Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_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: 3132588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 15
Found at i:2194323 original size:15 final size:15
Alignment explanation
Indices: 2194300--2194331 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2194290 TCAAGTCATC
2194300 AATACTTGACATATA
1 AATACTTGACATATA
*
2194315 AATAGTTGACATATA
1 AATACTTGACATATA
2194330 AA
1 AA
2194332 GAAAGAGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (15 bp):
AATACTTGACATATA
Found at i:2195505 original size:16 final size:17
Alignment explanation
Indices: 2195484--2195604 Score: 94
Period size: 16 Copynumber: 7.5 Consensus size: 17
2195474 ATTTCAATAT
*
2195484 GTTCGGGTT-TCTTTCG
1 GTTCGGGTTAACTTTCG
* *
2195500 GATCGGGTTAAATTT-G
1 GTTCGGGTTAACTTTCG
2195516 GTTCGGGTT-ACTTTCG
1 GTTCGGGTTAACTTTCG
*
2195532 GTTCGGGTT-ATTTTCG
1 GTTCGGGTTAACTTTCG
2195548 GTTCGGGTTAA-TTTCG
1 GTTCGGGTTAACTTTCG
* * * *
2195564 TTTTGGGTT-GCTTTTG
1 GTTCGGGTTAACTTTCG
* *
2195580 GTTCAGGTTAA-TTTCA
1 GTTCGGGTTAACTTTCG
*
2195596 GTTCTGGTT
1 GTTCGGGTT
2195605 TATTTCAGTT
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
15 4 0.05
16 75 0.90
17 4 0.05
ACGTcount: A:0.10, C:0.12, G:0.30, T:0.48
Consensus pattern (17 bp):
GTTCGGGTTAACTTTCG
Found at i:2195520 original size:32 final size:32
Alignment explanation
Indices: 2195484--2195563 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
2195474 ATTTCAATAT
*
2195484 GTTCGGGTTTCTTTCGGATCGGGTTAAATTT-G
1 GTTCGGGTTACTTTCGGATCGGGTT-AATTTCG
* *
2195516 GTTCGGGTTACTTTCGGTTCGGGTTATTTTCG
1 GTTCGGGTTACTTTCGGATCGGGTTAATTTCG
*
2195548 GTTCGGGTTAATTTCG
1 GTTCGGGTTACTTTCG
2195564 TTTTGGGTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 4 0.09
32 39 0.91
ACGTcount: A:0.10, C:0.14, G:0.31, T:0.45
Consensus pattern (32 bp):
GTTCGGGTTACTTTCGGATCGGGTTAATTTCG
Found at i:2195554 original size:48 final size:48
Alignment explanation
Indices: 2195484--2195610 Score: 132
Period size: 48 Copynumber: 2.6 Consensus size: 48
2195474 ATTTCAATAT
*
2195484 GTTCGGGTT-TCTTTCGGATCGGGTTAAATTT-GGTTCGGGTTACTTTCG
1 GTTCGGGTTAT-TTTCGGTTCGGGTT-AATTTCGGTTCGGGTTACTTTCG
* * * *
2195532 GTTCGGGTTATTTTCGGTTCGGGTTAATTTCGTTTTGGGTTGCTTTTG
1 GTTCGGGTTATTTTCGGTTCGGGTTAATTTCGGTTCGGGTTACTTTCG
* * * * *
2195580 GTTCAGGTTAATTTCAGTTCTGGTTTATTTC
1 GTTCGGGTTATTTTCGGTTCGGGTTAATTTC
2195611 AGTTTCACTA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 5 0.07
48 61 0.91
49 1 0.01
ACGTcount: A:0.10, C:0.13, G:0.28, T:0.49
Consensus pattern (48 bp):
GTTCGGGTTATTTTCGGTTCGGGTTAATTTCGGTTCGGGTTACTTTCG
Found at i:2195572 original size:32 final size:31
Alignment explanation
Indices: 2195512--2195609 Score: 106
Period size: 32 Copynumber: 3.1 Consensus size: 31
2195502 TCGGGTTAAA
* * *
2195512 TTTGGTTCGGGTTACTTTCGGTTCGGGTTAT
1 TTTGGTTCGGGTTAATTTCGTTTTGGGTTAT
*
2195543 TTTCGGTTCGGGTTAATTTCGTTTTGGGTTGCT
1 TTT-GGTTCGGGTTAATTTCGTTTTGGGTT-AT
* * *
2195576 TTTGGTTCAGGTTAATTTCAGTTCTGGTTTAT
1 TTTGGTTCGGGTTAATTTC-GTTTTGGGTTAT
2195608 TT
1 TT
2195610 CAGTTTCACT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
31 3 0.05
32 41 0.73
33 12 0.21
ACGTcount: A:0.09, C:0.11, G:0.28, T:0.52
Consensus pattern (31 bp):
TTTGGTTCGGGTTAATTTCGTTTTGGGTTAT
Found at i:2195609 original size:16 final size:16
Alignment explanation
Indices: 2195580--2195614 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2195570 GTTGCTTTTG
2195580 GTTCAGGTTAATTTCA
1 GTTCAGGTTAATTTCA
* *
2195596 GTTCTGGTTTATTTCA
1 GTTCAGGTTAATTTCA
2195612 GTT
1 GTT
2195615 TCACTACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.20, T:0.51
Consensus pattern (16 bp):
GTTCAGGTTAATTTCA
Found at i:2195730 original size:14 final size:14
Alignment explanation
Indices: 2195711--2195742 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
2195701 AAGTATTGTG
2195711 TCAAGTAAATCAGT
1 TCAAGTAAATCAGT
2195725 TCAAGTAAATCAGT
1 TCAAGTAAATCAGT
2195739 TCAA
1 TCAA
2195743 CTAATCGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (14 bp):
TCAAGTAAATCAGT
Found at i:2197652 original size:23 final size:23
Alignment explanation
Indices: 2197626--2197673 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2197616 ATTTTTATCT
2197626 CTTAAGACGTAACACTTTTGTCC
1 CTTAAGACGTAACACTTTTGTCC
*
2197649 CTTAAGACGTAACATTTTTGTCC
1 CTTAAGACGTAACACTTTTGTCC
2197672 CT
1 CT
2197674 AATAAGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (23 bp):
CTTAAGACGTAACACTTTTGTCC
Found at i:2201442 original size:86 final size:86
Alignment explanation
Indices: 2201201--2201996 Score: 990
Period size: 86 Copynumber: 9.3 Consensus size: 86
2201191 CACCTGAGAA
* * * * *
2201201 AAGGCGATAAGGGTTATCT-ACAAACAAAAGACCTTTGAGTTTGATTACATTCAGCTCAAAGACA
1 AAGGCGAGAAGGGTTATCTGTC-AACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA
* *
2201265 CATCAAATTTGCAGCATAGCTC
65 TATCAAATTTGCAGCATAACTC
* * * * * * *
2201287 AAGGCGAGAAGGGCTATCTGTCAAC-CAAGACCTTCGAGTTTGATTACATTAAACTTAAAGGCAC
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
* * *
2201351 ATCAAATTTACAACATAACTT
66 ATCAAATTTGCAGCATAACTC
* * * *
2201372 AAGGCGAGAAGGGTTATATGTCAACAAAAGACATTCGATTTCGATTACATTCAGTTCAAAGGCAT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
* *
2201437 ATCAAATTCGTAGCATAACTC
66 ATCAAATTTGCAGCATAACTC
* * * * * *
2201458 AAGGCTAGAAGGGTTATATGCCAACAAAGGACCTTTGAGTTCGATTACATTCAGCTCAAAGGCAC
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
** *
2201523 ATCAAATTTATAGAATAACTC
66 ATCAAATTTGCAGCATAACTC
* *
2201544 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
2201609 ATCAAATTTGCAGCATAACTC
66 ATCAAATTTGCAGCATAACTC
* * * * *
2201630 AAGGAGATAAGGGTTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACACTCACCTCAAAGG-AT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCA-
* * *
2201693 TATCATATTTACAACATAACTC
65 TATCAAATTTGCAGCATAACTC
* * * *
2201715 AAGGCGAGAAGGGTTATCTGTCAAC-CAAGACCTTTGAGTTCGATTACACTCAGCTCAAAAGCAT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
2201779 ATCAAATTTGCAGCATAACTC
66 ATCAAATTTGCAGCATAACTC
* * * * *
2201800 AAGGTGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTAGATTAAGCTCAAAGACAT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
* * * *
2201865 ATCCAATTCGCAGTATAGCTC
66 ATCAAATTTGCAGCATAACTC
* * *
2201886 AAGGCGAGAAGGGTTATCTGTCAACACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAC
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
*
2201951 ATCGAATTTGCAGCATAACTC
66 ATCAAATTTGCAGCATAACTC
* *
2201972 AAGGCAAGAAGGGTTATCTTTCAAC
1 AAGGCGAGAAGGGTTATCTGTCAAC
2201997 CAATTACACT
Statistics
Matches: 613, Mismatches: 92, Indels: 10
0.86 0.13 0.01
Matches are distributed among these distances:
84 1 0.00
85 223 0.36
86 388 0.63
87 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (86 bp):
AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCAT
ATCAAATTTGCAGCATAACTC
Found at i:2201833 original size:171 final size:171
Alignment explanation
Indices: 2201201--2202377 Score: 1413
Period size: 171 Copynumber: 7.0 Consensus size: 171
2201191 CACCTGAGAA
* * * * *
2201201 AAGGCGATAAGGGTTATCT-ACAAACAAAAGACCTTTGAGTTTGATTACATTCAGCTCAAAGACA
1 AAGGCGAGAAGGGTTATCTGTC-AACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCA
* * * *
2201265 CATCAAATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTTGA
65 CATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGA
* * * * *
2201330 TTACATTAAACTTAAAGGCACATCAAATTTACAACATAACTT
130 TTACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTC
* * * * * * *
2201372 AAGGCGAGAAGGGTTATATGTCAACAAAAGACATTCGATTTCGATTACATTCAGTTCAAAGGCAT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
* * * * * *
2201437 ATCAAATTCGTAGCATAACTCAAGGCTAGAAGGGTTATATGCCAACAAAGGACCTTTGAGTTCGA
66 ATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAA-GACCTTCGAGTTCGA
* *
2201502 TTACATTCAGCTCAAAGGCACATCAAATTTATAGA-ATAACTC
130 TTACACTCAGCTCAAAGGCACATCAAATTTACA-ACATAACTC
*
2201544 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
* * *
2201609 ATCAAATTTGCAGCATAACTCAAGGAGATAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGAT
66 ATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGAT
* * *
2201674 TACACTCACCTCAAAGG-ATTATCATATTTACAACATAACTC
131 TACACTCAGCTCAAAGGCA-CATCAAATTTACAACATAACTC
* * *
2201715 AAGGCGAGAAGGGTTATCTGTCAAC-CAAGACCTTTGAGTTCGATTACACTCAGCTCAAAAGCAT
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
* *
2201779 ATCAAATTTGCAGCATAACTCAAGGTGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGA
66 ATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGA
* * * * * * ** ** *
2201844 TTAGATTAAGCTCAAAGACATATCCAATTCGCAGTATAGCTC
130 TTACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTC
* *
2201886 AAGGCGAGAAGGGTTATCTGTCAACACAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAC
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
* * *
2201951 ATCGAATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCT-T--TC--A-A-C--C-A-----AT
66 ATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGAT
*
2202001 TACACTCAGCTCAAAGGAACATCAAATTTACAACATAACTC
131 TACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTC
*
2202042 AAGGCGAGAAGGGTTATCTGTTAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
* * * * * *
2202107 ATCGAATTTGTAGTATAACTGAAGGCAAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGAT
66 ATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGAT
* *
2202172 TACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTC
131 TACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTC
* * * * * *
2202213 AAGGCGAGAAAGGTTATCTGTTAACAAAAGACCTTCGAGTTCGATTATATTCAGCTTAAAGGCAC
1 AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
* * * * *
2202278 GTCAAATTTACAGTATAACTCAAGGCGAGAAGGGTTATCTGTCAATAAAGACCTTCGAGTTTGAT
66 ATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGAT
* * * **
2202343 T-CTATTCAGATCAAGGGCATGTCAAATTTACAACA
131 TAC-ACTCAGCTCAAAGGCACATCAAATTTACAACA
2202378 GCTTAAGTCG
Statistics
Matches: 869, Mismatches: 113, Indels: 48
0.84 0.11 0.05
Matches are distributed among these distances:
156 130 0.15
157 1 0.00
159 1 0.00
161 2 0.00
162 2 0.00
163 1 0.00
164 1 0.00
165 2 0.00
166 2 0.00
169 1 0.00
170 83 0.10
171 420 0.48
172 222 0.26
173 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (171 bp):
AAGGCGAGAAGGGTTATCTGTCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCAC
ATCAAATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGAT
TACACTCAGCTCAAAGGCACATCAAATTTACAACATAACTC
Found at i:2202042 original size:70 final size:70
Alignment explanation
Indices: 2201929--2202060 Score: 219
Period size: 70 Copynumber: 1.9 Consensus size: 70
2201919 TTCGAGTTCG
* * * *
2201929 ATTACACTCAGCTCAAAGGCACATCGAATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTTTC
1 ATTACACTCAGCTCAAAGGAACATCAAATTTACAACATAACTCAAGGCAAGAAGGGTTATCTTTC
2201994 AACCA
66 AACCA
*
2201999 ATTACACTCAGCTCAAAGGAACATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCT
