGTATA TGTATA TGTATA TGTATA TG--TC TGTATA TGTA-A TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177747 TGTATA TG--TA TGTATA TGTATA TGTATA -GTATA TGTATA TG--TA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177790 TGTATA TGTATA TGTATA TGTATA TGTATA TG--TA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177836 TGTATA TGTATA TGTATA TGTATA TGTATATA TGTATA TGTATA TGT-TA
1 TGTATA TGTATA TGTATA TGTATA TG--TATA TGTATA TGTATA TGTATA
1177885 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TG--TA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1177931 TGTATA TGTATA --TATA TGTATA TGTATA TGTATA TGTATA -GTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
1177976 TGTATA TGTATA TGTATA TGTATC TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178024 TG--TA TGTATA TGTATA TGT-TA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178069 -GTATA TGTATA TG-ATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178115 TGTATA TGTATA TGTATA TGTATA TGTATGTA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTA--TA TGTATA TGTATA TGTATA
*
1178165 TGTAT- TGTATA TGTATA TGTATA TGTATA TGTATA TG--TC TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178210 TGTATA TGTATA TGTATA TGTGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA --TGTATA TGTATA TGTATA TGTATA TGTATA
1178260 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTA-A TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178307 TGT-TA TGTATGTA TGTATA TGTATA TGTATA --TATA TGTATA TGTATA
1 TGTATA TGTA--TA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178354 -GTATA TGTATA TGTATA TGTGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA --TGTATA TGTATA TGTATA TGTATA TGTATA
1178403 TGTATA TGTATA TG-ATA TGTATA TGTATA TGT-TA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178449 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
1178497 TGTATA TTTGTATA TGTATA TGTATA TGTCTA TGTATA TGTATA TGTATA
1 TGTATA --TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178547 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTAT- TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178594 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178642 TGTATA TGTATA TGTATATA TGTATA TGTA-A TGTATA TGTATA TGTATA
1 TGTATA TGTATA TG--TATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178691 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTA-A TG--TA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178736 TGTATA TG--TA TGTATA TG--TA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178780 -GTATA TGTATA TGTATA TGTATATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TG--TATA TGTATA TGTATA TGTATA TGTATA
*
1178829 TGTATA -GTATA TGTATA TGTATA TGTGTA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178876 TGTATA TGTATA TGTATA TGTATA -GTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178923 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TG--TA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1178969 TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA -G--TA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179012 TGTATA TGTATA TGTATA TGTATA TGTATA --TATA TGTATA TGTAT-
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179057 TG--TA TGTATA TGTATA TGTATA TGTATA TGTATA TGTAT- TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179102 TGTATA TG-ATA TG-ATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179148 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA --TATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179194 TGT-TA TGTATA TGTATA TG--TA TGTATA TGTATA TGTATATA TGTA-A
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TG--TATA TGTATA
