Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 39
Found at i:4387628 original size:117 final size:118
Alignment explanation
Indices: 4387485--4387714 Score: 347
Period size: 117 Copynumber: 2.0 Consensus size: 118
4387475 ATAAATGTTG
* * * *
4387485 ATGTAATTATGTATGAGATGATAAAAGTTAACAATAGGTTGTTGTACATGTTTCTTATACAT-GT
1 ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGGGTGTTCTACATGTTTCTTATACATAAT
* *
4387549 TG-ATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTATCTGA
66 AGTA-GTAATTATGTATGAGATGAGAAAAGATAGCAATAGATTGTTGTATCTGA
* * *
4387602 ATGTAATTATGTGTGAGATGAGAAAAGTTAGCAGTAGGGTGTTCTACATGTTTCTTATACATAAT
1 ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGGGTGTTCTACATGTTTCTTATACATAAT
*
4387667 AGTAGTAATTATGTATGAGATGAGAAAAGATAGCAATAGGTTGTTGTA
66 AGTAGTAATTATGTATGAGATGAGAAAAGATAGCAATAGATTGTTGTA
4387715 CATGTTTATT
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
117 56 0.55
118 44 0.44
119 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (118 bp):
ATGTAATTATGTATGAGATGAGAAAAGTTAACAATAGGGTGTTCTACATGTTTCTTATACATAAT
AGTAGTAATTATGTATGAGATGAGAAAAGATAGCAATAGATTGTTGTATCTGA
Found at i:4388197 original size:179 final size:180
Alignment explanation
Indices: 4387965--4388314 Score: 499
Period size: 180 Copynumber: 1.9 Consensus size: 180
4387955 AAATATATCA
* * *
4387965 GTTTTATGAGAAAATAGGTCAACATAATGTATCAATATTTTTATAAATTGTGTCGATACTTTTTG
1 GTTTAATGAGAAAATAGGTCAACATAATGTATCAACATTTTGATAAATTGTGTCGATACTTTTTG
* * ***
4388030 TCTAGAATGAATG-TCAAACGAAATGCACGCATAAAGTGTCGATACATTTATTGTAAGTATCGAT
66 TCCAGAATGAATGCCCAAACGAAATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* *
4388094 CCTC-AAAACATCGAAACCGATTATTATAAAGTAATAGGTAAAATATACTT
131 CC-CAAAAACATCGAAACCCATAATTATAAAGTAATAGGTAAAATATACTT
* * ** *
4388144 GTTTAATGAGAGAATAGGTCTACATAATGTATTGACACTTTTGA-AATTTGTGTCGATACTTTTT
1 GTTTAATGAGAAAATAGGTCAACATAATGTATCAACA-TTTTGATAAATTGTGTCGATACTTTTT
* *
4388208 GTCCAGAATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATTGA
65 GTCCAGAATGAATGCCCAAACGAAATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGA
*
4388273 TCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAA
130 TCCCAAAAACATCGAAACCCATAATTATAAAGTAATAGGTAA
4388315 TTTTGCAATG
Statistics
Matches: 150, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
179 64 0.43
180 86 0.57
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (180 bp):
GTTTAATGAGAAAATAGGTCAACATAATGTATCAACATTTTGATAAATTGTGTCGATACTTTTTG
TCCAGAATGAATGCCCAAACGAAATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
CCCAAAAACATCGAAACCCATAATTATAAAGTAATAGGTAAAATATACTT
Found at i:4388701 original size:200 final size:199
Alignment explanation
Indices: 4388130--4389203 Score: 1397
Period size: 200 Copynumber: 5.4 Consensus size: 199
4388120 TAAAGTAATA
** * * * * *
4388130 GGTA-AAATATACTTGTTTAATGAGAGAATAGGTCTACATAATGTATTGACACTTTTGAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTGAAATTTG
* *
4388194 TGTCGATACTTTTTGTCCAGAATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGATACATTT
66 TGTCGATACTTTTTGTCCAGAATGAAT-CCCAAACTAGGTGCACGCATAAAGTGTCGATACATTT
* * *
4388259 ATAAAAAGTATTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
130 A-AAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTACAAT
4388324 GTAACC
194 GTAACC
* *
4388330 GGTATAAATATATCGGTTTAATTAGAAATCAGGTCAACATAATGTATCGACAC--TT-AAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTGAAATTTG
* * * * **
4388392 TGTTGATACATTTTGTCCAGAATAAATGCCAAACTAGGTGCACTTATAAAGTGTCGATACATTTA
66 TGTCGATACTTTTTGTCCAGAATGAATCCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTA
* * * * *
4388457 AAATTGTATCGATTCCAAAAATATCGAAACCCATAATTATAATGTAATATGTAACTTTACAATGT
131 AAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTACAATGT
4388522 AACC
196 AACC
* * * * * * * *
4388526 GGTATAAATACACCGGTTTTATGAGAGAATAAGTCTATATAATGTATCGACACTTTTGAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTGAAATTTG
* * *
4388591 TGTCGAAACTTTTTGTCCAGAATGAATACCCAAACGAGGTGCACACATAAAGTGTCGATACATTT
66 TGTCGATACTTTTTGTCCAGAATGAAT-CCCAAACTAGGTGCACGCATAAAGTGTCGATACATTT
* *
4388656 ATAAAAAGTATCGATCCCAAAAA-ATCGAAACTCATAATTATAATGTAATAGGTAATTTTGA-AA
130 A-AAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTT-ACAA
*
4388719 TATAACC
193 TGTAACC
* * *
4388726 GATATAAATATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTGAAATTTG
* ** *
4388791 TGTTGATACATTTTT-TCCAGAATGAATGTCAAACTAGGTGCACGCATAAAGTGTCTATACATTT
66 TGTCGATAC-TTTTTGTCCAGAATGAATCCCAAACTAGGTGCACGCATAAAGTGTCGATACATTT
* **
4388855 AAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATG
130 AAAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTACAATG
4388920 TAACC
195 TAACC
* * * *
4388925 GGTAAAAATATACCGGTTTAGTTAGAAAACATGTCAACATAATGTATCGACACTTTTAAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTGAAATTTG
* *** * *
4388990 TGTCGATACTTGTTGTCCAGAAATGAATGATAGACTAGCTGCACGCATAAAGTGTCGATACATTT
66 TGTCGATACTTTTTGTCCAG-AATGAATCCCAAACTAGGTGCACGCATAAAGTGTCGATACATTT
* * *
4389055 AATAATTTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTCCAATG
130 AAAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTACAATG
*
4389120 TAACT
195 TAACC
* * * * * * * *
4389125 AGTATAAATATACTGGGTTAATTAGAAAACATGTCAACATAATGCATCGACACTTTTTAAGTTTC
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTGAAATTTG
4389190 TGTCGATACTTTTT
66 TGTCGATACTTTTT
4389204 TTAAATTACG
Statistics
Matches: 760, Mismatches: 102, Indels: 24
0.86 0.12 0.03
Matches are distributed among these distances:
196 104 0.14
197 33 0.04
198 56 0.07
199 180 0.24
200 324 0.43
201 63 0.08
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTGAAATTTG
TGTCGATACTTTTTGTCCAGAATGAATCCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTA
AAAATGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTACAATGT
AACC
Found at i:4388922 original size:399 final size:400
Alignment explanation
Indices: 4388144--4389205 Score: 1550
Period size: 399 Copynumber: 2.7 Consensus size: 400
4388134 AAATATACTT
* * *
4388144 GTTTAATGAGAGAATAGGTCTACATAATGTATTGACACTTTTGAAATTTGTGTCGATACTTTTTG
1 GTTTTATGAGAGAATAAGTCTACATAATGTATCGACACTTTTGAAATTTGTGTCGATACTTTTTG
* *
4388209 TCCAGAATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATTGAT
66 TCCAGAATGAATACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
*
4388274 CCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGGTATAAAT
131 CCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGATATAAAT
*
4388339 ATATCGGTTTAATTAGAAATCAGGTCAACATAATGTATCGACAC---TTAAATTTGTGTTGATAC
196 ATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
* **
4388401 ATTTTGTCCAGAATAAATGCCAAACTAGGTGCACTTATAAAGTGTCGATACATTTAAAATTGTAT
261 ATTTTTTCCAGAATAAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTAT
* * * *
4388466 CGATTCCAAAAATATCGAAACCCATAATTATAATGTAATATGTAACTTTACAATGTAACCGGTAT
326 CGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAA
4388531 AAATACACCG
391 AAATACACCG
* *
4388541 GTTTTATGAGAGAATAAGTCTATATAATGTATCGACACTTTTGAAATTTGTGTCGAAACTTTTTG
1 GTTTTATGAGAGAATAAGTCTACATAATGTATCGACACTTTTGAAATTTGTGTCGATACTTTTTG
* *
4388606 TCCAGAATGAATACCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAAAAGTATCGAT
66 TCCAGAATGAATACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * *
4388671 CCCAAAAA-ATCGAAACTCATAATTATAATGTAATAGGTAATTTTGAAATATAACCGATATAAAT
131 CCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGATATAAAT
4388735 ATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
196 ATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
* * *
4388800 ATTTTTTCCAGAATGAATGTCAAACTAGGTGCACGCATAAAGTGTCTATACATTTAAAATTGTAT
261 ATTTTTTCCAGAATAAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTAT
* **
4388865 CGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATGTAACCGGTAA
326 CGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAA
*
4388930 AAATATACCG
391 AAATACACCG
* * * * * * *
4388940 G-TTTAGTTAGAAAACATGTCAACATAATGTATCGACACTTTTAAAATTTGTGTCGATACTTGTT
1 GTTTTA-TGAGAGAATAAGTCTACATAATGTATCGACACTTTTGAAATTTGTGTCGATACTTTTT
* * * * * **
4389004 GTCCAGAAATGAATGA--TAGACTAGCTGCACGCATAAAGTGTCGATACATTTA-ATAATTTATC
65 GTCCAG-AATGAAT-ACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATC
* *
4389066 GATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTCCAATGTAA-CTAGTAT
128 GATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGA-TAT
* * * * * *
4389130 AAATATA-CTGGGTTAATTAGAAAACATGTCAACATAATGCATCGACACTTTTTAAGTTTCTGTC
192 AAATATATC-GGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTT
*
4389194 GATACTTTTTTT
256 GATACATTTTTT
4389206 AAATTACGCT
Statistics
Matches: 599, Mismatches: 57, Indels: 16
0.89 0.08 0.02
Matches are distributed among these distances:
396 95 0.16
397 129 0.22
398 25 0.04
399 342 0.57
400 7 0.01
401 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (400 bp):
GTTTTATGAGAGAATAAGTCTACATAATGTATCGACACTTTTGAAATTTGTGTCGATACTTTTTG
TCCAGAATGAATACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
CCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGATATAAAT
ATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
ATTTTTTCCAGAATAAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTAT
CGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAA
AAATACACCG
Found at i:4389533 original size:15 final size:15
Alignment explanation
Indices: 4389513--4389558 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
4389503 TTCTAAAAGA
*
4389513 TCTTCTCAACCAAGC
1 TCTTCTCAACCAACC
4389528 TCTTCTCAACCACAACC
1 TCTTCTCAA-C-CAACC
4389545 TCCTTCTCAACCAA
1 T-CTTCTCAACCAA
4389559 TCGCTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.33
16 4 0.15
17 6 0.22
18 8 0.30
ACGTcount: A:0.28, C:0.43, G:0.02, T:0.26
Consensus pattern (15 bp):
TCTTCTCAACCAACC
Found at i:4389568 original size:18 final size:17
Alignment explanation
Indices: 4389513--4389568 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
4389503 TTCTAAAAGA
4389513 TCTTCTCAACCAA-GC-
1 TCTTCTCAACCAACGCT
4389528 TCTTCTCAACCACAAC-CT
1 TCTTCTCAA-C-CAACGCT
*
4389546 CCTTCTCAACCAATCGCT
1 TCTTCTCAACCAA-CGCT
4389564 TCTTC
1 TCTTC
4389569 AGAGCAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
15 9 0.27
16 4 0.12
17 6 0.18
18 14 0.42
ACGTcount: A:0.23, C:0.43, G:0.04, T:0.30
Consensus pattern (17 bp):
TCTTCTCAACCAACGCT
Found at i:4394040 original size:198 final size:198
Alignment explanation
Indices: 4393674--4395035 Score: 1724
Period size: 198 Copynumber: 6.8 Consensus size: 198
4393664 TAATAGGCAA
* * *
4393674 ATAAATGTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
1 ATAAA-GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAA
* * * * * ** * * *
4393738 TTTAATAGGTAAATTTACAATGTAACAGGTAGATATATAATAGTTTTATAAGAAAATAAGTCTAC
63 TGTAATATGTAACTTTACAATGTAACCGGTAGAAATAT-ACCGATTTATGAGAAAATAGGTCTAC
* * * *
4393803 ATAATGTATCAACACTTTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGG
127 ATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGG
4393868 TGCACGC
192 TGCACGC
* * * *
4393875 ATAAAGTATTGATGCATTTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
* * * *
4393940 AATATGTAACTTTACAATGCAACCGGTAGAAATATACCGATTAATTAGAAAATAGGTCAACATAA
66 AATATGTAACTTTACAATGTAACCGGTAGAAATATACCGATTTATGAGAAAATAGGTCTACATAA
* * * *
4394005 TGTATCGACACTTTTAAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGAA
131 TGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGGTGCA
4394070 CGC
196 CGC
* * *
4394073 ATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
* ** * * *
4394138 AATGTGTAACTTTACAATGTAACCAATATAAATACACCGATTTTATGAGAAAATAGGTCAACATA
66 AATATGTAACTTTACAATGTAACCGGTAGAAATATACCGA-TTTATGAGAAAATAGGTCTACATA
* * * * * * *
4394203 ATGTATCGACACTTTTTAATTTTTTGTTGATGCTTTTTGTCTAGAATGAATGACAAACTAGGTGT
130 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGGTGC
*
4394268 ATGC
195 ACGC
* * *
4394272 ATAAAGTGTCTATACATTTAAAATTGTATCGATCCCCAAAA-ATCAAAACTCATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
* * * * * *
4394336 AATATGTAACTTTACAATATAACTGGTATAAACACACCGATTTTATGAGAAAAAAGGTCTACATA
66 AATATGTAACTTTACAATGTAACCGGTAGAAATATACCGA-TTTATGAGAAAATAGGTCTACATA
* * * *
4394401 ATGTATCAACACTTTTTAATTTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACTAGGTGC
130 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGGTGC
4394466 ACGC
195 ACGC
* * *
4394470 ATAAAGTGTCGATACATTTAAAATTTTATTGATCCCAAAAACATCGAAACCCATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
* * * * * * *
4394535 AATATGTAACTTTACAGTATAACTGGTATAAACACACCGGTTTTATGAGAAAATAGGTCTACATA
66 AATATGTAACTTTACAATGTAACCGGTAGAAATATACC-GATTTATGAGAAAATAGGTCTACATA
* * * * *
4394600 ATGTATCAACAC-TTTTAATTTTGTGTCGATACTTTTTGTCTAGAATGAATGATAAACTAGGTGC
130 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGGTGC
4394664 ACGC
195 ACGC
* *
4394668 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAATATCCAAACCCATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
* *
4394733 AATATGTAACTTTACAATATAACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATA
66 AATATGTAACTTTACAATGTAACCGGTAGAAATATACC-GATTTATGAGAAAATAGGTCTACATA
* * *
4394798 ATGTATCGACACTTTTTAAATTTGTGTCGCTACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGC
130 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGGTGC
*
4394863 ATGC
195 ACGC
* * * *
4394867 ATAAAGTGTCAATGCATTTATTAAATT-TATTGATCCCAAAGACATCAAAACCCATAATTATAAT
1 ATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAAT
* * * * * * * *
4394931 ATAATAGGTAAATTTACAATGTAACCGGTAGAAAAATACCGATATAATTAGAAAATATGTCAACA
64 GTAATATGTAACTTTACAATGTAACCGGTAGAAATATACCGAT-TTATGAGAAAATAGGTCTACA
* * *
4394996 TAATGTATCGTCACTTTTTAAATTTGTATCGATATTTTTT
128 TAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTT
4395036 TAAATTACAC
Statistics
Matches: 1032, Mismatches: 121, Indels: 17
0.88 0.10 0.01
Matches are distributed among these distances:
198 541 0.52
199 347 0.34
200 134 0.13
201 10 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (198 bp):
ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
AATATGTAACTTTACAATGTAACCGGTAGAAATATACCGATTTATGAGAAAATAGGTCTACATAA
TGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACGAGGTGCA
CGC
Found at i:4394434 original size:397 final size:397
Alignment explanation
Indices: 4393701--4395035 Score: 1761
Period size: 397 Copynumber: 3.4 Consensus size: 397
4393691 TTTATTAAAA
* *
4393701 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATTTAATAGGTAAATTTACAATGTAA-CA
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCA
* * ** * * * * *
4393765 GGTAGATATATA-ATAG-TTTTATAAGAAAATAAGTCTACATAATGTATCAACACTTTATAAATT
66 ---ATATAAATACACCGATTTTATGAGAAAATAGGTCAACATAATGTATCAACACTTTTTAATTT
* * * * * *
4393828 TGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTAT-TGATGCAT
128 TGTGTCGATACTTTTTGTCTAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCT-ATACAT
4393892 TTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGTAATATGTAACTTTACAA
192 TTAAAATTGTATCGATCCCAAAAACATCAAAACC-ATAATTATAATGTAATATGTAACTTTACAA
** * * * *
4393957 TGCAACCGGTAGAAATATACCGA-TTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTA
256 TATAACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTT
*
4394021 AAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGAACGCATAAAGTGTCAAT
321 AAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCATAAAGTGTCAAT
4394086 ACATATAAAATT
386 ACATATAAAATT
*
4394098 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT-GTGTAACTTTACAATGTAACC
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG-GTAAATTTACAATGTAACC
* *
4394162 AATATAAATACACCGATTTTATGAGAAAATAGGTCAACATAATGTATCGACACTTTTTAATTTTT
65 AATATAAATACACCGATTTTATGAGAAAATAGGTCAACATAATGTATCAACACTTTTTAATTTTG
* * * *
4394227 TGTTGATGCTTTTTGTCTAGAATGAATGACAAACTAGGTGTATGCATAAAGTGTCTATACATTTA
130 TGTCGATACTTTTTGTCTAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCTATACATTTA
*
4394292 AAATTGTATCGATCCCCAAAA-ATCAAAACTCATAATTATAATGTAATATGTAACTTTACAATAT
195 AAATTGTATCGATCCCAAAAACATCAAAAC-CATAATTATAATGTAATATGTAACTTTACAATAT
* * * * * * *
4394356 AACTGGTATAAACACACCGATTTTATGAGAAAAAAGGTCTACATAATGTATCAACACTTTTTAAT
259 AACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAA
* * * * *
4394421 TTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACA
324 TTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCATAAAGTGTCAATACA
*
4394486 TTTAAAATT
389 TATAAAATT
* * * * * * **
4394495 TTATTGATCCCAAAAACATCGAAACCCATAATTATAATGTAATATGTAACTTTACAGTATAACTG
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCA
* * * *
4394560 GTATAAACACACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCAACAC-TTTTAATTTTGT
66 ATATAAATACACCGATTTTATGAGAAAATAGGTCAACATAATGTATCAACACTTTTTAATTTTGT
* *
4394624 GTCGATACTTTTTGTCTAGAATGAATGATAAACTAGGTGCACGCATAAAGTGTCGATACATTTAA
131 GTCGATACTTTTTGTCTAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCTATACATTTAA
* *
4394689 AATTGTATCGATCCCAAAAATATCCAAACCCATAATTATAATGTAATATGTAACTTTACAATATA
196 AATTGTATCGATCCCAAAAACAT-CAAAACCATAATTATAATGTAATATGTAACTTTACAATATA
*
4394754 ACCGGTAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAT
260 ACCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAT
* * *
4394819 TTGTGTCGCTACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCATGCATAAAGTGTCAATGCAT
325 TTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCATAAAGTGTCAATACA-
*
4394884 TTATTAAATT
389 -TATAAAATT
* * * * *
4394894 -TATTGATCCCAAAGACATCAAAACCCATAATTATAATATAATAGGTAAATTTACAATGTAACCG
1 GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCA
* * * * * * * * ** *
4394958 GTAGAAAAATACCGATATAATTAGAAAATATGTCAACATAATGTATCGTCACTTTTTAAATTTGT
66 ATATAAATACACCGATTTTATGAGAAAATAGGTCAACATAATGTATCAACACTTTTTAATTTTGT
* *
4395023 ATCGATATTTTTT
131 GTCGATACTTTTT
4395036 TAAATTACAC
Statistics
Matches: 819, Mismatches: 106, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
395 7 0.01
396 147 0.18
397 531 0.65
398 105 0.13
399 29 0.04
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (397 bp):
GTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAATTTACAATGTAACCA
ATATAAATACACCGATTTTATGAGAAAATAGGTCAACATAATGTATCAACACTTTTTAATTTTGT
GTCGATACTTTTTGTCTAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCTATACATTTAA
AATTGTATCGATCCCAAAAACATCAAAACCATAATTATAATGTAATATGTAACTTTACAATATAA
CCGGTAGAAATATACCGATTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATT
TGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAACGAGGTGCACGCATAAAGTGTCAATACATA
TAAAATT
Found at i:4394869 original size:595 final size:594
Alignment explanation
Indices: 4393674--4395035 Score: 1784
Period size: 595 Copynumber: 2.3 Consensus size: 594
4393664 TAATAGGCAA
* * * *
4393674 ATAAATGTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
1 ATAAA-GTGTCAATACATTTA-TAAATTGTATCGATCCCCAAAACATCAAAACC-ATAATTATAA
* * * **
4393738 TTTAATAGGTAAATTTACAATGTAACAGGTAGATATATAATAG-TTTTATAAGAAAATAAGTCTA
63 TATAATAGGTAAATTTACAATGTAACAGGT--ATAAAAAACCGATTTTATAAGAAAA-AAGTCTA
* * * *
4393802 CATAATGTATCAACACTTTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGAG
125 CATAATGTATCAACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACGAG
* * *
4393867 GTGCACGCATAAAGTATTGATGCATTTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAAT
190 GTGCACGCATAAAGTATCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAAT
* * * *
4393932 TATAATGTAATATGTAACTTTACAATGCAACCGGTAGAAATATACCGATTAATTAGAAAATAGGT
255 TATAATGTAATATGTAACTTTACAATACAACCGGTAGAAACACACCGATTAATGAGAAAATAGGT
* *
4393997 CAACATAATGTATCGACACTTTTAAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGCCAAAC
320 CAACATAATGTATCAACACTTTTAAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGACAAAC
*
4394062 GAGGTGAACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCGAAACCCAT
385 GAGGTGAACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCCAAACCCAT
* * *
4394127 AATTATAATGTAATGTGTAACTTTACAATGTAACCAATATAAATACACCGATTTTATGAGAAAAT
450 AATTATAATGTAATATGTAACTTTACAATATAACCAATAGAAATACACCGATTTTATGAGAAAAT
* * * * * *
4394192 AGGTCAACATAATGTATCGACACTTTTTAATTTTTTGTTGATGCTTTTTGTCTAGAATGAATGAC
515 AGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGAC
* *
4394257 AAACTAGGTGTATGC
580 AAACGAGGTGCATGC
* *
4394272 ATAAAGTGTCTATACATTTA-AAATTGTATCGATCCCCAAAA-ATCAAAACTCATAATTATAATG
1 ATAAAGTGTCAATACATTTATAAATTGTATCGATCCCCAAAACATCAAAAC-CATAATTATAATA
* * * * * *
4394335 TAATATGTAACTTTACAATATAACTGGTATAAACACACCGATTTTATGAGAAAAAAGGTCTACAT
65 TAATAGGTAAATTTACAATGTAACAGGTATAAA-AAACCGATTTTATAAGAAAAAA-GTCTACAT
* *
4394400 AATGTATCAACACTTTTTAATTTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACTAGGTG
128 AATGTATCAACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACGAGGTG
* * * *
4394465 CACGCATAAAGTGTCGATACATTTAAAATTTTATTGATCCCAAAAACATCGAAACCCATAATTAT
193 CACGCATAAAGTATCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTAT
* * * * * * *
4394530 AATGTAATATGTAACTTTACAGTATAACTGGTATAAACACACCGGTTTTATGAGAAAATAGGTCT
258 AATGTAATATGTAACTTTACAATACAACCGGTAGAAACACACC-GATTAATGAGAAAATAGGTCA
* * * * *
4394595 ACATAATGTATCAACACTTTT-AATTTTGTGTCGATACTTTTTGTCTAGAATGAATGATAAACTA
322 ACATAATGTATCAACACTTTTAAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGACAAACGA
* * * *
4394659 GGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAATATCCAAACCCATAA
387 GGTGAACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCCAAACCCATAA
** * *
4394724 TTATAATGTAATATGTAACTTTACAATATAACCGGTAGAAATATACCGGTTTTATGAGAAAATAG
452 TTATAATGTAATATGTAACTTTACAATATAACCAATAGAAATACACCGATTTTATGAGAAAATAG
* * *
4394789 GTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGCTACTTTTTGTCCAGAATGAAAGCCAA
517 GTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGACAA
4394854 ACGAGGTGCATGC
582 ACGAGGTGCATGC
* *
4394867 ATAAAGTGTCAATGCATTTATTAAATT-TATTGAT-CCCAAAGACATCAAAACCCATAATTATAA
1 ATAAAGTGTCAATACATTTA-TAAATTGTATCGATCCCCAAA-ACATCAAAA-CCATAATTATAA
* * * * * * *
4394930 TATAATAGGTAAATTTACAATGTAACCGGTAGAAAAATACCGATATAATTAGAAAATATGTCAAC
63 TATAATAGGTAAATTTACAATGTAACAGGTATAAAAA-ACCGATTTTATAAGAAAA-AAGTCTAC
** * *
4394995 ATAATGTATCGTCACTTTTTAAATTTGTATCGATATTTTTT
126 ATAATGTATCAACACTTTTTAAATTTGTGTCGATACTTTTT
4395036 TAAATTACAC
Statistics
Matches: 662, Mismatches: 89, Indels: 27
0.85 0.11 0.03
Matches are distributed among these distances:
593 4 0.01
594 4 0.01
595 464 0.70
596 61 0.09
597 122 0.18
598 7 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (594 bp):
ATAAAGTGTCAATACATTTATAAATTGTATCGATCCCCAAAACATCAAAACCATAATTATAATAT
AATAGGTAAATTTACAATGTAACAGGTATAAAAAACCGATTTTATAAGAAAAAAGTCTACATAAT
GTATCAACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACGAGGTGCAC
GCATAAAGTATCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAAT
GTAATATGTAACTTTACAATACAACCGGTAGAAACACACCGATTAATGAGAAAATAGGTCAACAT
AATGTATCAACACTTTTAAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGACAAACGAGGTG
AACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCCAAACCCATAATTAT
AATGTAATATGTAACTTTACAATATAACCAATAGAAATACACCGATTTTATGAGAAAATAGGTCA
ACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAAAGACAAACGA
GGTGCATGC
Found at i:4399719 original size:194 final size:197
Alignment explanation
Indices: 4399218--4399900 Score: 852
Period size: 194 Copynumber: 3.5 Consensus size: 197
4399208 GTAAACATAT
* * *
4399218 GTGTCGATATATTT-TCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * *
4399282 AGGTAAATTAACAATGTAACCGATATAAATATAAC-ATTTAATTA-AAAACAGGTCAACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATAACGATTTTATGAGAAAATAGGTCAACATAATG
* ** * * * *
4399345 TATCGACACTTGTGGAATTTGTGTCGATACTTATTGTCCAAAATTAATGCCCAAACAAGGTACAT
130 TATCGACACTTTTTAAATTTGTGTCGATA-TT-TT-TCCAGAATGAATG-CCAAACGAGGTGCAT
4399410 GCATAAA
191 GCATAAA
* *
4399417 GTGTTGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAA-CGATAATTATATTGTAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
4399481 GGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAGAATAGGTCAACATAATGT
66 GGTAAATTTACAATGTAACCGATATAAATATAACGATTTTATGAGAAAATAGGTCAACATAATGT
* *
4399546 ATCGACACTTTTTAAATTTGTGTCGATA-TTTTCCAGAATGAATGTCAAACGAGTTGCATGCATA
131 ATCGACACTTTTTAAATTTGTGTCGATATTTTTCCAGAATGAATGCCAAACGAGGTGCATGCATA
4399610 AA
196 AA
* * * *
4399612 GTGTCGATACATTTATTAAAAGTATTGATCCC-AAAACATC-AAACCGGTAATTACAATATAATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * * *
4399675 GGTAAATTTACAATG-AACTCGGTAGAAATATATCGGTTTTATGAGAAAATAGTTCTACATAATG
66 GGTAAATTTACAATGTAAC-CGATATAAATATAACGATTTTATGAGAAAATAGGTCAACATAATG
* * *
4399739 TATCGACACTTTTTAAGTTTGTGTTGATATTTTTTTCCAGAATGAATGCCCAACGAGGTGCATGC
130 TATCGACACTTTTTAAATTTGTGTCGATA--TTTTTCCAGAATGAATGCCAAACGAGGTGCATGC
4399804 ATAAA
193 ATAAA
*
4399809 ATGTCGATACA--TA-TAAAATTGTATCGATCCCAAAAAC-TC-AAACCGATAATTATAATGTAA
1 GTGTCGATACATTTATTAAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
* * *
4399869 TAGGTAAATTTGCAATGTTACCAATATAAATA
64 TAGGTAAATTTACAATGTAACCGATATAAATA
4399901 CCGATTTAGT
Statistics
Matches: 424, Mismatches: 48, Indels: 27
0.85 0.10 0.05
Matches are distributed among these distances:
193 6 0.01
194 108 0.25
195 50 0.12
196 65 0.15
197 54 0.13
198 50 0.12
199 47 0.11
200 44 0.10
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (197 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATAACGATTTTATGAGAAAATAGGTCAACATAATGT
ATCGACACTTTTTAAATTTGTGTCGATATTTTTCCAGAATGAATGCCAAACGAGGTGCATGCATA
AA
Found at i:4399972 original size:23 final size:23
Alignment explanation
Indices: 4399916--4399972 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
4399906 TTAGTTAGAA
*
4399916 AATATGTCAATATAAGCGCTACCT
1 AATATGT-TATATAAGCGCTACCT
* **
4399940 ATTACATTATATAAGCGCTACCT
1 AATATGTTATATAAGCGCTACCT
4399963 AATATGTTAT
1 AATATGTTAT
4399973 TGTACTTAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (23 bp):
AATATGTTATATAAGCGCTACCT
Found at i:4401111 original size:10 final size:10
Alignment explanation
Indices: 4401096--4401173 Score: 60
Period size: 10 Copynumber: 8.1 Consensus size: 10
4401086 CATTTAATAA
4401096 ATAAACGAAC
1 ATAAACGAAC
4401106 ATAAACG-A-
1 ATAAACGAAC
4401114 AT--ACGAAC
1 ATAAACGAAC
*
4401122 --GAACGAAC
1 ATAAACGAAC
**
4401130 ACGAACGAAC
1 ATAAACGAAC
4401140 ATAAACGAACAC
1 ATAAACG-A-AC
4401152 AATAAACGAAC
1 -ATAAACGAAC
4401163 ATAAACGAAC
1 ATAAACGAAC
4401173 A
1 A
4401174 ACACAAACAC
Statistics
Matches: 57, Mismatches: 2, Indels: 18
0.74 0.03 0.23
Matches are distributed among these distances:
6 3 0.05
7 1 0.02
8 8 0.14
9 1 0.02
10 31 0.54
11 3 0.05
12 3 0.05
13 7 0.12
ACGTcount: A:0.58, C:0.22, G:0.13, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:4401126 original size:14 final size:14
Alignment explanation
Indices: 4401109--4401139 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
4401099 AACGAACATA
*
4401109 AACGAATACGAACG
1 AACGAACACGAACG
4401123 AACGAACACGAACG
1 AACGAACACGAACG
4401137 AAC
1 AAC
4401140 ATAAACGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.26, G:0.19, T:0.03
Consensus pattern (14 bp):
AACGAACACGAACG
Found at i:4401181 original size:23 final size:23
Alignment explanation
Indices: 4401119--4401181 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
4401109 AACGAATACG
*
4401119 AACGAACGAACACGAACGAACATA
1 AACGAAC-AACACAAACGAACATA
*
4401143 AACGAAC-ACAATAAACGAACATA
1 AACGAACAAC-ACAAACGAACATA
4401166 AACGAACAACACAAAC
1 AACGAACAACACAAAC
4401182 ACGCACAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.06
23 23 0.68
24 9 0.26
ACGTcount: A:0.59, C:0.25, G:0.11, T:0.05
Consensus pattern (23 bp):
AACGAACAACACAAACGAACATA
Found at i:4401456 original size:14 final size:14
Alignment explanation
Indices: 4401437--4401472 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4401427 TCTCTGTTCA
**
4401437 AACATAAATGAGCG
1 AACATAAATGAAAG
4401451 AACATAAATGAAAG
1 AACATAAATGAAAG
4401465 AACATAAA
1 AACATAAA
4401473 CGAACATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (14 bp):
AACATAAATGAAAG
Found at i:4404464 original size:17 final size:17
Alignment explanation
Indices: 4404442--4404474 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4404432 CAACTTTGAC
4404442 CAAAAAGTCAAATTTTG
1 CAAAAAGTCAAATTTTG
*
4404459 CAAAAAGTCATATTTT
1 CAAAAAGTCAAATTTT
4404475 ATGTTTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
CAAAAAGTCAAATTTTG
Found at i:4410880 original size:12 final size:12
Alignment explanation
Indices: 4410863--4410888 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4410853 TTCATTTAAA
4410863 GTGGAATGAAAT
1 GTGGAATGAAAT
4410875 GTGGAATGAAAT
1 GTGGAATGAAAT
4410887 GT
1 GT
4410889 AAATTAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (12 bp):
GTGGAATGAAAT
Found at i:4412505 original size:40 final size:40
Alignment explanation
Indices: 4412450--4412611 Score: 297
Period size: 40 Copynumber: 4.0 Consensus size: 40
4412440 TGCAGATTTA
4412450 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4412490 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
4412530 TAATACACTTCAGTGTATATGGTGGGCACGACTTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
4412570 TAATACGCTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
4412610 TA
1 TA
4412612 GCACTACGGT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 117 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4412900 original size:45 final size:45
Alignment explanation
Indices: 4412716--4412933 Score: 258
Period size: 46 Copynumber: 4.7 Consensus size: 45
4412706 GTAAGCATGC
*
4412716 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTAAAACA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT-----A
* *
4412765 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAATATATTGGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
* * * *
4412811 AAATAAGCTTACGAGCTTATGGTATTAAATTGTAAGTGTTTTGGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
* *
4412857 AAATAAGCTTACGAGGTTATGGAATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
4412902 AAATACGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT
4412934 GAGGAATTTT
Statistics
Matches: 152, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
45 48 0.32
46 64 0.42
49 22 0.14
50 2 0.01
51 16 0.11
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:4413286 original size:33 final size:33
Alignment explanation
Indices: 4413246--4413332 Score: 138
Period size: 33 Copynumber: 2.6 Consensus size: 33
4413236 CGATGTTTTT
*
4413246 GTGCATCGGTACAATGTTCACATCACTGTAGCA
1 GTGCATCGATACAATGTTCACATCACTGTAGCA
* *
4413279 GTGCATCGATACATTGTTCACATTACTGTAGCA
1 GTGCATCGATACAATGTTCACATCACTGTAGCA
*
4413312 GTGCATCGATACACTGTTCAC
1 GTGCATCGATACAATGTTCAC
4413333 TATTCATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (33 bp):
GTGCATCGATACAATGTTCACATCACTGTAGCA
Found at i:4415589 original size:21 final size:20
Alignment explanation
Indices: 4415565--4415603 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
4415555 ATATGAAAAA
4415565 CTATCA-AAGTGTGAGTTTTGG
1 CTATCAGAAGT-TGA-TTTTGG
4415586 CTATCAGAAGTTGATTTT
1 CTATCAGAAGTTGATTTT
4415604 CTTAGTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (20 bp):
CTATCAGAAGTTGATTTTGG
Found at i:4415695 original size:6 final size:6
Alignment explanation
Indices: 4415672--4415792 Score: 59
Period size: 6 Copynumber: 19.8 Consensus size: 6
4415662 AAAAAAACAT
* * * *
4415672 AAAAAG -AAAAG AATAAA- AAGAAA- AAATAG ATAAAG AAAATG AAAACG
1 AAAAAG AAAAAG AA-AAAG AA-AAAG AAAAAG AAAAAG AAAAAG AAAAAG
* * * * * * **
4415719 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAATG AAAGTG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAA-G AAAAAG
*
4415769 AAAAAG AAAAGAA AAAAAG AAAAA
1 AAAAAG AAAA-AG AAAAAG AAAAA
4415793 AATGAGAGAT
Statistics
Matches: 93, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
5 7 0.08
6 72 0.77
7 11 0.12
8 3 0.03
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:4415726 original size:3 final size:3
Alignment explanation
Indices: 4415718--4415759 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
4415708 AAATGAAAAC
4415718 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
4415760 ATGAAAGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4419704 original size:40 final size:40
Alignment explanation
Indices: 4419648--4419809 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
4419638 TGCAGGTTTA
*
4419648 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
4419688 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
4419728 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
* * *
4419768 TAATACGCTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
4419808 TA
1 TA
4419810 GCACTACAGT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 118 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
Found at i:4420026 original size:46 final size:45
Alignment explanation
Indices: 4419914--4420130 Score: 265
Period size: 46 Copynumber: 4.7 Consensus size: 45
4419904 GTAAGCATGC
* *
4419914 AAATAAGCTTACGAGCTTATAGAAT-AATGGCAAGTATATTGGTAAAAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT----A
* *
4419962 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
* *
4420008 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
* * * *
4420054 AAATAAACATATGAGCTTATGGAATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
4420099 AAATAAGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT
4420131 GAGGAATTTT
Statistics
Matches: 152, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
45 49 0.32
46 64 0.42
48 21 0.14
49 2 0.01
50 16 0.11
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:4420101 original size:91 final size:91
Alignment explanation
Indices: 4419914--4420130 Score: 260
Period size: 91 Copynumber: 2.3 Consensus size: 91
4419904 GTAAGCATGC
* * * *
4419914 AAATAAGCTTACGAGCTTATAGA-ATAATGGCAAGTATATTGGTAAAAAAAATAAGCTTACGAGC
1 AAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTGGT---AAAAATAAACATACGAGC
*
