Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 139 of 185
Found at i:43018054 original size:31 final size:31
Alignment explanation
Indices: 43018019--43018080 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
43018009 GCTTAATGGT
43018019 GATTGGCGTGGCATTAAATCAAATGTTAAAC
1 GATTGGCGTGGCATTAAATCAAATGTTAAAC
43018050 GATTGGCGTGGCATTAAATCAAATGTTAAAC
1 GATTGGCGTGGCATTAAATCAAATGTTAAAC
43018081 TAATTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (31 bp):
GATTGGCGTGGCATTAAATCAAATGTTAAAC
Found at i:43023763 original size:27 final size:24
Alignment explanation
Indices: 43023707--43023755 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
43023697 CAAAGGGAAA
*
43023707 AAAAGAAAGAAAAAAGATTGCAGT
1 AAAAGAAAGAAAAAAAATTGCAGT
43023731 AAAAGAAAGGAAAAAAAATT-CAGT
1 AAAAGAAA-GAAAAAAAATTGCAGT
43023755 A
1 A
43023756 GCCAAAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.65, C:0.04, G:0.18, T:0.12
Consensus pattern (24 bp):
AAAAGAAAGAAAAAAAATTGCAGT
Found at i:43026374 original size:50 final size:50
Alignment explanation
Indices: 43026287--43026473 Score: 126
Period size: 50 Copynumber: 3.7 Consensus size: 50
43026277 CATTGCAGTA
* * * * * * *
43026287 AAAAGACTAAAGCCACAGCGGCGAGTGTTACTTCCTTGGTGATGCAGTCG
1 AAAAGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGGTGATGCAGTCG
* * ** * **
43026337 AATAGAATAAAGCCACAACGGTGAATCTTGCTCCCTT-GACATTGCGGTTA
1 AAAAGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGGTGA-TGCAGTCG
* * * * ** * *
43026387 AAAAGATTAAAGCTACAACAGCGAATCTT-ATCTCCAAGGTGGTGCAGTGG
1 AAAAGATTAAAGCCACAACGGTGAATCTTGCTC-CCTTGGTGATGCAGTCG
*
43026437 AACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCT
1 AAAAGATTAAAGCCACAACGGTGAATCTTG-CTCCCT
43026474 GACATTGCGG
Statistics
Matches: 99, Mismatches: 33, Indels: 9
0.70 0.23 0.06
Matches are distributed among these distances:
49 4 0.04
50 90 0.91
51 3 0.03
52 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.23
Consensus pattern (50 bp):
AAAAGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGGTGATGCAGTCG
Found at i:43026448 original size:100 final size:100
Alignment explanation
Indices: 43026212--43026582 Score: 428
Period size: 100 Copynumber: 3.7 Consensus size: 100
43026202 AGAATTTAAG
* * * * * * *
43026212 ATCTTATCTCCCT-GGCGATGCAGTGGAGCATATTAAAGCCACGACGGCGTATCTTGCTTCCCCG
1 ATCTTATCT-CCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
* * * *
43026276 ACATTGCAG-TAAAAAGACTAAAGCCACAGCGGCGA
65 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * * * *
43026311 GTGTTA-CTTCCTTGGTGATGCAGTCGAATAGAATAAAGCCACAACGGTGAATCTTG-CTCCCTT
1 ATCTTATC-TCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCC-T
*
43026374 GACATTGCGGTTAAAAAGATTAAAGCTACAACAGCGA
64 GACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * *
43026411 ATCTTATCTCCAAGGTGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
1 ATCTTATCTCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* *
43026476 CATTGCGGTTAAAAAGATTAAAGCTATAGCAACGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
43026511 ATCCTACCTCCTAGGCGGTGCAGTGGAACAGATTAAAGCCA-TACGGTGAATCTTGCCTCCCTGA
1 ATCTTATCTCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
43026575 CATTGCGG
66 CATTGCGG
43026583 CTACAGCAGC
Statistics
Matches: 232, Mismatches: 34, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
98 8 0.03
99 78 0.34
100 140 0.60
101 6 0.03
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (100 bp):
ATCTTATCTCCTAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:43026494 original size:50 final size:49
Alignment explanation
Indices: 43026344--43026499 Score: 159
Period size: 50 Copynumber: 3.1 Consensus size: 49
43026334 TCGAATAGAA
43026344 TAAAGCCACAACGGTGAATCTTGCTCCCTTGACATTGCGGTTAAAAAGAT
1 TAAAGCCACAACGGTGAATCTTGCTCCC-TGACATTGCGGTTAAAAAGAT
* * * * ** **** * ** *
43026394 TAAAGCTACAACAGCGAATCTTATCTCCAAGGTGGTGCAGTGGAACAGAT
1 TAAAGCCACAACGGTGAATCTT-GCTCCCTGACATTGCGGTTAAAAAGAT
43026444 TAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAAAGAT
1 TAAAGCCACAACGGTGAATCTTG-CTCCCTGACATTGCGGTTAAAAAGAT
43026494 TAAAGC
1 TAAAGC
43026500 TATAGCAACG
Statistics
Matches: 76, Mismatches: 28, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
50 72 0.95
51 4 0.05
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (49 bp):
TAAAGCCACAACGGTGAATCTTGCTCCCTGACATTGCGGTTAAAAAGAT
Found at i:43031054 original size:17 final size:17
Alignment explanation
Indices: 43031032--43031073 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
43031022 TCAGTAATAT
43031032 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
43031049 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
43031066 TATTATTA
1 TATTATTA
43031074 TCACCGTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:43031054 original size:20 final size:20
Alignment explanation
Indices: 43031029--43031074 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
43031019 TATTCAGTAA
43031029 TATTATT-ATTAATCTATTAG
1 TATTATTAATTAAT-TATTAG
* *
43031049 TATTATTAATTTATTATTAT
1 TATTATTAATTAATTATTAG
43031069 TATTAT
1 TATTAT
43031075 CACCGTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTATTAATTAATTATTAG
Found at i:43037277 original size:44 final size:44
Alignment explanation
Indices: 43037226--43037782 Score: 250
Period size: 44 Copynumber: 12.7 Consensus size: 44
43037216 GCCAAAAATA
*
43037226 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* * * ** *
43037270 CTATCTCCCTGAGATTATAGTGGAGCGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
* * * * * * *
43037314 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA-TTAG--GTC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATC
* ** * * *
43037355 TTGTCTCCCTGAGATTACAGTGGAATAGACTGAAG-AATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-ATC
*** *
43037401 TTATCTCCCTGAGATTACAGCAAAGCAGATTGAAGCTGGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* ** ** *
43037445 CTATCTCCCTGAGATTACAGTGGAGTGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
* * * * * * *
43037489 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATC-AG--GTC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTAATC
* * ** ** ** *
43037530 TTATCTCTCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT-A-ATC
* *
43037576 TTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* * * ** *
43037620 CTATCTCCCTGAGATTATAGTGGAGCGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGTAATC
** ** * * *
43037664 -T-TCTCCCTGAGATTACAGTGGAATAGACCGGAG-AATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A-ATC
* * *
43037708 ATATCTCCCTGAGACTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
* *
43037752 CTATCTCCCTGAGATTACAGTGGAGCGGATT
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT
43037783 AAAATAAAGG
Statistics
Matches: 375, Mismatches: 106, Indels: 64
0.69 0.19 0.12
Matches are distributed among these distances:
40 1 0.00
41 57 0.15
42 29 0.08
43 13 0.03
44 173 0.46
45 11 0.03
46 90 0.24
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATC
Found at i:43037435 original size:46 final size:44
Alignment explanation
Indices: 43037353--43037465 Score: 104
Period size: 46 Copynumber: 2.5 Consensus size: 44
43037343 TCGCATTAGG
* ** * *
43037353 TCTTGTCTCCCTGAGATTACAGTGGAATAGACTGAAGAAT-TTCAGA
1 TCTTATCTCCCTGAGATTACAGTCAAACAGACTGAAG-ATGGT-A-A
* *
43037399 TCTTATCTCCCTGAGATTACAG-CAAAGCAGATTGAAGCTGGTAA
1 TCTTATCTCCCTGAGATTACAGTCAAA-CAGACTGAAGATGGTAA
*
43037443 TCCTATCTCCCTGAGATTACAGT
1 TCTTATCTCCCTGAGATTACAGT
43037466 GGAGTGGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
44 22 0.39
45 4 0.07
46 30 0.54
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTCAAACAGACTGAAGATGGTAA
Found at i:43037517 original size:175 final size:175
Alignment explanation
Indices: 43037226--43037665 Score: 772
Period size: 175 Copynumber: 2.5 Consensus size: 175
43037216 GCCAAAAATA
43037226 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
*
43037291 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATTAGGTCT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
* * * *
43037356 TGTCTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTCAGATC
131 TATCTCCCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
** * *
43037401 TTATCTCCCTGAGATTACAGCAAAGCAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTACAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
*
43037466 GGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
66 GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
*
43037531 TATCTCTCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
131 TATCTCCCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
*
43037576 TTATCTCTCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
1 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
43037641 GGAGCGGATTAAAATAAAGGATCTT
66 GGAGCGGATTAAAATAAAGGATCTT
43037666 CTCCCTGAGA
Statistics
Matches: 248, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 248 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (175 bp):
TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGT
GGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
TATCTCCCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATC
Found at i:43037707 original size:132 final size:132
Alignment explanation
Indices: 43037533--43037850 Score: 537
Period size: 132 Copynumber: 2.4 Consensus size: 132
43037523 TCAGGTCTTA
* * * *
43037533 TCTCTCTGAGATTACAATGGAATAGACCGAAGAAATTCAGATCTTATCTCTCTGAGATTACAGCG
1 TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGACTACAGCG
*
43037598 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGAT
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
43037663 CT
131 CT
* * *