1 ATTACACTCAGCTCAAAGGAACATCAAATTTACAACATAACTCAAGGCAAGAAGGGTTATCT
2202061 GTTAACAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 57 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (70 bp):
ATTACACTCAGCTCAAAGGAACATCAAATTTACAACATAACTCAAGGCAAGAAGGGTTATCTTTC
AACCA
Found at i:2202190 original size:85 final size:86
Alignment explanation
Indices: 2201999--2202426 Score: 490
Period size: 86 Copynumber: 5.0 Consensus size: 86
2201989 CTTTCAACCA
* * *
2201999 ATTACACTCAGCTCAAAGGAACATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATCTGTT
1 ATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
*
2202064 AACAAAAGACCTTTGAGTTCG
66 AACAAAAGACCTTCGAGTTCG
* ** * * *
2202085 ATTACACTCAGCTCAAAGGCACATCGAATTTGTAGTATAACTGAAGGCAAGAAGGGTTATCTGTC
1 ATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
*
2202150 AAC-CAAGACCTTCGAGTTCG
66 AACAAAAGACCTTCGAGTTCG
* * *
2202170 ATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGCGAGAAAGGTTATCTGTT
1 ATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
2202235 AACAAAAGACCTTCGAGTTCG
66 AACAAAAGACCTTCGAGTTCG
* * * * *
2202256 ATTATATTCAGCTTAAAGGCACGTCAAATTTACAGTATAACTCAAGGCGAGAAGGGTTATCTGTC
1 ATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
* *
2202321 AA-TAAAGACCTTCGAGTTTG
66 AACAAAAGACCTTCGAGTTCG
* * * ** * * * * ** *
2202341 ATT-CTATTCAGATCAAGGGCATGTCAAATTTACA--ACAGCTTAAGTCGAGAAAAGTTATTTGT
1 ATTAC-ACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGT
* *
2202403 CAACAAAA-ATCGTCGAGTTCG
65 CAACAAAAGACCTTCGAGTTCG
2202424 ATT
1 ATT
2202427 CCATTCAACT
Statistics
Matches: 292, Mismatches: 47, Indels: 9
0.84 0.14 0.03
Matches are distributed among these distances:
83 37 0.13
84 3 0.01
85 118 0.40
86 134 0.46
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (86 bp):
ATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
AACAAAAGACCTTCGAGTTCG
Found at i:2203225 original size:16 final size:17
Alignment explanation
Indices: 2203197--2203229 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2203187 TAGTATAAAT
2203197 ATATATATATTATATCA
1 ATATATATATTATATCA
2203214 ATATAT-TATTATATCA
1 ATATATATATTATATCA
2203230 TTGTATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATATATTATATCA
Found at i:2204479 original size:2 final size:2
Alignment explanation
Indices: 2204472--2204496 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2204462 ATTTATTTAT
2204472 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2204497 TTAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2204706 original size:23 final size:23
Alignment explanation
Indices: 2204657--2204707 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
2204647 TTATTTATTT
* * *
2204657 ATTTATTTATTTTTCTTTCTTCG
1 ATTTATTTATATTTATTTCTTCA
2204680 ATTTATTTAATATTTATTT-TTCA
1 ATTTATTT-ATATTTATTTCTTCA
2204703 ATTTA
1 ATTTA
2204708 ACTTTTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTATTTATATTTATTTCTTCA
Found at i:2208610 original size:21 final size:20
Alignment explanation
Indices: 2208578--2208627 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
2208568 TCAGAAATGT
* *
2208578 TAAAAAATTAATGTTTTAGG
1 TAAAAAAATAATGATTTAGG
*
2208598 TAAAAATAATAATGATTTATG
1 TAAAAA-AATAATGATTTAGG
2208619 TAAAAAAAT
1 TAAAAAAAT
2208628 TTTATCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
TAAAAAAATAATGATTTAGG
Found at i:2219224 original size:14 final size:11
Alignment explanation
Indices: 2219193--2219221 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2219183 CACGTGAGGA
2219193 TTATTTTCTTC
1 TTATTTTCTTC
2219204 TTATTTTCTTC
1 TTATTTTCTTC
2219215 TTATTTT
1 TTATTTT
2219222 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTCTTC
Found at i:2222465 original size:4 final size:4
Alignment explanation
Indices: 2222456--2222485 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
2222446 TCCCCATATA
2222456 AACT AACT AACT AACT AACT AACT AACT AA
1 AACT AACT AACT AACT AACT AACT AACT AA
2222486 TTTACACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (4 bp):
AACT
Found at i:2223452 original size:20 final size:20
Alignment explanation
Indices: 2223427--2223465 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2223417 GACACTGGGA
* *
2223427 GTGCATGGCGACTTTCAACC
1 GTGCATGGAGACCTTCAACC
2223447 GTGCATGGAGACCTTCAAC
1 GTGCATGGAGACCTTCAAC
2223466 AGCTCACGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (20 bp):
GTGCATGGAGACCTTCAACC
Found at i:2228356 original size:21 final size:23
Alignment explanation
Indices: 2228332--2228373 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2228322 ATTTTAAACT
2228332 TTTATAA-ATTT-AAATATTTTA
1 TTTATAATATTTAAAATATTTTA
*
2228353 TTTATAATTTTTAAAATATTT
1 TTTATAATATTTAAAATATTT
2228374 AATTCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATAATATTTAAAATATTTTA
Found at i:2229269 original size:18 final size:18
Alignment explanation
Indices: 2229228--2229266 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2229218 TTTGGTTCAC
2229228 GGAATGGAAGATTACAGTG
1 GGAATGGAAGATTACAG-G
*
2229247 GGAATGTAAGATTACCAGG
1 GGAATGGAAGATTA-CAGG
2229266 G
1 G
2229267 AATAGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.36, C:0.08, G:0.36, T:0.21
Consensus pattern (18 bp):
GGAATGGAAGATTACAGG
Found at i:2243976 original size:33 final size:31
Alignment explanation
Indices: 2243899--2244123 Score: 158
Period size: 33 Copynumber: 7.1 Consensus size: 31
2243889 AAACATTTAT
*
2243899 TATTATATAGTTTTTAGAACATTTTGAAA-A
1 TATTATATAGTTTTTAAAACATTTTGAAATA
*
2243929 TAATAATATAGTTTTTAAAACATTTTGAAATGTA
1 T-ATTATATAGTTTTTAAAACATTTTGAAA--TA
**
2243963 TATTATATAGTTTTTAAAATGTTTTGAAA-A
1 TATTATATAGTTTTTAAAACATTTTGAAATA
* *
2243993 TA-AATATAGTTTTTTAAAAAAAAATTTTGAAACATA
1 TATTATATAG-TTTTT---AAAACATTTTG-AA-ATA
* *
2244029 TATTATATAGTTTTGAAATCATTTTGAAACTTA
1 TATTATATAGTTTTTAAAACATTTTGAAA--TA
**
2244062 TATGGTATAGTTTTTAAAA-ATTTTTG-AA-A
1 TATTATATAGTTTTTAAAACA-TTTTGAAATA
** * * *
2244091 -ACCATATAGTTTTGAAAACATTTTCAAAAA
1 TATTATATAGTTTTTAAAACATTTTGAAATA
2244121 TAT
1 TAT
2244124 ATAATTTATA
Statistics
Matches: 154, Mismatches: 22, Indels: 37
0.72 0.10 0.17
Matches are distributed among these distances:
28 18 0.12
29 10 0.06
30 10 0.06
31 28 0.18
32 5 0.03
33 65 0.42
34 4 0.03
35 1 0.01
36 7 0.05
37 6 0.04
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (31 bp):
TATTATATAGTTTTTAAAACATTTTGAAATA
Found at i:2244054 original size:66 final size:64
Alignment explanation
Indices: 2243899--2244090 Score: 194
Period size: 66 Copynumber: 2.9 Consensus size: 64
2243889 AAACATTTAT
* * **
2243899 TATTATATAGTTTTTAGAA-CATTTTGAAAATAATAATATAGTTTTTAAAACATTTTGAAATGTA
1 TATTATATAG-TTTTAAAATCATTTTGAAAATAATAATATAGTTTTTAAAAAATTTTGAAACATA
*
2243963 TATTATATAGTTTTTAAAAT-GTTTTGAAAAT-A-AATATAGTTTTTTAAAAAAAAATTTTGAAA
1 TATTATATAG-TTTTAAAATCATTTTGAAAATAATAATATAG-TTTTT---AAAAAATTTTGAAA
2244025 CATA
61 CATA
* * ** *
2244029 TATTATATAGTTTTGAAATCATTTTGAAACTTATATGGTATAGTTTTTAAAAATTTTTGAAA
1 TATTATATAGTTTTAAAATCATTTTGAAA-ATA-ATAATATAGTTTTTAAAAAATTTTGAAA
2244091 ACCATATAGT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
62 7 0.07
63 6 0.06
64 28 0.26
65 8 0.07
66 46 0.43
67 1 0.01
69 6 0.06
70 5 0.05
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (64 bp):
TATTATATAGTTTTAAAATCATTTTGAAAATAATAATATAGTTTTTAAAAAATTTTGAAACATA
Found at i:2244125 original size:28 final size:28
Alignment explanation
Indices: 2244067--2244126 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
2244057 ACTTATATGG
* * *
2244067 TATAGTTTTTAAAAATTTTTGAAAACCA
1 TATAGTTTTGAAAAATTTTTCAAAAACA
*
2244095 TATAGTTTTGAAAACA-TTTTCAAAAATA
1 TATAGTTTTGAAAA-ATTTTTCAAAAACA
2244123 TATA
1 TATA
2244127 ATTTATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
TATAGTTTTGAAAAATTTTTCAAAAACA
Found at i:2244192 original size:5 final size:5
Alignment explanation
Indices: 2244182--2244232 Score: 59
Period size: 5 Copynumber: 9.8 Consensus size: 5
2244172 TTTTGGAAAA
*
2244182 TATTT TATTT TATCTT TATTAT TA-TT TATTT CTTTTT TATTT TATTT
1 TATTT TATTT TAT-TT TATT-T TATTT TATTT -TATTT TATTT TATTT
2244229 TATT
1 TATT
2244233 AATTTCAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 3 0.08
5 25 0.62
6 12 0.30
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:2244230 original size:21 final size:22
Alignment explanation
Indices: 2244182--2244232 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
2244172 TTTTGGAAAA
2244182 TATTTTATTTTATCTTTATTAT
1 TATTTTATTTTATCTTTATTAT
*
2244204 TA-TTTATTTCT-TTTTTATT-T
1 TATTTTATTT-TATCTTTATTAT
2244224 TATTTTATT
1 TATTTTATT
2244233 AATTTCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTATTTTATCTTTATTAT
Found at i:2244231 original size:25 final size:26
Alignment explanation
Indices: 2244189--2244255 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
2244179 AAATATTTTA
* *
2244189 TTTTATCTTTATTATTATTTATTTC-TT
1 TTTTAT-TTTATT-TTATTAATTTCAAT
2244216 TTTTATTTTATTTTATTAATTTCAAT
1 TTTTATTTTATTTTATTAATTTCAAT
*
2244242 TTTTATTTCATTTT
1 TTTTATTTTATTTT
2244256 TCTTTCCAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.28
26 20 0.56
27 6 0.17
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (26 bp):
TTTTATTTTATTTTATTAATTTCAAT
Found at i:2245488 original size:16 final size:15
Alignment explanation
Indices: 2245422--2245501 Score: 53
Period size: 15 Copynumber: 5.5 Consensus size: 15
2245412 TACTATTTTA
*
2245422 TTTTTTAATTATCAT
1 TTTTTTATTTATCAT
*
2245437 TTTTTTCTTTA--AT
1 TTTTTTATTTATCAT
**
2245450 TTTTTTA-AAATCCA-
1 TTTTTTATTTAT-CAT
*
2245464 ATTTTTATTTATCAT
1 TTTTTTATTTATCAT
*
2245479 TTTTTCTATTTAT-TT
1 TTTTT-TATTTATCAT
2245494 TTTTTTAT
1 TTTTTTAT
2245502 ATTTTTTTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
12 1 0.02
13 8 0.16
14 11 0.22
15 22 0.45
16 7 0.14
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTATTTATCAT
Found at i:2245504 original size:16 final size:15
Alignment explanation
Indices: 2245465--2245540 Score: 50
Period size: 16 Copynumber: 5.0 Consensus size: 15
2245455 TAAAATCCAA
*
2245465 TTTTTATTTATCATTT
1 TTTTTATTTAT-TTTT
*
2245481 TTTCTATTTA-TTTT
1 TTTTTATTTATTTTT
2245495 TTTTTA--TATTTTT
1 TTTTTATTTATTTTT
** *
2245508 TTTAAACTTATTTAATT
1 TTTTTATTTATTT--TT
2245525 TTTTTATTTAATTTTT
1 TTTTTATTT-ATTTTT
2245541 CCTATTTTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
12 2 0.04
13 8 0.17
14 8 0.17
15 5 0.11
16 11 0.24
17 8 0.17
18 4 0.09
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTATTTATTTTT
Found at i:2245518 original size:27 final size:27
Alignment explanation
Indices: 2245437--2245533 Score: 67
Period size: 29 Copynumber: 3.6 Consensus size: 27
2245427 TAATTATCAT
* **
2245437 TTTTTTCTTTA-ATTTTTTTAAAATCCAA
1 TTTTTT-TTTATATTTTTTTTAAA-CTTA
* * *
2245465 TTTTTATTTATCATTTTTTCT--ATTTA
1 TTTTTTTTTAT-ATTTTTTTTAAACTTA
2245491 TTTTTTTTTATATTTTTTTTAAACTTA
1 TTTTTTTTTATATTTTTTTTAAACTTA
2245518 TTTAATTTTTT-TATTT
1 TTT--TTTTTTATATTT
2245534 AATTTTTCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