4419978 TTATGGTATTAAATGGTAAGTATATTAGTA
62 TTATGGTAATAAATGGTAAGTATATTAGTA
* *
4420008 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATTTTGGT-AAAATAAACATATGAGCTT
1 AAATAAGCTTACGAGCTTATGG-A-TAAATGGTAAGTATATTGGTAAAAATAAACATACGAGCTT
* *
4420072 ATGG-AATAAATGGTAAGTATTTTGGTA
64 ATGGTAATAAATGGTAAGTATATTAGTA
*
4420099 AAATAAGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTAT-GGATAAATGGT
4420131 GAGGAATTTT
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
90 8 0.07
91 40 0.37
92 22 0.20
94 21 0.19
95 1 0.01
96 16 0.15
97 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (91 bp):
AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTAAAAATAAACATACGAGCTTAT
GGTAATAAATGGTAAGTATATTAGTA
Found at i:4420615 original size:33 final size:33
Alignment explanation
Indices: 4420570--4420655 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
4420560 AATTTTTTTA
*
4420570 TGCATCGGTACACTGTTCACGTTACTGTAGCAG
1 TGCATCGATACACTGTTCACGTTACTGTAGCAG
*
4420603 TGCATCGATACACTGTTCACGTTACTGTAGTAG
1 TGCATCGATACACTGTTCACGTTACTGTAGCAG
* *
4420636 TACATCGATACATTGTTCAC
1 TGCATCGATACACTGTTCAC
4420656 TATTCACTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (33 bp):
TGCATCGATACACTGTTCACGTTACTGTAGCAG
Found at i:4426469 original size:8 final size:8
Alignment explanation
Indices: 4426456--4426498 Score: 86
Period size: 8 Copynumber: 5.4 Consensus size: 8
4426446 GTATGTATTA
4426456 ATATATGT
1 ATATATGT
4426464 ATATATGT
1 ATATATGT
4426472 ATATATGT
1 ATATATGT
4426480 ATATATGT
1 ATATATGT
4426488 ATATATGT
1 ATATATGT
4426496 ATA
1 ATA
4426499 AACAGTAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (8 bp):
ATATATGT
Found at i:4430086 original size:30 final size:31
Alignment explanation
Indices: 4430052--4430114 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
4430042 TTTTATTTTG
*
4430052 TTCCCC-TCATTTTCTATGGTTAATTATACT
1 TTCCCCTTCATTTTCTATGATTAATTATACT
*
4430082 TTCCCCTTCATTTTCTATTATTAATTATACT
1 TTCCCCTTCATTTTCTATGATTAATTATACT
4430113 TT
1 TT
4430115 GTCTAGAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.21, C:0.22, G:0.03, T:0.54
Consensus pattern (31 bp):
TTCCCCTTCATTTTCTATGATTAATTATACT
Found at i:4430951 original size:122 final size:122
Alignment explanation
Indices: 4430729--4430974 Score: 456
Period size: 122 Copynumber: 2.0 Consensus size: 122
4430719 TAAATTTAGT
4430729 ATGTATATCATTGACCATTGTCAAGGAGTACTAGGCACCTTGATTGGTAGTGAGGTCACCACCAC
1 ATGTATATCATTGACCATTGTCAAGGAGTACTAGGCACCTTGATTGGTAGTGAGGTCACCACCAC
*
4430794 GTGGCATCCAATGTTTGGCTAATTCTTTCACTTTCCCTGGTTAAACCCTCGTATTTA
66 GTGGCACCCAATGTTTGGCTAATTCTTTCACTTTCCCTGGTTAAACCCTCGTATTTA
* *
4430851 ATGTGTATCATTGACCATTGTCAAGGAGTACTAGGCACTTTGATTGGTAGTGAGGTCACCACCAC
1 ATGTATATCATTGACCATTGTCAAGGAGTACTAGGCACCTTGATTGGTAGTGAGGTCACCACCAC
*
4430916 GTGGCACCCAATGTTTGGCTAATTCTTTCACTTTCCGTGGTTAAACCCTCGTATTTA
66 GTGGCACCCAATGTTTGGCTAATTCTTTCACTTTCCCTGGTTAAACCCTCGTATTTA
4430973 AT
1 AT
4430975 ATGTGGCGGA
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (122 bp):
ATGTATATCATTGACCATTGTCAAGGAGTACTAGGCACCTTGATTGGTAGTGAGGTCACCACCAC
GTGGCACCCAATGTTTGGCTAATTCTTTCACTTTCCCTGGTTAAACCCTCGTATTTA
Found at i:4431104 original size:22 final size:23
Alignment explanation
Indices: 4431070--4431112 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
4431060 ATATAATAAA
4431070 TAATATTATTTATTATAAAAACT
1 TAATATTATTTATTATAAAAACT
*
4431093 TAATATTA-TTATTTTAAAAA
1 TAATATTATTTATTATAAAAA
4431113 TATTAGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTATTTATTATAAAAACT
Found at i:4431517 original size:11 final size:11
Alignment explanation
Indices: 4431416--4431550 Score: 57
Period size: 11 Copynumber: 12.1 Consensus size: 11
4431406 AATATAACTT
4431416 TTATTAATAAT-
1 TTATT-ATAATA
4431427 TTATTAT-ATA
1 TTATTATAATA
*
4431437 TTATTAAAATA
1 TTATTATAATA
** * *
4431448 AGAATATAATG
1 TTATTATAATA
* *
4431459 GTATCA-AATA
1 TTATTATAATA
4431469 TTATTATAATA
1 TTATTATAATA
*
4431480 TAATTGAGT-ATA
1 TTATT-A-TAATA
4431492 TTATTGTAATAATA
1 TTA-T-T-ATAATA
*
4431506 TTATTATTATA
1 TTATTATAATA
*
4431517 TTATTAAAAATA
1 TTATT-ATAATA
*
4431529 TTAATA-AATA
1 TTATTATAATA
4431539 TATATTA-AATA
1 T-TATTATAATA
4431550 T
1 T
4431551 GTTAATAATT
Statistics
Matches: 93, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
9 2 0.02
10 20 0.22
11 44 0.47
12 15 0.16
13 4 0.04
14 8 0.09
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (11 bp):
TTATTATAATA
Found at i:4431544 original size:23 final size:23
Alignment explanation
Indices: 4431513--4431566 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
4431503 ATATTATTAT
4431513 TATATTATTAAAAATATTAATAAA
1 TATA-TATTAAAAATATTAATAAA
* * *
4431537 TATATATTAAATATGTTAATAAT
1 TATATATTAAAAATATTAATAAA
4431560 TA-ATATT
1 TATATATT
4431567 TTTATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 5 0.19
23 18 0.67
24 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TATATATTAAAAATATTAATAAA
Found at i:4432563 original size:34 final size:34
Alignment explanation
Indices: 4432498--4432564 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
4432488 ACTCAAACTA
* *
4432498 AATATCTTTTAATATTCAAATTTAAACAGATAAT
1 AATATCTTTAAATATTAAAATTTAAACAGATAAT
4432532 AATATCTTTAAAT-TTAAAATATTCAAA-AGATAA
1 AATATCTTTAAATATTAAAAT-TT-AAACAGATAA
4432565 AGTGACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.21
34 20 0.69
35 3 0.10
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (34 bp):
AATATCTTTAAATATTAAAATTTAAACAGATAAT
Found at i:4438218 original size:18 final size:19
Alignment explanation
Indices: 4438195--4438241 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4438185 AACTGGCCCA
*
4438195 ACCCGACCCGAAC-CATTG
1 ACCCGACCCAAACTCATTG
**
4438213 ACCCGACCCAAACTGTTTG
1 ACCCGACCCAAACTCATTG
4438232 ACCCGACCCA
1 ACCCGACCCA
4438242 TTAAGTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.28, C:0.45, G:0.15, T:0.13
Consensus pattern (19 bp):
ACCCGACCCAAACTCATTG
Found at i:4439107 original size:32 final size:32
Alignment explanation
Indices: 4439070--4439141 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
4439060 TAGGCTCTGC
4439070 GGCCCCAAG-ATTGTTCTTGGGTAAGCCTC-CAT
1 GGCCCCAAGAATTG-TCTTGGGT-AGCCTCTCAT
* *
4439102 GGCCCCGAGAATTGTCTTGGGTAGGCTCTCAT
1 GGCCCCAAGAATTGTCTTGGGTAGCCTCTCAT
4439134 -GCCCCAAG
1 GGCCCCAAG
4439142 GTAATCCCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
31 12 0.34
32 19 0.54
33 4 0.11
ACGTcount: A:0.18, C:0.29, G:0.28, T:0.25
Consensus pattern (32 bp):
GGCCCCAAGAATTGTCTTGGGTAGCCTCTCAT
Found at i:4447657 original size:27 final size:27
Alignment explanation
Indices: 4447604--4447657 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4447594 AACAGTCCTA
**
4447604 ATTTATGAAAATTTTAAATTTTTTATT
1 ATTTATGAAAATTTTAAATTTCGTATT
4447631 ATTTAT-AAAATTTTATAATTTCGTATT
1 ATTTATGAAAATTTTA-AATTTCGTATT
4447658 CTTAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (27 bp):
ATTTATGAAAATTTTAAATTTCGTATT
Found at i:4447788 original size:19 final size:19
Alignment explanation
Indices: 4447761--4447799 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
4447751 TGACCCTCTA
*
4447761 TATGAGTAGAGCTATTCAT
1 TATGAGTAGAGATATTCAT
*
4447780 TATGGGTAGAGATATTCAT
1 TATGAGTAGAGATATTCAT
4447799 T
1 T
4447800 TATTCAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (19 bp):
TATGAGTAGAGATATTCAT
Found at i:4457293 original size:12 final size:12
Alignment explanation
Indices: 4457276--4457315 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
4457266 ATTATTTTTC
4457276 AATTTAATATTT
1 AATTTAATATTT
*
4457288 AATTTAATAATTA
1 AATTTAAT-ATTT
*
4457301 AATTAAATATTT
1 AATTTAATATTT
4457313 AAT
1 AAT
4457316 GAAACATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTTAATATTT
Found at i:4463904 original size:24 final size:22
Alignment explanation
Indices: 4463875--4463924 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 22
4463865 ATTATATGAC
4463875 TATATATT-TATTATAGTATATATA
1 TATATATTGT-TTATA-TATA-ATA
4463899 TATATATTGTTTATATATAATA
1 TATATATTGTTTATATATAATA
4463921 TATA
1 TATA
4463925 CATTATGCCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.28
23 4 0.16
24 13 0.52
25 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TATATATTGTTTATATATAATA
Found at i:4464032 original size:17 final size:16
Alignment explanation
Indices: 4463986--4464033 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4463976 TATTATATCA
*
4463986 TTATATATACACATTAT
1 TTAT-TATACATATTAT
*
4464003 ATATTATTACATATTATT
1 TTATTA-TACATATTA-T
4464021 TTATTATACATAT
1 TTATTATACATAT
4464034 ACATATTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 18 0.69
18 6 0.23
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATTATACATATTAT
Found at i:4465177 original size:5 final size:5
Alignment explanation
Indices: 4465169--4465226 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
4465159 TTTGTTTTTG
* *
4465169 TTTAT TTTAT CTTT-T TTTATT ATTTCT TTTAT TTT-T CTTAT TTTA-
1 TTTAT TTTAT -TTTAT TTTA-T -TTTAT TTTAT TTTAT TTTAT TTTAT
4465214 TTTAT TTTAT TTT
1 TTTAT TTTAT TTT
4465227 TAAATTTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
4 10 0.23
5 25 0.58
6 5 0.12
7 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:4465222 original size:9 final size:9
Alignment explanation
Indices: 4465164--4465225 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
4465154 TGTTTTTTGT
*
4465164 TTTTGTTTA
1 TTTTATTTA
*
4465173 TTTTATCTTT
1 TTTTAT-TTA
4465183 TTTTA-TTA
1 TTTTATTTA
4465191 TTTCT-TTTA
1 TTT-TATTTA
4465200 TTTT-TCTTA
1 TTTTAT-TTA
4465209 TTTTATTTA
1 TTTTATTTA
4465218 TTTTATTT
1 TTTTATTT
4465226 TTAAATTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 7 0.16
9 30 0.67
10 8 0.18
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTTATTTA
Found at i:4465262 original size:50 final size:49
Alignment explanation
Indices: 4465206--4465301 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 49
4465196 TTTATTTTTC
4465206 TTATTTTATTTATTTT-ATTTTTAAATTTAGCTAACTTTTT-GGGTTTTATT
1 TTATTTTATTTATTTTCATTTTT-AATTTAGCT-A-TTTTTAGGGTTTTATT
* *
4465256 TTATTTTGTTTATTTTCCTTTTTAATTTAGCTATTTTTAGGGTTTT
1 TTATTTTATTTATTTTCATTTTTAATTTAGCTATTTTTAGGGTTTT
4465302 TGTATTTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
48 5 0.12
49 8 0.19
50 24 0.57
51 5 0.12
ACGTcount: A:0.19, C:0.05, G:0.09, T:0.67
Consensus pattern (49 bp):
TTATTTTATTTATTTTCATTTTTAATTTAGCTATTTTTAGGGTTTTATT
Found at i:4465313 original size:45 final size:49
Alignment explanation
Indices: 4465207--4465324 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 49
4465197 TTATTTTTCT
* * *
4465207 TATTTTATTTATTTTATTTTTAAATTTAGCTAACTTTTTGGGTTTTATTT
1 TATTTTGTTTATTTTCTTTTT-AATTTAGCTAACTTTTTGGGTTTTATTG
4465257 TATTTTGTTTATTTTCCTTTTTAATTTAGCT-A-TTTTTAGGG-TTT-TTG
1 TATTTTGTTTATTTT-CTTTTTAATTTAGCTAACTTTTT-GGGTTTTATTG
4465304 TA-TTT-TTTATATTTCTTTTTA
1 TATTTTGTTTAT-TTTCTTTTTA
4465325 TCTTAGTAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
45 12 0.19
46 6 0.10
47 4 0.06
48 8 0.13
49 4 0.06
50 23 0.37
51 5 0.08
ACGTcount: A:0.19, C:0.05, G:0.08, T:0.68
Consensus pattern (49 bp):
TATTTTGTTTATTTTCTTTTTAATTTAGCTAACTTTTTGGGTTTTATTG
Found at i:4476345 original size:23 final size:23
Alignment explanation
Indices: 4476289--4476347 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