43037665 TCTCCCTGAGATTACAGTGGAATAGACCGGAGAATTTCAGATCATATCTCCCTGAGACTACAGCG
1 TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGACTACAGCG
43037730 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
43037795 CT
131 CT
* * *
43037797 TATCTCTGAGATTGCAGTGGAATAGACCGAAGAATTTCAAATCTTATCTCCCTG
1 TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTG
43037851 GCGATGCAGT
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 172 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (132 bp):
TCTCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGACTACAGCG
GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
CT
Found at i:43038018 original size:100 final size:99
Alignment explanation
Indices: 43037844--43038214 Score: 435
Period size: 100 Copynumber: 3.7 Consensus size: 99
43037834 CAAATCTTAT
** * * * *
43037844 CTCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACGACGG-CATATCTTGCTTCCCCGACATTGC
1 CTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGA-ATCTTGCCTCCCTGACATTGC
* * * *
43037908 AGTTAAAAAGACTAAAGCCACAGCGGCGAGTGTCAC
65 GGTTAAAAAGATTAAAGCCACAGCAGCGAAT-TCAC
* * *
43037944 TTCCCTGGCGATGCAGTCGAACAGATTAAAGCCACAACGGTGAATCTTG-CTCCCTTGACATTAC
1 CTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCC-TGACATTGC
* *
43038008 GGTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
65 GGTTAAAAAGATTAAAGCCACAGCAGCGAAT-TCAC
* * *
43038044 CTCCAAT-GCGGTGCAGTGGAACACATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
1 CTCC-CTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
* * *
43038108 GGTTAAAAAGATTAAAGCGATAGCAGCGAATCCTAC
65 GGTTAAAAAGATTAAAGCCACAGCAGCGAATTC-AC
* *
43038144 CTCCCAGGC-AGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGCCTCCCTGACATTGC
1 CTCCCTGGCGA-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
*
43038208 GGCTAAA
65 GGTTAAA
43038215 GCAGCGAATC
Statistics
Matches: 232, Mismatches: 32, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
99 4 0.02
100 221 0.95
101 7 0.03
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.22
Consensus pattern (99 bp):
CTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCG
GTTAAAAAGATTAAAGCCACAGCAGCGAATTCAC
Found at i:43038020 original size:50 final size:49
Alignment explanation
Indices: 43037866--43038214 Score: 173
Period size: 50 Copynumber: 7.0 Consensus size: 49
43037856 GCAGTGGAGT
* * * *
43037866 AGATTAAAGCCACGACGG-CATATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGA-ATCTTGC-TCCCTGACATTGCGGTTAAAA
* * * * * ** * * ** *
43037916 AGACTAAAGCCACAGCGGCGAGTGTCACTTCCCTGGCGA-TGCAGTCGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGC-TCCCTGAC-ATTGCGGTTAAAA
*
43037966 AGATTAAAGCCACAACGGTGAATCTTGCTCCCTTGACATTACGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTCCC-TGACATTGCGGTTAAAA
* * * * * * ** * ** *
43038016 AGATTAAAGCTACAGCAGCGAATCTTACCTCCAATG-CGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTT-GCTCC-CTGACATTGCGGTTAAAA
*
43038066 ACATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCTGACATTGCGGTTAAAA
* * * * * ** * * * * ** *
43038116 AGATTAAAGCGATAGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAAT-CTTGCTCCCTGACATTGCGGTTAAAA
* *
43038166 AGATTAAAGCCATAACGGTGAATCTTGCCTCCCTGACATTGCGGCTAAA
1 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCTGACATTGCGGTTAAA
43038215 GCAGCGAATC
Statistics
Matches: 209, Mismatches: 80, Indels: 20
0.68 0.26 0.06
Matches are distributed among these distances:
49 9 0.04
50 190 0.91
51 10 0.05
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (49 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTCCCTGACATTGCGGTTAAAA
Found at i:43038273 original size:86 final size:85
Alignment explanation
Indices: 43038129--43038292 Score: 258
Period size: 86 Copynumber: 1.9 Consensus size: 85
43038119 TTAAAGCGAT
*
43038129 AGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGC
1 AGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
*
43038194 CTCCCTGACATTGCGGCTAA
66 CTCCCCGACATTGCGGCTAA
* *
43038214 AGCAGCGAATCTTACACTCCCAGGCAGTGTAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTT
1 AGCAGCGAATCCTAC-CTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTT
*
43038278 GCTTCCCCGACATTG
64 GCCTCCCCGACATTG
43038293 TAGTTAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
85 17 0.24
86 55 0.76
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (85 bp):
AGCAGCGAATCCTACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
CTCCCCGACATTGCGGCTAA
Found at i:43039727 original size:17 final size:17
Alignment explanation
Indices: 43039705--43039744 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
43039695 TCAGTAATAT
43039705 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
43039722 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
43039739 TATTAT
1 TATTAT
43039745 CACCGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:43039739 original size:14 final size:16
Alignment explanation
Indices: 43039702--43039743 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
43039692 TATTCAGTAA
43039702 TATTATTATTAATCTAT
1 TATTATTATTAA-CTAT
*
43039719 TAGTATTATTAA-T-T
1 TATTATTATTAACTAT
43039733 TATTATTATTA
1 TATTATTATTA
43039744 TCACCGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 11 0.48
15 1 0.04
17 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATTAACTAT
Found at i:43041980 original size:47 final size:48
Alignment explanation
Indices: 43041897--43042005 Score: 139
Period size: 47 Copynumber: 2.2 Consensus size: 48
43041887 TTGCACATCG
*
43041897 TCACATATCACACACCGAAGCCATAGCCCAGCTATGGTCTTACACGGAAA
1 TCACATAT--CACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAAA
* * * * *
43041947 -CACATATCACACCGATGCCATATCCTAGATATGGTCTTATATGGAAA
1 TCACATATCACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAAA
43041994 TCACATATCACA
1 TCACATATCACA
43042006 TCACACCGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 34 0.65
48 11 0.21
49 7 0.13
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (48 bp):
TCACATATCACACCGAAGCCATAGCCCAGATATGGTCTTACACGGAAA
Found at i:43042015 original size:53 final size:53
Alignment explanation
Indices: 43041952--43042059 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
43041942 GGAAACACAT
* * * *
43041952 ATCACACCGATGCCATATCCTAGATATGGTCTTATATGGAAATCACAT-ATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGG-AAGCACATAATCAC
* *
43042005 ATCACACCGATACCATAACCTAGCTATGGTTTTATACGGAAGCACATAATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGGAAGCACATAATCAC
43042058 AT
1 AT
43042060 TTTGACATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
52 7 0.15
53 41 0.85
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (53 bp):
ATCACACCGATACCATAACCTAGATATGGTCTTATACGGAAGCACATAATCAC
Found at i:43047253 original size:79 final size:78
Alignment explanation
Indices: 43047121--43047284 Score: 229
Period size: 79 Copynumber: 2.1 Consensus size: 78
43047111 TGCAATTGTA
** * * *
43047121 TTCTGTTTGTAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTTTATTCCTGCTGTTCAACA
1 TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAACA
* *
43047186 TAATTTGTTCAAT
66 GAATTTATTCAAT
* *
43047199 TCTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTTAGGATTCTATTCCTCCTATTCAAT
1 T-TCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAAC
*
43047264 AGAATTTATTCGAT
65 AGAATTTATTCAAT
43047278 TTCTGTT
1 TTCTGTT
43047285 GTTAATAGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
78 7 0.09
79 68 0.91
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (78 bp):
TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAACA
GAATTTATTCAAT
Found at i:43058176 original size:15 final size:15
Alignment explanation
Indices: 43058156--43058186 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43058146 TTTACAATGT
43058156 TTATCTGAAGGATGC
1 TTATCTGAAGGATGC
43058171 TTATCTGAAGGATGC
1 TTATCTGAAGGATGC
43058186 T
1 T
43058187 GTAGTGGGTG
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:0.13, G:0.26, T:0.35
Consensus pattern (15 bp):
TTATCTGAAGGATGC
Found at i:43060222 original size:21 final size:21
Alignment explanation
Indices: 43060210--43060292 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
43060200 ATGGGTTTCT
43060210 GTTAAGCTCTTATGAGCTTCC
1 GTTAAGCTCTTATGAGCTTCC
* *
43060231 GTTCAGCTCTTACGAGCTTCC
1 GTTAAGCTCTTATGAGCTTCC
* * * *
43060252 GTTCAACCT-TTATGGGTTTCT
1 GTT-AAGCTCTTATGAGCTTCC
* *
43060273 GTTTAGCTCTCATGAGCTTC
1 GTTAAGCTCTTATGAGCTTC
43060293 TATTTAGCCT
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 3 0.06
21 41 0.87
22 3 0.06
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (21 bp):
GTTAAGCTCTTATGAGCTTCC
Found at i:43060266 original size:63 final size:63
Alignment explanation
Indices: 43060167--43060292 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 63
43060157 TACGAGTTTT
* * * *
43060167 CGTTCAGCTCTATTGAGCTTCTATTTAACCTTTATGGGTTTCTGTTAAGCTCTTATGAGCTTC
1 CGTTCAGCTCTATCGAGCTTCCATTCAACCTTTATGGGTTTCTGTTAAGCTCTCATGAGCTTC
* *
43060230 CGTTCAGCTCT-TACGAGCTTCCGTTCAACCTTTATGGGTTTCTGTTTAGCTCTCATGAGCTTC
1 CGTTCAGCTCTAT-CGAGCTTCCATTCAACCTTTATGGGTTTCTGTTAAGCTCTCATGAGCTTC
43060293 TATTTAGCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 55 0.98
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (63 bp):
CGTTCAGCTCTATCGAGCTTCCATTCAACCTTTATGGGTTTCTGTTAAGCTCTCATGAGCTTC
Found at i:43061136 original size:42 final size:42
Alignment explanation
Indices: 43061033--43061144 Score: 161
Period size: 42 Copynumber: 2.7 Consensus size: 42
43061023 TATTTTCGTC
* * * *
43061033 CACATGGGTGTGTGTCTTAGCCGTGTGAGACACACGACCTAG
1 CACATGGGAGTGTGTTTTGGCCGTGTGTGACACACGACCTAG
* *
43061075 CACATGGGCGTGTGGTTTGGCCGTGTGTGACACACGACCTAG