25 8 0.15
26 11 0.20
27 12 0.22
28 10 0.19
29 13 0.24
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTTTTTATATTTTTTTTAAACTTA
Found at i:2245533 original size:13 final size:13
Alignment explanation
Indices: 2245515--2245540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2245505 TTTTTTAAAC
2245515 TTATTTAATTTTT
1 TTATTTAATTTTT
2245528 TTATTTAATTTTT
1 TTATTTAATTTTT
2245541 CCTATTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTAATTTTT
Found at i:2247697 original size:21 final size:22
Alignment explanation
Indices: 2247657--2247708 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
2247647 GCAAAGAAAT
2247657 GGAGGAAAAAATCAGCAGTTGGA
1 GGAGGAAAAAATCA-CAGTTGGA
2247680 GGAGGAAAAAATCA-AGTTGGA
1 GGAGGAAAAAATCACAGTTGGA
2247701 GGA-GAAAA
1 GGAGGAAAA
2247709 TGAAGTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.17
21 10 0.34
23 14 0.48
ACGTcount: A:0.48, C:0.06, G:0.35, T:0.12
Consensus pattern (22 bp):
GGAGGAAAAAATCACAGTTGGA
Found at i:2248502 original size:281 final size:274
Alignment explanation
Indices: 2248008--2248561 Score: 934
Period size: 281 Copynumber: 2.0 Consensus size: 274
2247998 TGGAACAATA
* *
2248008 CAAGCATATCAATGATATAAGGCCAGATCGAGTTATGCTACCAAAGCATGGGAAAAAGCATACGC
1 CAAGCATATCAATGATATAAGGCCAGATCGAGTTATGCTACCAAAGCATGGAAAAAAGCATACGA
*
2248073 GAGTTTTAGCAATACACACAAAATGGAGAGATTTGGTTACAAGTGATCCACTTTGGATGAAAAGG
66 GAGTTTCAGCAATACACACAAAATGGAGAGATTTGGTTACAAGTGATCCACTTTGGATGAAAAGG
*
2248138 AAACCTAAAAACTTTTCGTACAGACCCTGAACTCCATACTTTGGACACCTGGTTGCTATCACATC
131 AAACCTAAAAACTTTTCGTACAGACCCTGAACTCCATACTTTGGACACCTGGTTGCGATCACATC
* *
2248203 AGAAAGCTTTTCAGACTTGGTTATGGCTGGAGAAATGGTCGAGTCCG-C-TAAAGCAGGGCAAGA
196 AGAAAGCTTTTCAGACTTGGTTATGGCTGGAGAAATGGTCGAGTCAGCCATAAAGCAGAGCAAGA
2248266 TTAAAGATGGGGAG
261 TTAAAGATGGGGAG
2248280 CAAGCATATCAATGATATAAGGCCAGATCGAGTTATGCTA-CAAAGCATGGAAAATAAGCATAAC
1 CAAGCATATCAATGATATAAGGCCAGATCGAGTTATGCTACCAAAGCATGGAAAA-AAGCAT-AC
2248344 GAGAGTTTCAGGCAATACACACAAAAATGGAGAGATTTGGTTGTACAAGTGCATCCACCTTTGGA
64 GAGAGTTTCA-GCAATACACAC-AAAATGGAGAGATTTGG-T-TACAAGTG-ATCCA-CTTTGGA
*
2248409 TGAAAAGGAAACCTGAAAACTTTTCGTACAGACCCTGAATACTCCATACTTTGGACACCTGGTTG
123 TGAAAAGGAAACCTAAAAACTTTTCGTACAGACCCTG-A-ACTCCATACTTTGGACACCTGGTTG
2248474 CGATCACATCAGAAAGCTTTTCAGACTTGGTTATGGCTGGAGAAATGGTCGAGTCAGCCATAAAG
186 CGATCACATCAGAAAGCTTTTCAGACTTGGTTATGGCTGGAGAAATGGTCGAGTCAGCCATAAAG
2248539 CAGAGCAAGATTAAAGATGGGGA
251 CAGAGCAAGATTAAAGATGGGGA
2248562 AGCCAGTAAG
Statistics
Matches: 263, Mismatches: 7, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
271 13 0.05
272 46 0.17
273 10 0.04
274 11 0.04
275 17 0.06
276 1 0.00
277 8 0.03
278 5 0.02
279 43 0.16
280 1 0.00
281 80 0.30
282 1 0.00
283 27 0.10
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (274 bp):
CAAGCATATCAATGATATAAGGCCAGATCGAGTTATGCTACCAAAGCATGGAAAAAAGCATACGA
GAGTTTCAGCAATACACACAAAATGGAGAGATTTGGTTACAAGTGATCCACTTTGGATGAAAAGG
AAACCTAAAAACTTTTCGTACAGACCCTGAACTCCATACTTTGGACACCTGGTTGCGATCACATC
AGAAAGCTTTTCAGACTTGGTTATGGCTGGAGAAATGGTCGAGTCAGCCATAAAGCAGAGCAAGA
TTAAAGATGGGGAG
Found at i:2250068 original size:85 final size:84
Alignment explanation
Indices: 2249862--2250486 Score: 489
Period size: 81 Copynumber: 7.6 Consensus size: 84
2249852 GCTCAAGGCC
* * ** * * * * *
2249862 AGAAGGGCTATCTGCCACC--AAGACCTTCGAGTTCGACCACGCCCAGC-TCCAAGGCACATTAT
1 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* * *
2249924 TTGCAGCATAGCTTAAGTCG
66 TTGCAGCATAACTCAAGT-T
* * * *
2249944 AGAAGGGCTATCTG----CTAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
1 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* *
2250005 TTACAACATAACTCAAGGTT
66 TTGCAGCATAACTCAA-GTT
** *
2250025 AGAAGGGTTATCTGTCACCAAAAGACCGGCGAGTTCGATTACACTCAGCTTCGAGGACACATCAT
1 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* *
2250090 TTGCAGCATAACTTAAGTCG
66 TTGCAGCATAACTCAAGT-T
* * * * * * *
2250110 AGAAGGGTTATTTATCAACC-AAAGACCTTCGAGTTCGACTACGCTTAGC-TCCAAGGCACATCA
1 AGAAGGGTTATCTGTC-ACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCA
* *
2250173 TTTGCAGCATAGCTTAAGTT
65 TTTGCAGCATAACTCAAGTT
* * * * *
2250193 GAGAAGGGCTATCTATTA--AAGA-ACC-TCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCA
1 -AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCA
* * *
2250254 TTTACAACATAACTCAAGGCT
65 TTTGCAGCATAACTCAA-GTT
* * * * **
2250275 AGAAGGGTTATCTGTCACCAAAAGACCTTCGATTTCGACTACGCTCAGC-TCCAAAGCACATCAT
1 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
* * * *
2250339 TTGTAGCATAGCTTAAGTCA
66 TTGCAGCATAACTCAAGT-T
* ** * *
2250359 AGAAGGGATATCTG---CC-AAAGACCCGCGAGTTCGATTACACTCAGCTTTGAGAGCACATCAT
1 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
*
2250420 TTGCAGCATAACTCAAGGCT
66 TTGCAGCATAACTCAA-GTT
* * * *
2250440 AGAAGGGTTATTTGTCAAC-AAAGACTTTTGAG-TCTGATTACACTCAG
1 AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTC-GATTACACTCAG
2250487 ATCAACAACA
Statistics
Matches: 428, Mismatches: 90, Indels: 48
0.76 0.16 0.08
Matches are distributed among these distances:
78 1 0.00
80 63 0.15
81 118 0.28
82 21 0.05
83 7 0.02
84 105 0.25
85 110 0.26
86 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (84 bp):
AGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
TTGCAGCATAACTCAAGTT
Found at i:2250253 original size:165 final size:165
Alignment explanation
Indices: 2250045--2250517 Score: 596
Period size: 165 Copynumber: 2.9 Consensus size: 165
2250035 TCTGTCACCA
* * *
2250045 AAAG-ACCGGCGAGTTCGATTACACTCAGCTTCGAGGACACATCATTTGCAGCATAACTTAAGTC
1 AAAGAACC-GCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGC
* * * *
2250109 GAGAAGGGTTATTTATCAACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCAT
65 TAGAAGGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCAT
** * **
2250174 TTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTATT
130 TTGCAGCATAGCTTAAGTCAAGAAGGGATATCTACC
* * * *
2250210 AAAGAACCTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCT
1 AAAGAACCGCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCT
* *
2250275 AGAAGGGTTATCTGTC-ACCAAAAGACCTTCGATTTCGACTACGCTCAGCTCCAAAGCACATCAT
66 AGAAGGGTTATTTGTCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCAT
* *
2250339 TTGTAGCATAGCTTAAGTCAAGAAGGGATATCTGCC
130 TTGCAGCATAGCTTAAGTCAAGAAGGGATATCTACC
* * *
2250375 AAAGACCCGCGAGTTCGATTACACTCAGCTTTGAGAGCACATCATTTGCAGCATAACTCAAGGCT
1 AAAGAACCGCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCT
* * * * * *
2250440 AGAAGGGTTATTTGTCAA-CAAAGACTTTTGAG-TCTGATTACACTCAGAT-CAACAACACATCA
66 AGAAGGGTTATTTGTCAACCAAAGACCTTCGAGTTC-GACTACGCTCAGCTCCAA-AGCACATCA
* *
2250502 TTTGCGGTATAGCTTA
129 TTTGCAGCATAGCTTA
2250518 GGGCTAGAAG
Statistics
Matches: 265, Mismatches: 38, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
163 5 0.02
164 45 0.17
165 211 0.80
166 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (165 bp):
AAAGAACCGCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCT
AGAAGGGTTATTTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAAGCACATCATT
TGCAGCATAGCTTAAGTCAAGAAGGGATATCTACC
Found at i:2250324 original size:250 final size:245
Alignment explanation
Indices: 2249881--2250429 Score: 765
Period size: 250 Copynumber: 2.2 Consensus size: 245
2249871 ATCTGCCACC
* * *
2249881 AAGACCTTCGAGTTCGACCACGCCCAGCTCCAAGGCACATTATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* *
2249946 AAGGGCTATCTGCTAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAA
66 AAGGGCTATCTACTAAAGAACCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAA
* * *
2250011 CATAACTCAAGGTTAGAAGGGTTATCTGTCACCAAAAGACCGGCGAGTTCGATTACACTCAGCTT
131 CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCGGCGAGTTCGACTACACTCAGCTC
* * *
2250076 CGAGGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTATCAACCA
196 CAAAG-CACATCATTTGCAGCATAACTTAAGTCAAGAAGGG--A--TATCAACCA
* *
2250131 AAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTTGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * *
2250196 AAGGGCTATCTATTAAAGAACCTCGAGTTCGATTTCACTCAGCTTCGAGGGCACATCATTTACAA
66 AAGGGCTATCTACTAAAGAACCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAA
** * *
2250261 CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGATTTCGACTACGCTCAGCTC
131 CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCGGCGAGTTCGACTACACTCAGCTC
* * **
2250326 CAAAGCACATCATTTGTAGCATAGCTTAAGTCAAGAAGGGATATCTGCCA
196 CAAAGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGATATCAACCA
** * * ***
2250376 AAGACCCGCGAGTTCGATTACACTCAGCTTTGAGAGCACATCATTTGCAGCATA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG-GCACATCATTTGCAGCATA
2250430 ACTCAAGGCT
Statistics
Matches: 266, Mismatches: 32, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
245 33 0.12
246 19 0.07
247 1 0.00
249 32 0.12
250 181 0.68
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (245 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTACTAAAGAACCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAA
CATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCGGCGAGTTCGACTACACTCAGCTC
CAAAGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGATATCAACCA
Found at i:2250555 original size:165 final size:161
Alignment explanation
Indices: 2249840--2250559 Score: 554
Period size: 165 Copynumber: 4.3 Consensus size: 161
2249830 AAAACAAACT
* * * * ** * *
2249840 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTATCTGCCACCAAGACCTTCGAGTTCGACCACGCC
1 ATTTGCAGCATAGCT-TAGGCTAGAAGGGATATCTGCCA--AAGACC-TCGAGTTCGATTACACT
* * * * * * * * * *
2249905 CAGCTCCAAGGCACATTATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--TAAAGACC
62 CAGCTTCGAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACC
* * * * * ***
2249967 CTCAAGTTCGATTACACTCAGCTTCGAGGGCACATC
127 TTCGAGTTCGACTACGCTCAGC-TCAACAACACATC
* * * * * * *
2250003 ATTTACAACATAACTCAAGGTTAGAAGGGTTATCTGTCACCAAAAGACCGGCGAGTTCGATTACA
1 ATTTGCAGCATAGCT-TAGGCTAGAAGGGATATCTG---CC-AAAGACC-TCGAGTTCGATTACA
* * * *
2250068 CTCAGCTTCGAGGACACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATTTATCAACCAAA
60 CTCAGCTTCGAGG-CACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGTCAA-CAAA
*
2250133 GACCTTCGAGTTCGACTACGCTTAGCTC--CAAGGCACATC
123 GACCTTCGAGTTCGACTACGCTCAGCTCAACAA--CACATC
* * * *** *
2250172 ATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATCTATTAAAGAACCTCGAGTTCGATTTCACTCA
1 ATTTGCAGCATAGCTTAGGCT-AGAAGGGATATCTGCCAAAG-ACCTCGAGTTCGATTACACTCA
* * * *
2250237 GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
64 GCTTCGA-GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGTCAAC-AAAGACC
* *
2250302 TTCGATTTCGACTACGCTCAGCTCCAA-AGCACATC
127 TTCGAGTTCGACTACGCTCAGCT-CAACAACACATC
* * * *
2250337 ATTTGTAGCATAGCTTAAGTCAAGAAGGGATATCTGCCAAAGACCCGCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTT-AGGCTAGAAGGGATATCTGCCAAAGA-CCTCGAGTTCGATTACACTCA
* *
2250402 GCTTTGAGAGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACTT
