Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 147 of 218
Found at i:44741596 original size:45 final size:44
Alignment explanation
Indices: 44741530--44741620 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
44741520 GGAATAGAGG
*
44741530 TGTAATGGAATAGAAGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
44741575 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
44741619 TG
1 TG
44741621 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAAGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:44751677 original size:25 final size:25
Alignment explanation
Indices: 44751657--44751707 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
44751647 CATAAAAATC
44751657 TAAAAAAA-TGTAATATTTAAAAAAA
1 TAAAAAAATTGTAAT-TTTAAAAAAA
*
44751682 TAAAAAAATTGTACTTTTAAAAAAA
1 TAAAAAAATTGTAATTTTAAAAAAA
44751707 T
1 T
44751708 TATGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAAAAATTGTAATTTTAAAAAAA
Found at i:44752420 original size:8 final size:8
Alignment explanation
Indices: 44752407--44752438 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
44752397 TTGAAATAGC
44752407 TTTTTTAA
1 TTTTTTAA
44752415 TTTTTTAA
1 TTTTTTAA
44752423 -TTTTTAA
1 TTTTTTAA
44752430 TTTTTTAA
1 TTTTTTAA
44752438 T
1 T
44752439 AATTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTAA
Found at i:44752428 original size:15 final size:15
Alignment explanation
Indices: 44752408--44752438 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44752398 TGAAATAGCT
44752408 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
44752423 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
44752438 T
1 T
44752439 AATTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:44752444 original size:15 final size:15
Alignment explanation
Indices: 44752411--44752447 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
44752401 AATAGCTTTT
**
44752411 TTAATTTTTTAATTT
1 TTAATTTTTTAATAA
44752426 TTAATTTTTTAATAA
1 TTAATTTTTTAATAA
44752441 TTAATTT
1 TTAATTT
44752448 ACTTTGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTAATTTTTTAATAA
Found at i:44758571 original size:13 final size:13
Alignment explanation
Indices: 44758553--44758578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44758543 GAACCTGTTT
44758553 GAACAACTTATAC
1 GAACAACTTATAC
44758566 GAACAACTTATAC
1 GAACAACTTATAC
44758579 CGAGATAATT
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:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
GAACAACTTATAC
Found at i:44760804 original size:3 final size:3
Alignment explanation
Indices: 44760796--44760824 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44760786 CATTTAAATA
44760796 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
44760825 AAAACTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:44765050 original size:20 final size:20
Alignment explanation
Indices: 44765016--44765057 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
44765006 AACTATTTAA
** *
44765016 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
44765036 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
44765056 AT
1 AT
44765058 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:44777888 original size:21 final size:21
Alignment explanation
Indices: 44777859--44777915 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
44777849 ATTTTCGAGG
44777859 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
* *
44777880 ATATGCAATCTTAGATGTGAT
1 ATATACAATCTTAGATATGAT
44777901 ATATACAATCTTAGA
1 ATATACAATCTTAGA
44777916 AGATAAGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:44782632 original size:24 final size:24
Alignment explanation
Indices: 44782605--44782650 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
44782595 AGAACAATCC
* *
44782605 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
44782629 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
44782651 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:44786446 original size:44 final size:44
Alignment explanation
Indices: 44786398--44786724 Score: 134
Period size: 44 Copynumber: 7.4 Consensus size: 44
44786388 GAGTAGGCTG
*
44786398 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
* * * **
44786442 AAGA-TGAAAAATCTTATCTTTCC-AAG-A-TAGTGAGAAGAAGATTT
1 AAGATTG-TAAATCTTATC-TCCCTAAGCAGTAGTG-G-AGCAGATCA
*** ** * * * * * * *
44786486 AAGACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAG-GCTG
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-A
* *
44786530 AAGATTGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCA
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
* * **
44786574 AAGA-TGACAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTT
1 AAGATTG-TAAATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCA
*** ** * * * * * * *
44786618 AAGACACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAG-GCTG
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-A
* *
44786662 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGTAGCAGATCA
1 AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
* *
44786706 AAGATGGCAAATCTTATCT
1 AAGATTGTAAATCTTATCT
44786725 TTCCAAGATA
Statistics
Matches: 192, Mismatches: 71, Indels: 40
0.63 0.23 0.13
Matches are distributed among these distances:
42 9 0.05
43 15 0.08
44 151 0.79
45 12 0.06
46 5 0.03
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
AAGATTGTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
Found at i:44786984 original size:44 final size:44
Alignment explanation
Indices: 44786408--44786988 Score: 126
Period size: 44 Copynumber: 13.2 Consensus size: 44
44786398 AAGATTGTAG
* *
44786408 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGAAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAA
* * ** *
44786452 ATCTTATCTTTCC-AAG-A-TAGTGAGAAGAAGATTTAAGA-CACTAA
1 ATCTTATC-TCCCTAAGCAGTAGTG-G-AGCAGATCGAAGATGAC-AA
** * * * * * * * *
44786496 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAG-GCTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGA-TGACAA
* *
44786540 ATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCAAAGATGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAA
* ** *
44786584 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGA-CACTAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGATGAC-AA
** * * * * * * * *
44786628 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAG-GCTGAAGATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGA-TGACAA
* * *
44786672 ATCTTATCTCCCTAAGCAGTAGTGTAGCAGATCAAAGATGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAA
* * ** **
44786716 ATCTTATCTTTCC-AAG-A-TAGTGGGAACCAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGATGA-CAA
* * * * * * * * * * * *
44786760 GTATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGACAA
* * * *
44786804 ATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCAAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAA
* ** **
44786848 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGATGA-CAA
** * * * * * * * * * *
44786892 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTG-TAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TGACAA
*
44786936 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAA
44786980 ATCTTATCT
1 ATCTTATCT
44786989 TTCCAAGATA
Statistics
Matches: 357, Mismatches: 136, Indels: 88
0.61 0.23 0.15
Matches are distributed among these distances:
42 17 0.05
43 32 0.09
44 276 0.77
45 23 0.06
46 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACAA
Found at i:44787053 original size:132 final size:132
Alignment explanation
Indices: 44786358--44787037 Score: 1101
Period size: 132 Copynumber: 5.2 Consensus size: 132
44786348 ACCGGTGAAA
*
44786358 CACTAAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
1 CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
* * *
44786423 GCAGTAGTGGAGCAGATCAAAGATGAAAAATCTTATCTTTCCAAGATAGTGAGAAGAAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
44786488 GA
131 GC
*
44786490 CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCTTAA
1 CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
44786555 GCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
44786620 GA
131 GC
44786622 CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
1 CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
* * *
44786687 GCAGTAGTGTAGCAGATCAAAGATGGCAAATCTTATCTTTCCAAGATAGTGGGAACCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
44786752 GC
131 GC
* ** * * *
44786754 CACCAAGTATTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCTTAA
1 CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
* *
44786819 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
44786884 GC
131 GC
* * *
44786886 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
44786951 GCAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGATAGCGGGAAGCAGATTAAA
66 GCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
44787016 GC
131 GC
* * *
44787018 CAATAATCC-TATCTCCCTGA
1 CACTAAGCCTTGTCTCCCTGA
44787038 AGTTACAGTG
Statistics
Matches: 518, Mismatches: 30, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
131 10 0.02
132 508 0.98
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (132 bp):
CACTAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGCTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:44787125 original size:40 final size:40
Alignment explanation
Indices: 44787070--44787210 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 40
44787060 ACTTTGGATT
* *
44787070 TTATCTCTCTGAAGTTGTAGAGAGAAAATCGCATCTAGTC
1 TTATCTCCCTAAAGTTGTAGAGAGAAAATCGCATCTAGTC
* * * * * * * *
44787110 TTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGTAAGCAAGTC
1 TTATCTCCCTAAAGTTGTAG-AGAG-AAAAT-CG-CATCTAGTC
* *
44787154 TTATC-CTCCTGAAGTTGTAGAGAGTAAATCGCATCTAGTC
1 TTATCTC-CCTAAAGTTGTAGAGAGAAAATCGCATCTAGTC
44787194 TTATCTCCCTAAAGTTG
1 TTATCTCCCTAAAGTTG
44787211 CAGTGGAGCA
Statistics
Matches: 74, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
40 37 0.50
41 5 0.07
42 5 0.07
43 5 0.07
44 22 0.30
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (40 bp):
TTATCTCCCTAAAGTTGTAGAGAGAAAATCGCATCTAGTC
Found at i:44787156 original size:44 final size:42
Alignment explanation
Indices: 44787106--44787704 Score: 244
Period size: 44 Copynumber: 13.9 Consensus size: 42
44787096 AATCGCATCT
*
44787106 AGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
* * * * * * * *
44787150 AGTCTTATC-CTCCTGAAGTTGTAGAGAGTA-AAT-CGCATCT
1 AGTCTTATCTC-CCTGAAGTTGCAGGGAGCAGACTAAGAAGCA
*
44787190 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
* *
44787234 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGGGA-GCAGACT-AAGA-AGCA
* * *
44787279 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGA-TTA-AAGTCAA
1 AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTAAGAAG-C-A
* * * * * * * * *
44787322 TAATCCTATCTTCTTGAAGTTGCAGTTGAGCGGATTAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTAAGAAGC-A
* * * * * * *
44787366 GGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA-T-CGCATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGGGAGCAGACTAAGAAGCA
* * *
44787407 AGTTTTATCTCCCTGAAGTTGCAGTGGAGTAGACTCAGCAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
* * * *
44787451 AGTCTTATC-CTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGGGA-GCAGACT-AAGA-AGCA
* * * *
44787496 AATCTTATCTCCCTGACGTTGTAGTGGAGCAGA-TTAG-AGTCGA
1 AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTAAGAAG-C-A
* * * * *
44787539 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGA-TCAA-AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACT-AAGAAGC-A
* * * * * * *
44787583 GGATCTTATCTCTCTGAAGTTGCAGAGAACAGA-T-CG-CGTCT
1 AG-TCTTATCTCCCTGAAGTTGCAGGGAGCAGACTAAGAAG-CA
* *
44787624 AGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAG-GGAGCAGACTAAG-AAGCA
*
44787668 AGTCTTATC-CTCCTGAAGTTGCAGTGAGACAGACTAA
1 AGTCTTATCTC-CCTGAAGTTGCAGGGAG-CAGACTAA
44787705 ATAAACAAAT
Statistics
Matches: 418, Mismatches: 94, Indels: 86
0.70 0.16 0.14
Matches are distributed among these distances:
40 62 0.15
41 24 0.06
42 13 0.03
43 35 0.08
44 212 0.51
45 66 0.16
46 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
AGTCTTATCTCCCTGAAGTTGCAGGGAGCAGACTAAGAAGCA
Found at i:44787173 original size:84 final size:84
Alignment explanation
Indices: 44787070--44787254 Score: 336
Period size: 84 Copynumber: 2.2 Consensus size: 84
44787060 ACTTTGGATT
44787070 TTAT-CTCTCTGAAGTTGTAGAGAGAAAATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGCGGA
1 TTATCCTC-CTGAAGTTGTAGAGAGAAAATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGCGGA
44787134 GCAGACTAAGTAAGCAAGTC
65 GCAGACTAAGTAAGCAAGTC
* *