1179240 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TG--TATA TGTATA TGTATA
1179290 TG-ATA TGTATA -GTATA TGTATA TGTATA TGT-TA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179335 TGTATA TGTATA TGTATA TGTATA TGTAT- TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179382 TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA TG--TA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
1179426 TGTA-A TGTATA TG--TA TGTATA TGTATA TGTAGA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179471 TG--TA -GTATA TGTATA TGTATA -GTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179515 TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA TGTATA TGTAT-
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
1179560 TGTATA TGTATA TGTATA TGTATA GGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179608 TGTATA TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
*
1179654 TGTATA TG--TA TGTATA TGTATA T-TGTA TGTATA TG--TA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179697 TGTATA TGTATA TG--TA TGTATA GTGTAT- TGTATA TG--TA TGTATA
1 TGTATA TGTATA TGTATA TGTATA -TGTATA TGTATA TGTATA TGTATA
1179741 TGTATA TGTATA TGTATA TGTATA TGTATA TGTA-A TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179788 TGTATA TGTATA T-T-TA TGTATA TG--TA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179832 TGTATA TGTATA TG-ATA TGTATGTA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTA--TA TGTATA TGTATA TGTATA TGTATA
1179881 TG-ATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179928 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGT-TA TG--TA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1179973 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1180021 TGTATA TGTATA TGTATA TGTATA TG--TA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1180067 TGTATA T
1 TGTATA T
1180074 CCTCTCGTTC
Statistics
Matches: 2775, Mismatches: 24, Indels: 336
0.89 0.01 0.11
Matches are distributed among these distances:
3 6 0.00
4 170 0.06
5 210 0.08
6 2291 0.83
7 8 0.00
8 90 0.03
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:1182205 original size:21 final size:21
Alignment explanation
Indices: 1182181--1182300 Score: 109
Period size: 21 Copynumber: 5.5 Consensus size: 21
1182171 TTTTCAAAAA
* *
1182181 AGTACATTGTTTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
*
1182202 AGTACTTTATGTACTATGGTAAG-
1 AGTACTTTGTGTACT-TGG--AGT
1182225 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
* *
1182246 AATACTTTGTTTACTATGGTAAG-
1 AGTACTTTGTGTACT-TGG--AGT
* *
1182269 AGTGCTTTGCGTACTTGGAGT
1 AGTACTTTGTGTACTTGGAGT
1182290 AGTACTTTGTG
1 AGTACTTTGTG
1182301 CACTATGACA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.05
21 34 0.43
22 12 0.15
23 25 0.32
24 4 0.05
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGGAGT
Found at i:1182244 original size:44 final size:44
Alignment explanation
Indices: 1182181--1182307 Score: 182
Period size: 44 Copynumber: 2.9 Consensus size: 44
1182171 TTTTCAAAAA
* * *
1182181 AGTACATTGTTTACTTGGAGTAGTACTTTATGTACTATGGTAAG
1 AGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGTAAG
* *
1182225 AGTACTTTGTGTACTTGGAGTAATACTTTGTTTACTATGGTAAG
1 AGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGTAAG
* * *
1182269 AGTGCTTTGCGTACTTGGAGTAGTACTTTGTGCACTATG
1 AGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATG
1182308 ACACTATGTG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 73 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (44 bp):
AGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGGTAAG
Found at i:1186103 original size:12 final size:12
Alignment explanation