1 CACATGGGAGTGTGTTTTGGCCGTGTGTGACACACGACCTAG
*
43061117 CACATGGGAGTGTGTTTTGGTCGTGTGT
1 CACATGGGAGTGTGTTTTGGCCGTGTGT
43061145 CCTCTGCATC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.17, C:0.21, G:0.35, T:0.28
Consensus pattern (42 bp):
CACATGGGAGTGTGTTTTGGCCGTGTGTGACACACGACCTAG
Found at i:43069112 original size:13 final size:13
Alignment explanation
Indices: 43069094--43069123 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
43069084 AGTTTAGTGG
43069094 TACAAATTATAAT
1 TACAAATTATAAT
43069107 TACAAATTATAAT
1 TACAAATTATAAT
43069120 TACA
1 TACA
43069124 TATTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
TACAAATTATAAT
Found at i:43070344 original size:24 final size:24
Alignment explanation
Indices: 43070312--43070363 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
43070302 AATCAAAGTC
* *
43070312 AAATATATTATGCACATAAATGCT
1 AAATATATTATACACATAAATACT
* *
43070336 AAATTTATTATACTCATAAATACT
1 AAATATATTATACACATAAATACT
43070360 AAAT
1 AAAT
43070364 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.48, C:0.12, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACACATAAATACT
Found at i:43074688 original size:24 final size:24
Alignment explanation
Indices: 43074638--43074689 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
43074628 AATCAAAGTC
* **
43074638 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
* *
43074662 AAATATGTTATACTTATAAATACT
1 AAATATATTATACTAATAAATACT
43074686 AAAT
1 AAAT
43074690 CTTCTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:43090106 original size:17 final size:18
Alignment explanation
Indices: 43090079--43090123 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
43090069 TATTTTATAT
* *
43090079 TAATATTTTT-AATTATT
1 TAATTTTTTTAAATTATG
*
43090096 TTATTTTTTTAAATTATG
1 TAATTTTTTTAAATTATG
43090114 TAATTTTTTT
1 TAATTTTTTT
43090124 TTTTTATATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TAATTTTTTTAAATTATG
Found at i:43090859 original size:6 final size:7
Alignment explanation
Indices: 43090842--43090875 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
43090832 TAATATATTT
*
43090842 TTTTTCG
1 TTTTTCA
43090849 TTTTTCA
1 TTTTTCA
43090856 TTTTTCA
1 TTTTTCA
43090863 TTTTTCA
1 TTTTTCA
43090870 TTTTTC
1 TTTTTC
43090876 TTTCTTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.09, C:0.15, G:0.03, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:43090867 original size:21 final size:21
Alignment explanation
Indices: 43090842--43090883 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43090832 TAATATATTT
*
43090842 TTTTTCGTTTTTCATTT-TTCA
1 TTTTTCATTTTTC-TTTCTTCA
43090863 TTTTTCATTTTTCTTTCTTCA
1 TTTTTCATTTTTCTTTCTTCA
43090884 AAATCGAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTCATTTTTCTTTCTTCA
Found at i:43096696 original size:22 final size:22
Alignment explanation
Indices: 43096654--43096696 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43096644 GTATAACTTG
**
43096654 CAAGAAAATAAACATTTTTAAT
1 CAAGAAAATAAACATACTTAAT
43096676 CAAGAAAATAAACATACTTAA
1 CAAGAAAATAAACATACTTAA
43096697 AATAACATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.26
Consensus pattern (22 bp):
CAAGAAAATAAACATACTTAAT
Found at i:43112441 original size:101 final size:101
Alignment explanation
Indices: 43112336--43112599 Score: 483
Period size: 101 Copynumber: 2.6 Consensus size: 101
43112326 ACACTGATCA
* * *
43112336 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTATCACTTGT
43112401 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
43112437 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTATCACTTGT
43112502 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
43112538 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTATCACT
43112600 GATCAGAAGT
Statistics
Matches: 157, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 157 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:43112448 original size:50 final size:50
Alignment explanation
Indices: 43112339--43112599 Score: 405
Period size: 51 Copynumber: 5.2 Consensus size: 50
43112329 CTGATCACAT
43112339 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
43112390 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
43112440 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
43112491 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* *
43112541 TTGTCACTTATCACTGATCAGATAAGTGTAGCTAAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAA-GCTACCACTTATCAC
*
43112592 TTGTCACT
1 TTATCACT
43112600 GATCAGAAGT
Statistics
Matches: 192, Mismatches: 16, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
50 93 0.48
51 99 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:43119177 original size:101 final size:101
Alignment explanation
Indices: 43119072--43119335 Score: 474
Period size: 101 Copynumber: 2.6 Consensus size: 101
43119062 ACACTGATCA
* * * *
43119072 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
43119137 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
43119173 CATTTGTCACTTATCACTGATTAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
43119238 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
43119274 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACT
43119336 GATCAGAAGT
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 156 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:43119184 original size:50 final size:51
Alignment explanation
Indices: 43119075--43119335 Score: 391
Period size: 51 Copynumber: 5.2 Consensus size: 51
43119065 CTGATCACAT
*
43119075 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
43119126 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * * *
43119176 TTGTCACTTATCACTGATTAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
43119227 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
43119277 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
*
43119328 TTGTCACT
1 TTATCACT
43119336 GATCAGAAGT
Statistics
Matches: 189, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
50 90 0.48
51 99 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
Found at i:43124945 original size:21 final size:21
Alignment explanation
Indices: 43124919--43124974 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
43124909 CACTATTATT
43124919 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
43124940 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
43124961 ACTAATCTCACCGC
1 TCTAATCTCACCGC
43124975 CACCGCTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.36, G:0.09, T:0.27
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:43130618 original size:26 final size:26
Alignment explanation
Indices: 43130572--43130623 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
43130562 TTGTGTTTAG
43130572 TTTATTAAAAAAAAATCAA-TTAACT
1 TTTATTAAAAAAAAATCAATTTAACT
*
43130597 TTTATATAAAAGAAAAGT-AATTTAACT
1 TTTAT-TAAAA-AAAAATCAATTTAACT
43130624 AAAATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 7 0.30
27 11 0.48
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (26 bp):
TTTATTAAAAAAAAATCAATTTAACT
Found at i:43141025 original size:13 final size:13
Alignment explanation
Indices: 43141009--43141034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43140999 AAATTTATAC
43141009 TCAACTTTTATGG
1 TCAACTTTTATGG
43141022 TCAACTTTTATGG
1 TCAACTTTTATGG
43141035 GAAAATGGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (13 bp):
TCAACTTTTATGG
Found at i:43145243 original size:3 final size:3
Alignment explanation
Indices: 43145235--43145261 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
43145225 AGGGTGAAAT
43145235 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
43145262 GGAATAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:43146729 original size:9 final size:9
Alignment explanation
Indices: 43146715--43146744 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
43146705 TTCAGGATTA
43146715 TTTTGTTTG
1 TTTTGTTTG
43146724 TTTTGTTTG
1 TTTTGTTTG
43146733 TTTTGTTTG
1 TTTTGTTTG
43146742 TTT
1 TTT
43146745 ATGGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:43153899 original size:14 final size:14
Alignment explanation
Indices: 43153880--43153911 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
43153870 AGGTCATTTA
43153880 GCCCAACCAAACAG
1 GCCCAACCAAACAG
*
43153894 GCCCAACCAAACTG
1 GCCCAACCAAACAG
43153908 GCCC
1 GCCC
43153912 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.47, G:0.16, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACAG
Found at i:43170288 original size:132 final size:132
Alignment explanation
Indices: 43170046--43170845 Score: 1453
Period size: 132 Copynumber: 6.1 Consensus size: 132
43170036 TGAAGTCATT
*
43170046 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
43170111 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
43170176 AG
131 AG
*
43170178 AAAGCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
43170243 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
43170308 AG
131 AG
43170310 AAAGCAGATCTTGTCTTCATGTATTGGCGT-AAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* *
43170374 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGT-GCAAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
43170438 AG
131 AG
* *
43170440 AAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAATG-TAGCAGATCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAA-GATATCAGATCCTATCTTCCT
* *
43170504 ATATCGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
43170569 CAG
130 AAG
*
43170572 AAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
43170637 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
43170702 AG
131 AG
43170704 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* *