4476279 TTGGTGCAGA
* *
4476289 GGGAATCGATACCCCCCTTGAAG
1 GGGAACCGATTCCCCCCTTGAAG
*
4476312 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTGAAG
4476335 GGGAACCGATTCC
1 GGGAACCGATTCC
4476348 GTCTGTAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCTTGAAG
Found at i:4476359 original size:21 final size:22
Alignment explanation
Indices: 4476302--4476370 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
4476292 AATCGATACC
4476302 CCCCT-TGAAGGGGAACCGATT
1 CCCCTCTGAAGGGGAACCGATT
*
4476323 CCCCCTTTGAAGGGGAACCGATT
1 -CCCCTCTGAAGGGGAACCGATT
* * * *
4476346 -CCGTCTGTAGGGGAATCGATA
1 CCCCTCTGAAGGGGAACCGATT
4476367 CCCC
1 CCCC
4476371 CTGGGGTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 16 0.41
22 7 0.18
23 16 0.41
ACGTcount: A:0.22, C:0.30, G:0.28, T:0.20
Consensus pattern (22 bp):
CCCCTCTGAAGGGGAACCGATT
Found at i:4477975 original size:18 final size:18
Alignment explanation
Indices: 4477940--4477978 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4477930 AGAGCAGCAC
*
4477940 GAGGAACAAGCACCTCCA
1 GAGGAACAACCACCTCCA
* *
4477958 GAGGAACAACCTCGTCCA
1 GAGGAACAACCACCTCCA
4477976 GAG
1 GAG
4477979 TATCAAATGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.31, G:0.26, T:0.08
Consensus pattern (18 bp):
GAGGAACAACCACCTCCA
Found at i:4485149 original size:32 final size:31
Alignment explanation
Indices: 4485086--4485172 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 31
4485076 GTTCCTTAGA
*
4485086 ACATAGGT-ATATTGTCCATATGTCTCAAAAG
1 ACATAGGTAAT-TTGTCCATATGTCCCAAAAG
* *
4485117 ACATAGGTAATTCTGTCTATATGTCCCGAAAG
1 ACATAGGTAATT-TGTCCATATGTCCCAAAAG
4485149 ACATAGGTAATTATGTCCATATGT
1 ACATAGGTAATT-TGTCCATATGT
4485173 TTCGTAGAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 9 0.18
32 40 0.82
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (31 bp):
ACATAGGTAATTTGTCCATATGTCCCAAAAG
Found at i:4485185 original size:32 final size:33
Alignment explanation
Indices: 4485067--4485190 Score: 107
Period size: 32 Copynumber: 3.9 Consensus size: 33
4485057 CTAGGTAAAC
* * *
4485067 TGTCCATATGTTCCTTAGA-ACATAGGT-A-TA
1 TGTCCATATGTCCCGTAAAGACATAGGTAATTA
* * *
4485097 TTGTCCATATGTCTC-AAAAGACATAGGTAATTC
1 -TGTCCATATGTCCCGTAAAGACATAGGTAATTA
*
4485130 TGTCTATATGTCCCG-AAAGACATAGGTAATTA
1 TGTCCATATGTCCCGTAAAGACATAGGTAATTA
** *
4485162 TGTCCATATGTTTCGTAGA-ACATAGGTAA
1 TGTCCATATGTCCCGTAAAGACATAGGTAA
4485191 ACCCTCGACT
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
30 2 0.03
31 20 0.26
32 51 0.67
33 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTCCATATGTCCCGTAAAGACATAGGTAATTA
Found at i:4488817 original size:79 final size:81
Alignment explanation
Indices: 4488671--4488821 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 81
4488661 ACGAAGGACA
* * * * **
4488671 TCCAATTCAAAGCTCAACTTCACAGTGAAGGAGCCATCCACGATTTCAACTTCATGGTGAAGAAT
1 TCCAATTCAAAGCTCAACTTCACAGCGAAGAAGCCAACCACAATTTCAACTTCATGGACAAGAAT
4488736 ATCGTGCTCAGGATTT
66 ATCGTGCTCAGGATTT
* *
4488752 TCCAATTC-AA-CTCAACTTCACAGCGAAGAAGTCAACCACAATTTCAACATT-AT-GACAACGG
1 TCCAATTCAAAGCTCAACTTCACAGCGAAGAAGCCAACCACAATTTCAAC-TTCATGGACAA-GA
4488813 ATATCGTGC
64 ATATCGTGC
4488822 AAGCAGTCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.05
79 45 0.75
80 4 0.07
81 8 0.13
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (81 bp):
TCCAATTCAAAGCTCAACTTCACAGCGAAGAAGCCAACCACAATTTCAACTTCATGGACAAGAAT
ATCGTGCTCAGGATTT
Found at i:4489171 original size:2 final size:2
Alignment explanation
Indices: 4489147--4489209 Score: 51
Period size: 2 Copynumber: 32.5 Consensus size: 2
4489137 ATTATATGAC
* * * * *
4489147 TA TA TA TT TA TT TA TA GTG TA TA TA TA TA TA TA T- TG TT TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
4489189 T- TA TA TA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
4489210 TATGTTGTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
1 3 0.06
2 45 0.92
3 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (2 bp):
TA
Found at i:4489188 original size:19 final size:19
Alignment explanation
Indices: 4489147--4489244 Score: 77
Period size: 19 Copynumber: 5.4 Consensus size: 19
4489137 ATTATATGAC
* *
4489147 TATATATTTATTTATAGTG
1 TATATATATATATATAGTG
4489166 TATATATATATATAT--TG
1 TATATATATATATATAGTG
* *
4489183 TTTATAT-TATATATA--A
1 TATATATATATATATAGTG
4489199 TATATATATAT-TAT-GTTG
1 TATATATATATATATAG-TG
4489217 TATACTATA-ATTATATAGTG
1 TATA-TATATA-TATATAGTG
4489237 TATATATA
1 TATATATA
4489245 CATTATGACG
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
16 16 0.25
17 11 0.17
18 5 0.08
19 22 0.34
20 9 0.14
21 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (19 bp):
TATATATATATATATAGTG
Found at i:4489193 original size:31 final size:28
Alignment explanation
Indices: 4489153--4489210 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
4489143 TGACTATATA
*
4489153 TTTATTTATAGTGTATATATATATATATTG
1 TTTATTTATA-TATA-ATATATATATATTG
4489183 TTTATATTATATATAATATATATATATT
1 TTTAT-TTATATATAATATATATATATT
4489211 ATGTTGTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 13 0.50
30 8 0.31
31 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTATTTATATATAATATATATATATTG
Found at i:4489233 original size:31 final size:31
Alignment explanation
Indices: 4489166--4489243 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
4489156 ATTTATAGTG
*
4489166 TATATATATATATATTGTTTATATTATATAT
1 TATATATATATATATTGTTTATACTATATAT
*
4489197 AATATATATATAT-TATGTTGTATACTATA-AT
1 TATATATATATATAT-TGTT-TATACTATATAT
*
4489228 TATATAGTGTATATAT
1 TATATA-TATATATAT
4489244 ACATTATGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.03
31 23 0.59
32 14 0.36
33 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (31 bp):
TATATATATATATATTGTTTATACTATATAT
Found at i:4489286 original size:2 final size:2
Alignment explanation
Indices: 4489281--4489342 Score: 53
Period size: 2 Copynumber: 33.0 Consensus size: 2
4489271 ATTACATAAC
*
4489281 AT AT AT AT AT AT AT AT AT AT -T AT CAT -T AT AT AT AC AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
* *
4489321 AT -T TT AT -T AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
4489343 TTATCATTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
1 5 0.10
2 42 0.86
3 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4489312 original size:19 final size:19
Alignment explanation
Indices: 4489288--4489350 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 19
4489278 AACATATATA
4489288 TATATATATATATTATCAT
1 TATATATATATATTATCAT
* *
4489307 TATATATACATATTATTTTAT
1 TATATATATATATTA--TCAT
4489328 TATACATATATATATTTATCAT
1 TAT--ATATATATA-TTATCAT
4489350 T
1 T
4489351 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 14 0.40
21 6 0.17
22 4 0.11
23 8 0.23
24 3 0.09
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATATATATATTATCAT
Found at i:4490932 original size:16 final size:16
Alignment explanation
Indices: 4490911--4490941 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4490901 ACAGTATTTA
4490911 AGATTAGACAAATCTG
1 AGATTAGACAAATCTG
4490927 AGATTAGACAAATCT
1 AGATTAGACAAATCT
4490942 CAAAGGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (16 bp):
AGATTAGACAAATCTG
Found at i:4492032 original size:18 final size:18
Alignment explanation
Indices: 4491958--4492026 Score: 63
Period size: 18 Copynumber: 3.8 Consensus size: 18
4491948 ATGTTTTTTG
4491958 TTTTTCTTATTTTTATCTTTA
1 TTTTTCTTA-TTTTA--TTTA
* *
4491979 TTTTTATTGTTTCT-TTTA
1 TTTTTCTTATTT-TATTTA
4491997 TTTTTCTTATTTTATTTA
1 TTTTTCTTATTTTATTTA
4492015 -TTTTCTT-TTTTA
1 TTTTTCTTATTTTA
4492027 AATTTAGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
16 5 0.12
17 8 0.19
18 18 0.43
20 3 0.07
21 8 0.19
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (18 bp):
TTTTTCTTATTTTATTTA
Found at i:4492085 original size:21 final size:21
Alignment explanation
Indices: 4492047--4492087 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4492037 ACTTTTTGGG
* **
4492047 TTTTTTATTTTATTTATTTTC
1 TTTTTTAATTTAACTATTTTC
4492068 TTTTTTAATTTAACTATTTT
1 TTTTTTAATTTAACTATTTT
4492088 TAGGATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTTTAATTTAACTATTTTC
Found at i:4492099 original size:48 final size:50
Alignment explanation
Indices: 4491996--4492117 Score: 143
Period size: 48 Copynumber: 2.6 Consensus size: 50
4491986 TGTTTCTTTT
* **
4491996 ATTTTTCTTATTTTATTTATTTTCTTTTTTAAATTTAGTTGACTTTTTGG
1 ATTTTTTTTATTTTATTTATTTTCTTTTTTAAATTTAACTGACTTTTTGG
*
4492046 --GTTTTTTATTTTATTTATTTTCTTTTTT-AATTTAACT-A-TTTTTAGG
1 ATTTTTTTTATTTTATTTATTTTCTTTTTTAAATTTAACTGACTTTTT-GG
4492092 ATTTTTTTTA-TTT-TTTA-TTTCTTTTT
1 ATTTTTTTTATTTTATTTATTTTCTTTTT
4492118 ATCTTAGTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
45 14 0.22
46 7 0.11
47 10 0.16
48 33 0.52
ACGTcount: A:0.17, C:0.05, G:0.06, T:0.72
Consensus pattern (50 bp):
ATTTTTTTTATTTTATTTATTTTCTTTTTTAAATTTAACTGACTTTTTGG
Found at i:4494725 original size:13 final size:14
Alignment explanation
Indices: 4494709--4494740 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
4494699 CCTAAAAAAC
4494709 ATAAAAGAAAAT-A
1 ATAAAAGAAAATGA
4494722 ATAAAAGAAAATGA
1 ATAAAAGAAAATGA
4494736 ATAAA
1 ATAAA
4494741 CAATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (14 bp):
ATAAAAGAAAATGA
Found at i:4494860 original size:19 final size:21
Alignment explanation
Indices: 4494820--4494876 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 21
4494810 ATATTTAAAA
*
4494820 AAGTTTTCAAAACTATATATTAT
1 AAGTTTTCAAAAATAT-TA-TAT
4494843 ATAGTTTT-AAAAATATTATAT
1 A-AGTTTTCAAAAATATTATAT
4494864 AAGTTTTCAAAAA
1 AAGTTTTCAAAAA
4494877 ATGTTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 6 0.19
21 9 0.29
22 2 0.06
23 8 0.26
24 6 0.19
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
AAGTTTTCAAAAATATTATAT
Found at i:4494998 original size:36 final size:36
Alignment explanation
Indices: 4494855--4495201 Score: 399
Period size: 36 Copynumber: 9.3 Consensus size: 36
4494845 AGTTTTAAAA
* *
4494855 ATATTATATAAGTTTTCAAAAAATGTTTTTAAAACTAT
1 ATATTATATAATTTTTC--AAAATGTTTTAAAAACTAT
* *
4494893 ATATTACATAATTTTTCCAAAAATGTTTTTAAAACTAT
1 ATATTATATAATTTTT-C-AAAATGTTTTAAAAACTAT
* * * *
4494931 ATGTTATATAATATTTTTAAAAAATGTTTTTAAAATTAT
1 ATATTATAT-A-ATTTTT-CAAAATGTTTTAAAAACTAT
*
4494970 ATATTATATAATTTTTTAAAATTGTTTTAAAAAACTAT
1 ATATTATATAATTTTTCAAAA-TGTTTT-AAAAACTAT
* *
4495008 ATACTATATAAGTTTTCAAAATGTTTTAAAAACTAT
1 ATATTATATAATTTTTCAAAATGTTTTAAAAACTAT
*
4495044 ATATTATATAAATTTTCAAAATGTTTTAAAAACTAT
1 ATATTATATAATTTTTCAAAATGTTTTAAAAACTAT
*
4495080 ATATTATATAAGTTTTCAAAATGTTTTAAAAACTAT
1 ATATTATATAATTTTTCAAAATGTTTTAAAAACTAT
* *
4495116 ATAATATATAAATGTTTTCAAAATGTTTTCAAAACTAT
1 ATATTATAT-AAT-TTTTCAAAATGTTTTAAAAACTAT
* * *
4495154 ATATTATAT-ATATTTTAAAAATATTTTCAAAAACCAT
1 ATATTATATAAT-TTTTCAAAATGTTTT-AAAAACTAT
*
4495191 ATAATATATAA
1 ATATTATATAA
4495202 AACTTTCGAA
Statistics
Matches: 273, Mismatches: 27, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
36 105 0.38
37 35 0.13
38 99 0.36
39 28 0.10
40 6 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (36 bp):
ATATTATATAATTTTTCAAAATGTTTTAAAAACTAT
Found at i:4495065 original size:74 final size:72
Alignment explanation
Indices: 4494855--4495202 Score: 410
Period size: 74 Copynumber: 4.7 Consensus size: 72