Indices: 1186086--1186118 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
1186076 TAAAGAAAAA
1186086 ATGAAAAAAATG
1 ATGAAAAAAATG
1186098 ATGAAAAAAATG
1 ATGAAAAAAATG
1186110 ATGAAAAAA
1 ATGAAAAAA
1186119 GAGAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (12 bp):
ATGAAAAAAATG
Found at i:1187739 original size:132 final size:134
Alignment explanation
Indices: 1187367--1187806 Score: 494
Period size: 133 Copynumber: 3.3 Consensus size: 134
1187357 AGATTGTTTG
* * *
1187367 CCTCGATTCAATATTCCCTT-TAGAATAATGGAATGAATCAACGTCCCCAAATCTAATTTTCCCT
1 CCTCGATTCAATCTT-CCTTAAAGAATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCT
* * * ** * ** * *
1187431 TAAGAA-AAGCAGAACATGTCCCTCTCTTTTGAGATTTGATCTTCCCTAAGTAACGGCGGATCAA
65 CAAGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATCTTCCCTGAGTAATAGTGGAACAA
1187495 GTCTA
130 GTCTA
* * * *
1187500 CCTCGATTCAATCTTCCTTGAAGAACAGTGGAATGAATCAGCGTCCCCATATCTAATTTTCCCTC
1 CCTCGATTCAATCTTCCTTAAAGAATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCTC
* *** *
1187565 AAGAAGAAGCATAATGGATCCCTT-TCTTTCAAGATTTTATCTTCCCTGAGTAATAGTGGAACAA
66 AAGAAGAAGCAGAACATAT-CCTTCTCTTTCAAGATTTGATCTTCCCTGAGTAATAGTGGAACAA
*
1187629 GTCTG
130 GTCTA
* * * * * * * *
1187634 CCTTGATTCAATGTTCC-TAAATAATAGTGGAATAAATCAATGT-CCTAGATCTGATTTTCCCTC
1 CCTCGATTCAATCTTCCTTAAAGAATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCTC
* *
1187697 AAGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATCTTCCATGAGTAATAGTAGAACAAG
66 AAGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATCTTCCCTGAGTAATAGTGGAACAAG
1187762 TCTA
131 TCTA
* * * *
1187766 CCTCGATTCAATCTTCCCTGAAGAAAAGTGGAATGAGTCAA
1 CCTCGATTCAATCTTCCTTAAAGAATAGTGGAATGAATCAA
1187807 TATTTCTCGA
Statistics
Matches: 254, Mismatches: 48, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
131 4 0.02
132 92 0.36
133 96 0.38
134 59 0.23
135 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (134 bp):
CCTCGATTCAATCTTCCTTAAAGAATAGTGGAATGAATCAACGTCCCCAAATCTAATTTTCCCTC
AAGAAGAAGCAGAACATATCCTTCTCTTTCAAGATTTGATCTTCCCTGAGTAATAGTGGAACAAG
TCTA
Found at i:1187987 original size:6 final size:6
Alignment explanation
Indices: 1187976--1188105 Score: 145
Period size: 6 Copynumber: 21.7 Consensus size: 6
1187966 TTTTGTCTCG
1187976 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* ** ** * *
1188024 TATTAT TATTAT TATT-T TCGTTAT CGTTAT CGTTAT CATTAT TATTAC
1 TATTAT TATTAT TATTAT T-ATTAT TATTAT TATTAT TATTAT TATTAT
* * * *
1188072 TATTAT CAGTAT TATTAA TATTAT TATTTT TATT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATT
1188106 TTTGTACATG
Statistics
Matches: 109, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
5 2 0.02
6 106 0.97
7 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (6 bp):
TATTAT
Found at i:1187990 original size:9 final size:9
Alignment explanation
Indices: 1187976--1188105 Score: 145
Period size: 9 Copynumber: 14.4 Consensus size: 9
1187966 TTTTGTCTCG
1187976 TATTATTAT
1 TATTATTAT
1187985 TATTATTAT
1 TATTATTAT
1187994 TATTATTAT
1 TATTATTAT
1188003 TATTATTAT
1 TATTATTAT
1188012 TATTATTAT
1 TATTATTAT
1188021 TATTATTAT
1 TATTATTAT
1188030 TATTATTAT
1 TATTATTAT
*
1188039 T-TTCGTTAT
1 TATT-ATTAT
** **
1188048 CGTTATCGT
1 TATTATTAT
*
1188057 TATCATTAT
1 TATTATTAT
*
1188066 TATTACTAT
1 TATTATTAT
* *
1188075 TATCAGTAT
1 TATTATTAT
*
1188084 TATTAATAT
1 TATTATTAT
*
1188093 TATTATTTT
1 TATTATTAT
1188102 TATT
1 TATT
1188106 TTTGTACATG
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
8 2 0.02
9 97 0.96
10 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTATTAT
Found at i:1189785 original size:12 final size:12
Alignment explanation
Indices: 1189770--1189803 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