64 GCTTCGAG-GCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCT
* * * *
2250467 TTGAG-TCTGATTACACTCAGATCAACAACACATC
128 TCGAGTTC-GACTACGCTCAGCTCAACAACACATC
* * * * *
2250501 ATTTGCGGTATAGCTTAGGGCTAGAAGAGTTATATGCCAAAGACCTTTCGAGTTCGATT
1 ATTTGCAGCATAGCTTA-GGCTAGAAGGGATATCTGCCAAAGACC--TCGAGTTCGATT
2250560 TCATTCGGCT
Statistics
Matches: 448, Mismatches: 83, Indels: 50
0.77 0.14 0.09
Matches are distributed among these distances:
163 37 0.08
164 64 0.14
165 238 0.53
166 46 0.10
167 3 0.01
168 4 0.01
169 32 0.07
170 24 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (161 bp):
ATTTGCAGCATAGCTTAGGCTAGAAGGGATATCTGCCAAAGACCTCGAGTTCGATTACACTCAGC
TTCGAGGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCG
AGTTCGACTACGCTCAGCTCAACAACACATC
Found at i:2250989 original size:39 final size:36
Alignment explanation
Indices: 2250933--2251065 Score: 106
Period size: 39 Copynumber: 3.5 Consensus size: 36
2250923 ATATACATAC
* *
2250933 ATATATATTATACAGTTTGAAATCATTTTTTTAAAAAAT
1 ATATATAATATATAGTTTGAAA-CA--TTTTTAAAAAAT
*
2250972 ATATATAATATATAGTTTTGAAAACATGTTTAAAAACAT
1 ATATATAATATATAG-TTTG-AAACATTTTTAAAAA-AT
* * * * *
2251011 TTATATATTATATAATTTTTAGAACA-TTTTGAAAAAT
1 ATATATAATATAT-AGTTTGA-AACATTTTTAAAAAAT
*
2251048 AAATATAATATATAGTTT
1 ATATATAATATATAGTTT
2251066 TTAAAACGTT
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
36 4 0.05
37 12 0.16
38 17 0.22
39 33 0.43
40 7 0.09
41 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
ATATATAATATATAGTTTGAAACATTTTTAAAAAAT
Found at i:2251007 original size:37 final size:37
Alignment explanation
Indices: 2250961--2251125 Score: 165
Period size: 37 Copynumber: 4.5 Consensus size: 37
2250951 GAAATCATTT
*
2250961 TTTTAAAAAATATATATAATATATAGTTTTGAAAACA
1 TTTTAAAAAATATATATAATATATAGTTTTTAAAACA
* * * *
2250998 TGTTTAAAAACATTTATATATTATATAATTTTTAGAACA
1 T-TTTAAAAA-ATATATATAATATATAGTTTTTAAAACA
* * *
2251037 TTTTGAAAAATAAATATAATATATAGTTTTTAAAACG
1 TTTTAAAAAATATATATAATATATAGTTTTTAAAACA
** * *
2251074 TTTTTGAAAATGTATAT--TATATAGTTTTTAAAACG
1 TTTTAAAAAATATATATAATATATAGTTTTTAAAACA
* *
2251109 TTTT-GAAAATAAATATA
1 TTTTAAAAAATATATATA
2251126 GTTTAAAAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
34 10 0.09
35 22 0.21
37 36 0.34
38 15 0.14
39 24 0.22
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (37 bp):
TTTTAAAAAATATATATAATATATAGTTTTTAAAACA
Found at i:2251174 original size:25 final size:25
Alignment explanation
Indices: 2251140--2251230 Score: 101
Period size: 25 Copynumber: 3.5 Consensus size: 25
2251130 AAAAAAAACA
*
2251140 TTTTGAAAACATATATATTATATAG
1 TTTTGAAAACATATATAATATATAG
*
2251165 TTTTGAAAACTTATATAATATATAG
1 TTTTGAAAACATATATAATATATAG
* * *
2251190 TTTTTAAAACATTTTTGAAAACTATATAG
1 TTTTGAAAACA--TAT-ATAA-TATATAG
2251219 TTTTGAAAACAT
1 TTTTGAAAACAT
2251231 TTTTCAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 32 0.58
27 3 0.05
28 3 0.05
29 17 0.31
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (25 bp):
TTTTGAAAACATATATAATATATAG
Found at i:2251198 original size:65 final size:65
Alignment explanation
Indices: 2251050--2251198 Score: 152
Period size: 67 Copynumber: 2.3 Consensus size: 65
2251040 TGAAAAATAA
* * *
2251050 ATATAATATATAGTTTTT----AAAACGTTTTTGAAAATGTATATTATATAGTTTTTAAAACGTT
1 ATATAATATATAGTTTTTAAAAAAAACGATTTTGAAAATATATATTATATAGTTTTGAAAACGTT
* *
2251111 TTGAAAATAAATATAG--TTTAAAAAAAAC-ATTTTGAAAACATATATATTATATAGTTTTGAAA
1 AT-ATAAT--ATATAGTTTTTAAAAAAAACGATTTTG-AAA-ATATATATTATATAGTTTTGAAA
2251173 AC-TT
61 ACGTT
2251177 ATATAATATATAGTTTTTAAAA
1 ATATAATATATAGTTTTTAAAA
2251199 CATTTTTGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
61 1 0.01
62 7 0.10
63 6 0.09
64 6 0.09
65 16 0.23
66 11 0.16
67 23 0.33
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (65 bp):
ATATAATATATAGTTTTTAAAAAAAACGATTTTGAAAATATATATTATATAGTTTTGAAAACGTT
Found at i:2251218 original size:29 final size:29
Alignment explanation
Indices: 2251158--2251239 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 29
2251148 ACATATATAT
* *
2251158 TATATAGTTTTGAAAAC--TTAT-ATAA-
1 TATATAGTTTTGAAAACATTTTTCAAAAC
* *
2251183 TATATAGTTTTTAAAACATTTTTGAAAAC
1 TATATAGTTTTGAAAACATTTTTCAAAAC
2251212 TATATAGTTTTGAAAACATTTTTCAAAA
1 TATATAGTTTTGAAAACATTTTTCAAAA
2251240 AAATATTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 16 0.33
27 3 0.06
28 3 0.06
29 26 0.54
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (29 bp):
TATATAGTTTTGAAAACATTTTTCAAAAC
Found at i:2251253 original size:90 final size:88
Alignment explanation
Indices: 2251075--2251253 Score: 197
Period size: 90 Copynumber: 2.0 Consensus size: 88
2251065 TTTAAAACGT
2251075 TTTTGAAAATGTATATTATATAGTTTTTAAAACGTTTTGAAAATAAATATAGTTTAAAAAAAACA
1 TTTTGAAAATGTATATTATATAGTTTTTAAAACGTTTTGAAAAT-AATATAGTTT-AAAAAAACA
* *
2251140 TTTTGAAAACATATATATTATATAG
64 TTTTCAAAACAAATATATTATATAG
* **
2251165 TTTTGAAAACT-TATATAATATATAGTTTTTAAAACATTTTTGAAAACT-ATATAGTTT-TGAAA
1 TTTTGAAAA-TGTATAT--TATATAGTTTTTAAAAC-GTTTTGAAAA-TAATATAGTTTAAAAAA
2251227 ACATTTTTCAAAA-AAATAT-TTAATATA
61 ACA-TTTTCAAAACAAATATATT-ATATA
2251254 TAATTTTAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
89 2 0.03
90 30 0.39
91 9 0.12
92 26 0.34
93 9 0.12
94 1 0.01
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (88 bp):
TTTTGAAAATGTATATTATATAGTTTTTAAAACGTTTTGAAAATAATATAGTTTAAAAAAACATT
TTCAAAACAAATATATTATATAG
Found at i:2251385 original size:11 final size:12
Alignment explanation
Indices: 2251334--2251380 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
2251324 TATTATTTCT
2251334 TTTC-TTTTTTA
1 TTTCATTTTTTA
*
2251345 TTTTATTTTATTAA
1 TTTCATTTT-TT-A
2251359 TTTCATTTTTTA
1 TTTCATTTTTTA
2251371 TTTCATTTTT
1 TTTCATTTTT
2251381 CTTTCCAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 3 0.10
12 15 0.48
13 4 0.13
14 9 0.29
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTCATTTTTTA
Found at i:2258413 original size:25 final size:24
Alignment explanation
Indices: 2258385--2258433 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
2258375 CTAATGAAAT
2258385 ATTATATATATATATATTTGATTTA
1 ATTATATATATATATATTT-ATTTA
*
2258410 ATTATTTATATATATATTTATTTA
1 ATTATATATATATATATTTATTTA
2258434 TACATTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
ATTATATATATATATATTTATTTA
Found at i:2259159 original size:42 final size:41
Alignment explanation
Indices: 2259097--2259189 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 41
2259087 TAGATGACAT
* *
2259097 GAAGGACTTATCATCTTGCTCGAAAGGCTTACAAATGACCC
1 GAAGGACTTATCATCATGCTCGAAAGACTTACAAATGACCC
* **
2259138 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCC
1 GAAGGACTT-ATCATCATGCTCGAAAGACTTACAAATGACCC
2259180 GAAGGACTTA
1 GAAGGACTTA
2259190 CTAAGTAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 9 0.20
42 36 0.80
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (41 bp):
GAAGGACTTATCATCATGCTCGAAAGACTTACAAATGACCC
Found at i:2259315 original size:176 final size:176
Alignment explanation
Indices: 2259021--2259395 Score: 615
Period size: 176 Copynumber: 2.1 Consensus size: 176
2259011 ACATTAAATG
* *
2259021 AGAAACTTTGAAAATCGCTTTCTTATTTTTCAAATTCATGTGAAAACATCCTGCCCGAAGGTCTT
1 AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTT
* * *
2259086 ATAGATGACATGAAGGACTTATCATCTTGCTCGAAAGGCTTACAAATGACCCGAAGGATTTAATC
66 ATAGATGACACGAAGGACTTATCATCTTGCTCAAAAGACTTACAAATGACCCGAAGGATTTAATC
2259151 ATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACTAAGTA
131 ATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACTAAGTA
* *
2259197 AGAAACTTTGAAAATCGTTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCTGAAGGTCTT
1 AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTT
* * *
2259262 ATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAATC
66 ATAGATGACACGAAGGACTTATCATCTTGCTCAAAAGACTTACAAATGACCCGAAGGATTTAATC
* *
2259327 ATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAAGTA
131 ATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACTAAGTA
* * *
2259373 CGAAACTTTGGAAATCTCTTTCT
1 AGAAACTTTGAAAATCGCTTTCT
2259396 TACTTTTAAA
Statistics
Matches: 183, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
176 183 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (176 bp):
AGAAACTTTGAAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTT
ATAGATGACACGAAGGACTTATCATCTTGCTCAAAAGACTTACAAATGACCCGAAGGATTTAATC
ATCATGCTCGAAAGACTTACTGATGACCCGAAGGACTTACTAAGTA
Found at i:2259341 original size:42 final size:41
Alignment explanation
Indices: 2259259--2259365 Score: 142
Period size: 42 Copynumber: 2.6 Consensus size: 41
2259249 ACCTGAAGGT
* *
2259259 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGA
1 CTTACAGATGGCCCGAAGGACTTATCATCATGCTCAAAAGA
* * *
2259300 CTTACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGACTT-ATCATCATGCTCAAAAGA
* *
2259342 CTTACTGATGGCCCGAATGACTTA
1 CTTACAGATGGCCCGAAGGACTTA
2259366 CTAAGTACGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 21 0.38
42 35 0.62
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTATCATCATGCTCAAAAGA
Found at i:2259805 original size:236 final size:237
Alignment explanation
Indices: 2259197--2259838 Score: 944
Period size: 237 Copynumber: 2.7 Consensus size: 237
2259187 TTACTAAGTA
** * *
2259197 AGAAACTTTGAAAATCGTTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCTGAAGGTCTT
1 AGAAACTTTGAAAATCACTTTCT-AATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTT
* *
2259262 ATAGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAATC
65 ATGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAATGATTTAATC
* * *
2259327 ATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAAGTACGAAACTTTGGAAATCTCT
130 ATCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAAGTAAGAAACTTTAGAAATCGCT
***
2259392 TTCTTACTTTTAAAAAATTTCATCTTATGGAAATGTTTAAATG
195 TTCTTACTTTTAAAAAATTTCATCTTATGGAAAACATTAAATG
* * * *
2259435 AGAAACTTTGAAAATCTCTTTCTAGTTTTTAAATTCATGTGAAAACATCCTACTCGAAGGTCTTA
1 AGAAACTTTGAAAATCACTTTCTAATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTA
* * * * * *
2259500 TGGATGGCCCAAAGGACTTATCATCTTACTCAAAAGACTTATAGATGAACCGGATTATTTAATCA
66 TGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAATGATTTAATCA
* * *
2259565 TCATGCTCGAAGGACTTACTGATGGCCCGAAGGACTTACTAAGTAATAAACTTTAGAAATCGCTT
131 TCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAAGTAAGAAACTTTAGAAATCGCTT
* * *
2259630 TCTTACTTTTCAAAGATTTCATTTTAT-GAAAACATTAAATG
196 TCTTACTTTTAAAAAATTTCATCTTATGGAAAACATTAAATG
** * *
2259671 AGAAACTTTGAAAATCACTTTCTAATTTTCAAATTCATGTGAAAACATAATGCCCAAAGGTCTTA
1 AGAAACTTTGAAAATCACTTTCTAATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTA
* * *
2259736 TGGATGGCCTGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAATGATTTAACCA
66 TGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAATGATTTAATCA
*
2259801 TCATGCTCAAAAGACTTACTGATGGCCCGAATGACTTA
131 TCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTA
2259839 TCATCTCTAG
Statistics
Matches: 358, Mismatches: 46, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