4494845 AGTTTTAAAA
* * *
4494855 ATATTATATAAGTTTTCAAAAAATGTTTTTAAAACTATATATTACATAATTTTTCCAAAAATGTT
1 ATATTATATAAGTTTTC--AAAATGTTTTAAAAACTATATATTATATAAATTTT-C-AAAATGTT
*
4494920 TTTAAAACTAT
62 TTAAAAACTAT
* * * * * * *
4494931 ATGTTATATAATATTTTTAAAAAATGTTTTTAAAATTATATATTATATAATTTTTTAAAATTGTT
1 ATATTATAT-A-AGTTTT-CAAAATGTTTTAAAAACTATATATTATATAAATTTTCAAAA-TGTT
4494996 TTAAAAAACTAT
62 TT-AAAAACTAT
*
4495008 ATACTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAATTTTCAAAATGTTTTAA
1 ATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAATTTTCAAAATGTTTTAA
4495073 AAACTAT
66 AAACTAT
*
4495080 ATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATAATATATAAATGTTTTCAAAATGTTTT
1 ATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAA--TTTTCAAAATGTTTT
*
4495145 CAAAACTAT
64 AAAAACTAT
* * * *
4495154 ATATTATATATA-TTTTAAAAATATTTTCAAAAACCATATAATATATAAA
1 ATATTATATA-AGTTTTCAAAATGTTTT-AAAAACTATATATTATATAAA
4495203 ACTTTCGAAA
Statistics
Matches: 242, Mismatches: 21, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
72 55 0.23
73 6 0.02
74 82 0.34
75 30 0.12
76 15 0.06
77 49 0.20
78 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (72 bp):
ATATTATATAAGTTTTCAAAATGTTTTAAAAACTATATATTATATAAATTTTCAAAATGTTTTAA
AAACTAT
Found at i:4495141 original size:11 final size:11
Alignment explanation
Indices: 4495125--4495149 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4495115 TATAATATAT
4495125 AAATGTTTTCA
1 AAATGTTTTCA
4495136 AAATGTTTTCA
1 AAATGTTTTCA
4495147 AAA
1 AAA
4495150 CTATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:4495297 original size:17 final size:17
Alignment explanation
Indices: 4495277--4495310 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4495267 TATTATATAT
* *
4495277 ATATATATATAATAAAA
1 ATATATAAAAAATAAAA
4495294 ATATATAAAAAATAAAA
1 ATATATAAAAAATAAAA
4495311 TAACTCCGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATATAAAAAATAAAA
Found at i:4508573 original size:18 final size:18
Alignment explanation
Indices: 4508542--4508580 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4508532 CTATTCATGT
**
4508542 TTGAATTATTTGGAAAAA
1 TTGAATTAAATGGAAAAA
*
4508560 TTGAATTAAATGGAAATA
1 TTGAATTAAATGGAAAAA
4508578 TTG
1 TTG
4508581 TACGGAAAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (18 bp):
TTGAATTAAATGGAAAAA
Found at i:4508819 original size:27 final size:26
Alignment explanation
Indices: 4508789--4508852 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
4508779 TCCGATATTC
*
4508789 AAATAACTGAAATACCCCT-GAACTCCA
1 AAATGACTGAAATA--CCTAGAACTCCA
*
4508816 AAATGATTGAAATACCTAGAACTCCA
1 AAATGACTGAAATACCTAGAACTCCA
*
4508842 AGATGACTGAA
1 AAATGACTGAA
4508853 GTTACCTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.09
26 17 0.53
27 12 0.38
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.20
Consensus pattern (26 bp):
AAATGACTGAAATACCTAGAACTCCA
Found at i:4510051 original size:24 final size:22
Alignment explanation
Indices: 4510016--4510060 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
4510006 ATTCATGTGA
4510016 TTTAAATAACTAC-ATGATCATT
1 TTTAAATAACTACTA-GATCATT
4510038 TTTACAATATACTACTAGATCAT
1 TTTA-AATA-ACTACTAGATCAT
4510061 GATTTTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 4 0.20
24 11 0.55
25 1 0.05
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (22 bp):
TTTAAATAACTACTAGATCATT
Found at i:4512695 original size:25 final size:24
Alignment explanation
Indices: 4512660--4512708 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
4512650 GAAATTATAT
* *
4512660 TAAAATATTAAGAGATGTGAAATTA
1 TAAAATATTAAAAG-TGCGAAATTA
*
4512685 TAAAATTTTAAAAGTGCGAAATTA
1 TAAAATATTAAAAGTGCGAAATTA
4512709 GCTTAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.51, C:0.02, G:0.14, T:0.33
Consensus pattern (24 bp):
TAAAATATTAAAAGTGCGAAATTA
Found at i:4519289 original size:16 final size:15
Alignment explanation
Indices: 4519265--4519300 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
4519255 ATTATATAAA
*
4519265 ATATAATGAATTATTT
1 ATATTATGAATTA-TT
4519281 ATATTATGAATTATT
1 ATATTATGAATTATT
4519296 ATATT
1 ATATT
4519301 TTGTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATATTATGAATTATT
Found at i:4519572 original size:16 final size:16
Alignment explanation
Indices: 4519524--4519574 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
4519514 GAAATCGTCG
*
4519524 ACCCGAAAGTTCCGGGT
1 ACCCGAAA-ATCCGGGT
4519541 ACCC-AGAAAT-CGGGT
1 ACCCGA-AAATCCGGGT
4519556 ACCCGAAAATCCGGGT
1 ACCCGAAAATCCGGGT
4519572 ACC
1 ACC
4519575 TGGATTTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 13 0.43
16 11 0.37
17 6 0.20
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.14
Consensus pattern (16 bp):
ACCCGAAAATCCGGGT
Found at i:4521664 original size:28 final size:26
Alignment explanation
Indices: 4521623--4521686 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
4521613 TAAATAATAT
* *
4521623 GATGAAGGATAAAACTCAGAACTAGTAC
1 GATGAATGAAAAAACTC--AACTAGTAC
4521651 GATGAATGAAAAAAACTCAACTAGTAC
1 GATGAATG-AAAAAACTCAACTAGTAC
* *
4521678 AATGCATGA
1 GATGAATGA
4521687 CAAAGTCCAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 15 0.48
28 7 0.23
29 8 0.26
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (26 bp):
GATGAATGAAAAAACTCAACTAGTAC
Found at i:4521672 original size:27 final size:28
Alignment explanation
Indices: 4521633--4521686 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
4521623 GATGAAGGAT
*
4521633 AAAACTCAGAACTAGTACGATGAATGAAA
1 AAAACTCA-AACTAGTACAATGAATGAAA
*
4521662 AAAACTC-AACTAGTACAATGCATGA
1 AAAACTCAAACTAGTACAATGAATGA
4521687 CAAAGTCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
29 7 0.30
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.19
Consensus pattern (28 bp):
AAAACTCAAACTAGTACAATGAATGAAA
Found at i:4529963 original size:20 final size:20
Alignment explanation
Indices: 4529938--4529977 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4529928 TAAATTTACT
*
4529938 ATTATTATTTT-TATTAAAAA
1 ATTATT-TTTTATAATAAAAA
4529958 ATTATTTTTTATAATAAAAA
1 ATTATTTTTTATAATAAAAA
4529978 GTAGATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTTTTTATAATAAAAA
Found at i:4535478 original size:25 final size:27
Alignment explanation
Indices: 4535449--4535505 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
4535439 GTAATACCCA
4535449 AAATTTTG-G-TTAGTGACCAAAATAT
1 AAATTTTGAGTTTAGTGACCAAAATAT
*
4535474 AAATTTTGAAAGTTTAGTGGCCAAAATAT
1 AAATTTTG--AGTTTAGTGACCAAAATAT
4535503 AAA
1 AAA
4535506 ATTAGGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 8 0.30
28 1 0.04
29 18 0.67
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (27 bp):
AAATTTTGAGTTTAGTGACCAAAATAT
Found at i:4535520 original size:31 final size:29
Alignment explanation
Indices: 4535458--4535526 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4535448 AAAATTTTGG
**
4535458 TTAGTGACCAAAATATAAATTTTGAAAGT
1 TTAGTGACCAAAATATAAATTAGGAAAGT
*
4535487 TTAGTGGCCAAAATATAAAATTAGGAAAAGT
1 TTAGTGACCAAAATAT-AAATTAGG-AAAGT
*
4535518 TTAGGGACC
1 TTAGTGACC
4535527 TGAGTGGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 15 0.45
30 6 0.18
31 12 0.36
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.29
Consensus pattern (29 bp):
TTAGTGACCAAAATATAAATTAGGAAAGT
Found at i:4537340 original size:21 final size:21
Alignment explanation
Indices: 4537314--4537413 Score: 96
Period size: 21 Copynumber: 4.7 Consensus size: 21
4537304 AAGGTGTCAA
* *
4537314 AGTGCATCCATACACCTTTAC
1 AGTGCATCCATGCACCCTTAC
*
4537335 AGTGCATCCATGCACCCTTGC
1 AGTGCATCCATGCACCCTTAC
**
4537356 AGTGCATCCATGCACCCACCAC
1 AGTGCATCCATGCACCC-TTAC
* *
4537378 TAGTGCATCGATGCACCATGT--
1 -AGTGCATCCATGCACCCT-TAC
4537399 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
4537414 TCCATTTCGA
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
20 14 0.22
21 35 0.54
22 1 0.02
23 15 0.23
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (21 bp):
AGTGCATCCATGCACCCTTAC
Found at i:4538927 original size:21 final size:21
Alignment explanation
Indices: 4538903--4538953 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4538893 AAACAATTGG
*
4538903 TAACATTTGATATCATTTTGT
1 TAACATTTGATATCATTTTAT
* *
4538924 TAACAATTGATATCTTTTTAT
1 TAACATTTGATATCATTTTAT
4538945 TAAACATTT
1 T-AACATTT
4538954 TATTAAGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (21 bp):
TAACATTTGATATCATTTTAT
Found at i:4539982 original size:20 final size:20
Alignment explanation
Indices: 4539957--4540001 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4539947 ACCCCTTACA
**
4539957 AATATCAAGTAGAAACAAAC
1 AATATCAAACAGAAACAAAC
*
4539977 AATATCAAACAGAAGCAAAC
1 AATATCAAACAGAAACAAAC
4539997 AATAT
1 AATAT
4540002 AAAATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.16, G:0.09, T:0.16
Consensus pattern (20 bp):
AATATCAAACAGAAACAAAC
Found at i:4543396 original size:28 final size:28
Alignment explanation
Indices: 4543341--4543399 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
4543331 AAAATGGTAT
*
4543341 TTATAATTAATATTAAAATAAATATATA
1 TTATAATTAATATTAAAATAAACATATA
* * *
4543369 TTATAATTAATATTAATATTAACCTATA
1 TTATAATTAATATTAAAATAAACATATA
4543397 TTA
1 TTA
4543400 ATATAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TTATAATTAATATTAAAATAAACATATA
Found at i:4543461 original size:31 final size:30
Alignment explanation
Indices: 4543423--4543492 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
4543413 TATAATTTGT
4543423 AATTAATATTAATATAAAATATA-GTCTATAA
1 AATTAATATTAATATAAAATATATGT-TAT-A
*
4543454 AATTAATATTAATATAAACTATATGTTATA
1 AATTAATATTAATATAAAATATATGTTATA
4543484 AATT-ATATT
1 AATTAATATT
4543493 GTATAGTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 5 0.14
30 5 0.14
31 25 0.68
32 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (30 bp):
AATTAATATTAATATAAAATATATGTTATA
Found at i:4543475 original size:24 final size:25
Alignment explanation
Indices: 4543430--4543476 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
4543420 TGTAATTAAT
**
4543430 ATTAATATAAAATATAGTCTATAAA
1 ATTAATATAAAATATAAACTATAAA
*
4543455 ATTAATAT-TAATATAAACTATA
1 ATTAATATAAAATATAAACTATA
4543477 TGTTATAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTAATATAAAATATAAACTATAAA
Found at i:4543518 original size:21 final size:21
Alignment explanation
Indices: 4543466--4543519 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
4543456 TTAATATTAA
* *
4543466 TATAAACTATATGTTATAAAT
1 TATATACTATATGTTATAAAC
**
4543487 TATATTGTATA-GTTTATAAAC
1 TATATACTATATG-TTATAAAC
4543508 TATATACTATAT
1 TATATACTATAT
4543520 TAATATAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (21 bp):
TATATACTATATGTTATAAAC
Found at i:4543588 original size:20 final size:21
Alignment explanation
Indices: 4543547--4543646 Score: 71
Period size: 22 Copynumber: 4.7 Consensus size: 21
4543537 AAGATAATTA
4543547 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
4543569 ACATTAATATAAAC-TATAGT
1 ACATTAATATAAACATATAGT
** * *
4543589 TTATAAATTATATACA-ATAGGT
1 ACATTAA-TATAAACATATA-GT
* *
4543611 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAAC-ATATAGT
*
4543633 ACACTAATATAAAC
1 ACATTAATATAAAC
4543647 TATTGTTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 10 0.16