1189760 TATTTTAATT
*
1189770 TTTGCTTGTTTA
1 TTTGCATGTTTA
1189782 TTTGCATGTTTA
1 TTTGCATGTTTA
1189794 TTTGCATGTT
1 TTTGCATGTT
1189804 AGTTCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.62
Consensus pattern (12 bp):
TTTGCATGTTTA
Found at i:1191358 original size:23 final size:23
Alignment explanation
Indices: 1191327--1191440 Score: 174
Period size: 23 Copynumber: 4.9 Consensus size: 23
1191317 GTCGAGGGTT
1191327 CTATGTGGTCCTTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
* *
1191350 TTATGTGGTCCTTTGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
*
1191373 CCTATGTGGTCCTTCGGGACAAAC
1 -CTATGTGGTCCTTCGGGACAAAA
*
1191397 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAA
*
1191420 CTATGTGGTCCTTCAGGACAA
1 CTATGTGGTCCTTCGGGACAA
1191441 TTATGTGGCA
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
23 64 0.76
24 20 0.24
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:1191402 original size:47 final size:46
Alignment explanation
Indices: 1191327--1191440 Score: 183
Period size: 47 Copynumber: 2.5 Consensus size: 46
1191317 GTCGAGGGTT
* *
1191327 CTATGTGGTCCTTCGGGACAAAATTATGTGGTCCTTTGGGACAAAAC
1 CTATGTGGTCCTTCGGGACAAAACTATGTGGTCCTTCGGGAC-AAAC
*
1191374 CTATGTGGTCCTTCGGGACAAACCTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAACTATGTGGTCCTTCGGGACAAAC
*
1191420 CTATGTGGTCCTTCAGGACAA
1 CTATGTGGTCCTTCGGGACAA
1191441 TTATGTGGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 24 0.38
47 39 0.62
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (46 bp):
CTATGTGGTCCTTCGGGACAAAACTATGTGGTCCTTCGGGACAAAC
Found at i:1193922 original size:16 final size:16
Alignment explanation
Indices: 1193901--1193934 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1193891 TGTTGCTCGA
*
1193901 CTTATTGTTCGTTAAG
1 CTTATTGCTCGTTAAG
1193917 CTTATTGCTCGTTAAG
1 CTTATTGCTCGTTAAG
1193933 CT
1 CT
1193935 CATCGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (16 bp):
CTTATTGCTCGTTAAG
Found at i:1196877 original size:184 final size:184
Alignment explanation
Indices: 1196491--1197050 Score: 899
Period size: 184 Copynumber: 3.0 Consensus size: 184
1196481 AACACACACT
* * *
1196491 TATAAGACACTTTTAACAAGATTATGATATGAAAAAGTACATGAACGCAATACGAATGCACGAAT
1 TATAAGACACCTTTAACAAGATTATGATACGAAAAAGTACATGAACACAATACGAATGCACGAAT
*
1196556 TCCCAAGTCTACTATCAAAGAGGTCCATTGGAACACTGCTAAGCATTTGACATTTGAGTATAGGG
66 TCCCAAGTCTACTATCAAAGAGGTCCATTGGAACACTGCTAAGCATTTGACATTTGA-TATAAGG
1196621 GTAGATGAACCCAGAAAACCTAATCTTAACAAGATCATGTTAAATAATGCTAGTA
130 GTAGATGAACCCAGAAAACCTAATCTTAACAAGATCATGTTAAATAATGCTAGTA
* * *
1196676 TATAAGGCACC-TTAACAAGATTATTATACGAAAAAGTACATGAACACAATACAAATGCACGAAT
1 TATAAGACACCTTTAACAAGATTATGATACGAAAAAGTACATGAACACAATACGAATGCACGAAT
* * * *
1196740 TCCCAAGTCTACTATCAAAGAGATCCATTGGAACACTGCTAAGCGTTTGACATTTGATATATGAG
66 TCCCAAGTCTACTATCAAAGAGGTCCATTGGAACACTGCTAAGCATTTGACATTTGATATAAGGG
*
1196805 TAGATGAACCCCGAAAACCTAATCTTAACAAGATCATGTTAAATAATGCTAGTA
131 TAGATGAACCCAGAAAACCTAATCTTAACAAGATCATGTTAAATAATGCTAGTA
* *
1196859 TATAAGACACCTTTAACAAGATTATGATACGAAAAAGTCCATGAACACAATACGAATGCATGAAT
1 TATAAGACACCTTTAACAAGATTATGATACGAAAAAGTACATGAACACAATACGAATGCACGAAT
*** * *
1196924 TCTTGAGTCTACTATCAAAGAGGTCCATTGGAACACTGTTAAGCATTTGACATTTG-TGTACAGG
66 TCCCAAGTCTACTATCAAAGAGGTCCATTGGAACACTGCTAAGCATTTGACATTTGATATA-AGG
*
1196988 GATAGATGAACCCAGAAAACCTAATCTTAATAAGATCATGTTAAATAATGCTAGTA
130 G-TAGATGAACCCAGAAAACCTAATCTTAACAAGATCATGTTAAATAATGCTAGTA
1197044 TATAAGA
1 TATAAGA
1197051 TCATGCAGAA
Statistics
Matches: 345, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
183 72 0.21
184 205 0.59
185 68 0.20
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (184 bp):