236 159 0.44
237 178 0.50
238 21 0.06
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (237 bp):
AGAAACTTTGAAAATCACTTTCTAATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTA
TGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAATGATTTAATCA
TCATGCTCGAAAGACTTACTGATGGCCCGAATGACTTACTAAGTAAGAAACTTTAGAAATCGCTT
TCTTACTTTTAAAAAATTTCATCTTATGGAAAACATTAAATG
Found at i:2261899 original size:3 final size:3
Alignment explanation
Indices: 2261891--2261938 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
2261881 GTTGTATTTA
2261891 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2261939 TTCTTCAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2270295 original size:16 final size:17
Alignment explanation
Indices: 2270274--2270309 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2270264 TGCAAAAGTA
*
2270274 AATTAAAAA-TAAAATT
1 AATTAAAAATTAAAAAT
2270290 AATTAAAAATTAAAAAT
1 AATTAAAAATTAAAAAT
2270307 AAT
1 AAT
2270310 AAAGACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTAAAAATTAAAAAT
Found at i:2274695 original size:24 final size:23
Alignment explanation
Indices: 2274667--2274730 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
2274657 AGATATCAAA
* *
2274667 AATCAAAACATAATTCATATCAG
1 AATCAGAACAGAATTCATATCAG
* *
2274690 ATATCAGAACAGAATCCAGATCAG
1 A-ATCAGAACAGAATTCATATCAG
2274714 AATCAGAACAGAATTCA
1 AATCAGAACAGAATTCA
2274731 GGTAACGTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 16 0.46
24 19 0.54
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.20
Consensus pattern (23 bp):
AATCAGAACAGAATTCATATCAG
Found at i:2274709 original size:12 final size:11
Alignment explanation
Indices: 2274687--2274727 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
2274677 TAATTCATAT
2274687 CAGATATCAGAA
1 CAGA-ATCAGAA
*
2274699 CAGAATCCAGAT
1 CAGAAT-CAGAA
2274711 CAGAATCAGAA
1 CAGAATCAGAA
2274722 CAGAAT
1 CAGAAT
2274728 TCAGGTAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.49, C:0.20, G:0.17, T:0.15
Consensus pattern (11 bp):
CAGAATCAGAA
Found at i:2274731 original size:12 final size:12
Alignment explanation
Indices: 2274693--2274731 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2274683 ATATCAGATA
2274693 TCAGAACAGAAT
1 TCAGAACAGAAT
* *
2274705 CCAGATCAGAA-
1 TCAGAACAGAAT
2274716 TCAGAACAGAAT
1 TCAGAACAGAAT
2274728 TCAG
1 TCAG
2274732 GTAACGTATC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (12 bp):
TCAGAACAGAAT
Found at i:2274747 original size:24 final size:23
Alignment explanation
Indices: 2274668--2274754 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 23
2274658 GATATCAAAA
* * * *
2274668 ATCAAAACATAATTCATATCAGAT
1 ATCAGAACAGAATTCAGATAAG-T
* * *
2274692 ATCAGAACAGAATCCAGATCAGA
1 ATCAGAACAGAATTCAGATAAGT
*
2274715 ATCAGAACAGAATTCAGGTAACGT
1 ATCAGAACAGAATTCAGATAA-GT
*
2274739 ATCAGAACAAAATTCA
1 ATCAGAACAGAATTCA
2274755 ATTCGGAAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 18 0.35
24 34 0.65
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (23 bp):
ATCAGAACAGAATTCAGATAAGT
Found at i:2277238 original size:13 final size:13
Alignment explanation
Indices: 2277191--2277220 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2277181 GACGGTCAAC
2277191 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
2277204 AGTCAACGGGTCG
1 GGTCAACGGGTCG
2277217 GGTC
1 GGTC
2277221 GGGTCAACGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2277240 original size:18 final size:18
Alignment explanation
Indices: 2277197--2277242 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2277187 CAACGGTCAA
*
2277197 CGGGTCGAGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2277215 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
2277233 CGGGTCGGGT
1 CGGGTCGGGT
2277243 TGTGACCGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.11, C:0.22, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:2279384 original size:24 final size:24
Alignment explanation
Indices: 2279357--2279428 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
2279347 GTAAACGGAG
* *
2279357 ATATCAAAAATCAAAACATAATTC
1 ATATCAAAAATCAGAACAGAATTC
* * *
2279381 ATATCAGATATCAGAACAGAATCC
1 ATATCAAAAATCAGAACAGAATTC
*
2279405 AGATC-AAAATCAGAACAGAATTC
1 ATATCAAAAATCAGAACAGAATTC
2279428 A
1 A
2279429 ATTCGGAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 16 0.41
24 23 0.59
ACGTcount: A:0.53, C:0.18, G:0.08, T:0.21
Consensus pattern (24 bp):
ATATCAAAAATCAGAACAGAATTC
Found at i:2281890 original size:18 final size:18
Alignment explanation
Indices: 2281867--2281936 Score: 69
Period size: 18 Copynumber: 4.2 Consensus size: 18
2281857 GACGGTCAAC
2281867 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
2281885 GGTCAA-----CGGGTCG
1 GGTCAACGGGTCGGGTCG
* * *
2281898 AGTAAACGGGTCGGGTAG
1 GGTCAACGGGTCGGGTCG
*
2281916 GGTCAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTCG
2281934 GGT
1 GGT
2281937 TGTGACCGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
13 11 0.27
18 30 0.73
ACGTcount: A:0.16, C:0.17, G:0.49, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:2281894 original size:13 final size:13
Alignment explanation
Indices: 2281878--2281914 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2281868 GTCAACGGGT
*
2281878 CGGGTCGGGTCAA
1 CGGGTCGGGTAAA
*
2281891 CGGGTCGAGTAAA
1 CGGGTCGGGTAAA
2281904 CGGGTCGGGTA
1 CGGGTCGGGTA
2281915 GGGTCAACGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (13 bp):
CGGGTCGGGTAAA
Found at i:2283791 original size:2 final size:2
Alignment explanation
Indices: 2283784--2283826 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2283774 TCTTTTTAAA
2283784 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
2283826 A
1 A
2283827 CCCTCATCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2284061 original size:12 final size:11
Alignment explanation
Indices: 2284017--2284057 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
2284007 TAATTCATAT
2284017 CAGATATCAGAA
1 CAGA-ATCAGAA
*
2284029 CAGAATCTAGAT
1 CAGAATC-AGAA
2284041 CAGAATCAGAA
1 CAGAATCAGAA
2284052 CAGAAT
1 CAGAAT
2284058 TCAGGTAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 12 0.46
12 14 0.54
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (11 bp):
CAGAATCAGAA
Found at i:2286563 original size:13 final size:13
Alignment explanation
Indices: 2286528--2286565 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2286518 GTCAACGGTC
* *
2286528 AACGGGTCGAGTC
1 AACGGGTCGGGTA
2286541 AACGGGTCGGGTA
1 AACGGGTCGGGTA
2286554 AACGGGTCGGGT
1 AACGGGTCGGGT
2286566 CGGGTCGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.45, T:0.16
Consensus pattern (13 bp):
AACGGGTCGGGTA
Found at i:2291330 original size:45 final size:44
Alignment explanation
Indices: 2291263--2291354 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 44
2291253 AGAGTTATCA
* *
2291263 ATGCACCCCTTAAAATGGAAACATCGAATGCAATTGGTGCATCG
1 ATGCACCCCTTAAAATGAAAACATCGAAGGCAATTGGTGCATCG
* * *
2291307 ATGCATCCCCTTAAAATGAAAACATCGAAGGTAATTTGTGTATCG
1 ATGCA-CCCCTTAAAATGAAAACATCGAAGGCAATTGGTGCATCG
2291352 ATG
1 ATG
2291355 AATGGGTAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 5 0.12
45 37 0.88
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (44 bp):
ATGCACCCCTTAAAATGAAAACATCGAAGGCAATTGGTGCATCG
Found at i:2291409 original size:20 final size:20
Alignment explanation
Indices: 2291384--2291421 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2291374 CACATGTTAA
*
2291384 AGAATGCATTGATGCACTGT
1 AGAATGCATTGATACACTGT
2291404 AGAATGCATTGATACACT
1 AGAATGCATTGATACACT
2291422 TCAAGGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (20 bp):
AGAATGCATTGATACACTGT
Found at i:2292967 original size:23 final size:23
Alignment explanation
Indices: 2292941--2293005 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2292931 AGGGACATTT
2292941 TATATGGCACTTCGGTGCAATTC
1 TATATGGCACTTCGGTGCAATTC
***
2292964 TATACAACACTTCGGTGCAATTC
1 TATATGGCACTTCGGTGCAATTC
*
2292987 TACATGGCACTTCGGTGCA
1 TATATGGCACTTCGGTGCA
2293006 TTTATACGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (23 bp):
TATATGGCACTTCGGTGCAATTC
Found at i:2294740 original size:32 final size:34
Alignment explanation
Indices: 2294704--2294769 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
2294694 TTGACTAGAT
2294704 ATCAGAGTAAAAG-T-TAGAGTTATAAGATTGGA
1 ATCAGAGTAAAAGTTATAGAGTTATAAGATTGGA
2294736 ATCAGAGTAAAAGTTATAGAGTTATAAGATTGGA
1 ATCAGAGTAAAAGTTATAGAGTTATAAGATTGGA
2294770 GGAAAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.41
33 1 0.03
34 18 0.56
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (34 bp):
ATCAGAGTAAAAGTTATAGAGTTATAAGATTGGA
Found at i:2296478 original size:64 final size:63
Alignment explanation
Indices: 2296357--2296479 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 63
2296347 ATGCACAGAA
* * * *
2296357 AGTGCATCAATGCACCCCTTAAAATGGAAACATCGAATGCAATTGGTGCATCGATGCATAAGG
1 AGTGCATCAATGCACCCCTTAAAATGAAAACATCAAAGGCAATTGGTGCATCAATGCATAAGG
* * * *
2296420 AGTGCATCGATGCATCCCCTTAAAATGAAAACATCAAAGGTAATTTGTGTATCAATGCAT
1 AGTGCATCAATGCA-CCCCTTAAAATGAAAACATCAAAGGCAATTGGTGCATCAATGCAT
2296480 GGTGTAGACA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 13 0.25
64 38 0.75
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (63 bp):
AGTGCATCAATGCACCCCTTAAAATGAAAACATCAAAGGCAATTGGTGCATCAATGCATAAGG
Found at i:2296516 original size:3 final size:3
Alignment explanation
Indices: 2296508--2296548 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
2296498 TCAGTTCATT
*
2296508 TTA TTA TTA TTAA TTA TTA AT- TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2296549 AATAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2302885 original size:2 final size:2
Alignment explanation
Indices: 2302878--2302935 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
2302868 TTATCCTTTA
2302878 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
2302920 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
2302936 CCTTTGTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2306327 original size:40 final size:35
Alignment explanation
Indices: 2306239--2306331 Score: 105
Period size: 35 Copynumber: 2.5 Consensus size: 35
2306229 AACCAGAAAT
*
2306239 AGAATATTGGGGCATTTTGAAGGCTCGCAACAATA
1 AGAATATTGGGGCATTTTGAAGGCTCGCAACAAGA
* * *
2306274 TGAATATTTGGGCATTCTTGAAGGCTCATCTCAACAAGA
1 AGAATATTGGGGCATT-TTGAAGG--C-TCGCAACAAGA
2306313 AGCAATATTGGGGCATTTT
1 AG-AATATTGGGGCATTTT
2306332 AGAGCTCACT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
35 14 0.30
36 7 0.15
38 1 0.02
39 12 0.26
40 13 0.28
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (35 bp):
AGAATATTGGGGCATTTTGAAGGCTCGCAACAAGA
Found at i:2306549 original size:74 final size:74
Alignment explanation
Indices: 2306397--2306559 Score: 186
Period size: 74 Copynumber: 2.2 Consensus size: 74
2306387 AAGCAAATAT
* * *
2306397 TGGGGCATGCTGAAAACCCTTTTCAAACAGAATCAAAAATGTTGAAATATTCTGAATATTTATCA