21 21 0.33
22 26 0.41
23 6 0.10
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:4543730 original size:24 final size:23
Alignment explanation
Indices: 4543671--4543803 Score: 73
Period size: 24 Copynumber: 5.8 Consensus size: 23
4543661 TATAGGTTAC
4543671 ATATATA-GTT-TATATA-ACAT
1 ATATATATGTTATATATATACAT
* *
4543691 ATAAATA-GATTGTATATATACAT
1 ATATATATG-TTATATATATACAT
*
4543714 ATATTATATGTTATATATATATAGT
1 ATA-TATATGTTATATATATACA-T
* * *
4543739 TTATATATGTTATACATAGT--TT
1 ATATATATGTTATATATA-TACAT
* *
4543761 ATACATA-GATTGTATATATACAT
1 ATATATATG-TTATATATATACAT
* *
4543784 ATATTATAGGTTACATATAT
1 ATA-TATATGTTATATATAT
4543804 TAACTATTGT
Statistics
Matches: 86, Mismatches: 15, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
20 7 0.08
21 4 0.05
22 19 0.22
23 11 0.13
24 39 0.45
25 6 0.07
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (23 bp):
ATATATATGTTATATATATACAT
Found at i:4543885 original size:14 final size:14
Alignment explanation
Indices: 4543839--4543876 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
4543829 AGGGTGTAAG
4543839 ATTTAAGGTTTAAC
1 ATTTAAGGTTTAAC
4543853 ATTTAAGGTTTAAC
1 ATTTAAGGTTTAAC
4543867 ATTTAAGGTT
1 ATTTAAGGTT
4543877 CGATATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (14 bp):
ATTTAAGGTTTAAC
Found at i:4543966 original size:2 final size:2
Alignment explanation
Indices: 4543959--4544193 Score: 62
Period size: 2 Copynumber: 123.0 Consensus size: 2
4543949 TTCTATAAAC
* *
4543959 TA TA TA TA TA TA TA T- TC TA TA GA T- TA CT- TA TA T- TA -A T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
* * *
4543996 TA TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA -A TT TA TA -A
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
4544035 TT TA TA AA CTA TA TA T- TT TA TA TA GTT TA TA CA TA TA TA GTT
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * **
4544077 TA TA TA TA GT- TCA TA TA AA CA TA -A TA TA TA TA TA TA TA TA GC
1 TA TA TA TA -TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
4544119 T- TA TA -A TA -A T- TA TA TA GTT TA TA -A TA TA AA TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA
*
4544158 TA TA TA AA CT- TA TA T- TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4544194 ATTTTGTTTT
Statistics
Matches: 168, Mismatches: 34, Indels: 62
0.64 0.13 0.23
Matches are distributed among these distances:
1 21 0.12
2 137 0.82
3 10 0.06
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4544083 original size:11 final size:11
Alignment explanation
Indices: 4544067--4544163 Score: 50
Period size: 11 Copynumber: 9.6 Consensus size: 11
4544057 TAGTTTATAC
4544067 ATATATAGTTT
1 ATATATAGTTT
*
4544078 ATATATAGTTC
1 ATATATAGTTT
* ** *
4544089 ATATAAACATA
1 ATATATAGTTT
*
4544100 ATATATA-TAT
1 ATATATAGTTT
*
4544110 ATATATAGCTT
1 ATATATAGTTT
*
4544121 ATA-ATA--AT
1 ATATATAGTTT
4544129 -TATATAGTTT
1 ATATATAGTTT
4544139 ATA-ATA---T
1 ATATATAGTTT
*
4544146 AAATATAGTTT
1 ATATATAGTTT
4544157 ATATATA
1 ATATATA
4544164 AACTTATATT
Statistics
Matches: 62, Mismatches: 15, Indels: 18
0.65 0.16 0.19
Matches are distributed among these distances:
7 5 0.08
8 7 0.11
10 14 0.23
11 36 0.58
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (11 bp):
ATATATAGTTT
Found at i:4544083 original size:13 final size:14
Alignment explanation
Indices: 4544053--4544146 Score: 52
Period size: 15 Copynumber: 6.3 Consensus size: 14
4544043 CTATATATTT
4544053 TATATAGTTTATACA
1 TATATAGTTTATA-A
4544068 TATATAG-TT-T-A
1 TATATAGTTTATAA
4544079 TATATAGTTCATATAAA
1 TATATAGTT--TAT-AA
* *
4544096 CATAATA-TATATATA
1 TAT-ATAGTTTATA-A
4544111 TATATAGCTTATAATAA
1 TATATAG-TT-T-ATAA
4544128 TTATATAGTTTATAA
1 -TATATAGTTTATAA
4544143 TATA
1 TATA
4544147 AATATAGTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 27
0.67 0.04 0.29
Matches are distributed among these distances:
11 8 0.13
12 1 0.02
13 1 0.02
14 11 0.18
15 18 0.29
16 2 0.03
17 8 0.13
18 13 0.21
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (14 bp):
TATATAGTTTATAA
Found at i:4544151 original size:18 final size:18
Alignment explanation
Indices: 4544101--4544165 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
4544091 ATAAACATAA
* *
4544101 TATATATATATATATAGCT
1 TATA-ATATAAATATAGTT
*
4544120 TATAATA-ATTATATAGTT
1 TATAATATA-AATATAGTT
4544138 TATAATATAAATATAGTT
1 TATAATATAAATATAGTT
4544156 TAT-ATATAAA
1 TATAATATAAA
4544166 CTTATATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 8 0.19
18 29 0.69
19 5 0.12
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (18 bp):
TATAATATAAATATAGTT
Found at i:4544180 original size:9 final size:9
Alignment explanation
Indices: 4543959--4544193 Score: 60
Period size: 9 Copynumber: 26.2 Consensus size: 9
4543949 TTCTATAAAC
4543959 TATATA-TA
1 TATATATTA
*
4543967 TATATATTC
1 TATATATTA
*
4543976 TATAGATTA
1 TATATATTA
4543985 CT-TATATTA
1 -TATATATTA
*
4543994 -AT-TATACA
1 TATATAT-TA
*
4544002 TACATATATA
1 TATATAT-TA
4544012 TACTATATTA
1 TA-TATATTA
4544022 -ATATAATT-
1 TATAT-ATTA
4544030 TATA-ATT-
1 TATATATTA
* *
4544037 TATAAACTA
1 TATATATTA
4544046 TATAT-TT-
1 TATATATTA
4544053 TATATAGTT-
1 TATATA-TTA
*
4544062 TATACA-TA
1 TATATATTA
4544070 TATAGT-TTA
1 TATA-TATTA
4544079 TATATAGTTCA
1 TATATA-TT-A
* *
4544090 TATAAACATAA
1 TAT--ATATTA
4544101 TATATATATA
1 TATATAT-TA
4544111 TATATAGCTTA
1 TATATA--TTA
4544122 TA-ATAATTA
1 TATAT-ATTA
4544131 TATAGT-TTA
1 TATA-TATTA
4544140 TA-ATA-TA
1 TATATATTA
*
4544147 AATATAGTT-
1 TATATA-TTA
4544156 TATATA-TA
1 TATATATTA
*
4544164 AACTTATATTA
1 TA--TATATTA
4544175 TATATA-TA
1 TATATATTA
4544183 TATATATTA
1 TATATATTA
4544192 TA
1 TA
4544194 ATTTTGTTTT
Statistics
Matches: 170, Mismatches: 21, Indels: 71
0.65 0.08 0.27
Matches are distributed among these distances:
7 21 0.12
8 32 0.19
9 65 0.38
10 27 0.16
11 21 0.12
12 2 0.01
13 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (9 bp):
TATATATTA
Found at i:4544271 original size:26 final size:26
Alignment explanation
Indices: 4544242--4544291 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4544232 AAATATAGTG
4544242 TATATAGTTCACTA-ATAAACTATATA
1 TATATAGTTCA-TATATAAACTATATA
*
4544268 TATATAGTTCATATGTAAACTATA
1 TATATAGTTCATATATAAACTATA
4544292 GTTCATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (26 bp):
TATATAGTTCATATATAAACTATATA
Found at i:4544293 original size:18 final size:18
Alignment explanation
Indices: 4544270--4544465 Score: 88
Period size: 18 Copynumber: 10.7 Consensus size: 18
4544260 ACTATATATA
4544270 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
4544288 TATAGTTCATATGTAAATATCAAC
1 TATAGTTCATATG----TA--AAC
* * *
4544312 TATAATTTATATGTAGAC
1 TATAGTTCATATGTAAAC
*
4544330 TATAGTT-AGTATATAAAC
1 TATAGTTCA-TATGTAAAC
* * *
4544348 TATATACTTTATATATAAAC
1 --TATAGTTCATATGTAAAC
*
4544368 TATAGTTCATATATAAA-
1 TATAGTTCATATGTAAAC
**
4544385 TATCAACT-ATA-GTATATA-
1 TAT-AGTTCATATGTA-A-AC
4544403 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
*
4544421 TATATAGTT--TA--TATA-
1 --TATAGTTCATATGTAAAC
*
4544436 TATAGTTCACATGTAAAC
1 TATAGTTCATATGTAAAC
4544454 TATAGTTCATAT
1 TATAGTTCATAT
4544466 ATATATATAG
Statistics
Matches: 137, Mismatches: 18, Indels: 46
0.68 0.09 0.23
Matches are distributed among these distances:
13 7 0.05
15 1 0.01
16 5 0.04
17 14 0.10
18 66 0.48
19 3 0.02
20 24 0.18
21 1 0.01
22 2 0.01
24 14 0.10
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:4544353 original size:20 final size:20
Alignment explanation
Indices: 4544330--4544371 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4544320 ATATGTAGAC
4544330 TATA-GTTAGTATATAAACTA
1 TATACGTTA-TATATAAACTA
*
4544350 TATACTTTATATATAAACTA
1 TATACGTTATATATAAACTA
4544370 TA
1 TA
4544372 GTTCATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (20 bp):
TATACGTTATATATAAACTA
Found at i:4544392 original size:24 final size:24
Alignment explanation
Indices: 4544360--4544406 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4544350 TATACTTTAT
4544360 ATATAAACTATAGT-TCATATATAA
1 ATATAAACTATAGTAT-ATATATAA
*
4544384 ATATCAACTATAGTATATATATA
1 ATATAAACTATAGTATATATATA
4544407 GTTCATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (24 bp):
ATATAAACTATAGTATATATATAA
Found at i:4544472 original size:33 final size:32
Alignment explanation
Indices: 4544397--4544470 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 32
4544387 TCAACTATAG
*
4544397 TATATATATAGTTCATATGTAAACTATATAGTT
1 TATATATATAGTTCACATGTAAAC-ATATAGTT
4544430 TATATATATAGTTCACATGTAAAC-TATAGTT
1 TATATATATAGTTCACATGTAAACATATAGTT
*
4544461 CATATATATA
1 TATATATATA
4544471 TATAGTGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 16 0.41
33 23 0.59
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (32 bp):
TATATATATAGTTCACATGTAAACATATAGTT
Found at i:4544626 original size:22 final size:22
Alignment explanation
Indices: 4544600--4544649 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4544590 CCCTAAACCA
4544600 TATATACTATATA-TATATAAAC
1 TATATACTATATAGTA-ATAAAC
* *
4544622 TATATAGTTTATAGTAATAAAC
1 TATATACTATATAGTAATAAAC
4544644 TATATA
1 TATATA
4544650 ATGTATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (22 bp):
TATATACTATATAGTAATAAAC
Found at i:4544742 original size:11 final size:11
Alignment explanation
Indices: 4544703--4544762 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
4544693 ATATAAATTG
*
4544703 TATAGTTTATA
1 TATAATTTATA
4544714 TATATATTTCATA
1 TATA-ATTT-ATA
4544727 TATAATTTATA
1 TATAATTTATA
4544738 TATAA---ACTA
1 TATAATTTA-TA
4544747 TATAATTTATA
1 TATAATTTATA
4544758 T-TAAT
1 TATAAT
4544763 AAACTATGTG
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
8 1 0.02
9 7 0.17
10 4 0.10
11 15 0.36
12 8 0.19
13 7 0.17
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (11 bp):
TATAATTTATA
Found at i:4544764 original size:22 final size:20
Alignment explanation
Indices: 4544611--4544769 Score: 85
Period size: 20 Copynumber: 7.7 Consensus size: 20
4544601 ATATACTATA
*
4544611 TATATATAAACTATATAGTT
1 TATATATAAACTATATAATT
*
4544631 TATAGTAATAAACTATATAATG
1 TATA-T-ATAAACTATATAATT
* * *
4544653 TATACA-ATA-TATATTATT
1 TATATATAAACTATATAATT
* *
4544671 TATA-ATTATAC-ATA-ATATA
1 TATATA-TAAACTATATA-ATT
* * * *
4544690 TAAATATAAATTGTATAGTT
1 TATATATAAACTATATAATT
*
4544710 TATATATATATTTCATATATAATT
1 TATATATA-A--AC-TATATAATT
4544734 TATATATAAACTATATAATT
1 TATATATAAACTATATAATT
4544754 TATATTAATAAACTAT
1 TATA-T-ATAAACTAT
4544770 GTGGTTTCTA
Statistics
Matches: 104, Mismatches: 20, Indels: 28
0.68 0.13 0.18
Matches are distributed among these distances:
17 1 0.01
18 11 0.11
19 16 0.15
20 29 0.28
21 5 0.05
22 26 0.25
23 1 0.01
24 15 0.14
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.45
Consensus pattern (20 bp):
TATATATAAACTATATAATT
Found at i:4544854 original size:18 final size:19
Alignment explanation
Indices: 4544816--4544864 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
4544806 TATATAGTAT
*
4544816 TATAGTTTATACATGGTATA
1 TATAGTTTATACAT-GAATA
4544836 TATAGTTTATACAT-AATA
1 TATAGTTTATACATGAATA
4544854 TATAGTTTATA
1 TATAGTTTATA
4544865 TATAGTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 14 0.50
20 14 0.50
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (19 bp):
TATAGTTTATACATGAATA