43170769 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
43170834 AG
131 AG
*
43170836 AAAGCCGATC
1 AAAGCAGATC
43170846 GACGATGGCA
Statistics
Matches: 648, Mismatches: 16, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
130 43 0.07
131 165 0.25
132 440 0.68
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:43173712 original size:106 final size:106
Alignment explanation
Indices: 43173576--43173793 Score: 366
Period size: 106 Copynumber: 2.1 Consensus size: 106
43173566 AAAATTTTTC
43173576 TAAATAAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
* *
43173641 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAA-CTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCC-TCTTAAAGCTTT
* *
43173682 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
43173747 TTCTCGTTCGACTAAACAGCCAAATATCCTCTTAAAGCTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAAGCTTT
*
43173788 AAAATA
1 TAAATA
43173794 TGGTTTCATT
Statistics
Matches: 105, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 6 0.06
106 99 0.94
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTCTTAAAGCTTT
Found at i:43175121 original size:20 final size:21
Alignment explanation
Indices: 43175092--43175131 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
43175082 TGCTAATATT
*
43175092 TTTTTATTTATAAATTTTTAG
1 TTTTTATTTATAAATATTTAG
43175113 TTTTT-TTTATAAATATTTA
1 TTTTTATTTATAAATATTTA
43175132 ATAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTTTTATTTATAAATATTTAG
Found at i:43176449 original size:120 final size:120
Alignment explanation
Indices: 43176222--43176461 Score: 401
Period size: 120 Copynumber: 2.0 Consensus size: 120
43176212 ATATAAATAA
* *
43176222 AATTATTAATATTTTGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTGAAAAG
1 AATTATTAATATTTAGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
*
43176287 TAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAGGGTTAGCGGAGTAAAATTTTGG
66 TAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTAGCGGAGTAAAATTTTGG
* * *
43176342 AATT-TTATTATTTAGATTTAGGGATTTTTTTGATGATTTTTTTATTTGGGGTAGATGGTAAAAA
1 AATTATTAATATTTAGATTTAGGGATTTTTTTAAT-AATTTTTTATTTGGGGTAGATGGTAAAAA
*
43176406 GTAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTGGCGGAGTAAAATTTTGG
65 GTAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTAGCGGAGTAAAATTTTGG
43176462 GAGGAAAGTA
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
119 27 0.24
120 85 0.76
ACGTcount: A:0.33, C:0.01, G:0.25, T:0.41
Consensus pattern (120 bp):
AATTATTAATATTTAGATTTAGGGATTTTTTTAATAATTTTTTATTTGGGGTAGATGGTAAAAAG
TAAAAGTTTAGTGGGAAAATAAAAAGTTTTGAAGGTTAGCGGAGTAAAATTTTGG
Found at i:43181828 original size:25 final size:25
Alignment explanation
Indices: 43181798--43181867 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
43181788 TTTGTAAACA
* *
43181798 GGAAGCTCATGCGAGTTGAATAATG
1 GGAAGCTCATGCGAGCTGAATAACG
43181823 GGAAGCTCATGCGAGCTGAATAACG
1 GGAAGCTCATGCGAGCTGAATAACG
* **
43181848 GGACGCTCATAAGAGCTGAA
1 GGAAGCTCATGCGAGCTGAA
43181868 ATCGGTGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (25 bp):
GGAAGCTCATGCGAGCTGAATAACG
Found at i:43186831 original size:14 final size:14
Alignment explanation
Indices: 43186791--43186837 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
43186781 CCAAACCCAG
* *
43186791 CAAAGCCAAGTAAC
1 CAAAACCAAATAAC
*
43186805 CAAAAAC-AATAAC
1 CAAAACCAAATAAC
43186818 CAAAACCAAATAACC
1 CAAAACCAAATAA-C
43186833 CAAAA
1 CAAAA
43186838 TTAGTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 11 0.41
14 10 0.37
15 6 0.22
ACGTcount: A:0.62, C:0.28, G:0.04, T:0.06
Consensus pattern (14 bp):
CAAAACCAAATAAC
Found at i:43187257 original size:34 final size:34
Alignment explanation
Indices: 43187185--43187259 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
43187175 GTTCATAGAA
*
43187185 GGAAGAAGAAAAAAATAAAAGAAAAGGGAAATTG
1 GGAAGAAGAAAAAAATAAAAGAAAAGGGAAAATG
* *
43187219 GGAAGAAGAAAAAGATAATCAGGAAAA-GGAAAAT-
1 GGAAGAAGAAAAAAATAA--AAGAAAAGGGAAAATG
43187253 GGAAGAA
1 GGAAGAA
43187260 AATGAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 24 0.67
35 6 0.17
36 6 0.17
ACGTcount: A:0.63, C:0.01, G:0.28, T:0.08
Consensus pattern (34 bp):
GGAAGAAGAAAAAAATAAAAGAAAAGGGAAAATG
Found at i:43197033 original size:20 final size:20
Alignment explanation
Indices: 43197008--43197059 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
43196998 AAGCTTATGC
43197008 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* * *
43197028 TAAGTAAATGGATTGGTAAG
1 TAAGTAAATGAAATGGAAAG
43197048 TAAGTAAATGAA
1 TAAGTAAATGAA
43197060 GTAGTTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:43205576 original size:40 final size:40
Alignment explanation
Indices: 43205532--43205625 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
43205522 ATTACTAATG
43205532 GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
1 GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
** * * * * **
43205572 GCTTGTTTACACTACTGGCAGTTTATTTGCATTATTGGTG
1 GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
*
43205612 GCTTGACCACATTA
1 GCTTGACTACATTA
43205626 TTGACAGCTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (40 bp):
GCTTGACTACATTACTGGCAATTTATCTGCAATATTGGCA
Found at i:43205603 original size:80 final size:80
Alignment explanation
Indices: 43205464--43205631 Score: 203
Period size: 80 Copynumber: 2.1 Consensus size: 80
43205454 AAAGAAAAAG
* *
43205464 TACTGACAATTAATCTATAATACTGGCAGTGTGTTTGCACTACTGGCAGCTTATCTGCATTACTA
1 TACTGACAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
*
43205529 ATGGCTTGACTACAT
66 ATGGCTTGACCACAT
* * * * * * *
43205544 TACTGGCAATTTATCTGCAATATTGGCAGCT-TGTTTACACTACTGGCAGTTTATTTGCATTATT
1 TACTGACAATTAATCTACAATACTGGCAG-TGTGTTTACACTACTGGCAGCTTATCTGCATTACT
**
43205608 GGTGGCTTGACCACAT
65 AATGGCTTGACCACAT
*
43205624 TATTGACA
1 TACTGACA
43205632 GCTTGTTTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 72 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (80 bp):
TACTGACAATTAATCTACAATACTGGCAGTGTGTTTACACTACTGGCAGCTTATCTGCATTACTA
ATGGCTTGACCACAT
Found at i:43212339 original size:18 final size:18
Alignment explanation
Indices: 43212316--43212361 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
43212306 GATCAGTATG
43212316 ATTTCATAACTTTCCATA
1 ATTTCATAACTTTCCATA
*
43212334 ATTTCATACCTTTCCATA
1 ATTTCATAACTTTCCATA
43212352 ATTTCATAAC
1 ATTTCATAAC
43212362 ATAGTCAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCATAACTTTCCATA
Found at i:43215288 original size:20 final size:21
Alignment explanation
Indices: 43215263--43215302 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43215253 GAGAAATAAT
*
43215263 GTGTTTTTA-GGTTAAAAAAG
1 GTGTTTTGATGGTTAAAAAAG
43215283 GTGTTTTGATGGTTAAAAAA
1 GTGTTTTGATGGTTAAAAAA
43215303 TTAGGTAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
GTGTTTTGATGGTTAAAAAAG
Found at i:43218010 original size:11 final size:11
Alignment explanation
Indices: 43217994--43218019 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43217984 TAGAAGAGAC
43217994 GAAACAGGGGA
1 GAAACAGGGGA
43218005 GAAACAGGGGA
1 GAAACAGGGGA
43218016 GAAA
1 GAAA
43218020 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:43218708 original size:3 final size:3
Alignment explanation
Indices: 43218682--43218729 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
43218672 GTGAGGTAAG
* * *
43218682 TAT TAA TAT TAG TAT TAG TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43218730 GAGTGGGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:43218924 original size:24 final size:24
Alignment explanation
Indices: 43218870--43218941 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 24
43218860 TGTGTGAAGT
*
43218870 TGTGAAATAATTATTG-ATTG-AAA
1 TGTGAAA-AATGATTGAATTGAAAA
*
43218893 GGTGGAAAAATGATTGAATTGAAAA
1 TGT-GAAAAATGATTGAATTGAAAA
43218918 TGTGAAAAATTGTAATTGAATTGA
1 TGTGAAAAA-TG--ATTGAATTGA
43218942 GAATATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 9 0.22
24 14 0.35
25 7 0.17
27 10 0.25
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
TGTGAAAAATGATTGAATTGAAAA
Found at i:43237202 original size:3 final size:3
Alignment explanation
Indices: 43237196--43237240 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
43237186 TTTGCATCTA
* * *
43237196 TTG TTG TTG TTG TTT TTG TTG TTG TTG TTG TTG TTA TTT TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
43237241 ACAATTCTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.02, C:0.00, G:0.27, T:0.71
Consensus pattern (3 bp):
TTG
Found at i:43248484 original size:18 final size:17
Alignment explanation
Indices: 43248426--43248477 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
43248416 TTTTTTAGAG
* *
43248426 AAATTAATTTTATGGTTTT
1 AAATTAATTTT-TGG-GTA
43248445 AAA-TAATTTTTGGGTA
1 AAATTAATTTTTGGGTA
43248461 AAATTAATATTTTGGGT
1 AAATTAAT-TTTTGGGT
43248478 CTAATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.24
18 15 0.52
19 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (17 bp):
AAATTAATTTTTGGGTA
Found at i:43258807 original size:18 final size:17
Alignment explanation
Indices: 43258774--43258812 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43258764 TTTTATAAAT
43258774 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
43258792 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
43258809 TGTG
1 TGTG
43258813 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:43259066 original size:23 final size:23
Alignment explanation
Indices: 43259039--43259114 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
43259029 AATGTTATTG
43259039 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