1 TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAAAAATGTTGAAACATTCTGAACATTTATCA
2306462 GCAAAATGC
66 GCAAAATGC
* * * ** *
2306471 TGGGGCATGCTGAAAACCCATTTCAATCAGAATCAGAACTGTTGATGCATTTTGAACACTTGTAT
1 TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAAAAATGTTGAAACATTCTGAACA-TT-TAT
* *
2306536 TAGC-CAATG-
64 CAGCAAAATGC
2306545 TGGGGGCATGCTGAA
1 T-GGGGCATGCTGAA
2306560 GGCCTATATC
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
74 50 0.67
75 19 0.25
76 6 0.08
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (74 bp):
TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAAAAATGTTGAAACATTCTGAACATTTATCA
GCAAAATGC
Found at i:2307509 original size:54 final size:54
Alignment explanation
Indices: 2307427--2307596 Score: 286
Period size: 54 Copynumber: 3.1 Consensus size: 54
2307417 ACTTCAATAA
2307427 TTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTT
1 TTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTT
*
2307481 TTACGAACATCTAAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTT
1 TTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTT
* *** *
2307535 TTACGAACATCTGAACAGAAGCCACAGGAAAGGATGAATGCACTATCAAATGTT
1 TTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTT
2307589 TTACGAAC
1 TTACGAAC
2307597 CTGCTATTCT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 109 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (54 bp):
TTACGAACATCTGAACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTT
Found at i:2307989 original size:22 final size:22
Alignment explanation
Indices: 2307960--2308014 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
2307950 ATCTACACTC
*
2307960 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
2307982 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
2308004 TTCAAAGATGA
1 TTCAAAGATGA
2308015 AAACTTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:2308866 original size:113 final size:111
Alignment explanation
Indices: 2308415--2309085 Score: 945
Period size: 112 Copynumber: 6.0 Consensus size: 111
2308405 GCAAAGTTCA
** * *
2308415 AATCCATCATTCAATGGATCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTTCCAGAG--AAGTTCATAATGAGAAGAACTCATCTGAAG
* *
2308478 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
64 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT-G
* * * * * *
2308527 AATCCATCATTCGATGGATTGA-CATTTCTATAGAAGTTCATAATGAGAAGAACTCATATTAAGA
1 AATCCATCATTTGATGGA-TCATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
2308591 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
65 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TG
*
2308639 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAGAA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
*
2308704 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTG
66 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC-TG
* *
2308751 AATCTATTATTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCATCATTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
2308816 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTG
65 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG-CTG
* * * *
2308864 AATTCATCACTTGATGGATTAT-TTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCATCATTT-CCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAG
* *
2308928 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCA
64 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT-G
* * * * *
2308977 AATCCATCACTTGATGGAACAGCTTTTCTAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
1 AATCCATCATTTGATGGATCATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
* *
2309042 GGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
66 GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
2309086 ATAATTCTAT
Statistics
Matches: 513, Mismatches: 35, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
111 2 0.00
112 303 0.59
113 202 0.39
114 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (111 bp):
AATCCATCATTTGATGGATCATCATTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA
GGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTG
Found at i:2309590 original size:76 final size:76
Alignment explanation
Indices: 2309490--2310502 Score: 1765
Period size: 76 Copynumber: 13.4 Consensus size: 76
2309480 ACTATTTCCC
* *
2309490 TCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTCTT-
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTT-TTC
2309554 AAAGCCTTCGGG
65 AAAGCCTTCGGG
*
2309566 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
2309631 AAGCCTTCGGG
66 AAGCCTTCGGG
* *
2309642 TCATCTATAAGTCCTTCAGTGCATGATGTTTACAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
2309707 AAGCCTTAGGG
66 AAGCCTTCGGG
*
2309718 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTT-T
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
2309782 AA---TTCGGG
66 AAGCCTTCGGG
2309790 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
2309855 AAGCCTTAGGG
66 AAGCCTTCGGG
* *
2309866 TCATCTGTAAGTCCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
2309931 AAGCCTTCGGG
66 AAGCCTTCGGG
2309942 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
2310006 AAGCCTTAGGG
66 AAGCCTTCGGG
*
2310017 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGCTTTTTGATGTTTTTA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
2310081 AAGCCTTCGGG
66 AAGCCTTCGGG
2310092 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
2310157 AAGCCTTAGGG
66 AAGCCTTCGGG
2310168 TCATCTGTAAGT-CTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 TCATCTGTAAGTCCTT-CAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
2310232 AAAGCCTTCGGG
65 AAAGCCTTCGGG
2310244 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
2310309 AAGCCTTCGGG
66 AAGCCTTCGGG
2310320 TCATCTGTAAGT-CTTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 TCATCTGTAAGTCCTT-CAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
* *
2310384 AAAGCCTTAGGA
65 AAAGCCTTCGGG
* *
2310396 TCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
2310461 AAGCCTTAGGG
66 AAGCCTTCGGG
*
2310472 TCATCTGTAAGCCCTTCAGTGCATGATGTTT
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTT
2310503 TCAACATTTC
Statistics
Matches: 896, Mismatches: 30, Indels: 22
0.95 0.03 0.02
Matches are distributed among these distances:
72 68 0.08
73 2 0.00
74 5 0.01
75 144 0.16
76 672 0.75
77 5 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (76 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGG
Found at i:2314370 original size:23 final size:23
Alignment explanation
Indices: 2314325--2314370 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2314315 ACATTTTATA
*
2314325 TGGCACTTCGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTATACG
*
2314348 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCAATTATACG
2314371 AGCTATTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTATACG
Found at i:2324829 original size:60 final size:60
Alignment explanation
Indices: 2324722--2324903 Score: 154
Period size: 60 Copynumber: 3.0 Consensus size: 60
2324712 GTATATATGT
* * *
2324722 ATAGTTTGGGATGAAATTGGAATGTTCAAAAAGTTCAGGGACCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAATTGAAATATTCAAAAAGTTCAGGGACCAATTTAAAATGAAGGTC
*** * *
2324782 ATAGTTTGGGGATGAAATTGAAATATTC-AAAAGTTTTTGGACTAATTTAAAATGATA-GTA
1 ATAGTTT-GGGATGAAATTGAAATATTCAAAAAGTTCAGGGACCAATTTAAAATGA-AGGTC
* * * * * * * * * *
2324842 ATAAATTAGAGATAAAATTAAAATATTTAAAAA-TTTAGGGACTAATTTAAAATAAATGTC
1 AT-AGTTTGGGATGAAATTGAAATATTCAAAAAGTTCAGGGACCAATTTAAAATGAAGGTC
2324902 AT
1 AT
2324904 GCTTTGAAGG
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
59 1 0.01
60 72 0.73
61 26 0.26
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATATTCAAAAAGTTCAGGGACCAATTTAAAATGAAGGTC
Found at i:2324892 original size:29 final size:29
Alignment explanation
Indices: 2324802--2324895 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
2324792 GATGAAATTG
* * **
2324802 AAATATTCAAAAGTTTTTGGACTAATTTA
1 AAATATTTAAAAATTTAGGGACTAATTTA
* * *
2324831 AAATGATAGTAATAAA-TTAGAGA-TAAAATTA
1 AAAT-AT-TTAA-AAATTTAGGGACT-AATTTA
2324862 AAATATTTAAAAATTTAGGGACTAATTTA
1 AAATATTTAAAAATTTAGGGACTAATTTA
2324891 AAATA
1 AAATA
2324896 AATGTCATGC
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
28 3 0.06
29 23 0.47
30 6 0.12
31 15 0.31
32 2 0.04
ACGTcount: A:0.51, C:0.03, G:0.11, T:0.35
Consensus pattern (29 bp):
AAATATTTAAAAATTTAGGGACTAATTTA
Found at i:2330254 original size:43 final size:42
Alignment explanation
Indices: 2330197--2330325 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 42
2330187 TATTTAAACT
* * *
2330197 CCAAAGTAATAATCCACAAATATACCAAAATAACATATTATAA
1 CCAAAGTAACAATCCACAAATACA-CAAAATAACATATTACAA
* * *
2330240 CCAAAGTAACAATCCACAAATGCATTAAAATAACATATTACAG
1 CCAAAGTAACAATCCACAAATACA-CAAAATAACATATTACAA
*
2330283 CCAAAGTAACAATCCACAAGTACACAAAACTAACATATTACAA
1 CCAAAGTAACAATCCACAAATACACAAAA-TAACATATTACAA
2330326 TCATTCTTGA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 4 0.05
43 70 0.95
ACGTcount: A:0.53, C:0.22, G:0.05, T:0.20
Consensus pattern (42 bp):
CCAAAGTAACAATCCACAAATACACAAAATAACATATTACAA
Found at i:2334294 original size:24 final size:24
Alignment explanation
Indices: 2334267--2334339 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
2334257 CGTTCATTTA
2334267 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
***
2334291 CGTTCGGTTTTGTTCGGTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * *
2334315 CGTTCGGTTATGTTCGCTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
2334339 C
1 C
2334340 ATTCATTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 41 0.95
25 2 0.05
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.48
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:2334296 original size:14 final size:14
Alignment explanation
Indices: 2334277--2334330 Score: 80
Period size: 14 Copynumber: 4.1 Consensus size: 14
2334267 CGTTCGTGAA
2334277 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
2334291 CGTTCGG-T-T-TT
1 CGTTCGGTTATGTT
2334302 -GTTCGGTTATGTT
1 CGTTCGGTTATGTT
2334315 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
2334329 CG
1 CG
2334331 CTTATGTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.17
11 3 0.08
12 2 0.06
13 3 0.08
14 22 0.61
ACGTcount: A:0.06, C:0.15, G:0.30, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:2334349 original size:24 final size:24
Alignment explanation
Indices: 2334278--2334352 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
2334268 GTTCGTGAAC
2334278 GTTCGGTTATGTTCGTTCGGTTT-T
1 GTTCGGTTATGTTCGTTC-GTTTAT
*
2334302 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGGTTATGTTCGTTCGTTTAT
* * *
2334326 GTTCGCTTATGTTCATTCATTTAT
1 GTTCGGTTATGTTCGTTCGTTTAT
2334350 GTT
1 GTT
2334353 TAACCCAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.09, C:0.13, G:0.24, T:0.53
Consensus pattern (24 bp):
GTTCGGTTATGTTCGTTCGTTTAT
Found at i:2335448 original size:16 final size:16