Found at i:4544946 original size:20 final size:21
Alignment explanation
Indices: 4544901--4544947 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
4544891 ACTATATAGT
4544901 TTATATATATAATACATATAC
1 TTATATATATAATACATATAC
*
4544922 TT-TATATTATATATATATATA-
1 TTATATA-TATA-ATACATATAC
4544943 TTATA
1 TTATA
4544948 GTTGTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 4 0.18
21 8 0.36
22 10 0.45
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATATATATAATACATATAC
Found at i:4545540 original size:209 final size:209
Alignment explanation
Indices: 4544981--4545692 Score: 978
Period size: 215 Copynumber: 3.3 Consensus size: 209
4544971 TTTTGCAATC
* * ** * *
4544981 ATTTCGGTTTGATCCCTTTGTGTTGTTTTATTTATTTAAATTTAAATTTATAATTTCATATTTGT
1 ATTTCGATTTGATTCCTTTGTGTTGTTTTATTTATTTAAATTTTTATTTTTAATTTCATATTTAT
* *
4545046 TCAATTTAGTCCTTAAAATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTA-T
66 TCAATTTAGTCCTTCAAATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATT
*
4545110 TTTTAACTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCT
131 TTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCT
4545175 CACAATTTAAAATT
196 CACAATTTAAAATT
* * *
4545189 ATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAAATTTTTATTTTTAATTTCA
1 ATTTCGATTTGAT---TC--C--TTTGTGTTGTTTTATTTATTTAAATTTTTATTTTTAATTTCA
* * ** * *
4545254 TATTTATTCAATTTAGTCATTCAAATTATATTTGTATCTGAAATTGATTCAGACTTATTACTTAG
59 TATTTATTCAATTTAGTCCTTCAAATTATATTTGCATCTGAAATTGACCCATACTTATTACTTAT
* *
4545319 TTATATTTTTTAATTGACCCATAACTTTTTAAATGGGTATCATTTAGTACTTTTTTGTATTAATT
124 TTATATTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATT
4545384 TAAACCTCACAATTTAAAATT
189 TAAACCTCACAATTTAAAATT
* * **
4545405 ATTTCGATTTGATTCCTTTGTATTGTTTTATTTATTTAATTTTTTATTTTTTGTTTCATATTTAT
1 ATTTCGATTTGATTCCTTTGTGTTGTTTTATTTATTTAAATTTTTATTTTTAATTTCATATTTAT
*
4545470 TCAATTTAGTCCTCCAAATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATT
66 TCAATTTAGTCCTTCAAATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATT
* * *
4545535 TTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTA-TTTTTTTTATTAATTTCAAGCT
131 TTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCT
4545599 CACAATTTAAAATT
196 CACAATTTAAAATT
* * * * *
4545613 ATTTCTATTTGATCCCTAATCAATGTGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCA
1 ATTTCGATTTGATTCC---T---T-TGTGTTGTTTTATTTATTTAAATTTTTATTTTTAATTTCA
*
4545678 TATTTGTTCAATTTA
59 TATTTATTCAATTTA
4545693 ATTCTTGAAT
Statistics
Matches: 440, Mismatches: 49, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
208 58 0.13
209 141 0.32
211 3 0.01
213 3 0.01
214 1 0.00
215 145 0.33
216 89 0.20
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (209 bp):
ATTTCGATTTGATTCCTTTGTGTTGTTTTATTTATTTAAATTTTTATTTTTAATTTCATATTTAT
TCAATTTAGTCCTTCAAATTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATT
TTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTAAACCT
CACAATTTAAAATT
Found at i:4552884 original size:75 final size:76
Alignment explanation
Indices: 4552805--4552945 Score: 266
Period size: 75 Copynumber: 1.9 Consensus size: 76
4552795 ACTACAAAAA
*
4552805 TTCGGTGGATTGGTTTGGTTTTCAACAGCTTGATTTGTCATCTAGTGAAACCGTCTAG-AATTTT
1 TTCGGTGGATTGGTTTGGTTTTCAACAGCTTGATTTCTCATCTAGTGAAACCGTCTAGAAATTTT
4552869 TAATTCCACCT
66 TAATTCCACCT
4552880 TTCGGTGGATTGGTTTGGTTTTCAACAGCTTGATTTCTCATCTAGTGAAACCGTCTAGAAATTTT
1 TTCGGTGGATTGGTTTGGTTTTCAACAGCTTGATTTCTCATCTAGTGAAACCGTCTAGAAATTTT
4552945 T
66 T
4552946 TTCCTCTGAG
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
75 57 0.89
76 7 0.11
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (76 bp):
TTCGGTGGATTGGTTTGGTTTTCAACAGCTTGATTTCTCATCTAGTGAAACCGTCTAGAAATTTT
TAATTCCACCT
Found at i:4558752 original size:77 final size:79
Alignment explanation
Indices: 4558663--4558815 Score: 206
Period size: 77 Copynumber: 2.0 Consensus size: 79
4558653 CGAATTAATA
**
4558663 AAAATCTTATTTAATTAATTC-AAATTAAATAT-ACATT-AAAGACTTATAATCTTAATTACAAT
1 AAAATCTTATTTAATT-ATTCTAAATTAAATATCA-ATTAAAAGACTTATAATCAAAATTACAAT
4558725 C-TTTAATGTTTATTT
64 CTTTTAATGTTTATTT
* * * *
4558740 AAAATCTTATTTAATTATTCTGAATTAAATATCAATTAAAAGAGTTGTAATCAAAATTACATTCT
1 AAAATCTTATTTAATTATTCTAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCT
4558805 TTTAATGTTTA
66 TTTAATGTTTA
4558816 CTTACTATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
76 4 0.06
77 29 0.44
78 22 0.33
79 11 0.17
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.44
Consensus pattern (79 bp):
AAAATCTTATTTAATTATTCTAAATTAAATATCAATTAAAAGACTTATAATCAAAATTACAATCT
TTTAATGTTTATTT
Found at i:4558863 original size:15 final size:16
Alignment explanation
Indices: 4558838--4558867 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4558828 GGGATAATTA
4558838 AAATCATATGTATATC
1 AAATCATATGTATATC
4558854 AAAT-ATATGTATAT
1 AAATCATATGTATAT
4558868 TAACTCTAGA
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:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (16 bp):
AAATCATATGTATATC
Found at i:4577105 original size:17 final size:17
Alignment explanation
Indices: 4577083--4577123 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
4577073 TTAATTTTGA
4577083 TTATTAAACTATAATT-T
1 TTATTAAACTA-AATTAT
4577100 TTATT-AACTAAATTAT
1 TTATTAAACTAAATTAT
4577116 TTAATTAA
1 TT-ATTAA
4577124 TATTAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.19
16 8 0.38
17 8 0.38
18 1 0.05
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAAACTAAATTAT
Found at i:4577264 original size:13 final size:13
Alignment explanation
Indices: 4577246--4577270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4577236 TTTTGATCAT
4577246 AAAAAATATTTTA
1 AAAAAATATTTTA
4577259 AAAAAATATTTT
1 AAAAAATATTTT
4577271 GATCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTA
Found at i:4578724 original size:31 final size:31
Alignment explanation
Indices: 4578655--4578745 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 31
4578645 AAGGATAGAT
* * * *
4578655 TTTGATAAGTTTAAAGATCATTTTGTAATAG
1 TTTGATAAGTTTAATGATTATTTTGTAACAA
*
4578686 TTCGATAAGTTTAATGATTATTTTGTAACAA
1 TTTGATAAGTTTAATGATTATTTTGTAACAA
** *
4578717 TTTGATAAAACTTAATGACTATTTTGTAA
1 TTTGAT-AAGTTTAATGATTATTTTGTAA
4578746 TAGTATTGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 31 0.62
32 19 0.38
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.45
Consensus pattern (31 bp):
TTTGATAAGTTTAATGATTATTTTGTAACAA
Found at i:4581553 original size:30 final size:28
Alignment explanation
Indices: 4581530--4581584 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
4581520 CGGTGATCGG
4581530 TATATTTACCGATCTAACACCGGTCAGAT
1 TATATTTACCGATCTAACACCGGT-AGAT
* *
4581559 TATATTTCCCGATCTAACACCCGTAG
1 TATATTTACCGATCTAACACCGGTAG
4581585 CAGTAAAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
TATATTTACCGATCTAACACCGGTAGAT
Found at i:4581668 original size:51 final size:50
Alignment explanation
Indices: 4581591--4581717 Score: 132
Period size: 51 Copynumber: 2.5 Consensus size: 50
4581581 GTAGCAGTAA
* * * * * *
4581591 AGCGCGCGCCCTG-ACCCGCGCGATACGTTGATTTGGCGCCACGT-GCTGTAT
1 AGCGCGCCCCCTGCA-CCGCGCTATACGCTGATTGGGCGACACATGGC--TAT
**
4581642 AGCGCGCCCCCTGCACCGCGCTATACGCTGATTGGGTTACACATGGCTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGCTGATTGGGCGACACATGGCTAT
*
4581692 AGCGCGCCCCCTGCTCCGCGCTATAC
1 AGCGCGCCCCCTGCACCGCGCTATAC
4581718 CTATTTATCT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
50 28 0.43
51 34 0.52
52 3 0.05
ACGTcount: A:0.15, C:0.37, G:0.28, T:0.20
Consensus pattern (50 bp):
AGCGCGCCCCCTGCACCGCGCTATACGCTGATTGGGCGACACATGGCTAT
Found at i:4581947 original size:17 final size:18
Alignment explanation
Indices: 4581910--4581950 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4581900 ATATTATGTA
*
4581910 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
4581928 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
4581945 TTTACT
1 TTTACT
4581951 AATATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:4584475 original size:50 final size:51
Alignment explanation
Indices: 4584421--4584545 Score: 134
Period size: 50 Copynumber: 2.5 Consensus size: 51
4584411 GGTACACAGA
* *
4584421 TATAGCACGGAGCAAGGGGCGCGCTATA-ACCACGTGTAAC-CC-AGTCAGCG
1 TATAGCGCGGAGCAAGGGGCGCGCTATACACCACGTG--ACGCCAAATCAGCG
* * * *
4584471 TATAGTGCGGTGCAGGGGGCGCGCTATACCCCACGTGACGCCAAATCAGCG
1 TATAGCGCGGAGCAAGGGGCGCGCTATACACCACGTGACGCCAAATCAGCG
4584522 TATAGCGC-GAGTC-AGGGGCGCGCT
1 TATAGCGCGGAG-CAAGGGGCGCGCT
4584546 TTACTGCTAC
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
49 2 0.03
50 38 0.61
51 22 0.35
ACGTcount: A:0.23, C:0.28, G:0.34, T:0.15
Consensus pattern (51 bp):
TATAGCGCGGAGCAAGGGGCGCGCTATACACCACGTGACGCCAAATCAGCG
Found at i:4590116 original size:2 final size:2
Alignment explanation
Indices: 4590111--4590154 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
4590101 ACATTATACC
4590111 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
4590153 AT
1 AT
4590155 GTGTGTGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4590159 original size:2 final size:2
Alignment explanation
Indices: 4590154--4590182 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4590144 TATATATATA
4590154 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4590183 TAATATACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4594493 original size:12 final size:13
Alignment explanation
Indices: 4594476--4594507 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
4594466 TTATCCCAAA
4594476 ATAAATAAT-AAT
1 ATAAATAATAAAT
4594488 ATAAAT-ATAAAT
1 ATAAATAATAAAT
4594500 ATAAATAA
1 ATAAATAA
4594508 AAAAAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATAAAT
Found at i:4601356 original size:24 final size:24
Alignment explanation
Indices: 4601328--4601386 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
4601318 TCAGGATAAA
* *
4601328 TCTATGTGGCACTTCGGTGCATAT
1 TCTATGTGGCACTTCAGTGCAAAT
*
4601352 TCTATGTGGCTCTTCAGTGCAAAT
1 TCTATGTGGCACTTCAGTGCAAAT
*
4601376 TCTACGTGGCA
1 TCTATGTGGCA
4601387 GTTTCGACTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (24 bp):
TCTATGTGGCACTTCAGTGCAAAT
Found at i:4602139 original size:39 final size:37
Alignment explanation
Indices: 4602088--4602188 Score: 102
Period size: 39 Copynumber: 2.6 Consensus size: 37
4602078 AACAGAGAGA
4602088 AAAAAAAG-AAAAGATATAGAAAAATGAAGAAA-AAC-AT
1 AAAAAAAGAAAAAGA-ATAGAAAAA-G-AGAAATAACAAT
4602125 AAAAAAAGATAAAAGAA-AGAAAGAAGAGAAATAACAAAT
1 AAAAAAAGA-AAAAGAATAGAAA-AAGAGAAATAAC-AAT
4602164 AAAAAAAGAAAGAAGAATGAGAAAA
1 AAAAAAAGAAA-AAGAAT-AGAAAA
4602189 CAAAACAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 15
0.79 0.00 0.21
Matches are distributed among these distances:
36 5 0.09
37 17 0.31
38 5 0.09
39 22 0.40
40 1 0.02
41 5 0.09
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (37 bp):
AAAAAAAGAAAAAGAATAGAAAAAGAGAAATAACAAT
Found at i:4602405 original size:9 final size:9
Alignment explanation
Indices: 4602391--4602417 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
4602381 AGGGATCCGG
4602391 GAAAATGAA
1 GAAAATGAA
4602400 GAAAATGAA
1 GAAAATGAA
4602409 GAAAATGAA
1 GAAAATGAA
4602418 ATGGTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.22, T:0.11
Consensus pattern (9 bp):
GAAAATGAA
Done.