TATAAGACACCTTTAACAAGATTATGATACGAAAAAGTACATGAACACAATACGAATGCACGAAT
TCCCAAGTCTACTATCAAAGAGGTCCATTGGAACACTGCTAAGCATTTGACATTTGATATAAGGG
TAGATGAACCCAGAAAACCTAATCTTAACAAGATCATGTTAAATAATGCTAGTA
Found at i:1197451 original size:18 final size:18
Alignment explanation
Indices: 1197412--1197453 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1197402 CACAGAAGAT
* *
1197412 AATATTGGACATGACATG
1 AATATAGGACATGACATA
1197430 AATATAGGACCATGACA-A
1 AATATAGGA-CATGACATA
1197448 AATATA
1 AATATA
1197454 TATTGAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (18 bp):
AATATAGGACATGACATA
Found at i:1201531 original size:109 final size:107
Alignment explanation
Indices: 1201365--1201564 Score: 269
Period size: 109 Copynumber: 1.9 Consensus size: 107
1201355 CGTCACCTGC
* * * *
1201365 GAGGACCAACTATGTTATTTATCTTTTTTCATGTATGTTATATATTATTGATATATTTTCTGTTT
1 GAGGACCAAATATGTTATTTACCTTTTTTCATGTATGATATATATTATTGATATATTTGCTGTTT
*
1201430 AGTCCCCCATAGTTT-AGCGTGTTTTTCCCTTTGGTCACATAT
66 AGTCCCCC-TAATTTAAGCGTGTTTTTCCCTTTGGTCACATAT
* * *
1201472 GAGGACCAAATATGTTATTTACCCATTTTTT-ATGTATGATATGTAATTATTGGTATATTTGCTT
1 GAGGACCAAATATGTTATTTA-CC-TTTTTTCATGTATGATATAT-ATTATTGATATATTTGCTG
*
1201536 TTTAGTCCTCCTAATTTAAGCGTGTTTTT
63 TTTAGTCCCCCTAATTTAAGCGTGTTTTT
1201565 GCATACTGGT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
107 20 0.25
108 17 0.21
109 43 0.54
ACGTcount: A:0.23, C:0.14, G:0.14, T:0.48
Consensus pattern (107 bp):
GAGGACCAAATATGTTATTTACCTTTTTTCATGTATGATATATATTATTGATATATTTGCTGTTT
AGTCCCCCTAATTTAAGCGTGTTTTTCCCTTTGGTCACATAT
Found at i:1213070 original size:18 final size:19
Alignment explanation
Indices: 1213049--1213087 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1213039 TATTATGCTT
1213049 AAAA-GAAAAA-GATAAAAA
1 AAAATGAAAAATGA-AAAAA
1213067 AAAATGAAAAATGAAAAAA
1 AAAATGAAAAATGAAAAAA
1213086 AA
1 AA
1213088 GGAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 13 0.68
20 2 0.11
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (19 bp):
AAAATGAAAAATGAAAAAA
Found at i:1213094 original size:18 final size:17
Alignment explanation
Indices: 1213049--1213095 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
1213039 TATTATGCTT
1213049 AAAAGAAAAAGATAAAAA
1 AAAAGAAAAA-ATAAAAA
1213067 AAAATG-AAAAATGAAAAA
1 AAAA-GAAAAAAT-AAAAA
*
1213085 AAAGGAAAAAA
1 AAAAGAAAAAA
1213096 ACGAAAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 21 0.84
19 1 0.04
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAAATAAAAA
Found at i:1215095 original size:3 final size:3
Alignment explanation
Indices: 1215040--1215075 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
1215030 TTTTCAACCC
1215040 ATT ATT ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1215076 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1216246 original size:109 final size:109
Alignment explanation
Indices: 1216022--1216250 Score: 282
Period size: 109 Copynumber: 2.1 Consensus size: 109
1216012 AAGTTAACCA
* * * *
1216022 TGTTTTTGCATTTTGGTCACCTACGAGGACCAAATATGTTATTTACCCTTTTTTCATATATGATA
1 TGTTTTTGCACTTTGGTCACATACGAGGACCAAATATGTTATTTACCCCTTTTTCATACATGATA
* * * *
1216087 TATATTGTTGGTATATTTTCTGTTTAGTCTCACATAGTTTAGCT
66 TATATTATTGGTATATTTGCTGTTTAGTCTCACATAATTTAGCC
** * *
1216131 TGTTTTTGCACTTTGGTCACATGTGAGGACCAAATATGTTATTTACCCCTTTTTCATGCGTGATA
1 TGTTTTTGCACTTTGGTCACATACGAGGACCAAATATGTTATTTACCCCTTTTTCATACATGATA
* *
1216196 -AGTAATTATTGGTATATTTGCTTTTTAGTC-CTCATAATTTAAGCC
66 TA-T-ATTATTGGTATATTTGCTGTTTAGTCTCACATAATTT-AGCC
*
1216241 TTTTTTTGCA
1 TGTTTTTGCA
1216251 TTATGGTTAC
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
108 1 0.01
109 66 0.65
110 35 0.34