44787154 TTATCCTCCTGAAGTTGTAGAGAGTAAATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAG
1 TTATCCTCCTGAAGTTGTAGAGAGAAAATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGCGGAG
44787219 CAGACTAAGTAAGCAAGTC
66 CAGACTAAGTAAGCAAGTC
44787238 TTATCCTCCTGAAGTTG
1 TTATCCTCCTGAAGTTG
44787255 CAGTGAGGCA
Statistics
Matches: 98, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
84 95 0.97
85 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (84 bp):
TTATCCTCCTGAAGTTGTAGAGAGAAAATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGCGGAG
CAGACTAAGTAAGCAAGTC
Found at i:44787496 original size:217 final size:217
Alignment explanation
Indices: 44787152--44787702 Score: 870
Period size: 217 Copynumber: 2.5 Consensus size: 217
44787142 AGTAAGCAAG
* * * *
44787152 TCTTATC-CTCCTGAAGTTGTAGAGAGTAAATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTG
1 TCTTATCTCT-CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTG
44787216 GAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
65 GAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
* * *
44787281 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTCAATAATCCTATCTTCTTGAAGTTGCA
130 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAGTTGCA
* *
44787346 GTTGAGCGGATTAAAACCTTGGA
195 GTGGAGCGGATCAAAACCTTGGA
*
44787369 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTTTTATCTCCCTGAAGTTGCAGTGG
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
* * * * *
44787434 AGTAGACTCAGCAAGCAAGTCTTATCCTCCTGAAGTTGTAGTGAGGTAGACTGAAGATGGCAAAT
66 AGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAAT
* * * *
44787499 CTTATCTCCCTGACGTTGTAGTGGAGCAGATTAGAGTCGATAATCCTATCTCCCTGAAGTTGCAG
131 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAGTTGCAG
44787564 TGGAGCGGATCAAAACCTTGGA
196 TGGAGCGGATCAAAACCTTGGA
* * *
44787586 TCTTATCTCTCTGAAGTTGCAGAGAACAGATCGCGTCTAGTCTTATCTCCCTGAAGTTTCAGTGG
1 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
* *
44787651 AGCAGACTAAGTAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGACAGACT
66 AGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT
44787703 AAATAAACAA
Statistics
Matches: 303, Mismatches: 30, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
217 301 0.99
218 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (217 bp):
TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGG
AGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAAT
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAATAATCCTATCTCCCTGAAGTTGCAG
TGGAGCGGATCAAAACCTTGGA
Found at i:44788078 original size:21 final size:21
Alignment explanation
Indices: 44788049--44788105 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
44788039 ATTTTCGAGG
44788049 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
44788070 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
44788091 ATATACAATATTAGA
1 ATATACAATCTTAGA
44788106 AAATGTGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:44788541 original size:14 final size:15
Alignment explanation
Indices: 44788512--44788540 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44788502 AATTTTTAGG
44788512 ATGTAATTATTTTTT
1 ATGTAATTATTTTTT
44788527 ATGTAATTATTTTT
1 ATGTAATTATTTTT
44788541 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
ATGTAATTATTTTTT
Found at i:44792075 original size:50 final size:49
Alignment explanation
Indices: 44792015--44792127 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
44792005 AAAGCCTGAG
* * * *
44792015 GTCTCGAGACAATGATCCTTTAAAGCAAACCTTAGCTTTGCTGTTGGCTA
1 GTCTCGAGACAAGGATCCCTTAAAGC-AACCTTAGCTTTGATGTAGGCTA
* * ** * *
44792065 GTCTCGAGACAAGGTTCCCTTGAAGCAATTTTAGCTTTGATGTAGGTTT
1 GTCTCGAGACAAGGATCCCTTAAAGCAACCTTAGCTTTGATGTAGGCTA
44792114 GTCTCGAGACAAGG
1 GTCTCGAGACAAGG
44792128 TTGGGAACCT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
49 31 0.58
50 22 0.42
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (49 bp):
GTCTCGAGACAAGGATCCCTTAAAGCAACCTTAGCTTTGATGTAGGCTA
Found at i:44803382 original size:18 final size:18
Alignment explanation
Indices: 44803359--44803394 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44803349 CGAAAAATAC
44803359 AGAAAAAATATGAAAAAA
1 AGAAAAAATATGAAAAAA
*
44803377 AGAAAAAATATTAAAAAA
1 AGAAAAAATATGAAAAAA
44803395 TTATGTGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (18 bp):
AGAAAAAATATGAAAAAA
Found at i:44808614 original size:20 final size:20
Alignment explanation
Indices: 44808589--44808626 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44808579 GTCTATTTAT
44808589 TTATTT-TTATATTGTTATTA
1 TTATTTGTTATA-TGTTATTA
44808609 TTATTTGTTATATGTTAT
1 TTATTTGTTATATGTTAT
44808627 CAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
TTATTTGTTATATGTTATTA
Found at i:44814294 original size:23 final size:22
Alignment explanation
Indices: 44814259--44814305 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
44814249 ACTTATTGTA
44814259 TTTTTTATATTTTAAATAAATAT
1 TTTTTTATATTTTAAAT-AATAT
44814282 TTTTTTA-ACTTTTAAATAATAT
1 TTTTTTATA-TTTTAAATAATAT
44814304 TT
1 TT
44814306 AAAAGAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTATATTTTAAATAATAT
Found at i:44814744 original size:21 final size:21
Alignment explanation
Indices: 44814720--44814759 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44814710 CCTTAAGTCA
*
44814720 TAAAACATAAACCTTAACCTT
1 TAAAACATAAACCCTAACCTT
* *
44814741 TAAACCTTAAACCCTAACC
1 TAAAACATAAACCCTAACC
44814760 CCTAACCCCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAACATAAACCCTAACCTT
Found at i:44814807 original size:15 final size:15
Alignment explanation
Indices: 44814780--44814816 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
44814770 AACCCTTAAA
44814780 CCATAAA-TCATAAT
1 CCATAAACTCATAAT
*
44814794 CTATAAACTCATAAT
1 CCATAAACTCATAAT
44814809 CCATAAAC
1 CCATAAAC
44814817 CTTAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (15 bp):
CCATAAACTCATAAT
Found at i:44814851 original size:14 final size:14
Alignment explanation
Indices: 44814832--44814885 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
44814822 AATAGTAACT
*
44814832 CCTAAACTTTAAAC
1 CCTAAACTATAAAC
*
44814846 CCTAAACTATATAC
1 CCTAAACTATAAAC
*
44814860 CCTAAACCATAAAC
1 CCTAAACTATAAAC
*
44814874 CTTAAACTATAA
1 CCTAAACTATAA
44814886 TGATAATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (14 bp):
CCTAAACTATAAAC
Found at i:44815251 original size:40 final size:40
Alignment explanation
Indices: 44815201--44815369 Score: 202
Period size: 40 Copynumber: 4.3 Consensus size: 40
44815191 CATTTTTGGT
* *
44815201 AAAGCACCGCTAAAGCTCGATCTATAGTGGCGTTTTTCAA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
*
44815241 AAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
* * * * *
44815281 AAATCGCCGCTAATGCTTGATCTATAGCAGCATTTTTCAA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
* * * *
44815321 AAATCG-CGCT--A-CTCGATTTATAGTGGCGTTTTTCGA
1 AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
44815357 AAAGCGCCGCTAA
1 AAAGCGCCGCTAA
44815370 TGCTACTAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
36 24 0.22
37 4 0.04
39 4 0.04
40 79 0.71
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
AAAGCGCCGCTAAAGCTCGATCTATAGCGGCGTTTTTCAA
Found at i:44815366 original size:76 final size:79
Alignment explanation
Indices: 44815201--44815547 Score: 228
Period size: 79 Copynumber: 4.5 Consensus size: 79
44815191 CATTTTTGGT
* * ** *
44815201 AAAGCACCGCTAAAGCTCGATCTATAGTGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTAT
1 AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAGCGCCGCTAA-GCTCGATCTAT
44815266 AGCGGCGTTTTTCAA
65 AGCGGCGTTTTTCAA
* * * *
44815281 AAATCGCCGCTAATGCTTGATCTATAGCAGCATTTTTCAAAAATCG-CGCT-A-CTCGATTTATA
1 AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAGCGCCGCTAAGCTCGATCTATA
* *
44815343 GTGGCGTTTTTCGA
66 GCGGCGTTTTTCAA
* * *** * * * * * ** ** * *
44815357 AAAGCGCCGCTAATGCT--A-CTAAAGC-TCA-ACAT-GAAACGATGACGTTTTGCTTAATTTTT
1 AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAG-CGCCGCTAAGCTCGA-TCTA
* * * *
44815416 TTGCAGCATATTTCAA
64 TAGCGGCGTTTTTCAA
* * * * * * *
44815432 GAAGCGCCGCTAATGGTCGACCTATAGCGGCGTTTTT-AAAAAGCGCTGCTAATGATCGATCTAT
1 AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAGCGCCGCTAA-GCTCGATCTAT
*
44815496 AGTGGCGTTTTTCAA
65 AGCGGCGTTTTTCAA
*
44815511 AAAGCGCCGCTAATGCTCGATCTATAGCGGCATTTTT
1 AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTT
44815548 TATCCAAACG
Statistics
Matches: 194, Mismatches: 62, Indels: 23
0.70 0.22 0.08
Matches are distributed among these distances:
70 3 0.02
71 2 0.01
72 5 0.03
73 6 0.03
74 4 0.02
75 28 0.14
76 38 0.20
77 1 0.01
78 7 0.04
79 54 0.28
80 46 0.24
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (79 bp):
AAAGCGCCGCTAATGCTCGATCTATAGCAGCATTTTTCAAAAAGCGCCGCTAAGCTCGATCTATA
GCGGCGTTTTTCAA
Found at i:44815524 original size:40 final size:40
Alignment explanation
Indices: 44815426--44815547 Score: 174
Period size: 40 Copynumber: 3.1 Consensus size: 40
44815416 TTGCAGCATA
* * *
44815426 TTTCAAGAAGCGCCGCTAATGGTCGACCTATAGCGGCGTT
1 TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
* *
44815466 TTT-AAAAAGCGCTGCTAATGATCGATCTATAGTGGCGTT
1 TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
* *
44815505 TTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCATT
1 TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
44815545 TTT
1 TTT
44815548 TATCCAAACG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 34 0.47
40 38 0.53
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TTTCAAAAAGCGCCGCTAATGATCGATCTATAGCGGCGTT
Found at i:44816515 original size:19 final size:19
Alignment explanation
Indices: 44816493--44816529 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44816483 CCAATGTCCT
44816493 CCACCGTAATCAAATTTGC
1 CCACCGTAATCAAATTTGC
*
44816512 CCACGGTAATCAAATTTG
1 CCACCGTAATCAAATTTG
44816530 TTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGC
Found at i:44820560 original size:13 final size:13
Alignment explanation
Indices: 44820538--44820568 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44820528 AAAAAAAAGC
*
44820538 AAAAAGCGCAAAA
1 AAAAACCGCAAAA
44820551 AAAAACCGCAAAA
1 AAAAACCGCAAAA
44820564 AAAAA
1 AAAAA
44820569 AAGAAAAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.74, C:0.16, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAACCGCAAAA
Found at i:44820569 original size:19 final size:19
Alignment explanation
Indices: 44820547--44820606 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
44820537 CAAAAAGCGC
44820547 AAAAAAAAACCGCAAAAAA
1 AAAAAAAAACCGCAAAAAA
* *
44820566 AAAAAGAAAA-AGCAAAAAG
1 AAAAA-AAAACCGCAAAAAA
***
44820585 CGTAAAAAACCGCAAAAAA
1 AAAAAAAAACCGCAAAAAA
44820604 AAA
1 AAA
44820607 GTTGCCTACC
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
18 4 0.14
19 21 0.72
20 4 0.14
ACGTcount: A:0.75, C:0.13, G:0.10, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACCGCAAAAAA
Found at i:44820592 original size:38 final size:38
Alignment explanation
Indices: 44820527--44820606 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
44820517 CTTATTCTTT
44820527 AAAAAAAAAGCAAAAAGCGCAAAAAAAAACCGCAAAAAAA
1 AAAAAAAAAGCAAAAAGCG--AAAAAAAACCGCAAAAAAA
*
44820567 AAAAGAAAAAGCAAAAAGCG-TAAAAAACCGCAAAAAAA
1 AAAA-AAAAAGCAAAAAGCGAAAAAAAACCGCAAAAAAA
44820605 AA
1 AA
44820607 GTTGCCTACC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
38 19 0.50
40 4 0.11
41 15 0.39
ACGTcount: A:0.74, C:0.14, G:0.11, T:0.01
Consensus pattern (38 bp):
AAAAAAAAAGCAAAAAGCGAAAAAAAACCGCAAAAAAA
Found at i:44826421 original size:109 final size:109
Alignment explanation
Indices: 44826222--44826753 Score: 808
Period size: 108 Copynumber: 4.9 Consensus size: 109
44826212 AAAATTCAAG
* * * * * *
44826222 AGGATATTTAGCAATTTGG-CTAAACGTGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGCTATTTGGTC-GAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
* *
44826286 ATTTCCAAACGCAAAACATTGTCTTATTTTTGAAAAGTTTTT-AAA
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAAGTTTTTGAAA
* *
44826331 AGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTACGGCACGTTCCTCGAA
1 AGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
44826396 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAA-TTTTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTTGAAA
* *
44826439 AGGATATTAAG-TCATTTGGTGGAACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
*
44826503 ATTTCCAAACGCAAAACATTGCCTTATTTTTGAAAAGTTTTT-AAA
65 ATTTCCAAACGCAAAATATTGCCTTA-TTTTGAAAAGTTTTTGAAA
*
44826548 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
*
44826613 TTTCCAAACGCAAAATATTGCCTTATTTT-AAAAATTTTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTTGAAA
*
44826656 AGGATATTAAG-TCATTTGGTCGAACGAGAAATCGAAATCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTAAGCT-ATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
* *
44826720 ATTTCCAAACGCTACATATTGCCTTATTTTGAAA
65 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
44826754 TATTTTCCTT
Statistics
Matches: 391, Mismatches: 23, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
107 16 0.04
108 190 0.49
109 178 0.46
110 7 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (109 bp):
AGGATATTAAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAAAGTTTTTGAAA
Found at i:44826604 original size:217 final size:217
Alignment explanation
Indices: 44826244--44826753 Score: 896
Period size: 217 Copynumber: 2.4 Consensus size: 217
44826234 AATTTGGCTA
* * * *
44826244 AACGTGAAACCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGTC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
44826309 TTATTTTTGAAAAGTTTTTAAAAGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
66 TTATTTTTGAAAAGTTTTTAAAAGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
*
44826374 ACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
131 ACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTAAAAATTTTTGAAA
*
44826439 AGGATATTAAGTCATTTGGTGG
196 AGGATATTAAGTCATTTGGTCG
*
44826461 AACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
44826526 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
66 TTATTTTTGAAAAGTTTTTAAAAGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
*
44826591 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTAAAAATTTTTGAAA
131 ACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTAAAAATTTTTGAAA
44826656 AGGATATTAAGTCATTTGGTCG
196 AGGATATTAAGTCATTTGGTCG
* * * *
44826678 AACGAGAAATCGAAATCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
44826743 TTA-TTTTGAAA
66 TTATTTTTGAAA
44826754 TATTTTCCTT
Statistics
Matches: 279, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
216 8 0.03
217 271 0.97
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (217 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTTGAAAAGTTTTTAAAAGGATATTCAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
ACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTAAAAATTTTTGAAA
AGGATATTAAGTCATTTGGTCG
Found at i:44826943 original size:20 final size:18
Alignment explanation
Indices: 44826920--44826964 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44826910 ATAAATGAAC
44826920 ATAAAAATAAAGAAAATTAT
1 ATAAAAAT-AAGAAAA-TAT
* *
44826940 ATAAAAATCATAAAATAT
1 ATAAAAATAAGAAAATAT
44826958 ATAAAAA
1 ATAAAAA
44826965 AACGTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 5 0.22
20 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAAATAAGAAAATAT
Found at i:44827251 original size:3 final size:3
Alignment explanation
Indices: 44827174--44827232 Score: 73
Period size: 3 Copynumber: 18.7 Consensus size: 3
44827164 TTAATATTAC
*
44827174 ATA ATA ATTA TTA ATGA ATA TATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
44827222 ATG ATA ATA AT
1 ATA ATA ATA AT
44827233 GGTAACGTTA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
3 41 0.84
4 8 0.16
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:44829237 original size:44 final size:44
Alignment explanation
Indices: 44829174--44829927 Score: 312
Period size: 44 Copynumber: 17.7 Consensus size: 44
44829164 CCTTTAATTC
*
44829174 GCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATTACTATCTTTGATCT
* * * *
44829218 GCTCCGCTGTAATCTCAAGGAGATAAGATCTGCAATTCTTCGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGAT-TACTA-TCTTTGATCT
* * * * *
44829264 GTTCCACTGTAATCTCAGGGAAATAAGA--CCTGATGC---GATCC
1 GCTCCACTGTAATCTCAAGGAGATAAGATTACT-AT-CTTTGATCT
* * * *
44829305 ACTCTACTGTAA-CTTC-AGAGAGATAAGA-T-C---CTTTAATCC
1 GCTCCACTGTAATC-TCAAG-GAGATAAGATTACTATCTTTGATCT
* *
44829344 GCTCCACTGTAATCTC-AGAAAGATAGGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAAG-GAGATAAGATTACTATCTTTGATCT
* * * * * *
44829388 GCTTCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGAT-TACTA-TCTTTGATCT
* * * * *
44829434 GTTCCACTGTAATCTCAGGGAAATAAGA--CCTGATGC---GATCC
1 GCTCCACTGTAATCTCAAGGAGATAAGATTACT-AT-CTTTGATCT
* * *
44829475 ACTCTACTGTAA-CTTC-AGAGAGATAAGA-T-C---CTTTAATCT
1 GCTCCACTGTAATC-TCAAG-GAGATAAGATTACTATCTTTGATCT
* * *
44829514 GCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATTACTATCTTTGATCT
** * * * * * *
44829558 GCTCTGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAAGGAGATAAGAT-TACTA-TCTTTGATCT
* * **
44829604 GCTCCGCTGTAATCTCAAGGAGATAAGA--CCTGA-C-GCGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGATTACT-ATCTTTGATCT
* ** *
44829645 ACTCTGCTGTAA-CTTC-AGAGAGATAAGA-T-C---CTTTAAT-T
1 GCTCCACTGTAATC-TCAAG-GAGATAAGATTACTATCTTTGATCT
*
44829683 CGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCT
1 -GCTCCACTGTAATCTCAAGGAGATAAGATTACTATCTTTGATCT
* * * * * *
44829728 GCTCCGCTGTAATCTCAGGGAGATAATATCTGCAATTCTTCGATCT
1 GCTCCACTGTAATCTCAAGGAGATAAGAT-TACTA-TCTTTGATCT
* * * * *
44829774 GTTCCACTGTAATCTCAGGGAAATAAGA--CCTGATGC---GATCC
1 GCTCCACTGTAATCTCAAGGAGATAAGATTACT-AT-CTTTGATCT
* * * *
44829815 ACTCTACTGTAA-CTTC-AGAGAGATAAGA-T-C---CTTTAATCC
1 GCTCCACTGTAATC-TCAAG-GAGATAAGATTACTATCTTTGATCT
*
44829854 GCTCCACTGTAATCTC-AGAGAGATATGATTACTATCTTTGATCT
1 GCTCCACTGTAATCTCAAG-GAGATAAGATTACTATCTTTGATCT
* *
44829898 GCTCCGCTGTAATCTCAGGGAGATAAGATT
1 GCTCCACTGTAATCTCAAGGAGATAAGATT
44829928 TGAAATTCTT
Statistics
Matches: 537, Mismatches: 106, Indels: 134
0.69 0.14 0.17
Matches are distributed among these distances:
36 3 0.01
38 2 0.00
39 97 0.18
40 19 0.04
41 103 0.19
42 1 0.00
43 7 0.01
44 158 0.29
45 15 0.03
46 132 0.25
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAAGGAGATAAGATTACTATCTTTGATCT
Found at i:44829253 original size:170 final size:170
Alignment explanation
Indices: 44828948--44829975 Score: 1594
Period size: 170 Copynumber: 6.0 Consensus size: 170
44828938 TGGCTTCAAT
* * *
44828948 CTGATGTGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTCAATCCGCTCCACTG
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCC----TTT-AATCCGCTCCACTG
* ** *
44829013 TAA-CTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGAT
61 TAATC-TCAGAGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
* * * *
44829077 CTGCAATTCTTCGGTCTGCTCCGCTGTAATCTCAGGGAGATAAGAC
125 CTGCAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
* ** * * * *
44829123 CTGACGTAATCTATTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCTCCACTGTAATC
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
*
44829188 TCA-AGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGCA
66 TCAGA-GAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCA
44829252 ATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
130 ATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
44829293 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
* *
44829358 TCAGAAAGATAGGATTACTATCTTTGATCTGCTTCGCTGTAATCTCAGGGAGATAAGATCTGCAA
66 TCAGAGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAA
44829423 TTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
131 TTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
* *
44829463 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCTGCTCCACTGTAATA
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
* * *
44829528 TCAGGGAGATAGGATTACTATCTTTGATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTGCAA
66 TCAGAGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAA
* * * * *
44829593 TTCTTCGGTCTGCTCCGCTGTAATCTCAAGGAGATAAGAC
131 TTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
* * * *
44829633 CTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTAATTCGCTCCACTGTAATC
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
*
44829698 TCA-AGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAATATCTGCA
66 TCAGA-GAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCA
44829762 ATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
130 ATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
44829803 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
* * *
44829868 TCAGAGAGATATGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAAA
66 TCAGAGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAA
* *
44829933 TTCTTCAATCTGTTCCACTGTAATCTCAGGGAAATAATAC
131 TTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
44829973 CTG
1 CTG
44829976 TATAATGAAC
Statistics
Matches: 786, Mismatches: 62, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
169 1 0.00
170 741 0.94
171 6 0.01
175 38 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (170 bp):
CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
TCAGAGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAA
TTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
Found at i:44829961 original size:46 final size:44
Alignment explanation
Indices: 44828996--44829969 Score: 245
Period size: 44 Copynumber: 22.8 Consensus size: 44
44828986 GATCCTTTAT
* * * * *
44828996 TTCAATCCGCTCCACTGTAA-CTTCAGAGAGATAGGATTACTAGC
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAATATC
* *
44829040 TTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGCAAT-TC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--AATATC
** * * *
44829086 TTCGGTCTGCTCCGCTGTAATCTCAGGGAGATAAGACCT--GA-C
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATC
* ** ** * *
44829128 GT-AATCTATTCTGCTGTAA-CTTCAGAGAGATAAG----AT-CC
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAATATC
* * * *
44829166 TTTAAT-TCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATC
1 TTCAATCT-GCTCCACTGTAATCTCAGGGAGATAAGATTAATATC
** * *
44829210 TTTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGCAAT-TC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--AATATC
* * * * * *
44829256 TTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGAT-GC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATC
* * * *
44829300 GATCCA-CT-CT--ACTGTAA-CTTCAGAGAGATAAG----AT-CC
1 -TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAATATC
* * ** * *
44829336 TTTAATCCGCTCCACTGTAATCTCAGAAAGATAGGATTACTATC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATC
** * *
44829380 TTTGATCTGCTTCGCTGTAATCTCAGGGAGATAAGATCTGCAAT-TC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--AATATC
* * * * * *
44829426 TTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGAT-GC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATC
* * * *
44829470 GATCCA-CT-CT--ACTGTAA-CTTCAGAGAGATAAG----AT-CC
1 -TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAATATC
* * * *
44829506 TTTAATCTGCTCCACTGTAATATCAGGGAGATAGGATTACTATC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATC
** ** *
44829550 TTTGATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTGCAAT-TC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--AATATC
** * * * *
44829596 TTCGGTCTGCTCCGCTGTAATCTCAAGGAGATAAGACCT--GA-C
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATC
* * * ** * *
44829638 -GCGATCTACTCTGCTGTAA-CTTCAGAGAGATAAG----AT-CC
1 TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAATATC
* * * *
44829676 TTTAAT-TCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATC
1 TTCAATCT-GCTCCACTGTAATCTCAGGGAGATAAGATTAATATC
** * *
44829720 TTTGATCTGCTCCGCTGTAATCTCAGGGAGATAATATCTGCAAT-TC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T--AATATC
* * * * * *
44829766 TTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGAT-GC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TTAATATC
* * * *
44829810 GATCCA-CT-CT--ACTGTAA-CTTCAGAGAGATAAG----AT-CC
1 -TTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTAATATC
* * * * *
44829846 TTTAATCCGCTCCACTGTAATCTCAGAGAGATATGATTACTATC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATC
** *
44829890 TTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGAA-ATTC
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TT-AATA-TC
* *
44829936 TTCAATCTGTTCCACTGTAATCTCAGGGAAATAA
1 TTCAATCTGCTCCACTGTAATCTCAGGGAGATAA
44829970 TACCTGTATA
Statistics
Matches: 688, Mismatches: 156, Indels: 170
0.68 0.15 0.17
Matches are distributed among these distances:
35 6 0.01
36 13 0.02
37 6 0.01
38 5 0.01
39 97 0.14
40 9 0.01
41 104 0.15
42 3 0.00
43 8 0.01
44 204 0.30
45 20 0.03
46 203 0.30
47 10 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATATC
Found at i:44829963 original size:510 final size:512
Alignment explanation
Indices: 44828948--44829975 Score: 1783
Period size: 510 Copynumber: 2.0 Consensus size: 512
44828938 TGGCTTCAAT
* * *
44828948 CTGATGTGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTCAATCCGCTCCACTG
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCC--T-TTTCAATCCGCTCCACTG
44829013 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATC
63 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATC
* * *
44829078 TGCAATTCTTCGGTCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGACGTAATCTATTCTGCT
128 TGCAATTCTTCGGTCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGCAATCTACTCTGCT
44829143 GTAACTTCAGAGAGATAAGATCCTTTAATTCGCTCCACTGTAATCTCAAGGAGATAGGATTACTA
193 GTAACTTCAGAGAGATAAGATCCTTTAATTCGCTCCACTGTAATCTCAAGGAGATAGGATTACTA
44829208 TCTTTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGCAATTCTTCGATCTGTTCCACTG
258 TCTTTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGCAATTCTTCGATCTGTTCCACTG
44829273 TAATCTCAGGGAAATAAGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTT
323 TAATCTCAGGGAAATAAGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTT
*
44829338 TAATCCGCTCCACTGTAATCTCAGAAAGATAGGATTACTATCTTTGATCTGCTTCGCTGTAATCT
388 TAATCCGCTCCACTGTAATCTCAGAAAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCT
* *
44829403 CAGGGAGATAAGATCTGCAATTCTTCGATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
453 CAGGGAGATAAGATCTGAAATTCTTCAATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
*
44829463 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCC-TTT-AATCTGCTCCACTGTAA
1 CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTCAATCCGCTCCACTGTAA
* * ** * * *
44829526 -TATCAGGGAGATAGGATTACTATCTTTGATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTG
66 CT-TCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTG
*
44829590 CAATTCTTCGGTCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGCGATCTACTCTGCTGT
130 CAATTCTTCGGTCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGCAATCTACTCTGCTGT
44829655 AACTTCAGAGAGATAAGATCCTTTAATTCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATC
195 AACTTCAGAGAGATAAGATCCTTTAATTCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATC
* *
44829720 TTTGATCTGCTCCGCTGTAATCTCAGGGAGATAATATCTGCAATTCTTCGATCTGTTCCACTGTA
260 TTTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGCAATTCTTCGATCTGTTCCACTGTA
44829785 ATCTCAGGGAAATAAGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
325 ATCTCAGGGAAATAAGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
* *
44829850 ATCCGCTCCACTGTAATCTCAGAGAGATATGATTACTATCTTTGATCTGCTCCGCTGTAATCTCA
390 ATCCGCTCCACTGTAATCTCAGAAAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCA
* *
44829915 GGGAGATAAGATTTGAAATTCTTCAATCTGTTCCACTGTAATCTCAGGGAAATAATAC
455 GGGAGATAAGATCTGAAATTCTTCAATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
44829973 CTG
1 CTG
44829976 TATAATGAAC
Statistics
Matches: 488, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
509 1 0.00
510 444 0.91
511 3 0.01
515 40 0.08
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (512 bp):
CTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTTCAATCCGCTCCACTGTAA
CTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGC
AATTCTTCGGTCTGCTCCGCTGTAATCTCAAGGAGATAAGACCTGACGCAATCTACTCTGCTGTA
ACTTCAGAGAGATAAGATCCTTTAATTCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCT
TTGATCTGCTCCGCTGTAATCTCAAGGAGATAAGATCTGCAATTCTTCGATCTGTTCCACTGTAA
TCTCAGGGAAATAAGACCTGATGCGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAA
TCCGCTCCACTGTAATCTCAGAAAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAG
GGAGATAAGATCTGAAATTCTTCAATCTGTTCCACTGTAATCTCAGGGAAATAAGAC
Found at i:44841777 original size:109 final size:108
Alignment explanation
Indices: 44841605--44842337 Score: 1109
Period size: 108 Copynumber: 6.8 Consensus size: 108
44841595 AATTTGGCTA
* * * *
44841605 AACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
44841670 TTATTTTTGAAAAGTTTTT-AAAAGGATATTCAG-CTATTTAGTCG
66 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTGGTCG
* * * *
44841714 AACGGGAAATTGAAATCCAGTACCTTAGGGCACGTTCCTCGAATTTTCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
44841779 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
* * *
44841822 AACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTTCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
44841887 TTATTTTTGAAAAGTTTTT-AAAAGGATATTTAG-CTATTTGGTCG
66 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTGGTCG
*
44841931 AACGAGAAATCGAAACCCAGTACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
44841996 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTGG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
* *
44842039 AACGAGAAATCAAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
44842104 TTATTTTTGAAAAGTTTTT-AAAAGGATATTTAG-CTATTTGGTCG
66 TTA-TTTTGAAAA-TTTTTGAAAAGGATATTAAGTC-ATTTGGTCG
* *
44842148 AATGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGTC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
44842213 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
* * *
44842256 AACGAGAAATTGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
44842321 TTATTTTGAAATATTTT
66 TTATTTTGAAA-ATTTT
44842338 CCTTTTTTTA
Statistics
Matches: 571, Mismatches: 40, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
107 15 0.03
108 289 0.51
109 257 0.45
110 10 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
Found at i:44841965 original size:217 final size:217
Alignment explanation
Indices: 44841605--44842331 Score: 1267
Period size: 217 Copynumber: 3.4 Consensus size: 217
44841595 AATTTGGCTA
* * *
44841605 AACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
* * * * *
44841670 TTATTTTTGAAAAGTTTTTAAAAGGATATTCAGCTATTTAGTCGAACGGGAAATTGAAATCCAGT
66 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
*
44841735 ACCTTAGGGCACGTTCCTCGAATTTTCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
131 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
44841800 AGGATATTAAGTCATTTGGTGG
196 AGGATATTAAGTCATTTGGTGG
* *
44841822 AACGAGAAGTCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTTCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
44841887 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
66 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
*
44841952 ACCTTACGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
131 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
44842017 AGGATATTAAGTCATTTGGTGG
196 AGGATATTAAGTCATTTGGTGG
*
44842039 AACGAGAAATCAAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
*
44842104 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAATGAGAAATCGAAACCCAGT
66 TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
*
44842169 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGTCTTATTTTGAAAATTTTTGAAA
131 ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
*
44842234 AGGATATTAAGTCATTTGGTCG
196 AGGATATTAAGTCATTTGGTGG
* * * *
44842256 AACGAGAAATTGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCTACATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
44842321 TTA-TTTTGAAA
66 TTATTTTTGAAA
44842332 TATTTTCCTT
Statistics
Matches: 486, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
216 8 0.02
217 478 0.98
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (217 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGT
ACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAA
AGGATATTAAGTCATTTGGTGG
Found at i:44842520 original size:20 final size:18
Alignment explanation
Indices: 44842497--44842541 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44842487 ATAAATGAAC
44842497 ATAAAAATAAAGAAAATTAT
1 ATAAAAAT-AAGAAAA-TAT
* *
44842517 ATAAAAATCATAAAATAT
1 ATAAAAATAAGAAAATAT
44842535 ATAAAAA
1 ATAAAAA
44842542 AACGTATGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 5 0.22
20 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAAATAAGAAAATAT
Found at i:44844315 original size:31 final size:31
Alignment explanation
Indices: 44844279--44844340 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
44844269 AGATAATTTT
44844279 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
44844310 AAAGAGTTTTATTATGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
44844341 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:44844649 original size:3 final size:3
Alignment explanation
Indices: 44844641--44844666 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44844631 ATCTATCCTT
44844641 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
44844667 TAACTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44846663 original size:11 final size:11
Alignment explanation
Indices: 44846631--44846672 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
44846621 TTAACTCCCT
44846631 TTTTTTAAATAA
1 TTTTTTAAAT-A
**
44846643 TTTTAAAAATA
1 TTTTTTAAATA
44846654 TTTTTTAAAT-
1 TTTTTTAAATA
44846664 TTTTTTAAA
1 TTTTTTAAA
44846673 CCGTAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.35
11 9 0.35
12 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:44849307 original size:124 final size:125
Alignment explanation
Indices: 44849086--44849337 Score: 355
Period size: 124 Copynumber: 2.0 Consensus size: 125
44849076 CCCAAACATG
* * *
44849086 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* *
44849151 TAGAAGCAATTTTATACTATTTACTCAGAAACGT-AAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCAATTTTATACTATTTACTCACAAACGTCAAAAAAAAATTATTTCTTCCAGGAC
* * *
44849210 CTACTGTAGCAAAAGCGCGTCTATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGGATCCTAT
1 CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
* * * ***
44849275 TAGAAGCGATTTTGTATTATTTGA-TCACAAACGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCAATTTTATACTATTT-ACTCACAAACGTCAAAAAAAAATTATTTCTTCCAGGAC
44849335 CTA
1 CTA
44849338 AAAACCCTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
124 87 0.78
125 25 0.22
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTAC
TAGAAGCAATTTTATACTATTTACTCACAAACGTCAAAAAAAAATTATTTCTTCCAGGAC
Found at i:44852534 original size:256 final size:255
Alignment explanation
Indices: 44852080--44852589 Score: 921
Period size: 256 Copynumber: 2.0 Consensus size: 255
44852070 AAACTATCAT
* *
44852080 TTCATATCTTTCAGTGATTTTTTACAATCTTTGGATTTTGCAGAGTTAGTGCTTGGAAAATCAAA
1 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
* *
44852145 GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTGATGCCCTGAGTGTAGTATTTTTGTTTGTAA
66 GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTAA
*
44852210 ACTTGTAATTTTTTTGAATATATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
131 ACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
* *
44852275 TATAATTGTCCTTATGTGGTTTTTGCATGCAAAGCAAAATAGAAGTAAATATTGGCTTAC
196 TATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
44852335 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
1 TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
* *
44852400 TATAGAAATGGTAAGAGGTTTCTAGTGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTA
66 GATAGAAATGGTAAGAAGTTTCTA-TGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTA
*
44852465 AACTTGTAATTTTTTTGAATAGATTGGTTAATAAAATAATTCATGGATTACATTAATTATACTTT
130 AACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTT
44852530 ATATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTA
195 ATATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTA
44852590 TTGGTTGTCT
Statistics
Matches: 244, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
255 85 0.35
256 159 0.65
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.41
Consensus pattern (255 bp):
TTCATATCTTTCAGTGATTTTTTACAATATTTGGATTTTCCAGAGTTAGTGCTTGGAAAATCAAA
GATAGAAATGGTAAGAAGTTTCTATGTTGGATCTAATGCCCTGAGTGTAGTATTTTCGTTTGTAA
ACTTGTAATTTTTTTGAATAGATTGATTAATAAAATAATTCATGGATTACATTAATTATACTTTA
TATAATTGTCCTCATGTGGTTTTTGCATGCAAAGCAAAATAGAAGCAAATATTGGCTTAC
Found at i:44853813 original size:13 final size:13
Alignment explanation
Indices: 44853791--44853854 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
44853781 CATTTCAAAC
44853791 ATAA-CATTTCAT
1 ATAACCATTTCAT
* *
44853803 GTAATCATTTCAT
1 ATAACCATTTCAT
**
44853816 ATAACCATTTTGT
1 ATAACCATTTCAT
44853829 ATAACCATTTCAT
1 ATAACCATTTCAT
* *
44853842 CTAAACATTTCAT
1 ATAACCATTTCAT
44853855 TTTATCATTT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
12 3 0.07
13 39 0.93
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (13 bp):
ATAACCATTTCAT
Found at i:44853863 original size:26 final size:26
Alignment explanation
Indices: 44853793--44853877 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 26
44853783 TTTCAAACAT
*
44853793 AACATTTCATGTAATCATTTCATATA
1 AACATTTCATATAATCATTTCATATA
* ** * *
44853819 ACCATTTTGTATAACCATTTCATCTA
1 AACATTTCATATAATCATTTCATATA
* * *
44853845 AACATTTCATTTTATCATTTCATTTA
1 AACATTTCATATAATCATTTCATATA
*
44853871 CACATTT
1 AACATTT
44853878 AGCACAGAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (26 bp):