Alignment explanation
Indices: 2335427--2335493 Score: 93
Period size: 16 Copynumber: 4.3 Consensus size: 16
2335417 GTCTCCAACG
2335427 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
2335443 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
2335459 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
*
2335475 TTTATATTCGT-TT-A
1 TTTATGTTCGTGTTCA
2335489 TTTAT
1 TTTAT
2335494 TAAATGAACG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
14 5 0.10
15 2 0.04
16 41 0.85
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:2335466 original size:32 final size:32
Alignment explanation
Indices: 2335425--2335485 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
2335415 GGGTCTCCAA
*
2335425 CGTTTATGTTCGTGTTCATTTATGTTCGTGTT
1 CGTTTATGTTCGTGTTCATTTATATTCGTGTT
*
2335457 CGTTTATGTTCGTGTTCGTTTATATTCGT
1 CGTTTATGTTCGTGTTCATTTATATTCGT
2335486 TTATTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.56
Consensus pattern (32 bp):
CGTTTATGTTCGTGTTCATTTATATTCGTGTT
Found at i:2335576 original size:16 final size:16
Alignment explanation
Indices: 2335555--2335587 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2335545 AAAAAAAATT
*
2335555 TGTTCGTTTATGTTCG
1 TGTTCGTTTATATTCG
2335571 TGTTCGTTTATATTCG
1 TGTTCGTTTATATTCG
2335587 T
1 T
2335588 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATATTCG
Found at i:2335932 original size:5 final size:5
Alignment explanation
Indices: 2335924--2335959 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
2335914 GATTTGAGGC
2335924 ATGGT ATGGT ATGGT ATGGT ATGGT ATGGT ATGGT A
1 ATGGT ATGGT ATGGT ATGGT ATGGT ATGGT ATGGT A
2335960 AATAACACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (5 bp):
ATGGT
Found at i:2336951 original size:20 final size:20
Alignment explanation
Indices: 2336926--2336997 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
2336916 AACCAACAAA
2336926 ATCGCAATGCGATTTCCAGT
1 ATCGCAATGCGATTTCCAGT
2336946 ATCGCAAAT-C-AGTTTCCAG-
1 ATCGC-AATGCGA-TTTCCAGT
** *
2336965 ATTCGCAATGCGATTTTGACT
1 A-TCGCAATGCGATTTCCAGT
2336986 ATCGCAATGCGA
1 ATCGCAATGCGA
2336998 ATATATAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
19 5 0.12
20 33 0.77
21 5 0.12
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (20 bp):
ATCGCAATGCGATTTCCAGT
Found at i:2337029 original size:20 final size:20
Alignment explanation
Indices: 2336967--2337117 Score: 130
Period size: 20 Copynumber: 7.5 Consensus size: 20
2336957 GTTTCCAGAT
* *
2336967 TCGCAATGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
* *
2336987 TCGCAATGCGAATATAT-A-AA
1 TCGCAACGCG-AT-TATGACTA
*
2337007 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
*
2337027 TCGCAACGCGATAAT-ACATAA
1 TCGCAACGCGATTATGAC-T-A
*
2337048 TCGCAACGAGATTATGACTA
1 TCGCAACGCGATTATGACTA
*
2337068 TCGCAACGCGATAAT-ACATAA
1 TCGCAACGCGATTATGAC-T-A
* *
2337089 TCGCAACGCGATTTTGACTG
1 TCGCAACGCGATTATGACTA
2337109 TCGCAACGC
1 TCGCAACGC
2337118 TGAATTTCAA
Statistics
Matches: 107, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
18 2 0.02
19 7 0.07
20 59 0.55
21 33 0.31
22 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:2337135 original size:41 final size:41
Alignment explanation
Indices: 2336967--2337117 Score: 216
Period size: 41 Copynumber: 3.7 Consensus size: 41
2336957 GTTTCCAGAT
* * *
2336967 TCGCAATGCGATTTTGACTATCGCAATGCG--AATATATAAA
1 TCGCAACGCGATTTTGACTATCGCAACGCGATAATACAT-AA
*
2337007 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
1 TCGCAACGCGATTTTGACTATCGCAACGCGATAATACATAA
* *
2337048 TCGCAACGAGATTATGACTATCGCAACGCGATAATACATAA
1 TCGCAACGCGATTTTGACTATCGCAACGCGATAATACATAA
*
2337089 TCGCAACGCGATTTTGACTGTCGCAACGC
1 TCGCAACGCGATTTTGACTATCGCAACGC
2337118 TGAATTTCAA
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 27 0.27
41 67 0.67
42 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (41 bp):
TCGCAACGCGATTTTGACTATCGCAACGCGATAATACATAA
Found at i:2340251 original size:18 final size:18
Alignment explanation
Indices: 2340228--2340262 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2340218 AGAAAAAGGC
*
2340228 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
2340246 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
2340263 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:2340572 original size:140 final size:140
Alignment explanation
Indices: 2340320--2340602 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
2340310 GCAAACGTTG
*
2340320 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTAGTAGTAACTTGAGT
*
2340385 TTGAACATTGCTATAATCTGTTCAGTTGTTATCACGTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATAATATGTTCAGTTGTTATCACGTATTACACATTCATTTGAATATCGCAACG
2340450 CGAATTTGAC
131 CGAATTTGAC
2340460 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTAGTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTAGTAGTAACTTGAGT
* * **
2340525 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGGTTATCGCAACG
66 TTGAACATTGCTATAATATGTTCAGTTGTTATCACGTATTACACATTCATTTGAATATCGCAACG
2340590 CGAATTTGAC
131 CGAATTTGAC
2340600 TAT
1 TAT
2340603 CACAACGAGA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTAGTAGTAACTTGAGT
TTGAACATTGCTATAATATGTTCAGTTGTTATCACGTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:2340603 original size:20 final size:20
Alignment explanation
Indices: 2340580--2340703 Score: 116
Period size: 20 Copynumber: 6.5 Consensus size: 20
2340570 TTCATTTGGT
2340580 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
* *
2340600 TATCACAACGAGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
2340620 TATCACAACGC-AA----A-
1 TATCGCAACGCGAATTTGAC
* *
2340634 AATCGCAACACGAATTTGAC
1 TATCGCAACGCGAATTTGAC
* ** *
2340654 TGTCGCAACTTGAATTTGAT
1 TATCGCAACGCGAATTTGAC
*
2340674 TATCGCAACGGGAATTTGAC
1 TATCGCAACGCGAATTTGAC
2340694 TATCGCAACG
1 TATCGCAACG
2340704 AGAAAATTCC
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
14 8 0.10
15 3 0.04
19 3 0.04
20 69 0.83
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:2340669 original size:54 final size:54
Alignment explanation
Indices: 2340581--2340683 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
2340571 TCATTTGGTT
*
2340581 ATCGCAACGCGAATTTGACTATCACAACGAGAATTTGACTATCACAACGCAAAA
1 ATCGCAACACGAATTTGACTATCACAACGAGAATTTGACTATCACAACGCAAAA
* * ** * *
2340635 ATCGCAACACGAATTTGACTGTCGCAACTTGAATTTGATTATCGCAACG
1 ATCGCAACACGAATTTGACTATCACAACGAGAATTTGACTATCACAACG
2340684 GGAATTTGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (54 bp):
ATCGCAACACGAATTTGACTATCACAACGAGAATTTGACTATCACAACGCAAAA
Found at i:2340734 original size:74 final size:74
Alignment explanation
Indices: 2340580--2340747 Score: 200
Period size: 74 Copynumber: 2.3 Consensus size: 74
2340570 TTCATTTGGT
2340580 TATCGCAACGCGAATTTGACTATCACAACGAGAATTTGACTATCACAACGCAAAAATCGCAACAC
1 TATCGCAACGCGAATTTGACTATCACAACGAGAATTTGACTATCACAACGCAAAAATCGCAACAC
*
2340645 GAATTTGAC
66 GAATTAGAC
* ** * * * *
2340654 TGTCGCAACTTGAATTTGATTATCGCAACGGGAATTTGACTATCGCAACG-AGAAAATTC-CAA-
1 TATCGCAACGCGAATTTGACTATCACAACGAGAATTTGACTATCACAACGCA-AAAA-TCGCAAC
*
2340716 AGCGTATTAGAC
64 A-CGAATTAGAC
2340728 TATCGCAACGCGAA-TTGACT
1 TATCGCAACGCGAATTTGACT
2340748 TTTGCGTTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
73 7 0.09
74 69 0.88
75 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (74 bp):
TATCGCAACGCGAATTTGACTATCACAACGAGAATTTGACTATCACAACGCAAAAATCGCAACAC
GAATTAGAC
Found at i:2340916 original size:36 final size:36
Alignment explanation
Indices: 2340875--2340982 Score: 99
Period size: 36 Copynumber: 3.2 Consensus size: 36
2340865 TACATTTCAG
2340875 TCAATTAAATAAGCACAAATAAGAATTATTTACACA
1 TCAATTAAATAAGCACAAATAAGAATTATTTACACA
* * *
2340911 TCAA-T---TAA--ACAAAT--CAACT-TTTACAAA
1 TCAATTAAATAAGCACAAATAAGAATTATTTACACA
* *
2340938 TCAATTAAACATGCACAAATAAGAATTATTTACACA
1 TCAATTAAATAAGCACAAATAAGAATTATTTACACA
*
2340974 TCATTTAAA
1 TCAATTAAA
2340983 CAAATCAACT
Statistics
Matches: 54, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
27 11 0.20
28 4 0.07
30 6 0.11
31 1 0.02
32 3 0.06
33 6 0.11
35 4 0.07
36 19 0.35
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.30
Consensus pattern (36 bp):
TCAATTAAATAAGCACAAATAAGAATTATTTACACA
Found at i:2340958 original size:63 final size:63
Alignment explanation
Indices: 2340851--2341004 Score: 236
Period size: 63 Copynumber: 2.4 Consensus size: 63
2340841 GATTGAAATC
* *
2340851 AACAAATCAACTTTTACATTTCAGTCAATTAAATAAGCACAAATAAGAATTATTTACACATCAAT
1 AACAAATCAACTTTTACA----AATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAAT
2340916 TA
62 TA
* *
2340918 AACAAATCAACTTTTACAAATCAATTAAACATGCACAAATAAGAATTATTTACACATCATTTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
2340981 AACAAATCAACTTTTACAAATCAA
1 AACAAATCAACTTTTACAAATCAA
2341005 CTTTTACAAA
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
63 65 0.78
67 18 0.22
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (63 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATTA
Found at i:2341001 original size:14 final size:14
Alignment explanation
Indices: 2340982--2341018 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
2340972 CATCATTTAA
2340982 ACAAATCAACTTTT
1 ACAAATCAACTTTT
2340996 ACAAATCAACTTTT
1 ACAAATCAACTTTT
2341010 ACAAATCAA
1 ACAAATCAA
2341019 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2342473 original size:42 final size:42
Alignment explanation
Indices: 2342427--2342527 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
2342417 TGGAATTGAC
* * * *
2342427 CTCTTCAACGATGACAGAGGCCTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGATGACAGAGGCCTCTTGAACGATAGGAGAGGA
** *** * *
2342469 CTCTTGAGGGATGGTTGGGGCCTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGATGACAGAGGCCTCTTGAACGATAGGAGAGGA
2342511 CTCTTGAACGATGACAG
1 CTCTTGAACGATGACAG
2342528 GTGAGTCGGG
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGATGACAGAGGCCTCTTGAACGATAGGAGAGGA
Found at i:2342521 original size:21 final size:20
Alignment explanation
Indices: 2342426--2342523 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
2342416 GTGGAATTGA
* *
2342426 CCTCTTCAACGATGACAGAGG
1 CCTCTTGAACGATG-GAGAGG
* *
2342447 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGAT-GGAGAGG
* ** * *
2342468 ACTCTTGAGGGATGGTTGGGG
1 CCTCTTGAACGATGG-AGAGG
2342489 CCTCTTGAACGATAGGAGAGG
1 CCTCTTGAACGAT-GGAGAGG
2342510 CCTCTTGAACGATG
1 CCTCTTGAACGATG
2342524 ACAGGTGAGT
Statistics
Matches: 60, Mismatches: 14, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
20 3 0.05
21 54 0.90
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.22
Consensus pattern (20 bp):
CCTCTTGAACGATGGAGAGG
Found at i:2343028 original size:20 final size:20
Alignment explanation
Indices: 2343003--2343040 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2342993 AATAGTTTCT
2343003 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
2343023 GAAACTTAAAATCGCAAC
1 GAAACTTAAAATCGCAAC