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (109 bp):
TGTTTTTGCACTTTGGTCACATACGAGGACCAAATATGTTATTTACCCCTTTTTCATACATGATA
TATATTATTGGTATATTTGCTGTTTAGTCTCACATAATTTAGCC
Found at i:1216326 original size:21 final size:21
Alignment explanation
Indices: 1216277--1216332 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
1216267 TGATTATTTA
*
1216277 ATTTTATTTTA-ATTTTTTTGG
1 ATTTTATTTTATA-TTTTTTGC
*
1216298 A-TTAATTTTATATTTTTTGC
1 ATTTTATTTTATATTTTTTGC
*
1216318 ATTTTATTTAATATT
1 ATTTTATTTTATATT
1216333 GTATTTTAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
ATTTTATTTTATATTTTTTGC
Found at i:1216659 original size:108 final size:108
Alignment explanation
Indices: 1216528--1216752 Score: 432
Period size: 108 Copynumber: 2.1 Consensus size: 108
1216518 ATCTAGTCCC
*
1216528 TTATATTTAATTTGTTAGTTCTTTATTAAAATTTGTGTTTGTTTGTTTATTTCTTTTAGTGTTTA
1 TTATATTTAATTTGTTAGATCTTTATTAAAATTTGTGTTTGTTTGTTTATTTCTTTTAGTGTTTA
1216593 ATTTATTTATTGTTTGTTTGATATTTCAAAATGCATGGTTACT
66 ATTTATTTATTGTTTGTTTGATATTTCAAAATGCATGGTTACT
1216636 TTATATTTAATTTGTTAGATCTTTATTAAAATTTGTGTTTGTTTGTTTATTTCTTTTAGTGTTTA
1 TTATATTTAATTTGTTAGATCTTTATTAAAATTTGTGTTTGTTTGTTTATTTCTTTTAGTGTTTA
*
1216701 ATTTATTTATTGTTTGTTTGATATTTCCAAATGCATGGTTACT
66 ATTTATTTATTGTTTGTTTGATATTTCAAAATGCATGGTTACT
1216744 TTATATTTA
1 TTATATTTA
1216753 TGTTTATTTG
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 115 1.00
ACGTcount: A:0.23, C:0.05, G:0.12, T:0.60
Consensus pattern (108 bp):
TTATATTTAATTTGTTAGATCTTTATTAAAATTTGTGTTTGTTTGTTTATTTCTTTTAGTGTTTA
ATTTATTTATTGTTTGTTTGATATTTCAAAATGCATGGTTACT
Found at i:1220108 original size:15 final size:16
Alignment explanation
Indices: 1220083--1220112 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1220073 ATTTTTATTT
1220083 AATAGAAAAAATAAAA
1 AATAGAAAAAATAAAA
1220099 AATA-AAAAAATAAA
1 AATAGAAAAAATAAA
1220113 TATTATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AATAGAAAAAATAAAA
Found at i:1220276 original size:26 final size:28
Alignment explanation
Indices: 1220246--1220307 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
1220236 TAAAAAATAA
*
1220246 TAAAATTAGTAATTAAA-T-GAA-AGTAT
1 TAAAATTAGTAACTAAATTAGAACA-TAT
*
1220272 TAAAATTAGTGACTAAATTAGAACATAT
1 TAAAATTAGTAACTAAATTAGAACATAT
1220300 TAAAATTA
1 TAAAATTA
1220308 AATATCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 15 0.48
27 1 0.03
28 14 0.45
29 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (28 bp):
TAAAATTAGTAACTAAATTAGAACATAT
Found at i:1221730 original size:3 final size:3
Alignment explanation
Indices: 1221722--1221836 Score: 98
Period size: 3 Copynumber: 39.7 Consensus size: 3
1221712 GAAATTTAAA
* * *
1221722 AAT AAT AAT ATT AAT AAT AAT AAT AAT ATT AAT AAAT AAT -GT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
* * *
1221767 -AT AAT AAT AA- AAT AAA AAT AAT AGT -AT AAAT AA- AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* *
1221809 AAT AAT AAT -AT AAT AAT ATT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1221837 ATGGATAAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
2 10 0.11
3 73 0.83
4 5 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:1221802 original size:23 final size:22
Alignment explanation
Indices: 1221718--1221836 Score: 81
Period size: 23 Copynumber: 5.4 Consensus size: 22
1221708 GCCTGAAATT
1221718 TAAAAATAATAATAT--T--AA
1 TAAAAATAATAATATAATAAAA
*
1221736 TAATAATAATAATATTAAT-AAA
1 TAAAAATAATAATA-TAATAAAA
**
1221758 T-AATGTAAT-ATAATAATAAAA
1 TAAAAATAATAAT-ATAATAAAA
*
1221779 TAAAAATAATAGTATAAATAAAA
1 TAAAAATAATAATAT-AATAAAA
*
1221802 TAATATTAATAATAATATAATAATAT
1 TAA-A--AATAATAATATAATAA-AA
1221828 TAAAAATAA
1 TAAAAATAA
1221837 ATGGATAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