AACATTTCATATAATCATTTCATATA
Found at i:44853876 original size:13 final size:12
Alignment explanation
Indices: 44853792--44853877 Score: 55
Period size: 13 Copynumber: 6.7 Consensus size: 12
44853782 ATTTCAAACA
*
44853792 TAACATTTCATG
1 TAACATTTCATT
*
44853804 TAATCATTTCATA
1 TAA-CATTTCATT
** *
44853817 TAACCATTTTGTA
1 TAA-CATTTCATT
44853830 TAACCATTTCATCT
1 TAA-CATTTCAT-T
*
44853844 AAACATTTCATTT
1 TAACATTTCA-TT
*
44853857 TATCATTTCATT
1 TAACATTTCATT
44853869 TACACATTT
1 TA-ACATTT
44853878 AGCACAGAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
12 7 0.12
13 49 0.83
14 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (12 bp):
TAACATTTCATT
Found at i:44854101 original size:25 final size:25
Alignment explanation
Indices: 44854040--44854101 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
44854030 GGGAAAGATT
* *
44854040 CTCACACAAGCTGTAACTGTAATTG
1 CTCACACAAGCTATAACTGTAAATG
* ** **
44854065 CTCTCATGAGCTATATTTGTAAATG
1 CTCACACAAGCTATAACTGTAAATG
44854090 CTCACACAAGCT
1 CTCACACAAGCT
44854102 GTGAAATGGG
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (25 bp):
CTCACACAAGCTATAACTGTAAATG
Found at i:44855451 original size:14 final size:14
Alignment explanation
Indices: 44855434--44855465 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
44855424 TATGGACCAA
44855434 ATTTAAATAAAAAT
1 ATTTAAATAAAAAT
44855448 ATTT-AATAAAAAT
1 ATTTAAATAAAAAT
44855461 ATTTA
1 ATTTA
44855466 CGGGCTCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTTAAATAAAAAT
Found at i:44862615 original size:25 final size:25
Alignment explanation
Indices: 44862587--44862634 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44862577 ATAGTCTATC
*
44862587 TATAGTAGTCTCAGCATATACTACA
1 TATAGCAGTCTCAGCATATACTACA
* *
44862612 TATAGCAGTTTCAGGATATACTA
1 TATAGCAGTCTCAGCATATACTA
44862635 TCAAAGAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (25 bp):
TATAGCAGTCTCAGCATATACTACA
Found at i:44878924 original size:547 final size:548
Alignment explanation
Indices: 44877859--44878941 Score: 1670
Period size: 547 Copynumber: 2.0 Consensus size: 548
44877849 AGAACGACGA
* *
44877859 AAGCCAAAAATGGGGCGTCGACACCACACGACCGTGTACCAGGCCGTGTGGTAGGCCGTGTGTGA
1 AAGCCAAAAATGGGGCATCGACACCACACGACCGTGTACCAGGCCGTGTGGTAGACCGTGTGTGA
* *
44877924 CACATAGTCGTGTAAGTCACTAACTTAGGTCACACGAGCATGTGCCCAGACCGTACAAAGGACTG
66 CACATAGTCATGTAAGTCACTAACTTAGGTCACACGAACATGTGCCCAGACCGTACAAAGGACTG
* * *
44877989 ATTTTTTATTAGAGTTACGCGGGAGTGTGACACAACCGTGTGGACCACACGGGCCAGCCATTTAG
131 ATTTTTTATTAGAGTTACACAGGAGTGTGACACAACCATGTGGACCACACGGGCCAGCCATTTAG
44878054 GCAATATGAATCCACACGGGTGTGTGGGCCAAAATTCTAAAATTTTCCCTAGGGCCATAAACATT
196 GCAATATGAATCCACACGGGTGTGTGGGCCAAAATTCTAAAATTTTCCCTAGGGCCATAAACATT
* * * *
44878119 TTTTGGATCAAATGCAAGCCTTCCGTAGGTTCTGTATGATATGGATTAAGTTATAAAACTCGAAA
261 GTTTGGATCAAACGCAAGCCTTCCATAGGGTCTGTATGATATGGATTAAGTTATAAAACTCGAAA
* * *
44878184 TCTGGTTATCTGTTAGTGTGTAATTTGTTATTTGTACGTATGTCTAATATGACATAAGTTAAGTA
326 TCTGGTGATCTGTTAGTGTATAATTTGTTATCTGTACGTATGTCTAATATGACATAAGTTAAGTA
* *
44878249 GTATGATTTGTTAGTGTATAATGTGCTTTTGCTTGGGATGTGTTTAAGGTATGTGATTTATTCAG
391 GTATGATTTGTTAGCGTATAATGTGCTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATTCAG
44878314 GCATGACCCGTGTTCTATTAATTTTGATGGTACATTTTTGTGTTACTTTGTTGGATGAGAACATG
456 GCATGACCCGTGTTCTATTAATTTTGATGGTACATTTTTGTGTTACTTTGTTGGATGAGAACATG
44878379 CAATATC-TG-AATATGTTGATTTGTCT
521 CAATATCATGCAATATGTTGATTTGTCT
* * * *
44878405 AAGCCGAAAATGGGGCTATCGACGCCACAC-AGCCGTGTACTAGGCCGTGTGGTAGACTGTGTGT
1 AAGCCAAAAATGGGGC-ATCGACACCACACGA-CCGTGTACCAGGCCGTGTGGTAGACCGTGTGT
* * * * * * * *
44878469 GACACATAGTCATGTGAGTCACTAACTTGGGTCACACGAACGTGTGCCTAGACTGTGCAAGGGAT
64 GACACATAGTCATGTAAGTCACTAACTTAGGTCACACGAACATGTGCCCAGACCGTACAAAGGAC
* * * * *
44878534 TGATTTTTTATTAGAGTTACACAGGCGTGTGACACGACTATGTGGGCCACACGGGCTAGCCATTT
129 TGATTTTTTATTAGAGTTACACAGGAGTGTGACACAACCATGTGGACCACACGGGCCAGCCATTT
** * * *
44878599 AGGCTGTGTGAATTCACACGGGTGTGTGGGCCGAAAA-TCTAAAATTTTCCCTAGGGCTATAAAC
194 AGGCAATATGAATCCACACGGGTGTGTGGGCC-AAAATTCTAAAATTTTCCCTAGGGCCATAAAC
* * * *
44878663 GTTGTTTGGATCGAACGCAAGCTTTCCATAGGGTCTGTATGATATGTATTAAGTTATAAAACTCG
258 ATTGTTTGGATCAAACGCAAGCCTTCCATAGGGTCTGTATGATATGGATTAAGTTATAAAACTCG
*
44878728 AAATCTGGTGATCTGTTAGTTTATAATTTGTTATCTGTACGTATGTCTAATATGACATAAGTTAA
323 AAATCTGGTGATCTGTTAGTGTATAATTTGTTATCTGTACGTATGTCTAATATGACATAAGTTAA
*
44878793 GTAGTATGATTTGTTAGCGTATAATGTGTTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATT
388 GTAGTATGATTTGTTAGCGTATAATGTGCTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATT
* * * * *
44878858 CAGGTATGACCCGTTTTTTGTTAATTTTGATGGTACGTTTTTGTGTTACTTTGTTGGATGAGAAC
453 CAGGCATGACCCGTGTTCTATTAATTTTGATGGTACATTTTTGTGTTACTTTGTTGGATGAGAAC
44878923 ATGCAATATCATGCAATAT
518 ATGCAATATCATGCAATAT
44878942 CTGAATATGT
Statistics
Matches: 483, Mismatches: 49, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
546 16 0.03
547 456 0.94
548 6 0.01
549 5 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (548 bp):
AAGCCAAAAATGGGGCATCGACACCACACGACCGTGTACCAGGCCGTGTGGTAGACCGTGTGTGA
CACATAGTCATGTAAGTCACTAACTTAGGTCACACGAACATGTGCCCAGACCGTACAAAGGACTG
ATTTTTTATTAGAGTTACACAGGAGTGTGACACAACCATGTGGACCACACGGGCCAGCCATTTAG
GCAATATGAATCCACACGGGTGTGTGGGCCAAAATTCTAAAATTTTCCCTAGGGCCATAAACATT
GTTTGGATCAAACGCAAGCCTTCCATAGGGTCTGTATGATATGGATTAAGTTATAAAACTCGAAA
TCTGGTGATCTGTTAGTGTATAATTTGTTATCTGTACGTATGTCTAATATGACATAAGTTAAGTA
GTATGATTTGTTAGCGTATAATGTGCTTTTGCTTGGGATGTGTCTAAGGTATGTGATTTATTCAG
GCATGACCCGTGTTCTATTAATTTTGATGGTACATTTTTGTGTTACTTTGTTGGATGAGAACATG
CAATATCATGCAATATGTTGATTTGTCT
Found at i:44884612 original size:43 final size:43
Alignment explanation
Indices: 44884524--44884720 Score: 184
Period size: 43 Copynumber: 4.6 Consensus size: 43
44884514 TATGTGAAAA
* * * *
44884524 AAACGTCGCTAAAGATCATGACCTTTAACTG-CGCTTTTATAAC
1 AAACGCCGCTAAAGAACATGACCTTTAGC-GACGCTTTTATCAC
* * * *
44884567 AAACACTGCTAAAGAACATGACCTTTAGCGACGTTTTTTTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAC
* * * *
44884610 AAACGCCGCTAAAGAATATGATCTTTAGCGGCGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAC
* * * * * *
44884653 AACCGCCGCTAAAGAATA-AACCTTTAGCGACGCTTCTAACAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAC
* *
44884695 AAACGCCACTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
44884721 AAAAAATTAT
Statistics
Matches: 126, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
41 3 0.02
42 37 0.29
43 86 0.68
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTATCAC
Found at i:44887900 original size:19 final size:19
Alignment explanation
Indices: 44887874--44887920 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
44887864 CTGAAACCAA
44887874 AATTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
*
44887893 AGTTTATAATAGGCATTCT
1 AATTTATAATAGGCATTCT
44887912 AATTTATAA
1 AATTTATAA
44887921 CAGATTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (19 bp):
AATTTATAATAGGCATTCT
Found at i:44889341 original size:29 final size:29
Alignment explanation
Indices: 44889295--44889353 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
44889285 TGGAATAAAA
44889295 CGACACTGTTTTGCTGTGATAAAAAGGTG
1 CGACACTGTTTTGCTGTGATAAAAAGGTG
*
44889324 CGACACTGTTTTGTTGTGATAAAAAGGTG
1 CGACACTGTTTTGCTGTGATAAAAAGGTG
44889353 C
1 C
44889354 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (29 bp):
CGACACTGTTTTGCTGTGATAAAAAGGTG
Found at i:44890030 original size:7 final size:7
Alignment explanation
Indices: 44889963--44890069 Score: 62
Period size: 7 Copynumber: 15.4 Consensus size: 7
44889953 AATAATTAAT
44889963 CTAAACC
1 CTAAACC
*
44889970 TTAAACC
1 CTAAACC
44889977 CT-AACC
1 CTAAACC
44889983 C--AACC
1 CTAAACC
* *
44889988 CCAAATCT
1 CTAAA-CC
44889996 CTAAACC
1 CTAAACC
* *
44890003 ATAAATCA
1 CTAAA-CC
*
44890011 CT-AACT
1 CTAAACC
*
44890017 CTTAACC
1 CTAAACC
44890024 CTAAACC
1 CTAAACC
*
44890031 CCAAACC
1 CTAAACC
44890038 CTAAACTC
1 CTAAAC-C
44890046 CT-AACC
1 CTAAACC
*
44890052 ACTAACCC
1 -CTAAACC
44890060 CTAAACC
1 CTAAACC
44890067 CTA
1 CTA
44890070 TTTAATATAT
Statistics
Matches: 77, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
5 5 0.06
6 9 0.12
7 50 0.65
8 13 0.17
ACGTcount: A:0.40, C:0.41, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:44890044 original size:28 final size:29
Alignment explanation
Indices: 44890013--44890069 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
44890003 ATAAATCACT
*
44890013 AACTCTTAACC-CTAAACCCC-AAACCCTA
1 AACTCCTAACCACT-AACCCCTAAACCCTA
44890041 AACTCCTAACCACTAACCCCTAAACCCTA
1 AACTCCTAACCACTAACCCCTAAACCCTA
44890070 TTTAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.18
Consensus pattern (29 bp):
AACTCCTAACCACTAACCCCTAAACCCTA
Found at i:44890145 original size:96 final size:89
Alignment explanation
Indices: 44890020--44890209 Score: 233
Period size: 89 Copynumber: 2.1 Consensus size: 89
44890010 ACTAACTCTT
* * * *
44890020 AACCCTAAACCCCAAACCCTAAACTCCT-AACCACTAACCCCTAAACCCTATTTAATATATAAAT
1 AACCCT-AA-CCC-AACCCCAAAC-CCTAAACCCCTAACCCCTAAACACTATTCAATATATAAAT
*
44890084 TAAAAAACACTAATTAATCTAAATCC-TA
62 TAAAAAACACTAATCAATCTAAA-CCATA
*
44890112 AACCCTAACCCAACCCCAAATCCCT-AACCCCTAACCCCTAAACATTATTCAATATATAAATTAA
1 AACCCTAACCCAACCCCAAA-CCCTAAACCCCTAACCCCTAAACACTATTCAATATATAAATTAA
* *
44890176 AACACACTAATCAATTTAAACCATA
65 AAAACACTAATCAATCTAAACCATA
44890201 AACCCTAAC
1 AACCCTAAC
44890210 TGGACATCGG
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
88 2 0.02
89 74 0.84
90 4 0.05
91 2 0.02
92 6 0.07
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (89 bp):
AACCCTAACCCAACCCCAAACCCTAAACCCCTAACCCCTAAACACTATTCAATATATAAATTAAA
AAACACTAATCAATCTAAACCATA
Found at i:44890146 original size:89 final size:89
Alignment explanation
Indices: 44890045--44890209 Score: 251
Period size: 89 Copynumber: 1.9 Consensus size: 89
44890035 ACCCTAAACT
* * *
44890045 CCTAACCACTAACCCCTAAACCCTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCC
1 CCTAACCACTAACCCCTAAACACTATTCAATATATAAATTAAAAAACACTAATCAATCTAAA-CC
44890110 -TAAACCCTAACCCAACCCCAAATC
65 ATAAACCCTAACCCAACCCCAAATC
* * * *
44890134 CCTAACCCCTAACCCCTAAACATTATTCAATATATAAATTAAAACACACTAATCAATTTAAACCA
1 CCTAACCACTAACCCCTAAACACTATTCAATATATAAATTAAAAAACACTAATCAATCTAAACCA
44890199 TAAACCCTAAC
66 TAAACCCTAAC
44890210 TGGACATCGG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 2 0.03
89 66 0.97
ACGTcount: A:0.45, C:0.30, G:0.00, T:0.24
Consensus pattern (89 bp):
CCTAACCACTAACCCCTAAACACTATTCAATATATAAATTAAAAAACACTAATCAATCTAAACCA
TAAACCCTAACCCAACCCCAAATC
Found at i:44890701 original size:20 final size:19
Alignment explanation
Indices: 44890668--44890713 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
44890658 ATTGAATTTT
44890668 AATT-AATATAAATAAACA
1 AATTAAATATAAATAAACA
*
44890686 AATTAAATAGTAAATAGACA
1 AATTAAATA-TAAATAAACA
*
44890706 AATAAAAT
1 AATTAAAT
44890714 GTTTTTGCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATAAACA
Found at i:44890783 original size:41 final size:41
Alignment explanation
Indices: 44890724--44890995 Score: 325
Period size: 41 Copynumber: 6.6 Consensus size: 41
44890714 GTTTTTGCGA
* ** *
44890724 CGCTTTTCAAAAAACGCCGCTAAAGCCCCGAGCATTAGCGG
1 CGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
* * *
44890765 CG-TTTTCCAAGAAACGCCGCTAAAAATCTGAGCATTAGCGA
1 CGCTTTTCTAA-AAACGCCGCTAAAGATCTGAGCATTAGCGG
* *
44890806 CGCTTTTCTAAAAACACCGCTAAAGATCTGAGCATTAGCGA
1 CGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
* *
44890847 CGCTTTTCCAAAAACGCCGCTAAAGATCTGAGAATTAGCGG
1 CGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
* **
44890888 CGCTTTT-TAAAAAATGCCGCTAAAGATCTGATAATTAGCGG
1 CGCTTTTCT-AAAAACGCCGCTAAAGATCTGAGCATTAGCGG
* * *
44890929 CGCTTTT-TAAAAAATGCCGCTAAAGAACTGAGCATTAGTGG
1 CGCTTTTCT-AAAAACGCCGCTAAAGATCTGAGCATTAGCGG
*
44890970 CGCTTTTCTTAAAATCGCCGCTAAAG
1 CGCTTTTC-TAAAAACGCCGCTAAAG
44890996 CCCCAAAAGG
Statistics
Matches: 204, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
40 7 0.03
41 175 0.86
42 21 0.10
43 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (41 bp):
CGCTTTTCTAAAAACGCCGCTAAAGATCTGAGCATTAGCGG
Found at i:44892207 original size:24 final size:23
Alignment explanation
Indices: 44892151--44892220 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
44892141 ATTTTCTTTC
44892151 TATAT-TATTAATATTATTTATT
1 TATATATATTAATATTATTTATT
*
44892173 TAAATATTATTAATA-TATTTAAATT
1 TATATA-TATTAATATTATTT--ATT
*
44892198 TATATATATTTAA-ATTATATATT
1 TATATATA-TTAATATTATTTATT
44892221 GAAATGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
22 4 0.10
23 8 0.21
24 11 0.28
25 16 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATATATATTAATATTATTTATT
Found at i:44892217 original size:15 final size:15
Alignment explanation
Indices: 44892181--44892219 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
44892171 TTTAAATATT
44892181 ATTA-ATATATTTAA
1 ATTATATATATTTAA
44892195 ATTTATATATATTTAA
1 A-TTATATATATTTAA
44892211 ATTATATAT
1 ATTATATAT
44892220 TGAAATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 11 0.48
16 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATATATATTTAA
Found at i:44892429 original size:21 final size:21
Alignment explanation
Indices: 44892389--44892427 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44892379 AAATCATGGA
44892389 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGACTCTTTCT
44892410 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAGCGACTCTTT
44892428 TCGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TAAATCCAAGCGACTCTTTCT
Found at i:44894956 original size:12 final size:12
Alignment explanation
Indices: 44894939--44894963 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44894929 ATTTTATAAC
44894939 ATAAATATTGTT
1 ATAAATATTGTT
44894951 ATAAATATTGTT
1 ATAAATATTGTT
44894963 A
1 A
44894964 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:44900405 original size:5 final size:5
Alignment explanation
Indices: 44900389--44900428 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
44900379 TGTATTAAGG
*
44900389 ATATA ATGTA ATATA ATATA ATATA ATATA A-A-A ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
44900429 TAAATTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 27 0.87
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:44900426 original size:13 final size:14
Alignment explanation
Indices: 44900391--44900433 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
44900381 TATTAAGGAT
*
44900391 ATAATGTAATATAA
1 ATAATATAATATAA
44900405 TATAATATAATATAA
1 -ATAATATAATATAA
44900420 A-AATATAAT-TAA
1 ATAATATAATATAA
44900432 AT
1 AT
44900434 TGATAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 4 0.15
13 8 0.31
14 1 0.04
15 13 0.50
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
ATAATATAATATAA
Found at i:44909286 original size:42 final size:43
Alignment explanation
Indices: 44909082--44909353 Score: 214
Period size: 43 Copynumber: 6.3 Consensus size: 43
44909072 ACGTCGCTAA
* * * *
44909082 CTTTTGCGGCGCTTA-CAGAAAAAACGTCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTAGGA-AAAAAACGCCGCTAAAAGTCATGTT
* * *
44909125 CTTTAGCGGCGCTAAGGAAAAAGACGCCGCTAATTA-TCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAA-AAGTCATGTT
* ** *
44909168 CTTTAGCAGCGCTTAGGAAAAAAACATCGCT-AATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAG-TCATGTT
* * * *
44909211 CTTTACCAGTGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTCATGTT
* * * *
44909254 CTATAGCGGCGCTT-GGTAAAAAACACCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTCATGTT
* * *** * *
44909296 TTTTAACGGCGCTTCA-TCTACAAACGCCGTTAAAAGT-AGTGTT
1 CTTTAGCGGCGCTT-AGGAAAAAAACGCCGCTAAAAGTCA-TGTT
*
44909339 CTTTTGCGGCGCTTA
1 CTTTAGCGGCGCTTA
44909354 TTTCACAAAC
Statistics
Matches: 183, Mismatches: 38, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
42 40 0.22
43 139 0.76
44 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTCATGTT
Found at i:44909811 original size:21 final size:21
Alignment explanation
Indices: 44909785--44909824 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44909775 TTCTTTTGAA
*
44909785 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
44909806 CCTCTGCTTCCCTCGCTGC
1 CCTCTGCTTCCCTCGCTGC
44909825 TGCCACTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.03, C:0.47, G:0.17, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:44915314 original size:9 final size:9
Alignment explanation
Indices: 44915265--44915572 Score: 193
Period size: 9 Copynumber: 37.0 Consensus size: 9
44915255 AATTGCATGG
44915265 GTAAGTTAT
1 GTAAGTTAT
44915274 GT-A-TTAT
1 GTAAGTTAT
*
44915281 GTAAGCTAT
1 GTAAGTTAT
*
44915290 GTAAGTTGT
1 GTAAGTTAT
44915299 GT-A-TTAT
1 GTAAGTTAT
44915306 GTAAGTTAT
1 GTAAGTTAT
44915315 -T-A-TTAT
1 GTAAGTTAT
44915321 GTAAGTTAT
1 GTAAGTTAT
44915330 GTAA-TTAAT
1 GTAAGTT-AT
44915339 GT-A-TTAT
1 GTAAGTTAT
*
44915346 GTAAGTTGT
1 GTAAGTTAT
*
44915355 GT-A-TAAT
1 GTAAGTTAT
*
44915362 GTTAGTTAT
1 GTAAGTTAT
**
44915371 CAAAGTTAT
1 GTAAGTTAT
44915380 GT-A-TTAT
1 GTAAGTTAT
44915387 GTAAGTTAT
1 GTAAGTTAT
*
44915396 TTAAGTTAT
1 GTAAGTTAT
*
44915405 GTAAGTTGT
1 GTAAGTTAT
44915414 GT-A-TTAT
1 GTAAGTTAT
44915421 GTAAGTTAT
1 GTAAGTTAT
* *
44915430 GTAGGCTAT
1 GTAAGTTAT
* *
44915439 GTATGTTAA
1 GTAAGTTAT
*
44915448 GTAA-ATAGT
1 GTAAGTTA-T
44915457 GT-A-TTAT
1 GTAAGTTAT
*
44915464 GTAAGTTGT
1 GTAAGTTAT
*
44915473 GT-A-TAAT
1 GTAAGTTAT
*
44915480 GTTAGTTAT
1 GTAAGTTAT
**
44915489 CAAAGTTAT
1 GTAAGTTAT
44915498 GT-A-TTAT
1 GTAAGTTAT
44915505 GTAAGTTAT
1 GTAAGTTAT
*
44915514 TTAAGTTAT
1 GTAAGTTAT
*
44915523 GTAAGTTGT
1 GTAAGTTAT
44915532 GT-A-TTAT
1 GTAAGTTAT
44915539 GTAAGTTAT
1 GTAAGTTAT
* * *
44915548 GTAGGCTAC
1 GTAAGTTAT
44915557 GT-A-TTAT
1 GTAAGTTAT
44915564 GTAAGTTAT
1 GTAAGTTAT
44915573 TATGTTATTA
Statistics
Matches: 227, Mismatches: 45, Indels: 54
0.70 0.14 0.17
Matches are distributed among these distances:
6 4 0.02
7 54 0.24
8 31 0.14
9 138 0.61
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:44915347 original size:25 final size:24
Alignment explanation
Indices: 44915302--44915593 Score: 166
Period size: 25 Copynumber: 12.2 Consensus size: 24
44915292 AAGTTGTGTA
44915302 TTATGTAAGTTAT-TATTATGTAAG
1 TTATGTAA-TTATGTATTATGTAAG
44915326 TTATGTAATTAATGTATTATGTAAG
1 TTATGTAATT-ATGTATTATGTAAG
* * **
44915351 TTGTGT-ATAATGTTAGTTATCAAAG
1 TTATGTAATTATG-TA-TTATGTAAG
*
44915376 TTATGT-ATTATGTAAGTTATTTAAG
1 TTATGTAATTATGT-A-TTATGTAAG
*
44915401 TTATGTAAGTTGTGTATTATGTAAG
1 TTATGTAA-TTATGTATTATGTAAG
** *
44915426 TTATGTAGGCTATGTA-TGT-TAAG
1 TTATGTA-ATTATGTATTATGTAAG
44915449 -TA---AA-TAGTGTATTATGTAAG
1 TTATGTAATTA-TGTATTATGTAAG
* * **
44915469 TTGTGT-ATAATGTTAGTTATCAAAG
1 TTATGTAATTATG-TA-TTATGTAAG
*
44915494 TTATGT-ATTATGTAAGTTATTTAAG
1 TTATGTAATTATGT-A-TTATGTAAG
*
44915519 TTATGTAAGTTGTGTATTATGTAAG
1 TTATGTAA-TTATGTATTATGTAAG
** *
44915544 TTATGTAGGCTACGTATTATGTAAG
1 TTATGTA-ATTATGTATTATGTAAG
*
44915569 TTAT-T-A-TGT-TATTATGTAAG
1 TTATGTAATTATGTATTATGTAAG
44915589 TTATG
1 TTATG
44915594 CAAAGTTTAT
Statistics
Matches: 212, Mismatches: 33, Indels: 49
0.72 0.11 0.17
Matches are distributed among these distances:
17 2 0.01
18 4 0.02
19 3 0.01
20 19 0.09
21 2 0.01
22 2 0.01
23 12 0.06
24 22 0.10
25 132 0.62
26 4 0.02
27 10 0.05
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (24 bp):
TTATGTAATTATGTATTATGTAAG
Found at i:44915440 original size:34 final size:34
Alignment explanation
Indices: 44915287--44915446 Score: 111
Period size: 34 Copynumber: 4.9 Consensus size: 34
44915277 TTATGTAAGC
* *
44915287 TATGTAAGTTGTGT-A-TTATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAAGCTATGTAAGTTATGTAT
*
44915318 TATGTAAGTTATGTAA-TTAATGT-A-TTATGTAAGT
1 TATGTAAGTTATGTAAGCT-ATGTAAGTTATGT-A-T
* * * * **
44915352 TGTGT-A-TAATGTTAGTTATCAAAGTTATGTAT
1 TATGTAAGTTATGTAAGCTATGTAAGTTATGTAT
* * *
44915384 TATGTAAGTTATTTAAGTTATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAAGCTATGTAAGTTATGTAT
* *
44915418 TATGTAAGTTATGTAGGCTATGTATGTTA
1 TATGTAAGTTATGTAAGCTATGTAAGTTA
44915447 AGTAAATAGT
Statistics
Matches: 101, Mismatches: 18, Indels: 17
0.74 0.13 0.12
Matches are distributed among these distances:
31 17 0.17
32 18 0.18
33 11 0.11
34 55 0.54
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (34 bp):
TATGTAAGTTATGTAAGCTATGTAAGTTATGTAT
Found at i:44915477 original size:118 final size:118
Alignment explanation
Indices: 44915270--44915560 Score: 475
Period size: 118 Copynumber: 2.5 Consensus size: 118
44915260 CATGGGTAAG
* * * * *
44915270 TTATGT-A-TTATGTAAGCTATGTAAGTTGTGTATTATGTAAGTTAT-TA--TTATGTAAGTTAT
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTATGTTAA
*
44915330 GTAATTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
66 GTAAATAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
44915383 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTATGTTAA
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTATGTTAA
*
44915448 GTAAATAGTGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
66 GTAAATAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
*
44915501 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTACGTAT
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTAT
44915561 TATGTAAGTT
Statistics
Matches: 165, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
113 6 0.04
114 1 0.01
115 36 0.22
116 2 0.01
118 120 0.73
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (118 bp):
TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTATGTTAA
GTAAATAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
Found at i:44915987 original size:121 final size:121
Alignment explanation
Indices: 44915647--44915965 Score: 577
Period size: 121 Copynumber: 2.6 Consensus size: 121
44915637 TATGTATCTT
* * * *
44915647 ATTTATAATTATTTTTAAAATTATAAAATTCATT-ACTAATAAAATTGAAATGTAGGATATATAT
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGAC-AATAAAATTGAAATATAGGTTATATAT
44915711 CCATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
65 CCATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
*
44915768 ATTTAGAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGAAATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGAAATATAGGTTATATATC
44915833 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
66 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
44915889 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGAAATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGAAATATAGGTTATATATC
44915954 CATACCATATAT
66 CATACCATATAT
44915966 ATAAATTTTA
Statistics
Matches: 192, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
121 190 0.99
122 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.40
Consensus pattern (121 bp):
ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGAAATATAGGTTATATATC
CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
Found at i:44916011 original size:23 final size:23
Alignment explanation
Indices: 44915962--44916070 Score: 75
Period size: 23 Copynumber: 5.3 Consensus size: 23
44915952 TCCATACCAT
* *
44915962 ATATATAAATTTTAAATAA-ATA
1 ATATATAAATTTTAAGTAATGTA
44915984 TATATATAAATTTTAAGTAATGT-
1 -ATATATAAATTTTAAGTAATGTA
44916007 A-ATAT--A-TTTAAGTAATGTA
1 ATATATAAATTTTAAGTAATGTA
*
44916026 AGT-TATAAATTTT-TGTAA-GT-
1 A-TATATAAATTTTAAGTAATGTA
44916046 A-ATAT--A-TTTAAGTAATGTA
1 ATATATAAATTTTAAGTAATGTA
44916065 ATATAT
1 ATATAT
44916071 TTTAGTAAGT
Statistics
Matches: 70, Mismatches: 4, Indels: 27
0.69 0.04 0.27
Matches are distributed among these distances:
16 3 0.04
17 5 0.07
18 14 0.20
19 6 0.09
20 8 0.11
21 6 0.09
22 6 0.09
23 21 0.30
24 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (23 bp):
ATATATAAATTTTAAGTAATGTA
Found at i:44916018 original size:18 final size:18
Alignment explanation
Indices: 44915995--44916083 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
44915985 ATATATAAAT
44915995 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
44916013 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
**
44916035 TTTTTGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
44916052 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
44916070 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
44916084 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.49
19 3 0.05
20 3 0.05
21 4 0.07
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:44916058 original size:39 final size:41
Alignment explanation
Indices: 44915988--44916065 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 41
44915978 TAAATATATA
44915988 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAGT
1 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAGT
*
44916029 TATAAATTTT-TGTAA-GTAATATATTTAAGTAATGTAA
1 TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAA
44916066 TATATTTTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 22 0.61
40 4 0.11
41 10 0.28
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.45
Consensus pattern (41 bp):
TATAAATTTTAAGTAATGTAATATATTTAAGTAATGTAAGT
Found at i:44916073 original size:35 final size:37
Alignment explanation
Indices: 44915992--44916175 Score: 131
Period size: 39 Copynumber: 4.8 Consensus size: 37
44915982 TATATATATA
44915992 AATTTTAAGTAATGTAATATATTTAAGTAATGTAAGTTAT
1 AATTTT-AGTAA-GTAATATATTTAAGTAATGTAAG-TAT
*
44916032 AAATTTTTGTAAGTAATATATTTAAGTAATGTAA-TAT
1 -AATTTTAGTAAGTAATATATTTAAGTAATGTAAGTAT
* ** * * * *
44916069 -ATTTTAGTAAGTAATGTAAGTAATGCAATATATACTTT