2343041 GCGGAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.24, G:0.11, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:2343056 original size:20 final size:20
Alignment explanation
Indices: 2343033--2343081 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2343023 GAAACTTAAA
2343033 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGC-GAATATGACT
*
2343053 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATATGACT
2343073 ATCGCAACG
1 ATCGCAACG
2343082 GGATAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAATATGACT
Found at i:2343110 original size:19 final size:20
Alignment explanation
Indices: 2343086--2343124 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
2343076 GCAACGGGAT
*
2343086 AATCGCAATGCGAAA-TAAA
1 AATCGCAACGCGAAACTAAA
2343105 AATCGCAACGCGAAACTAAA
1 AATCGCAACGCGAAACTAAA
2343125 TTCGCGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.13
Consensus pattern (20 bp):
AATCGCAACGCGAAACTAAA
Found at i:2343158 original size:20 final size:20
Alignment explanation
Indices: 2343125--2343162 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2343115 CGAAACTAAA
*
2343125 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
*
2343145 TTCGCATTGGGATTTTCA
1 TTCGCATTGCGATTTTCA
2343163 CGTTGCGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:2343186 original size:33 final size:33
Alignment explanation
Indices: 2343129--2343204 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
2343119 ACTAAATTCG
* *
2343129 CGTTGCGATTTTCATTTTCGCATTGGGATTTTC
1 CGTTGCGATTTTCATTTTCGCATTGCGATTATC
*
2343162 ACGTTGCGATTTTTA-TTTCGCATTGCGATTATC
1 -CGTTGCGATTTTCATTTTCGCATTGCGATTATC
2343195 CTGTTGCGAT
1 C-GTTGCGAT
2343205 AGTCAAATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 24 0.63
34 13 0.34
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTATC
Found at i:2343240 original size:20 final size:20
Alignment explanation
Indices: 2343197--2343241 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2343187 CGATTATCCT
*
2343197 GTTGCGATAGTCAAATTCGT
1 GTTGCGATAGTCAAATTCGC
**
2343217 GTTGCGATAGTCATTTTCGC
1 GTTGCGATAGTCAAATTCGC
2343237 GTTGC
1 GTTGC
2343242 AATTTTTAAG
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:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGTCAAATTCGC
Found at i:2345207 original size:20 final size:20
Alignment explanation
Indices: 2345159--2345214 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2345149 GAAACTTAAA
*
2345159 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
2345179 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
2345199 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
2345215 TGCAACGCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:2345286 original size:20 final size:21
Alignment explanation
Indices: 2345241--2345286 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
2345231 AATCGCGTTG
**
2345241 CGATTTTGTCGTTGCGATTTT
1 CGATTTTGTCGTTGCGATCCT
2345262 C-ATTTTG-CGTTGCGATCCT
1 CGATTTTGTCGTTGCGATCCT
2345281 CGATTT
1 CGATTT
2345287 CAAATAGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 10 0.45
21 1 0.05
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.48
Consensus pattern (21 bp):
CGATTTTGTCGTTGCGATCCT
Found at i:2345682 original size:22 final size:22
Alignment explanation
Indices: 2345629--2345671 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2345619 GAGATAGACG
*
2345629 GATTTCGCCGGAGATGGGGACA
1 GATTTCGTCGGAGATGGGGACA
2345651 GATTTCGTCGGAGATGGGGAC
1 GATTTCGTCGGAGATGGGGAC
2345672 GGATGTTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.21
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACA
Found at i:2345878 original size:20 final size:20
Alignment explanation
Indices: 2345855--2346021 Score: 169
Period size: 20 Copynumber: 8.2 Consensus size: 20
2345845 TTATCGCAGC
*
2345855 GCGATAGTCAGAATCGTGTT
1 GCGATAGTCAGAATCGCGTT
*
2345875 GCGATAGTAAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
* **
2345895 GTGATTATGT-ATTATCGCGTT
1 GCGA-TA-GTCAGAATCGCGTT
2345916 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
**
2345936 GCGATTATGT-ATTATCGCGTT
1 GCGA-TA-GTCAGAATCGCGTT
2345957 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
**
2345977 GCGATTATGT-ATTATCGCGTT
1 GCGA-TA-GTCAGAATCGCGTT
*
2345998 GCGATAGTCAAAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
2346018 GCGA
1 GCGA
2346022 ATCTGGAAAC
Statistics
Matches: 122, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
19 6 0.05
20 66 0.54
21 44 0.36
22 6 0.05
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:2345910 original size:61 final size:61
Alignment explanation
Indices: 2345825--2345940 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
2345815 GCGCTTTGAA
* *
2345825 AATCGCATTGCGATTTTGTATTATCGCAG-CGCGATAGTCAGAATCGTGTTGCGATAGTAAG
1 AATCGCATTGCGATTATGTATTATCGC-GTCGCGATAGTCAGAATCGCGTTGCGATAGTAAG
* * *
2345886 AATCGCGTTGTGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCGTTGCGAT
1 AATCGCATTGCGATTATGTATTATCGCGTCGCGATAGTCAGAATCGCGTTGCGAT
2345941 TATGTATTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 1 0.02
61 48 0.98
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (61 bp):
AATCGCATTGCGATTATGTATTATCGCGTCGCGATAGTCAGAATCGCGTTGCGATAGTAAG
Found at i:2345911 original size:21 final size:21
Alignment explanation
Indices: 2345887--2346002 Score: 141
Period size: 21 Copynumber: 5.6 Consensus size: 21
2345877 GATAGTAAGA
*
2345887 ATCGCGTTGTGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
2345908 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
2345928 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
2345949 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
2345969 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
2345990 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
2346003 AGTCAAAATC
Statistics
Matches: 80, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.05
20 30 0.38
21 42 0.52
22 4 0.05
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:2345917 original size:41 final size:41
Alignment explanation
Indices: 2345867--2346021 Score: 258
Period size: 41 Copynumber: 3.8 Consensus size: 41
2345857 GATAGTCAGA
* *
2345867 ATCGTGTTGCGATAGTAAGAATCGCGTTGTGATTATGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTATT
*
2345908 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTATT
*
2345949 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTATT
2345990 ATCGCGTTGCGATAGTCAA-AATCGCGTTGCGA
1 ATCGCGTTGCGATAGT-AAGAATCGCGTTGCGA
2346022 ATCTGGAAAC
Statistics
Matches: 109, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
41 108 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTATT
Found at i:2345973 original size:61 final size:61
Alignment explanation
Indices: 2345855--2346021 Score: 173
Period size: 61 Copynumber: 2.7 Consensus size: 61
2345845 TTATCGCAGC
* * **
2345855 GCGATAGTCAGAATCGTGTTGCGATAGTAAGAATCGCGTTGTGATTATGTATTATCGCGTT
1 GCGATAGTCAGAATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTAGAATCGCGTT
**
2345916 GCGATAGTCAGAATCGCGTTGCGATTATGT-ATTATCGCGTTGCGA-TA-GTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTTGCGA-TA-GTAAGAATCGCGTTGCGATTATGT-AGAATCGCGTT
**
2345977 GCGATTATGT-ATTATCGCGTTGCGATAGTCAA-AATCGCGTTGCGA
1 GCGA-TA-GTCAGAATCGCGTTGCGATAGT-AAGAATCGCGTTGCGA
2346022 ATCTGGAAAC
Statistics
Matches: 90, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
60 4 0.04
61 52 0.58
62 30 0.33
63 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (61 bp):
GCGATAGTCAGAATCGCGTTGCGATAGTAAGAATCGCGTTGCGATTATGTAGAATCGCGTT
Found at i:2349513 original size:2 final size:2
Alignment explanation
Indices: 2349506--2349569 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
2349496 CCGCCCCGAT
2349506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2349548 TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
2349570 TTTTTATATT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2350792 original size:38 final size:38
Alignment explanation
Indices: 2350750--2350881 Score: 114
Period size: 38 Copynumber: 3.6 Consensus size: 38
2350740 AACTTTTTAT
*
2350750 AATTAAACTTTATAGATTATAATTATATTATTTTAAAC
1 AATTAAACTTTATAAATTATAATTATATTATTTTAAAC
* * * *
2350788 AATTATATTTTATAAATTATATACTTA-A--CTTTT--AT
1 AATTAAACTTTATAAATTATA-A-TTATATTATTTTAAAC
* *
2350823 AATTAAACTTTATAGA-GATAATTATAATTATTTTAAAC
1 AATTAAACTTTATAAATTATAATTAT-ATTATTTTAAAC
* *
2350861 AATTATATTTTATAAATTATA
1 AATTAAACTTTATAAATTATA
2350882 TACTTAAAAA
Statistics
Matches: 70, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
32 3 0.04
33 1 0.01
34 4 0.06
35 14 0.20
36 4 0.06
37 4 0.06
38 32 0.46
39 5 0.07
40 3 0.04
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (38 bp):
AATTAAACTTTATAAATTATAATTATATTATTTTAAAC
Found at i:2350821 original size:73 final size:74
Alignment explanation
Indices: 2350738--2350888 Score: 270
Period size: 73 Copynumber: 2.1 Consensus size: 74
2350728 AAATTTCTTA
*
2350738 TTAACTTTTTATAATTAAACTTTATAGATTATAATTAT-ATTATTTTAAACAATTATATTTTATA
1 TTAACTTTTTATAATTAAACTTTATAGA-GATAATTATAATTATTTTAAACAATTATATTTTATA
2350802 AATTATATAC
65 AATTATATAC
2350812 TTAAC-TTTTATAATTAAACTTTATAGAGATAATTATAATTATTTTAAACAATTATATTTTATAA
1 TTAACTTTTTATAATTAAACTTTATAGAGATAATTATAATTATTTTAAACAATTATATTTTATAA
2350876 ATTATATAC
66 ATTATATAC
2350885 TTAA
1 TTAA
2350889 AAACTATTAA
Statistics
Matches: 75, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
72 8 0.11
73 62 0.83
74 5 0.07
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (74 bp):
TTAACTTTTTATAATTAAACTTTATAGAGATAATTATAATTATTTTAAACAATTATATTTTATAA
ATTATATAC
Found at i:2350957 original size:15 final size:16
Alignment explanation
Indices: 2350933--2350962 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2350923 TATTTTTATC
2350933 AATAATAAATTTAAAT
1 AATAATAAATTTAAAT
2350949 AATAA-AAATTTAAA
1 AATAATAAATTTAAA
2350963 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAAATTTAAAT
Found at i:2352822 original size:61 final size:61
Alignment explanation
Indices: 2352746--2352872 Score: 236
Period size: 61 Copynumber: 2.1 Consensus size: 61
2352736 AAATACTAGC
2352746 AATAGATAACCATGTAATATGTCACCTATGCAACTAACGTTTTTCAAATATAATACTTATA
1 AATAGATAACCATGTAATATGTCACCTATGCAACTAACGTTTTTCAAATATAATACTTATA
* *
2352807 AATAGTTAACCATGTACTATGTCACCTATGCAACTAACGTTTTTCAAATATAATACTTATA
1 AATAGATAACCATGTAATATGTCACCTATGCAACTAACGTTTTTCAAATATAATACTTATA
2352868 AATAG
1 AATAG
2352873 GGCACTCCTT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.35
Consensus pattern (61 bp):
AATAGATAACCATGTAATATGTCACCTATGCAACTAACGTTTTTCAAATATAATACTTATA
Found at i:2353957 original size:17 final size:17
Alignment explanation
Indices: 2353935--2353973 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2353925 ATTGCTTATA
2353935 TCATTTAAGTAAAGATG
1 TCATTTAAGTAAAGATG
*
2353952 TCATTTAAGTAATGATG
1 TCATTTAAGTAAAGATG
2353969 TCATT
1 TCATT
2353974 GCTTACATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (17 bp):
TCATTTAAGTAAAGATG
Done.