18 13 0.16
19 1 0.01
20 6 0.08
21 11 0.14
22 11 0.14
23 16 0.20
24 1 0.01
25 6 0.08
26 14 0.18
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAAATAATAATATAATAAAA
Found at i:1221844 original size:20 final size:20
Alignment explanation
Indices: 1221723--1221836 Score: 91
Period size: 20 Copynumber: 6.0 Consensus size: 20
1221713 AAATTTAAAA
*
1221723 ATAATAATATTAATAAT-A-
1 ATAATAATATTAAAAATAAT
1221741 ATAATAATATTAATAAATAAT
1 ATAATAATATTAA-AAATAAT
* *
1221762 GTAAT-ATAATAATAAAATAA-
1 ATAATAAT-ATTA-AAAATAAT
* *
1221782 A-AATAATAGTATAAAT-A-
1 ATAATAATATTAAAAATAAT
*
1221799 A-AATAATATTAATAATAAT
1 ATAATAATATTAAAAATAAT
1221818 ATAATAATATTAAAAATAA
1 ATAATAATATTAAAAATAA
1221837 ATGGATAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
17 14 0.18
18 18 0.24
19 9 0.12
20 21 0.28
21 13 0.17
22 1 0.01
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
ATAATAATATTAAAAATAAT
Found at i:1222122 original size:22 final size:23
Alignment explanation
Indices: 1222074--1222123 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1222064 GTTGAACAAA
1222074 TTCTTCTCTTTCAGATGAACTTC
1 TTCTTCTCTTTCAGATGAACTTC
* *
1222097 TTCTTCTTTTTCAGATG-AGTTC
1 TTCTTCTCTTTCAGATGAACTTC
1222119 TTCTT
1 TTCTT
1222124 ATTATGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.14, C:0.22, G:0.10, T:0.54
Consensus pattern (23 bp):
TTCTTCTCTTTCAGATGAACTTC
Found at i:1222259 original size:19 final size:20
Alignment explanation
Indices: 1222215--1222261 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1222205 GTTGAACAAA
*
1222215 TTCTTCTCTTTCAGATGAAC
1 TTCTTCTTTTTCAGATGAAC
*
1222235 TTCTTCTTTTTCAGATG-AG
1 TTCTTCTTTTTCAGATGAAC
1222254 TTCTTCTT
1 TTCTTCTT
1222262 ATTTTGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.15, C:0.21, G:0.11, T:0.53
Consensus pattern (20 bp):
TTCTTCTTTTTCAGATGAAC
Found at i:1222526 original size:114 final size:113
Alignment explanation
Indices: 1222308--1222655 Score: 472
Period size: 113 Copynumber: 3.1 Consensus size: 113
1222298 ATCTCCTTCT
* *
1222308 GTGATAGAA-TCAAAC-AAAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTT-CATCTTCA
1 GTGAT-GAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
* * *
1222370 GATAAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGTTGATCCATCGA
65 GATAAGTTCTTCTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCGA
1222419 GTGATGAATTCAAACAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
1 GTGATGAATTCAAACAAAAGG-TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
* * *
1222484 GATGAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCAA
65 GATAAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCGA
* * * * * *
1222533 GTGATGAATTCGAGCAAAAGGTTGAACAATTTCTTCTCATTATGAACTTATTCTTCCTTTTTCAG
1 GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
* * *
1222598 ATAAGTTATTCTCATTATGAACTCTATCTGGC-ATGTTGATCCATTGA
66 ATAAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCGA
*
1222645 GTGATGGATTC
1 GTGATGAATTC
1222656 GAATCTTTAT
Statistics
Matches: 211, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
110 3 0.01
111 11 0.05
112 27 0.13
113 102 0.48
114 66 0.31
115 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
GTGATGAATTCAAACAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
ATAAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATCCATCGA
Found at i:1232692 original size:15 final size:15
Alignment explanation
Indices: 1232672--1232703 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1232662 TGCAATGAAT
1232672 AATGAATGTATGCAA
1 AATGAATGTATGCAA
1232687 AATGAATGTATGCAA
1 AATGAATGTATGCAA
1232702 AA
1 AA
1232704 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Done.