43259062 TTCAGTGTTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
43259085 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
43259108 ATCAGTG
1 ATCAGTG
43259115 TGGGACTTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:43264465 original size:18 final size:18
Alignment explanation
Indices: 43264428--43264470 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
43264418 TTGATGTTGT
43264428 AGAAGAAGTTGTTATCGA
1 AGAAGAAGTTGTTATCGA
* * *
43264446 AGCAGAAGTTGTTTTTGA
1 AGAAGAAGTTGTTATCGA
43264464 AGAAGAA
1 AGAAGAA
43264471 AAAGTTACTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (18 bp):
AGAAGAAGTTGTTATCGA
Found at i:43269962 original size:36 final size:35
Alignment explanation
Indices: 43269922--43269992 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
43269912 TTAGCACAGC
*
43269922 GGCATGCTTAACATGCGAATCAGAATCAGAAATAAT
1 GGCATGCTTAACATGCGAATCAAAATCAG-AATAAT
* *
43269958 GGCATGCTTAACATGCGAGTCAAAATTAGAATAAT
1 GGCATGCTTAACATGCGAATCAAAATCAGAATAAT
43269993 AGAATATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 6 0.19
36 26 0.81
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (35 bp):
GGCATGCTTAACATGCGAATCAAAATCAGAATAAT
Found at i:43272149 original size:11 final size:11
Alignment explanation
Indices: 43272133--43272158 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43272123 CTTCATTCAT
43272133 CATCCCTCAAG
1 CATCCCTCAAG
43272144 CATCCCTCAAG
1 CATCCCTCAAG
43272155 CATC
1 CATC
43272159 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.46, G:0.08, T:0.19
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:43278446 original size:23 final size:23
Alignment explanation
Indices: 43278415--43278467 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
43278405 AGTGTTATTG
43278415 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
43278438 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
43278461 ATCAGTG
1 ATCAGTG
43278468 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:43285512 original size:18 final size:17
Alignment explanation
Indices: 43285479--43285517 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
43285469 TTTTATAAAT
43285479 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
43285497 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
43285514 TGTG
1 TGTG
43285518 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:43285769 original size:23 final size:23
Alignment explanation
Indices: 43285743--43285818 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
43285733 AGTGTTATTG
43285743 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
43285766 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
43285789 TTCAGTGGTAGTTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
43285812 ATCAGTG
1 ATCAGTG
43285819 TGACACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:43291550 original size:44 final size:42
Alignment explanation
Indices: 43291419--43291653 Score: 206
Period size: 44 Copynumber: 5.4 Consensus size: 42
43291409 TAGCGTCGCT
* * *
43291419 AACTTTAGCGGCGTTTATGTGA-AAAAACGACACTAAAGATCATG
1 AACTTTAGCGGCGCTT-T-T-ACAAAAACGCCGCTAAAGATCATG
** * * *
43291463 GTCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGATCATG
1 AACTTTAGCGGCGCTTTT-ACAAAAACGCCGCTAAAGATCATG
* *
43291506 AACTTTAGCGGCGCTTTTACAAAAAAACACCGCTAAAGAACATG
1 AACTTTAGCGGCGCTTTTAC--AAAAACGCCGCTAAAGATCATG
* *
43291550 ACCTTTA-CTGGCGCTTTTACAAAAACGCCGCTAAAGATCA-C
1 AACTTTAGC-GGCGCTTTTACAAAAACGCCGCTAAAGATCATG
* * *
43291591 AAGCTTTAGCGGCACTTTTTATCACAAACGCCGCTAAAGGTCATG
1 AA-CTTTAGCGGCGC-TTTTA-CAAAAACGCCGCTAAAGATCATG
* *
43291636 ATCTTTAGCGACGCTTTT
1 AACTTTAGCGGCGCTTTT
43291654 TGCCACAAAC
Statistics
Matches: 155, Mismatches: 27, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 30 0.19
43 46 0.30
44 77 0.50
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
AACTTTAGCGGCGCTTTTACAAAAACGCCGCTAAAGATCATG
Found at i:43291651 original size:86 final size:86
Alignment explanation
Indices: 43291451--43291653 Score: 234
Period size: 86 Copynumber: 2.3 Consensus size: 86
43291441 AAAAACGACA
* * * *
43291451 CTAAAGATCATGGTCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGATCATGAACTTTAGCG
1 CTAAAGATCATGATCTTTAGCGACGCTTTTGACAAAAACGCCGCTAAAGATCATCAACTTTAGCG
*
43291516 GCGCTTTTACAAAAAAACACCG
66 GCACTTTTAC-AAAAAACACCG
* * *
43291538 CTAAAGAACATGACCTTTA-CTGGCGCTTTT-ACAAAAACGCCGCTAAAGATCA-CAAGCTTTAG
1 CTAAAGATCATGATCTTTAGC-GACGCTTTTGACAAAAACGCCGCTAAAGATCATCAA-CTTTAG
* *
43291600 CGGCACTTTTTATC-ACAAACGCCG
64 CGGCAC-TTTTA-CAAAAAACACCG
*
43291624 CTAAAGGTCATGATCTTTAGCGACGCTTTT
1 CTAAAGATCATGATCTTTAGCGACGCTTTT
43291654 TGCCACAAAC
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
85 2 0.02
86 64 0.66
87 30 0.31
88 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (86 bp):
CTAAAGATCATGATCTTTAGCGACGCTTTTGACAAAAACGCCGCTAAAGATCATCAACTTTAGCG
GCACTTTTACAAAAAACACCG
Found at i:43291661 original size:44 final size:43
Alignment explanation
Indices: 43291451--43291670 Score: 219
Period size: 44 Copynumber: 5.1 Consensus size: 43
43291441 AAAAACGACA
* * *
43291451 CTAAAGATCATGGTCTTTAGCGACGCTTTTGCCACAAACGCCG
1 CTAAAGATCATGATCTTTAGCGGCGCTTTTACCACAAACGCCG
* * * *
43291494 CTAAAGATCATGAACTTTAGCGGCGCTTTTACAAAAAAACACCG
1 CTAAAGATCATGATCTTTAGCGGCGCTTTTAC-CACAAACGCCG
* * *
43291538 CTAAAGAACATGACCTTTA-CTGGCGCTTTTA-CAAAAACGCCG
1 CTAAAGATCATGATCTTTAGC-GGCGCTTTTACCACAAACGCCG
** * * *
43291580 CTAAAGATCACAAGCTTTAGCGGCACTTTTTATCACAAACGCCG
1 CTAAAGATCATGATCTTTAGCGGCGC-TTTTACCACAAACGCCG
* * * *
43291624 CTAAAGGTCATGATCTTTAGCGACGCTTTTTGCCACAAACACCG
1 CTAAAGATCATGATCTTTAGCGGCGC-TTTTACCACAAACGCCG
43291668 CTA
1 CTA
43291671 TAAAACAAGC
Statistics
Matches: 146, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.19
43 35 0.24
44 83 0.57
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CTAAAGATCATGATCTTTAGCGGCGCTTTTACCACAAACGCCG
Found at i:43291679 original size:86 final size:84
Alignment explanation
Indices: 43291451--43291688 Score: 232
Period size: 86 Copynumber: 2.8 Consensus size: 84
43291441 AAAAACGACA
* * *
43291451 CTAAAGATCATGGTCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGATCATGAACTTTAGCG
1 CTAAAGATCATGATCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGAACA--AGCTTTAGCG
*
43291516 GCGCTTTTACAAAAAAACACCG
64 GCACTTTTAC-AAAAAACACCG
* * * * *
43291538 CTAAAGAACATGACCTTTA-CTGGCGCTTTT-ACAAAAACGCCGCTAAAGATCACAAGCTTTAGC
1 CTAAAGATCATGATCTTTAGC-GACGCTTTTGCCACAAACGCCGCTAAAGA--ACAAGCTTTAGC
* *
43291601 GGCACTTTTTATC-ACAAACGCCG
63 GGCAC-TTTTA-CAAAAAACACCG
* *
43291624 CTAAAGGTCATGATCTTTAGCGACGCTTTTTGCCACAAACACCGCTATAA-AACAAGCCTTTAGC
1 CTAAAGATCATGATCTTTAGCGACGC-TTTTGCCACAAACGCCGCTA-AAGAACAAG-CTTTAGC
43291688 G
63 G
43291689 TCGCTTCTCG
Statistics
Matches: 123, Mismatches: 18, Indels: 20
0.76 0.11 0.12
Matches are distributed among these distances:
86 63 0.51
87 42 0.34
88 16 0.13
89 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (84 bp):
CTAAAGATCATGATCTTTAGCGACGCTTTTGCCACAAACGCCGCTAAAGAACAAGCTTTAGCGGC
ACTTTTACAAAAAACACCG
Found at i:43291756 original size:18 final size:19
Alignment explanation
Indices: 43291733--43291770 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
43291723 ATTTAAAAAA
*
43291733 TTTTATTTAAATATT-TAT
1 TTTTATATAAATATTATAT
43291751 TTTTATATAAATATTATAT
1 TTTTATATAAATATTATAT
43291770 T
1 T
43291771 ATGTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATATAAATATTATAT
Found at i:43292766 original size:16 final size:16
Alignment explanation
Indices: 43292745--43292775 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
43292735 AGTCCCAAAC
43292745 TATTGTAAACATCAGT
1 TATTGTAAACATCAGT
43292761 TATTGTAAACATCAG
1 TATTGTAAACATCAG
43292776 ATAGGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (16 bp):
TATTGTAAACATCAGT
Found at i:43293785 original size:20 final size:21
Alignment explanation
Indices: 43293760--43293799 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43293750 AAAATTTTAT
*
43293760 TTATTTT-TATTTGTTAAAAA
1 TTATTTTATATATGTTAAAAA
43293780 TTATTTTATATATGTTAAAA
1 TTATTTTATATATGTTAAAA
43293800 TGAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTATTTTATATATGTTAAAAA
Found at i:43295074 original size:7 final size:8
Alignment explanation
Indices: 43295048--43295073 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
43295038 ATAAATACTG
43295048 AAATCAGA
1 AAATCAGA
43295056 AAATCAGA
1 AAATCAGA
43295064 AAATCAGA
1 AAATCAGA
43295072 AA
1 AA
43295074 TGACAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATCAGA
Found at i:43295972 original size:41 final size:41
Alignment explanation
Indices: 43295940--43296134 Score: 193
Period size: 41 Copynumber: 4.8 Consensus size: 41
43295930 TGCCACTATT
* *
43295940 GCCCTGAACATTAGCGGCGCTTTTTTAAAAATGCCGCTAAA
1 GCCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
* * * *
43295981 GACCC-GATCATTAGCGACGCTTTCTAAAAAACACCGCTAATA
1 G-CCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAA-A
* *
43296023 -CCCT-AAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAA
1 GCCCTGAA-CATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
* * * *
43296063 GACCC-GATCATTAGTGGCACTTCTTAAAAAACGCCGCTAAA
1 G-CCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
* *
43296104 ACCCTGAGCATTAGCGGCGC-TTTTAAAAAAC
1 GCCCTGAACATTAGCGGCGCTTTTTAAAAAAC
43296135 ACCACAAAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
40 18 0.15
41 97 0.79
42 8 0.07
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (41 bp):
GCCCTGAACATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA
Found at i:43296035 original size:82 final size:82
Alignment explanation
Indices: 43295948--43296127 Score: 263
Period size: 82 Copynumber: 2.2 Consensus size: 82