1 AATTTTAGTAAGTAATATATTTAA-GTAATGTA-AGTAT
* * *
44916107 AATTTTAGTAAGTCATGTATTTAAGTAATATATTTAAGTA-
1 AATTTTAGTAAGTAATATATTTAAG---TA-ATGTAAGTAT
* * *
44916147 AATTCTAGTAAGTAATGTATTTAATTAAT
1 AATTTTAGTAAGTAATATATTTAAGTAAT
44916176 ATATTTAAGT
Statistics
Matches: 117, Mismatches: 18, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
35 19 0.16
36 8 0.07
37 6 0.05
38 3 0.03
39 42 0.36
40 26 0.22
41 9 0.08
42 4 0.03
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.45
Consensus pattern (37 bp):
AATTTTAGTAAGTAATATATTTAAGTAATGTAAGTAT
Found at i:44916140 original size:13 final size:13
Alignment explanation
Indices: 44916124--44916188 Score: 71
Period size: 13 Copynumber: 4.9 Consensus size: 13
44916114 GTAAGTCATG
44916124 TATTTAAGTAATA
1 TATTTAAGTAATA
44916137 TATTTAAGTAA-A
1 TATTTAAGTAATA
*
44916149 T-TCTAGTAAGTAATG
1 TAT-T--TAAGTAATA
*
44916164 TATTTAATTAATA
1 TATTTAAGTAATA
44916177 TATTTAAGTAAT
1 TATTTAAGTAAT
44916189 GTAAGTTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 1 0.02
12 3 0.07
13 29 0.67
14 7 0.16
15 2 0.05
16 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:44916159 original size:40 final size:40
Alignment explanation
Indices: 44916107--44916187 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
44916097 TATATACTTT
* *
44916107 AATTTTAGTAAGTCATGTATTTAAGTAATATATTTAAGTA
1 AATTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTA
*
44916147 AATTCTAGTAAGTAATGTATTTAATTAATATATTTAAGTA
1 AATTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTA
44916187 A
1 A
44916188 TGTAAGTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (40 bp):
AATTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTA
Found at i:44917054 original size:13 final size:13
Alignment explanation
Indices: 44917036--44917065 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44917026 TTCACTTCAT
44917036 TATTAATACCAAA
1 TATTAATACCAAA
*
44917049 TATTAATATCAAA
1 TATTAATACCAAA
44917062 TATT
1 TATT
44917066 TAACAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
TATTAATACCAAA
Found at i:44919842 original size:16 final size:15
Alignment explanation
Indices: 44919812--44919860 Score: 80
Period size: 15 Copynumber: 3.2 Consensus size: 15
44919802 CCCTAAACCT
44919812 TAAATTCCTAACCCC
1 TAAATTCCTAACCCC
*
44919827 TAAATCTCCTAGCCCC
1 TAAAT-TCCTAACCCC
44919843 TAAATTCCTAACCCC
1 TAAATTCCTAACCCC
44919858 TAA
1 TAA
44919861 CCCATAACCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 17 0.55
16 14 0.45
ACGTcount: A:0.33, C:0.39, G:0.02, T:0.27
Consensus pattern (15 bp):
TAAATTCCTAACCCC
Found at i:44919859 original size:7 final size:7
Alignment explanation
Indices: 44919849--44919976 Score: 85
Period size: 7 Copynumber: 17.7 Consensus size: 7
44919839 CCCCTAAATT
44919849 CCTAACC
1 CCTAACC
44919856 CCTAACC
1 CCTAACC
*
44919863 CATAACC
1 CCTAACC
*
44919870 CTTAACC
1 CCTAACC
*
44919877 CCTAAATC
1 CCT-AACC
**
44919885 CCTAATA
1 CCTAACC
44919892 CCTAACC
1 CCTAACC
*
44919899 CCTAAATC
1 CCT-AACC
*
44919907 CCTAATC
1 CCTAACC
*
44919914 CTTAACC
1 CCTAACC
*
44919921 CCTAAAC
1 CCTAACC
* *
44919928 CTTATATC
1 CCTA-ACC
* *
44919936 CCAAACA
1 CCTAACC
44919943 CCTAACC
1 CCTAACC
*
44919950 CCTAAATC
1 CCT-AACC
*
44919958 CCTAATC
1 CCTAACC
44919965 CCTAACC
1 CCTAACC
44919972 CCTAA
1 CCTAA
44919977 ACCTTATATC
Statistics
Matches: 95, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
7 73 0.77
8 22 0.23
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.22
Consensus pattern (7 bp):
CCTAACC
Found at i:44919900 original size:22 final size:22
Alignment explanation
Indices: 44919851--44919926 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
44919841 CCTAAATTCC
*
44919851 TAACCCCT-AA-CCCATAACCCT
1 TAACCCCTAAATCCC-TAATCCT
44919872 TAACCCCTAAATCCCTAATACC-
1 TAACCCCTAAATCCCTAAT-CCT
44919894 TAACCCCTAAATCCCTAATCCT
1 TAACCCCTAAATCCCTAATCCT
44919916 TAACCCCTAAA
1 TAACCCCTAAA
44919927 CCTTATATCC
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
21 10 0.20
22 35 0.70
23 5 0.10
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (22 bp):
TAACCCCTAAATCCCTAATCCT
Found at i:44919920 original size:51 final size:51
Alignment explanation
Indices: 44919855--44919997 Score: 180
Period size: 51 Copynumber: 2.8 Consensus size: 51
44919845 AATTCCTAAC
* * * * *
44919855 CCCTAACCCATAACCCTTAACCCCTAAATCCCTAATACCTAACCCCTAAAT
1 CCCTAATCCATAACCCCTAAACCCTAAATCCCAAACACCTAACCCCTAAAT
* * *
44919906 CCCTAATCCTTAACCCCTAAACCTTATATCCCAAACACCTAACCCCTAAAT
1 CCCTAATCCATAACCCCTAAACCCTAAATCCCAAACACCTAACCCCTAAAT
* * *
44919957 CCCTAATCCCTAACCCCTAAACCTTATATCCCAAAC-CCTAA
1 CCCTAATCCATAACCCCTAAACCCTAAATCCCAAACACCTAA
44919998 TAGAGTACAT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 5 0.06
51 78 0.94
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (51 bp):
CCCTAATCCATAACCCCTAAACCCTAAATCCCAAACACCTAACCCCTAAAT
Found at i:44919958 original size:22 final size:22
Alignment explanation
Indices: 44919873--44919979 Score: 78
Period size: 22 Copynumber: 4.9 Consensus size: 22
44919863 CATAACCCTT
44919873 AACCCCTAAATCCCTAATA-CCT
1 AACCCCTAAATCCCTAA-ACCCT
* *
44919895 AACCCCTAAATCCCTAATCCTT
1 AACCCCTAAATCCCTAAACCCT
* * *
44919917 AACCCCTAAA-CCTTATATCCCA
1 AACCCCTAAATCCCTA-AACCCT
* *
44919939 AACACCT-AACCCCTAAATCCCT
1 AACCCCTAAATCCCTAAA-CCCT
* *
44919961 AATCCCT-AACCCCTAAACC
1 AACCCCTAAATCCCTAAACC
44919980 TTATATCCCA
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
21 9 0.13
22 61 0.87
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (22 bp):
AACCCCTAAATCCCTAAACCCT
Found at i:44919988 original size:22 final size:22
Alignment explanation
Indices: 44919883--44919969 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
44919873 AACCCCTAAA
*
44919883 TCCCTAATACCTAACCCCTAAA
1 TCCCTAATCCCTAACCCCTAAA
*
44919905 TCCCTAATCCTTAACCCCTAAA
1 TCCCTAATCCCTAACCCCTAAA
* * *
44919927 -CCTTATATCCCAAACACCT-AA
1 TCCCTA-ATCCCTAACCCCTAAA
* *
44919948 CCCCTAAATCCCTAATCCCTAA
1 TCCCT-AATCCCTAACCCCTAA
44919970 CCCCTAAACC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 6 0.12
22 43 0.84
23 2 0.04
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.24
Consensus pattern (22 bp):
TCCCTAATCCCTAACCCCTAAA
Found at i:44919993 original size:22 final size:22
Alignment explanation
Indices: 44919946--44919994 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
44919936 CCAAACACCT
*
44919946 AACCCCTAAATCCCTAATCCCT
1 AACCCCTAAATCCCTAATCCCA
*
44919968 AACCCCTAAA-CCTTATATCCCA
1 AACCCCTAAATCCCTA-ATCCCA
44919990 AACCC
1 AACCC
44919995 TAATAGAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.20
Consensus pattern (22 bp):
AACCCCTAAATCCCTAATCCCA
Found at i:44921186 original size:14 final size:14
Alignment explanation
Indices: 44921167--44921234 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
44921157 ATGGCCGTTG
44921167 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
44921181 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
44921196 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
44921209 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
44921222 AAACCTTAAATCT
1 AAACCCTAAATCT
44921235 ATACCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:44921190 original size:15 final size:15
Alignment explanation
Indices: 44921170--44921207 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
44921160 GCCGTTGAAA
44921170 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
44921185 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
44921200 CCCTAAAT
1 CCCTAAAT
44921208 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:44921787 original size:41 final size:41
Alignment explanation
Indices: 44921736--44921914 Score: 200
Period size: 41 Copynumber: 4.4 Consensus size: 41
44921726 GCGCTTCGGC
* * * * *
44921736 AAAAATGCCGCTAAA-GCTAAATGCATTAGTGGCGCTTAGAT
1 AAAAACGCCGCTAAAGGCCAGA-GCATTAGCGGCGCTCAGAT
* * *
44921777 ACAAACGCCGCTAAAGGCCAGAGTATTAGTGGCGCTCAGAT
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTCAGAT
* *
44921818 AAAAACGCCGCTAAAGATCC-GAGCATTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAG-GCCAGAGCATTAGCGGCGCTCAGAT
** *
44921859 AAAAATACCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGAT
1 AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTCAGAT
*
44921900 AAAAATGCCGCTAAA
1 AAAAACGCCGCTAAA
44921915 TATCCGAGCA
Statistics
Matches: 118, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.02
41 110 0.93
42 6 0.05
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTCAGAT
Found at i:44921855 original size:82 final size:82
Alignment explanation
Indices: 44921758--44921929 Score: 272
Period size: 82 Copynumber: 2.1 Consensus size: 82
44921748 AAAGCTAAAT
* * * * *
44921758 GCATTAGTGGCGCTTAGATACAAACGCCGCTAAAGGCCAGAGTATTAGTGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACACCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
44921823 CGCCGCTAAAGATCCGA
66 CGCCGCTAAAGATCCGA
*
44921840 GCATTAGCGGCGCTTAGATAAAAATACCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACACCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
* *
44921905 TGCCGCTAAATATCCGA
66 CGCCGCTAAAGATCCGA
44921922 GCATTAGC
1 GCATTAGC
44921930 TGTAACAACC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGATAAAAACACCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
CGCCGCTAAAGATCCGA
Found at i:44922782 original size:23 final size:23
Alignment explanation
Indices: 44922747--44922791 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44922737 TGGAGTATAA
* *
44922747 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
44922770 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
44922792 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:44923419 original size:42 final size:42
Alignment explanation
Indices: 44923372--44923550 Score: 270
Period size: 42 Copynumber: 4.3 Consensus size: 42
44923362 AGTGCCTATT
44923372 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * *
44923414 AGGCTTAATGCCGGTGAAATAATTTCAGACTTTACATCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
**
44923456 AGAATTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * *
44923498 AGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
*
44923539 AGGCTAAATGCC
1 AGGCTTAATGCC
44923551 AGTGTATTGA
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 29 0.24
42 94 0.76
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (42 bp):
AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
Found at i:44929050 original size:13 final size:13
Alignment explanation
Indices: 44929032--44929066 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
44929022 TTACTATGTG
44929032 TAAAAATTTTGTA
1 TAAAAATTTTGTA
44929045 TAAAAATTTTGTA
1 TAAAAATTTTGTA
44929058 TAAAAATTT
1 TAAAAATTT
44929067 GATCGTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (13 bp):
TAAAAATTTTGTA
Found at i:44930410 original size:42 final size:42
Alignment explanation
Indices: 44930363--44930588 Score: 289
Period size: 42 Copynumber: 5.4 Consensus size: 42
44930353 AGTGCCTATT
44930363 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* *
44930405 AGGCTTAATGCCGGTGAAATAATTTCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
*
44930447 AGACTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * *
44930489 AGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGTCTAGC
1 AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
* * * * * *
44930530 AGGCTAAATGCCAGTG-TACTGA-ATCAGGCTTTAAGTCTAGC
1 AGGCTTAATGCCGGTGAAAC-AATATCAGACTTTACGTCTAGC
*
44930571 AGGC-TAAGTGCCAGTGAA
1 AGGCTTAA-TGCCGGTGAA
44930589 TCTGTTTAAA
Statistics
Matches: 162, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
40 4 0.02
41 59 0.36
42 99 0.61
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (42 bp):
AGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAGC
Found at i:44931766 original size:40 final size:41
Alignment explanation
Indices: 44931670--44931767 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 41
44931660 GCGCTTTATA
* * **
44931670 TAAAACGCCGCTAATTC-CTATTTTTAGCGGCGCTTCTTGG
1 TAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCTTGG
* * *
44931710 -AAATCACTGCTGATGCTCTACCTTTAGCGGCGC-T-TTGG
1 TAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCTTGG
44931748 CTAAATCGCCGCTAATGCTC
1 -TAAATCGCCGCTAATGCTC
44931768 GATTTTTTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
38 4 0.09
39 12 0.27
40 29 0.64
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (41 bp):
TAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCTTGG
Found at i:44935016 original size:382 final size:382
Alignment explanation
Indices: 44934310--44935074 Score: 1494
Period size: 382 Copynumber: 2.0 Consensus size: 382