43295938 TTGCCCTGAA
* * * *
43295948 CATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAGACCCGATCATTAGCGACGCTT-TCTAAAAAA
1 CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGCGACACTTCT-TAAAAAA
*
43296012 CACCGCTAATACCCTAAG
65 CACCGCTAAAACCCTAAG
* *
43296030 CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGTGGCACTTCTTAAAAAAC
1 CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGCGACACTTCTTAAAAAAC
* *
43296095 GCCGCTAAAACCCTGAG
66 ACCGCTAAAACCCTAAG
43296112 CATTAGCGGCGCTTTT
1 CATTAGCGGCGCTTTT
43296128 AAAAAACACC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 87 0.99
83 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (82 bp):
CATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCGATCATTAGCGACACTTCTTAAAAAAC
ACCGCTAAAACCCTAAG
Found at i:43296275 original size:40 final size:39
Alignment explanation
Indices: 43296200--43296275 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
43296190 GTGCTTTTTG
* *
43296200 AAAAACGCCGCTAATGCTCATTTTTAGCGGCGTTTTCCC
1 AAAAACGCCGCTAATACTCATCTTTAGCGGCGTTTTCCC
* *
43296239 AAAAGCGCCGCTAATACTCAATCTTTAGCGGTGTTTT
1 AAAAACGCCGCTAATACTC-ATCTTTAGCGGCGTTTT
43296276 TTTTAAAGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 17 0.53
40 15 0.47
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (39 bp):
AAAAACGCCGCTAATACTCATCTTTAGCGGCGTTTTCCC
Found at i:43296284 original size:40 final size:39
Alignment explanation
Indices: 43296194--43296317 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 39
43296184 TTTGCGGTGC
* *
43296194 TTTTTGAAAAACGCCGCTAATGCTCATTTTTAGCGGCGT
1 TTTTTCAAAAGCGCCGCTAATGCTCATTTTTAGCGGCGT
** * * *
43296233 TTTCCCAAAAGCGCCGCTAATACTCAATCTTTAGCGGTGT
1 TTTTTCAAAAGCGCCGCTAATGCTC-ATTTTTAGCGGCGT
** * *
43296273 TTTTTTTAAAGCGTCGCTAATGCTTGATTTTTAGCGGCGT
1 TTTTTCAAAAGCGCCGCTAATGC-TCATTTTTAGCGGCGT
43296313 TTTTT
1 TTTTT
43296318 ATCCAAACGC
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
39 20 0.30
40 46 0.69
41 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (39 bp):
TTTTTCAAAAGCGCCGCTAATGCTCATTTTTAGCGGCGT
Found at i:43297859 original size:27 final size:27
Alignment explanation
Indices: 43297838--43298215 Score: 391
Period size: 27 Copynumber: 14.0 Consensus size: 27
43297828 CGATATCTGC
*
43297838 ACCGAAATACCCTCATAGGATAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* *
43297865 ACCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * *
43297892 ATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* ** *
43297919 ATCGAAATACCCTTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * * *
43297946 ACCAAAATAACCCTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* *
43297973 ACCAAAATA-CCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * *
43297999 ATCGAAATATCCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* *
43298026 ACCAAAATACCCCCATACGATAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
*
43298053 ACCGAAATACCCCTATATGG-TAAAATG
1 ACCGAAATACCCCCATA-GGATAAAATG
* * *
43298080 ACCAAAATACCCCCAAAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * *
43298107 ATCGAAATACCCCTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* * * * *
43298134 ATCGAAATATCTCCATAAGATAGAATG
1 ACCGAAATACCCCCATAGGATAAAATG
* ** *
43298161 ACCAAAATACCCTTATAGGGTAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
*
43298188 ACCGAAATACCCCAATAGGATAAAATG
1 ACCGAAATACCCCCATAGGATAAAATG
43298215 A
1 A
43298216 TTGTTTTACC
Statistics
Matches: 300, Mismatches: 48, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
26 25 0.08
27 274 0.91
28 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (27 bp):
ACCGAAATACCCCCATAGGATAAAATG
Found at i:43297925 original size:54 final size:54
Alignment explanation
Indices: 43297840--43298216 Score: 454
Period size: 54 Copynumber: 7.0 Consensus size: 54
43297830 ATATCTGCAC
* *
43297840 CGAAATA-CCCTCATAGGATAAAATGACCGAAATACCCCCATAGGGTAGAATGAT
1 CGAAATACCCCT-ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * ** *
43297894 CGAAATACCCCCATAGGGTAGAATGATCGAAATACCCTTATAGGGTAAAATGAC
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * *
43297948 CAAAATAACCCTATAGGGTAAAATGACCAAAATA-CCCCATAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * *
43298001 CGAAATATCCCC-ATAGGGTAAAATGACCAAAATACCCCCATACGATAAAATGAC
1 CGAAATA-CCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * *
43298055 CGAAATACCCCTATATGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * * * * *
43298109 CGAAATACCCCTATAGGGTAAAATGATCGAAATATCTCCATAAGATAGAATGAC
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
* * * *
43298163 CAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAGGATAAAATGAT
1 CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
43298217 TGTTTTACCC
Statistics
Matches: 273, Mismatches: 46, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
53 48 0.18
54 222 0.81
55 3 0.01
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (54 bp):
CGAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAT
Found at i:43297981 original size:81 final size:81
Alignment explanation
Indices: 43297838--43298215 Score: 454
Period size: 81 Copynumber: 4.7 Consensus size: 81
43297828 CGATATCTGC
* * *
43297838 ACCGAAATACCCTCATAGGATAAAATGACCGAAATACCCCCATAGGGTAGAATGATCGAAATACC
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
*
43297903 CCCATAGGGTAGAATG
66 CCCATAGGGTAAAATG
* * * * * *
43297919 ATCGAAATACCCTTATAGGGTAAAATGACCAAAATAACCCTATAGGGTAAAATGACCAAAATA-C
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
43297983 CCCATAGGGTAAAATG
66 CCCATAGGGTAAAATG
* * * *
43297999 ATCGAAATATCCC-CATAGGGTAAAATGACCAAAATACCCCCATACGATAAAATGACCGAAATAC
1 ACCGAAATA-CCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATAC
* *
43298063 CCCTATATGGTAAAATG
65 CCCCATAGGGTAAAATG
* * * * * * *
43298080 ACCAAAATACCCCCAAAGGGTAAAATGATCGAAATACCCCTATAGGGTAAAATGATCGAAATATC
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
* * * *
43298145 TCCATAAGATAGAATG
66 CCCATAGGGTAAAATG
* * * *
43298161 ACCAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCAATAGGATAAAATGA
1 ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA
43298216 TTGTTTTACC
Statistics
Matches: 255, Mismatches: 39, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 72 0.28
81 183 0.72
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (81 bp):
ACCGAAATACCCTCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACC
CCCATAGGGTAAAATG
Found at i:43305341 original size:36 final size:36
Alignment explanation
Indices: 43305294--43305363 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
43305284 ACAATTGGCT
43305294 AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAACC
1 AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAACC
* * *
43305330 AATTCGGGTCTCAAAAATGAGTAAAATGAGGCAA
1 AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAA
43305364 TTTTCACTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.19
Consensus pattern (36 bp):
AATTCAGGTCTCAAAAACGAGTAAAATAAGGCAACC
Found at i:43307091 original size:11 final size:13
Alignment explanation
Indices: 43307074--43307105 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
43307064 TAGCTTACAT
43307074 TATAAAAA-TAAA
1 TATAAAAATTAAA
43307086 -ATAAAAATTAAA
1 TATAAAAATTAAA
43307098 TATAAAAA
1 TATAAAAA
43307106 ACATTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.39
12 4 0.22
13 7 0.39
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
TATAAAAATTAAA
Found at i:43314001 original size:17 final size:17
Alignment explanation
Indices: 43313967--43314004 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
43313957 TTTTAGACTC
*
43313967 AATTATCAATTAAATAA
1 AATTATCAAATAAATAA
*
43313984 AATT-TCAAATAAATTA
1 AATTATCAAATAAATAA
43314000 AATTA
1 AATTA
43314005 ATCTTAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTATCAAATAAATAA
Found at i:43316212 original size:22 final size:23
Alignment explanation
Indices: 43316170--43316212 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
43316160 TATTTTCACG
*
43316170 TTTATATATTTGATAAAAGAACT
1 TTTATATATTTGAAAAAAGAACT
*
43316193 TTTATAT-TTTTAAAAAAGAA
1 TTTATATATTTGAAAAAAGAA
43316213 AGCCACTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (23 bp):
TTTATATATTTGAAAAAAGAACT
Found at i:43316498 original size:57 final size:57
Alignment explanation
Indices: 43316408--43316520 Score: 199
Period size: 57 Copynumber: 2.0 Consensus size: 57
43316398 AAAACAAACT
**
43316408 CTCAAAAATAATTAATTACTTAAATGGCCTATTTTTTGATAAAATATGAAATTAACA
1 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTTGATAAAATATGAAATTAACA
*
43316465 CTCAAAAATAATTAATTACTTAAATAACTTATTTTTTGATAAAATATGAAATTAAC
1 CTCAAAAATAATTAATTACTTAAATAACCTATTTTTTGATAAAATATGAAATTAAC
43316521 CTAACATCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (57 bp):
CTCAAAAATAATTAATTACTTAAATAACCTATTTTTTGATAAAATATGAAATTAACA
Found at i:43316975 original size:31 final size:32
Alignment explanation
Indices: 43316937--43317014 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 32
43316927 TCTAATGTAT
*
43316937 ATTTTAAATGTTTT-ATAA-TATTATTTTTTAA
1 ATTTTAAATATTTTGA-AATTATTATTTTTTAA
43316968 ATTTTAAATATATTTGAAATTATTATTTTTTAA
1 ATTTTAAATAT-TTTGAAATTATTATTTTTTAA
*
43317001 AATTTAAATATTTT
1 ATTTTAAATATTTT
43317015 TTAAAATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 10 0.24
32 8 0.19
33 24 0.57
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (32 bp):
ATTTTAAATATTTTGAAATTATTATTTTTTAA
Found at i:43317014 original size:18 final size:18
Alignment explanation
Indices: 43316958--43317029 Score: 87
Period size: 18 Copynumber: 4.2 Consensus size: 18
43316948 TTTATAATAT
*
43316958 TATTTTTTAAATTTTAAA
1 TATTTTTTAAAATTTAAA
* * *
43316976 TA-TATTTGAAA-TT-AT