44934300 CTCACTAGCT
44934310 TTATACCTTTAGATATTTGGACTAATGGTCCAAACACTCCACGAATTTAATTATACTTAAGTTCC
1 TTATACCTTTAGATATTTGGACTAATGGTCCAAACACTCCACGAATTTAATTATACTTAAGTTCC
44934375 GTCTTTCTATTTTGATAAGTTTATTCCATATCTATATTTCTCAATAAATTTATTCAAGATCATCC
66 GTCTTTCTATTTTGATAAGTTTATTCCATATCTATATTTCTCAATAAATTTATTCAAGATCATCC
44934440 TTTTATTTCGTTATTTCAACAATAATATTGCATGCAAAACCATTGTCAACCACTTTTATTATCAA
131 TTTTATTTCGTTATTTCAACAATAATATTGCATGCAAAACCATTGTCAACCACTTTTATTATCAA
*
44934505 TTCCATATTTTCTTGAATTGACATAACTTATCGAGATATCTTATTTTCACTATTTTAATATTTAG
196 TTCCATATTTTCTTGAATTGACATAACTTATCGAGATATCTTATTTTCACTATTTTAATATTCAG
44934570 TTTTAGGTACTTGAATCTCTTCTATAGTTTTACTTATTAGTTATGCCTTGGGTCTCTTCTGGAGC
261 TTTTAGGTACTTGAATCTCTTCTATAGTTTTACTTATTAGTTATGCCTTGGGTCTCTTCTGGAGC
*
44934635 ACCCACCTTCACTATATGATCATCTAAATTTATTGTTTTCTTGTATGAGAATTTTCA
326 ACCCACCTTCACTATATGACCATCTAAATTTATTGTTTTCTTGTATGAGAATTTTCA
44934692 TTATACCTTTAGATATTTGGACTAATGGTCCAAACACTCCACGAATTTAATTATACTTAAGTTCC
1 TTATACCTTTAGATATTTGGACTAATGGTCCAAACACTCCACGAATTTAATTATACTTAAGTTCC
*
44934757 GTCTTTCTATTTTGATCAGTTTATTCCATATCTATATTTCTCAATAAATTTATTCAAGATCATCC
66 GTCTTTCTATTTTGATAAGTTTATTCCATATCTATATTTCTCAATAAATTTATTCAAGATCATCC
44934822 TTTTATTTCGTTATTTCAACAATAATATTGCATGCAAAACCATTGTCAACCACTTTTATTATCAA
131 TTTTATTTCGTTATTTCAACAATAATATTGCATGCAAAACCATTGTCAACCACTTTTATTATCAA
44934887 TTCCATATTTTCTTGAATTGACATAACTTATCGAGATATCTTATTTTCACTATTTTAATATTCAG
196 TTCCATATTTTCTTGAATTGACATAACTTATCGAGATATCTTATTTTCACTATTTTAATATTCAG
44934952 TTTTAGGTACTTGAATCTCTTCTATAGTTTTACTTATTAGTTATGCCTTGGGTCTCTTCTGGAGC
261 TTTTAGGTACTTGAATCTCTTCTATAGTTTTACTTATTAGTTATGCCTTGGGTCTCTTCTGGAGC
*
44935017 ACCCACCTTCACTATATGGCCATCTAAATTTATTGTTTTCTTGTATGAGAATTTTCA
326 ACCCACCTTCACTATATGACCATCTAAATTTATTGTTTTCTTGTATGAGAATTTTCA
44935074 T
1 T
44935075 ACTTGGAACT
Statistics
Matches: 379, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
382 379 1.00
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (382 bp):
TTATACCTTTAGATATTTGGACTAATGGTCCAAACACTCCACGAATTTAATTATACTTAAGTTCC
GTCTTTCTATTTTGATAAGTTTATTCCATATCTATATTTCTCAATAAATTTATTCAAGATCATCC
TTTTATTTCGTTATTTCAACAATAATATTGCATGCAAAACCATTGTCAACCACTTTTATTATCAA
TTCCATATTTTCTTGAATTGACATAACTTATCGAGATATCTTATTTTCACTATTTTAATATTCAG
TTTTAGGTACTTGAATCTCTTCTATAGTTTTACTTATTAGTTATGCCTTGGGTCTCTTCTGGAGC
ACCCACCTTCACTATATGACCATCTAAATTTATTGTTTTCTTGTATGAGAATTTTCA
Found at i:44939691 original size:20 final size:20
Alignment explanation
Indices: 44939668--44939707 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44939658 GTAGTAACTG
*
44939668 TTTTAACTAAATC-TTAACAA
1 TTTTAA-TAAAACTTTAACAA
44939688 TTTTAATAAAACTTTAACAA
1 TTTTAATAAAACTTTAACAA
44939708 ACTTAACAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTAATAAAACTTTAACAA
Found at i:44940156 original size:18 final size:18
Alignment explanation
Indices: 44940126--44940163 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
44940116 AATTCATAAA
44940126 GTTATTATCTTTCAAAAC
1 GTTATTATCTTTCAAAAC
44940144 GTTATTAAT-TTTCAAAAC
1 GTTATT-ATCTTTCAAAAC
44940162 GT
1 GT
44940164 CACTTATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (18 bp):
GTTATTATCTTTCAAAAC
Found at i:44953548 original size:22 final size:21
Alignment explanation
Indices: 44953522--44953573 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
44953512 GGGGGTCAAT
*
44953522 ACGCCCGTGTGGGAGGAGGTAC
1 ACGCCCGTGT-GGAGGAGGCAC
* *
44953544 ACGCCTGTGTGGATGAGGCAC
1 ACGCCCGTGTGGAGGAGGCAC
*
44953565 ATGCCCGTG
1 ACGCCCGTG
44953574 CGGATAAGGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.17, C:0.25, G:0.40, T:0.17
Consensus pattern (21 bp):
ACGCCCGTGTGGAGGAGGCAC
Found at i:44961004 original size:55 final size:55
Alignment explanation
Indices: 44960919--44961027 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
44960909 ACCCTAATCA
44960919 GAACAATGGTTTCGGGACCACAAATCCGAGTAAAAAATATTTAAATATTATTATG
1 GAACAATGGTTTCGGGACCACAAATCCGAGTAAAAAATATTTAAATATTATTATG
* * *
44960974 GAACAGTGGTTTCGGGACCACAAGTTCGAGTAAAAAATATTTAAATATTATTAT
1 GAACAATGGTTTCGGGACCACAAATCCGAGTAAAAAATATTTAAATATTATTAT
44961028 CTCTGTTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (55 bp):
GAACAATGGTTTCGGGACCACAAATCCGAGTAAAAAATATTTAAATATTATTATG
Found at i:44967434 original size:55 final size:55
Alignment explanation
Indices: 44967350--44967476 Score: 209
Period size: 55 Copynumber: 2.3 Consensus size: 55
44967340 TTAATGAAAG
*
44967350 CAAGTCAATGAGTTACATGGGCTAGTCACAAAGGCGTGTTGCTGGCCGTATGACC
1 CAAGTCAATGAGTTACATGGGCTAGTCACAAAGGCGTGTGGCTGGCCGTATGACC
* * * *
44967405 CAAGTCAATGAGTTACATGGGCTAGTCACACAGGGGTGTGGTTGGCCGTGTGACC
1 CAAGTCAATGAGTTACATGGGCTAGTCACAAAGGCGTGTGGCTGGCCGTATGACC
44967460 CAAGTCAATGAGTTACA
1 CAAGTCAATGAGTTACA
44967477 CGGGGTCAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (55 bp):
CAAGTCAATGAGTTACATGGGCTAGTCACAAAGGCGTGTGGCTGGCCGTATGACC
Found at i:44970589 original size:20 final size:19
Alignment explanation
Indices: 44970564--44970657 Score: 86
Period size: 20 Copynumber: 4.9 Consensus size: 19
44970554 ACTTCCTTAT
44970564 ATGTATGCAACATATCATAC
1 ATGTATGCAACATAT-ATAC
*
44970584 ATGTATGC-A-ATATATAT
1 ATGTATGCAACATATATAC
* * *
44970601 ATCGT-GGCATGCTTATATAC
1 AT-GTATGCA-ACATATATAC
44970621 ATGTATGCAACATATCATAC
1 ATGTATGCAACATAT-ATAC
*
44970641 ATGTATGCAATATATAT
1 ATGTATGCAACATATAT
44970658 CGTGACATAC
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
17 7 0.12
18 6 0.10
19 9 0.15
20 37 0.63
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (19 bp):
ATGTATGCAACATATATAC
Found at i:44970643 original size:57 final size:55
Alignment explanation
Indices: 44970564--44970676 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 55
44970554 ACTTCCTTAT
* *
44970564 ATGTATGCAACATATCATACATGTATGCAATATATATATCGTGGCATGCTTATATAC
1 ATGTATGCAACATATCATACATGTATGC-A-ATATATATCGTGACATACTTATATAC
44970621 ATGTATGCAACATATCATACATGTATGCAATATATATCGTGACATACTTATATAC
1 ATGTATGCAACATATCATACATGTATGCAATATATATCGTGACATACTTATATAC
44970676 A
1 A
44970677 GTCATACATA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
55 25 0.46
56 1 0.02
57 28 0.52
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (55 bp):
ATGTATGCAACATATCATACATGTATGCAATATATATCGTGACATACTTATATAC
Found at i:44970655 original size:37 final size:37
Alignment explanation
Indices: 44970564--44970656 Score: 91
Period size: 37 Copynumber: 2.4 Consensus size: 37
44970554 ACTTCCTTAT
*
44970564 ATGTATGCAACATATCATACATGTATGCAATATATATATC
1 ATGTATGC-A-ATAT-ATACATGTATGCAACATATATATC
* * *
44970604 GTGGCATGC-TTATATACATGTATGCAACATATCATA-C
1 AT-GTATGCAATATATACATGTATGCAACATAT-ATATC
44970641 ATGTATGCAATATATA
1 ATGTATGCAATATATA
44970657 TCGTGACATA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
36 5 0.12
37 26 0.60
38 6 0.14
40 1 0.02
41 5 0.12
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (37 bp):
ATGTATGCAATATATACATGTATGCAACATATATATC
Found at i:44970691 original size:57 final size:57
Alignment explanation
Indices: 44970564--44970684 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 57
44970554 ACTTCCTTAT
* * *
44970564 ATGTATGCAACATATCATACATGTATGCAATATATATATCGTGGCATGCTTATATAC
1 ATGTATACAACATATCATACATGTATGCAATATATATATCGTGACATACTTATATAC
*
44970621 ATGTATGCAACATATCATACATGTATGC-A-ATATATATCGTGACATACTTATATAC
1 ATGTATACAACATATCATACATGTATGCAATATATATATCGTGACATACTTATATAC
44970676 A-GTCATACA
1 ATGT-ATACA
44970685 TAACATAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
54 2 0.03
55 29 0.48
56 1 0.02
57 28 0.47
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (57 bp):
ATGTATACAACATATCATACATGTATGCAATATATATATCGTGACATACTTATATAC
Found at i:44971818 original size:44 final size:44
Alignment explanation
Indices: 44971755--44971842 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
44971745 TGCCACCAAT
* * *
44971755 CGGGATAACCTCTCCAATCCCATAATTTTCTCTTAAAATGACTC
1 CGGGATAACCTCTCCAATCCCATAATCTTCTCCTAAAATCACTC
44971799 CGGGATAACCTC-CCTAATCCCATAATCTTCTCCTAAAATCACTC
1 CGGGATAACCTCTCC-AATCCCATAATCTTCTCCTAAAATCACTC
44971843 TAACCTTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 2 0.05
44 38 0.95
ACGTcount: A:0.30, C:0.33, G:0.08, T:0.30
Consensus pattern (44 bp):
CGGGATAACCTCTCCAATCCCATAATCTTCTCCTAAAATCACTC
Found at i:44979597 original size:23 final size:23
Alignment explanation
Indices: 44979571--44979623 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
44979561 GAGGAAGGTG
44979571 ACTGTAATATCCCGAAAATTACT
1 ACTGTAATATCCCGAAAATTACT
44979594 ACTGTAATATCCCGAAAATTACT
1 ACTGTAATATCCCGAAAATTACT
*
44979617 ACAGTAA
1 ACTGTAA
44979624 GAAAGTAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (23 bp):
ACTGTAATATCCCGAAAATTACT
Found at i:44989603 original size:44 final size:44
Alignment explanation
Indices: 44989233--44989574 Score: 531
Period size: 44 Copynumber: 7.8 Consensus size: 44
44989223 TAAGTTCTAT
* *
44989233 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGTAAGTCCTAG
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
44989277 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
* *
44989321 CTCCCTGAACAACAGTGGAATAGGTGGAAGACTGCATGTCCTAG
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
* * * * *
44989365 CTCCCTGAATAGCAGTGGAATAGGTGGAAAATTGTAAGTCCTAT
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
* * *
44989409 CTCCCTGAACAACAGTGGAATAGGTGGAAGATTGTAAGTCCTAG
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
**
44989453 CTCCCTGAACAGCAGTGGAATAGGTCAAAGATTGCATGTCCTAG
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
44989497 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
* * *
44989541 CTCCCTGAATAGTAGTGGAATAGGTGAAAGATTG
1 CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
44989575 TAGATCCTAT
Statistics
Matches: 273, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 273 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
CTCCCTGAACAGCAGTGGAATAGGTGGAAGATTGCATGTCCTAG
Found at i:45000752 original size:16 final size:16
Alignment explanation
Indices: 45000733--45000763 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45000723 TTGAAAGAGT
45000733 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
45000749 TTTCAAATTTATATG
1 TTTCAAATATATATG
45000764 CTCCAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:45000841 original size:24 final size:24
Alignment explanation
Indices: 45000797--45000844 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45000787 GGTAAGAAAA
**
45000797 TTTTAATTTAACATGTTTAATTTT
1 TTTTAATTTAACATGAATAATTTT
*
45000821 TTTTAATTTAACTTGAATAATTTT
1 TTTTAATTTAACATGAATAATTTT
45000845 ATTCTATTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAATTTAACATGAATAATTTT
Found at i:45018989 original size:17 final size:15
Alignment explanation
Indices: 45018949--45018999 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
45018939 ATTAAGGCTC
*
45018949 AGAAAGAAGCATAAA
1 AGAAAGAAGCAGAAA
*
45018964 AGAAGGAAGCAGAAGGA
1 AGAAAGAAGCAGAA--A
45018981 AGAAAGAAGCAG-AA
1 AGAAAGAAGCAGAAA
45018995 AGAAA
1 AGAAA
45019000 AGGTTTTGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 6 0.19
15 12 0.39
16 1 0.03
17 12 0.39
ACGTcount: A:0.63, C:0.06, G:0.29, T:0.02
Consensus pattern (15 bp):
AGAAAGAAGCAGAAA
Found at i:45020835 original size:34 final size:34
Alignment explanation
Indices: 45020797--45020893 Score: 149
Period size: 34 Copynumber: 2.8 Consensus size: 34
45020787 AGAATCCAAG
45020797 AGATTGTTGAAAACTTGAAGAAAAGATATTATGC
1 AGATTGTTGAAAACTTGAAGAAAAGATATTATGC
45020831 AGATTGTTGAAAACTTGAAGAAAAGATATTATGC
1 AGATTGTTGAAAACTTGAAGAAAAGATATTATGC
* *
45020865 AGATTCTAGAAAAGATCTTGAAGAAAAGA
1 AGATTGTTG-AAA-A-CTTGAAGAAAAGA
45020894 ATTTTGTCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
34 41 0.71
35 3 0.05
36 1 0.02
37 13 0.22
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (34 bp):
AGATTGTTGAAAACTTGAAGAAAAGATATTATGC
Found at i:45028436 original size:12 final size:12
Alignment explanation
Indices: 45028421--45028478 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
45028411 TAAAACAATA
*
45028421 AATAACAACAAC
1 AATAATAACAAC
45028433 AATAAATAACAAC
1 AAT-AATAACAAC
* *
45028446 GATAATAACAATA
1 AATAATAACAA-C
45028459 AATAAT-ACAAC
1 AATAATAACAAC
45028470 ACATAATAA
1 A-ATAATAA
45028479 GACAATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 1 0.03
12 20 0.54
13 16 0.43
ACGTcount: A:0.66, C:0.16, G:0.02, T:0.17
Consensus pattern (12 bp):
AATAATAACAAC
Found at i:45028453 original size:16 final size:16
Alignment explanation
Indices: 45028414--45028445 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45028404 TGATGAATAA
45028414 AACAATAAATAACAAC
1 AACAATAAATAACAAC
45028430 AACAATAAATAACAAC
1 AACAATAAATAACAAC
45028446 GATAATAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (16 bp):
AACAATAAATAACAAC
Done.