1 TATTTTTTAAAATTTAAA
43316991 TATTTTTTAAAATTTAAA
1 TATTTTTTAAAATTTAAA
43317009 TATTTTTTAAAATTTAAA
1 TATTTTTTAAAATTTAAA
43317027 TAT
1 TAT
43317030 AATTTTTTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 3 0.07
16 9 0.20
17 8 0.18
18 24 0.55
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (18 bp):
TATTTTTTAAAATTTAAA
Found at i:43317135 original size:22 final size:21
Alignment explanation
Indices: 43317099--43317199 Score: 87
Period size: 23 Copynumber: 4.5 Consensus size: 21
43317089 ATTTATTATT
*
43317099 TATTTTATAATATTTTAAATGTA
1 TATTTTA-AAAATTTTAAAT-TA
43317122 TATTTTAAAAATTTTAAAAATTA
1 TATTTTAAAAATTTT--AAATTA
*
43317145 TTTTTTAAAAATTTTAAAAATTA
1 TATTTTAAAAATTTT--AAATTA
*
43317168 T-TTTTTAAAATTTTGAATATTA
1 TATTTTAAAAATTTT-AA-ATTA
*
43317190 TTTTTTAAAA
1 TATTTTAAAA
43317200 TTATTATTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.03
22 24 0.35
23 39 0.57
24 4 0.06
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTAAAAATTTTAAATTA
Found at i:43317150 original size:23 final size:23
Alignment explanation
Indices: 43317115--43317199 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
43317105 ATAATATTTT
*
43317115 AAATGTATATTTTAAAAATTTTAA
1 AAAT-TATTTTTTAAAAATTTTAA
43317139 AAATTATTTTTTAAAAATTTTAA
1 AAATTATTTTTTAAAAATTTTAA
*
43317162 AAATTATTTTTT-AAAATTTTGA
1 AAATTATTTTTTAAAAATTTTAA
*
43317184 ATATTATTTTTTAAAA
1 AAATTATTTTTTAAAA
43317200 TTATTATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
22 20 0.35
23 33 0.58
24 4 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AAATTATTTTTTAAAAATTTTAA
Found at i:43317200 original size:22 final size:22
Alignment explanation
Indices: 43317098--43317201 Score: 122
Period size: 22 Copynumber: 4.7 Consensus size: 22
43317088 AATTTATTAT
* *
43317098 TTATTTTATAATATTTT--AAA
1 TTATTTTTTAAAATTTTAAAAA
*
43317118 TGTATATTTTAAAAATTTTAAAAA
1 T-TAT-TTTTTAAAATTTTAAAAA
43317142 TTATTTTTTAAAAATTTTAAAAA
1 TTATTTTTT-AAAATTTTAAAAA
* *
43317165 TTATTTTTTAAAATTTTGAATA
1 TTATTTTTTAAAATTTTAAAAA
43317187 TTATTTTTTAAAATT
1 TTATTTTTTAAAATT
43317202 ATTATTTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
20 1 0.01
21 3 0.04
22 40 0.55
23 25 0.34
24 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTATTTTTTAAAATTTTAAAAA
Found at i:43317206 original size:16 final size:16
Alignment explanation
Indices: 43317185--43317220 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
43317175 AAATTTTGAA
43317185 TATTATTTTTTAAAAT
1 TATTATTTTTTAAAAT
43317201 TATTATTTTTTAAAAT
1 TATTATTTTTTAAAAT
43317217 TATT
1 TATT
43317221 TTAAAGATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATTTTTTAAAAT
Found at i:43317295 original size:11 final size:10
Alignment explanation
Indices: 43317279--43317324 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 10
43317269 TAATACTTTA
43317279 TTTATTTGTCT
1 TTTATTTGT-T
43317290 TTTATTTGTT
1 TTTATTTGTT
43317300 TATTATTTGTT
1 T-TTATTTGTT
43317311 TATTAATTTGTT
1 T-TT-ATTTGTT
43317323 TT
1 TT
43317325 ACAATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 2 0.06
11 23 0.70
12 8 0.24
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (10 bp):
TTTATTTGTT
Found at i:43317603 original size:18 final size:19
Alignment explanation
Indices: 43317580--43317623 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
43317570 AATGAAAAAA
43317580 TAAAAAAT-ATTTATTTAT
1 TAAAAAATGATTTATTTAT
*
43317598 TAAAAAATGATTTATTTGT
1 TAAAAAATGATTTATTTAT
43317617 TAAAAAA
1 TAAAAAA
43317624 CTACGACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
TAAAAAATGATTTATTTAT
Found at i:43321817 original size:14 final size:14
Alignment explanation
Indices: 43321798--43321834 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
43321788 CAGTAAGTTA
43321798 TTTATAGTTTGTAT
1 TTTATAGTTTGTAT
43321812 TTTATAGTTTGTAT
1 TTTATAGTTTGTAT
43321826 TTTATAGTT
1 TTTATAGTT
43321835 ATTGTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.65
Consensus pattern (14 bp):
TTTATAGTTTGTAT
Found at i:43325384 original size:145 final size:145
Alignment explanation
Indices: 43325121--43325390 Score: 459
Period size: 145 Copynumber: 1.9 Consensus size: 145
43325111 AACCAACATC
43325121 ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
1 ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
*
43325186 GAAATTTTGAACTCTCCTACTAAACACAACAACTTCATCATTCTATATATGCTAGAGAACTAAGA
66 GAAATTTTGAACTCTCCTACTAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAGA
43325251 GGTGGAGCCATTCTT
131 GGTGGAGCCATTCTT
* ** * *
43325266 ACCTTCTACAATTTCACCATAAAAAAGAATATACACCAAAAGTACCTTGTTATTTATCTTCAACA
1 ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
* * *
43325331 GAATTTTTGAACTCTCTTACTAAACACAACAACTTCCCCATTCTATATATGCTAGAGAAC
66 GAAATTTTGAACTCTCCTACTAAACACAACAACTTCACCATTCTATATATGCTAGAGAAC
43325391 AATGGCTCCA
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
145 116 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (145 bp):
ACCTTCTACAATTTCACCATAAAAAAGAATATACACAAAAAAAACCTTATTATTCATCTTCAACA
GAAATTTTGAACTCTCCTACTAAACACAACAACTTCACCATTCTATATATGCTAGAGAACTAAGA
GGTGGAGCCATTCTT
Found at i:43325610 original size:21 final size:22
Alignment explanation
Indices: 43325569--43325647 Score: 85
Period size: 21 Copynumber: 3.7 Consensus size: 22
43325559 TAAAAATAAT
43325569 AATTTT-AAA-AAATATTT-AA
1 AATTTTAAAACAAATATTTAAA
43325588 AATTTTAAAA-AAATATTTAAA
1 AATTTTAAAACAAATATTTAAA
* * *
43325609 AATTTTAAAATATACATTTAAA
1 AATTTTAAAACAAATATTTAAA
*
43325631 ATATTATAAAACAAATA
1 A-ATTTTAAAACAAATA
43325648 ATAAATTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.12
20 11 0.22
21 12 0.24
22 10 0.20
23 11 0.22
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTTAAAACAAATATTTAAA
Found at i:43325762 original size:17 final size:18
Alignment explanation
Indices: 43325728--43325767 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
43325718 TAAAATTTTA
*
43325728 AAAATAATATTTAAATTT
1 AAAATAATATATAAATTT
*
43325746 AAAA-AATATATATATTT
1 AAAATAATATATAAATTT
43325763 AAAAT
1 AAAAT
43325768 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATATATAAATTT
Found at i:43325795 original size:24 final size:21
Alignment explanation
Indices: 43325694--43325798 Score: 104
Period size: 21 Copynumber: 4.7 Consensus size: 21
43325684 TTTTAAATGT
* *
43325694 TTTATAATATTAAAAAATTATA
1 TTTAAAAT-TTAAAAAATAATA
*
43325716 TTTAAAATTTTAAAAATAATA
1 TTTAAAATTTAAAAAATAATA
43325737 TTT-AAATTTAAAAAATATATATA
1 TTTAAAATTT-AAAAA-ATA-ATA
43325760 TTTAAAATTTTAAAAAATAATA
1 TTTAAAA-TTTAAAAAATAATA
43325782 TTATAGAACATTTAAAA
1 TT-TA-AA-ATTTAAAA
43325799 TATACATTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
20 6 0.08
21 18 0.25
22 15 0.21
23 11 0.15
24 17 0.24
25 4 0.06
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (21 bp):
TTTAAAATTTAAAAAATAATA
Found at i:43325847 original size:13 final size:13
Alignment explanation
Indices: 43325815--43325852 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
43325805 TTAAAATATT
*
43325815 ATAAAACCAAT-A
1 ATAAAACAAATAA
43325827 AT-AAACAAATAA
1 ATAAAACAAATAA
43325839 ATAAAACAAATAA
1 ATAAAACAAATAA
43325852 A
1 A
43325853 GGACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 7 0.30
12 5 0.22
13 11 0.48
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAACAAATAA
Found at i:43336126 original size:47 final size:47
Alignment explanation
Indices: 43336074--43336167 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
43336064 TTGTCTAAAA
43336074 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
1 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
43336121 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
1 AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
43336168 TTGTATATAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (47 bp):
AGATTTTAAATACTAAATAAATTATAAATTATTAAGTTCAAATAGCT
Found at i:43336390 original size:16 final size:16
Alignment explanation
Indices: 43336369--43336399 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43336359 ATATTTTATC
43336369 TATTTTTTAGATTTTT
1 TATTTTTTAGATTTTT
*
43336385 TATTTTTTTGATTTT
1 TATTTTTTAGATTTT
43336400 CTTACAATTG
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:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TATTTTTTAGATTTTT
Found at i:43338008 original size:21 final size:21
Alignment explanation
Indices: 43337943--43338013 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
43337933 AATCAAGCTT
*
43337943 AATATTATTATATTGATAATAA
1 AATATTATTATATTAAT-ATAA
* *
43337965 AAT-TTATTTTTATTATTA-AA
1 AATATTA-TTATATTAATATAA
*
43337985 AATATTAATATATTAATATAA
1 AATATTATTATATTAATATAA
43338006 AATATTAT
1 AATATTAT
43338014 ATTTTTTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 13 0.33
21 16 0.41
22 10 0.26
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (21 bp):
AATATTATTATATTAATATAA
Found at i:43338022 original size:22 final size:22
Alignment explanation
Indices: 43337961--43338025 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 22
43337951 TATATTGATA
*
43337961 ATAAAAT-TTAT-TTTTATTATT
1 ATAAAATATTATATTTT-TTAAT
* *
43337982 A-AAAATATTA-ATATATTAAT
1 ATAAAATATTATATTTTTTAAT
43338002 ATAAAATATTATATTTTTTAAT
1 ATAAAATATTATATTTTTTAAT
43338024 AT
1 AT
43338026 TATTAAACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 10 0.29
21 15 0.43
22 10 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATATTTTTTAAT
Found at i:43338170 original size:16 final size:17
Alignment explanation
Indices: 43338134--43338170 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
43338124 AATTTTATTT
*
43338134 TAATAATAAATTTTAAA
1 TAATAATAAATTTGAAA
43338151 -AATAAT-AATTTGAAA
1 TAATAATAAATTTGAAA
43338166 TAATA
1 TAATA
43338171 TTCTTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTGAAA
Found at i:43338345 original size:29 final size:30
Alignment explanation
Indices: 43338312--43338373 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
43338302 ATGAATTTAC
43338312 AATTTAGT-CTCTTTACTTTT-AT-TTTCAAG
1 AATTTAGTCCT-TTTACTTTTCATATTT-AAG
43338341 AATTTAGTCCTTTTACTTTTCATATTTAAG
1 AATTTAGTCCTTTTACTTTTCATATTTAAG
43338371 AAT
1 AAT
43338374 CAAGTCCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 17 0.57
30 10 0.33
31 3 0.10
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.53
Consensus pattern (30 bp):
AATTTAGTCCTTTTACTTTTCATATTTAAG
Found at i:43338380 original size:30 final size:29
Alignment explanation
Indices: 43338323--43338380 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
43338313 ATTTAGTCTC
**
43338323 TTTACTTTTATTTTCAAGAATTTAGTCCT
1 TTTACTTTTATTTTCAAGAATCAAGTCCT
43338352 TTTACTTTTCATATTT-AAGAATCAAGTCC
1 TTTACTTTT-AT-TTTCAAGAATCAAGTCC
43338381 AATTATTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 13 0.52
31 3 0.12
ACGTcount: A:0.28, C:0.16, G:0.07, T:0.50
Consensus pattern (29 bp):
TTTACTTTTATTTTCAAGAATCAAGTCCT
Found at i:43348781 original size:20 final size:21
Alignment explanation
Indices: 43348756--43348794 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
43348746 ATTCAATCGA
43348756 AGATAATTA-ATTATTTAACT
1 AGATAATTAGATTATTTAACT
*
43348776 AGATAATTAGTTTATTTAA
1 AGATAATTAGATTATTTAA
43348795 TCGATTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.46
Consensus pattern (21 bp):
AGATAATTAGATTATTTAACT
Found at i:43357014 original size:32 final size:32
Alignment explanation
Indices: 43356973--43357038 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
43356963 ATTTTGGGAC
43356973 ATAGAAAAACAAATATCGAGTTGGATCAAACT
1 ATAGAAAAACAAATATCGAGTTGGATCAAACT
43357005 ATAGAAAAACAAATATCGAGTTGGATCAAACT
1 ATAGAAAAACAAATATCGAGTTGGATCAAACT
43357037 AT
1 AT
43357039 TAATGTTCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (32 bp):
ATAGAAAAACAAATATCGAGTTGGATCAAACT
Found at i:43363236 original size:29 final size:29
Alignment explanation
Indices: 43363176--43363250 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 29
43363166 TTTGTGAATT
*
43363176 ATTTTTATTTTATATAA--AAATTTACTT
1 ATTTTTATTTTATATAATTAAATTTACTA
*
43363203 ATTTTTATTTTATATAATTGATATTTA-TA
1 ATTTTTATTTTATATAATT-AAATTTACTA
* * *
43363232 ATTTTAAATTTATAAAATT
1 ATTTTTATTTTATATAATT
43363251 TGTGATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 17 0.43
29 17 0.43
30 6 0.15
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
ATTTTTATTTTATATAATTAAATTTACTA
Found at i:43363344 original size:24 final size:25
Alignment explanation
Indices: 43363299--43363359 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
43363289 TTTAGAGAAT
* *
43363299 TTTTATATTCTTTTTAAATTTATATA
1 TTTTATA-TATTTTTAAATTTAGATA
*
43363325 TTTTATATATTTTT-ATTTTAGATA
1 TTTTATATATTTTTAAATTTAGATA
*
43363349 ATTTATATATT
1 TTTTATATATT
43363360 ATAAAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 18 0.58
25 6 0.19
26 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTATATATTTTTAAATTTAGATA
Found at i:43363414 original size:20 final size:20
Alignment explanation
Indices: 43363391--43363432 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43363381 AATATAATAA
43363391 TTTTTATAATTATATATCTT
1 TTTTTATAATTATATATCTT
* * *
43363411 TTTTTTTAATTTTATATGTT
1 TTTTTATAATTATATATCTT
43363431 TT
1 TT
43363433 AAATTTTAAT
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:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTTATAATTATATATCTT
Found at i:43363434 original size:15 final size:15
Alignment explanation
Indices: 43363413--43363451 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
43363403 TATATCTTTT
43363413 TTTTTAATTTT-ATA
1 TTTTTAATTTTAATA
43363427 TGTTTTAAATTTTAATA
1 T-TTTT-AATTTTAATA
43363444 TTTTTAAT
1 TTTTTAAT
43363452 AAATGACATG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 7 0.32
16 10 0.45
17 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
TTTTTAATTTTAATA
Found at i:43369210 original size:19 final size:19
Alignment explanation
Indices: 43369164--43369211 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
43369154 TTTTATTTAT
* *
43369164 TTTATAAAATTTTATGTAC
1 TTTATAAAATTTTAGGAAC
43369183 TTCTATAAAATTTT-GGAATC
1 TT-TATAAAATTTTAGGAA-C
43369203 TTTATAAAA
1 TTTATAAAA
43369212 ATATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (19 bp):
TTTATAAAATTTTAGGAAC
Found at i:43369517 original size:30 final size:30
Alignment explanation
Indices: 43369481--43369568 Score: 108
Period size: 29 Copynumber: 3.0 Consensus size: 30
43369471 TTAGAATAAT
43369481 GACTAAATTGATAGAATGTGTAAATATTGG
1 GACTAAATTGATAGAATGTGTAAATATTGG
* * * * *
43369511 GCCTAAATTTGTTAAAAT-TTTAAA-ATTAG
1 GACTAAA-TTGATAGAATGTGTAAATATTGG
43369540 GACTAAATTGATAGAATGTGTAAATATTG
1 GACTAAATTGATAGAATGTGTAAATATTG
43369569 AAAAACTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
28 8 0.18
29 15 0.33
30 14 0.31
31 8 0.18
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (30 bp):
GACTAAATTGATAGAATGTGTAAATATTGG
Found at i:43374223 original size:68 final size:68
Alignment explanation
Indices: 43373977--43374227 Score: 277
Period size: 68 Copynumber: 3.7 Consensus size: 68
43373967 AGTACGTCAA
* * * * **
43373977 GACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTCCGT
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
43374042 TAG
66 TAG
*** * ** ***
43374045 GACATTAAACATCAATTCATAATATGTAAGACCATAGCTCATCTATGACAACATAAAAAGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
* *
43374110 CAA
66 TAG
* * *
43374113 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTTGGCTATGACAACATATGGTGTCCAC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
43374178 TAG
66 TAG
* * * * *
43374181 GACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCTTGGCTATG
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATG
43374228 CCAGTATGTG
Statistics
Matches: 148, Mismatches: 35, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
68 148 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (68 bp):
GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTCGGCTATGACAACATATGGAGTCCAC
TAG
Found at i:43374243 original size:136 final size:136
Alignment explanation
Indices: 43373974--43374219 Score: 332
Period size: 136 Copynumber: 1.8 Consensus size: 136
43373964 AGAAGTACGT
* *
43373974 CAAGACATTAAACATGGGTTCATAATGTGTACGACCATATCTCGACTATGGCAACATATGGAGTC
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
** * * *
43374039 CGTTAGGACATTAAACATCAATTCATAATATGTAAGACCATAGCTCATCTATGACAACATAAAAA
66 CACTAGGACATTAAACAGCAATTCATAATATGTAAGACCACAGCTCAGCTATGACAACATAAAAA
43374104 GTCCAC
131 GTCCAC
* * *
43374110 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATAGT-TTGGCTATGACAACATATGGTGT
1 CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATA-TCTCGACTATGACAACATATGGAGT
* *** * *
43374174 CCACTAGGACATTAAATAGGGGTTCATATTGTGTAAGACCACAGCT
65 CCACTAGGACATTAAACAGCAATTCATAATATGTAAGACCACAGCT
43374220 TGGCTATGCC
Statistics
Matches: 94, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
136 93 0.99
137 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (136 bp):
CAAGACATTAAACATGGGTTCATAATGTGTAAGACCATATCTCGACTATGACAACATATGGAGTC
CACTAGGACATTAAACAGCAATTCATAATATGTAAGACCACAGCTCAGCTATGACAACATAAAAA
GTCCAC
Found at i:43382370 original size:68 final size:68
Alignment explanation
Indices: 43382279--43382447 Score: 214
Period size: 68 Copynumber: 2.5 Consensus size: 68
43382269 TAAATCTGAA
* **
43382279 TTCATAATGTGTAAGACCATAGCTCGACTAT-TACAACATATAGAGTCCGTCAGGACATTAAACA
1 TTCATAATGTGTAAGACCATAGCTCGACTATGGA-AACATATAGAGTCCACCAGGACATTAAACA
*
43382343 TGGG
65 TGGC
** * ** *
43382347 TTGTTAATATGTAAGACCATAGCTCGGTTATGGAAACATATGGAGTCCACCAGGACATTAAACAT
1 TTCATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCACCAGGACATTAAACAT
43382412 GGC
66 GGC
* *
43382415 TTCATATTGTGTAAGACCATAGCTCGATTATGG
1 TTCATAATGTGTAAGACCATAGCTCGACTATGG
43382448 TAGCATGTGA
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
68 84 0.99
69 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (68 bp):
TTCATAATGTGTAAGACCATAGCTCGACTATGGAAACATATAGAGTCCACCAGGACATTAAACAT
GGC
Found at i:43385639 original size:42 final size:43
Alignment explanation
Indices: 43385530--43385643 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 43
43385520 AAAGTCCGTA
43385530 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATAT
* ** **
43385573 CAAT--TATATGTCCCAGACAAGGTCTTACATG-AATCACA-AGT
1 CAATGCCA-ACATCCCAGACGTGGTCTTACATGTAATCACATA-T
* *
43385614 CGATGCCAACATCCCAGATGTGGTCTTACA
1 CAATGCCAACATCCCAGACGTGGTCTTACA
43385644 CAAAAACACA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
40 1 0.02
41 12 0.22
42 37 0.67
43 5 0.09
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATAT
Found at i:43386410 original size:10 final size:10
Alignment explanation
Indices: 43386395--43386420 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43386385 CAAAAACATA
43386395 AAAATCGAAC
1 AAAATCGAAC
43386405 AAAATCGAAC
1 AAAATCGAAC
43386415 AAAATC
1 AAAATC
43386421 CATACCTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAATCGAAC
Found at i:43388301 original size:19 final size:19
Alignment explanation
Indices: 43388259--43388304 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
43388249 TTTTATTTAG
*
43388259 GTTTAAATGAAAATTTGAC
1 GTTTAAATGAAAATTTAAC
43388278 GTTTAAATGAAAATTTAATC
1 GTTTAAATGAAAATTTAA-C
43388298 -TTTAAAT
1 GTTTAAAT
43388305 TATAGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 24 0.96
20 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.41
Consensus pattern (19 bp):
GTTTAAATGAAAATTTAAC
Done.