Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 131 of 444
Found at i:34376368 original size:17 final size:17
Alignment explanation
Indices: 34376346--34376391 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
34376336 ACATCTTTAT
*
34376346 TTTTTCTCTTTTTCATC
1 TTTTTCTCTTCTTCATC
34376363 TTTTTCTCTTCTTC-T-
1 TTTTTCTCTTCTTCATC
*
34376378 TTTTTTTCTTCTTC
1 TTTTTCTCTTCTTC
34376392 TACTACTCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 13 0.48
16 1 0.04
17 13 0.48
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTCTCTTCTTCATC
Found at i:34376519 original size:30 final size:30
Alignment explanation
Indices: 34376483--34376545 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
34376473 AAAATAATTA
* *
34376483 TTAGTGACTGATTTGGT-ATTTTTTTTAAAT
1 TTAGTGACTGAGTT-ATAATTTTTTTTAAAT
*
34376513 TTAGTGATTGAGTTATAATTTTTTTTAAAT
1 TTAGTGACTGAGTTATAATTTTTTTTAAAT
34376543 TTA
1 TTA
34376546 ATAGTTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (30 bp):
TTAGTGACTGAGTTATAATTTTTTTTAAAT
Found at i:34376564 original size:30 final size:30
Alignment explanation
Indices: 34376491--34376564 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 30
34376481 TATTAGTGAC
* *
34376491 TGATTTGGTATTTTTTTTAAATTTAGTGAT
1 TGATTTGTTATTTTTTTTAAATTTAATGAT
* * *
34376521 TGAGTTATAATTTTTTTTAAATTTAAT-AGT
1 TGATTTGTTATTTTTTTTAAATTTAATGA-T
*
34376551 TGTTTTGTTATTTT
1 TGATTTGTTATTTT
34376565 AATTAAAGTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (30 bp):
TGATTTGTTATTTTTTTTAAATTTAATGAT
Found at i:34385414 original size:40 final size:39
Alignment explanation
Indices: 34385370--34385495 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
34385360 GGGACTCAAC
*
34385370 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
34385410 CCGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
34385450 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
34385490 CCGGAT
1 CCGGAT
34385496 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:34385454 original size:80 final size:80
Alignment explanation
Indices: 34385309--34385495 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
34385299 GCTACACATT
* * *
34385309 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTCAACCCG
*
34385373 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
34385389 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTCAACCC
34385452 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
34385470 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
34385496 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:34392276 original size:93 final size:93
Alignment explanation
Indices: 34392164--34392335 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
34392154 GCCCATAAGT
* *
34392164 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34392229 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
34392257 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34392322 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
34392336 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34392331 original size:46 final size:46
Alignment explanation
Indices: 34392156--34392331 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
34392146 TGTAACCCGC
* * *
34392156 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
34392202 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
34392252 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
34392295 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34392332 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:34394754 original size:30 final size:30
Alignment explanation
Indices: 34394710--34394798 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
34394700 CAAAGATAAC
34394710 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
34394739 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
34394769 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
34394799 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:34394758 original size:15 final size:15
Alignment explanation
Indices: 34394710--34394789 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
34394700 CAAAGATAAC
*
34394710 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
34394724 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
34394739 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
34394754 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
34394769 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
34394784 AAGAAA
1 AAGAAA
34394790 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:34394798 original size:15 final size:15
Alignment explanation
Indices: 34394721--34394798 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
34394711 AGAAAACCGA
34394721 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
34394736 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
34394750 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
34394765 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
34394781 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
34394796 ATA
1 ATA
34394799 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:34397795 original size:46 final size:46
Alignment explanation
Indices: 34397728--34397901 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
34397718 TGTAACCCGC
*
34397728 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
34397774 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
34397824 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
34397866 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
34397902 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
45 26 0.24
46 37 0.34
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:34397894 original size:92 final size:93
Alignment explanation
Indices: 34397736--34397906 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
34397726 GCCCATAAGT
* *
34397736 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34397801 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
34397829 GAACTCGGACTCAACTCAACGAGTTC-GACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
34397893 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
34397907 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 50 0.67
93 25 0.33
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34401637 original size:40 final size:40
Alignment explanation
Indices: 34401592--34401759 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34401582 CGGAATATAA
34401592 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * ** *
34401632 CCGGATAGAATAACTCCCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
34401672 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
34401712 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
34401752 CCGGATAT
1 CCGGATAT
34401760 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34414657 original size:40 final size:40
Alignment explanation
Indices: 34414598--34414739 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
34414588 AAATTGAATG
* * *
34414598 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
34414638 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
34414678 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
34414718 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
34414740 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:34414740 original size:40 final size:39
Alignment explanation
Indices: 34414637--34414765 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
34414627 TGCTGGAAAT
* * *
34414637 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
34414677 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
34414717 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
34414757 TATATCCGG
1 TATATCCGG
34414766 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:34417728 original size:40 final size:40
Alignment explanation
Indices: 34417665--34417885 Score: 302
Period size: 40 Copynumber: 5.5 Consensus size: 40
34417655 CATTTGAATG
*
34417665 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * *
34417705 ATATCCGGGTTAAGACCCAAAGGCATTTGTACGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
34417745 ATATCCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
34417785 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGTGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
34417825 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
34417865 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
34417886 AAACTTGGGT
Statistics
Matches: 161, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 148 0.92
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:34423511 original size:29 final size:29
Alignment explanation
Indices: 34423483--34423643 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
34423473 CCTCCGAGCT
** * * *
34423483 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
34423512 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34423541 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34423570 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34423599 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34423628 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34423644 ATCTCGTCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:34423545 original size:87 final size:87
Alignment explanation
Indices: 34423425--34423643 Score: 253
Period size: 87 Copynumber: 2.5 Consensus size: 87
34423415 TACTCGATTT
** * * ** * *
34423425 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATA-CCCTCCGAGCTCGCAC
1 CGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATACCTCC-AGCACGCAC
* * *
34423488 ACCCAGTGCCGTATTTTTCCAGCT
64 ACCCAGTGCCATATATTTCCAGCA
* **
34423512 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAGCACGCACAC
**
34423577 TTAGTGCCATATATTTCCAGCA
66 CCAGTGCCATATATTTCCAGCA
*
34423599 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCA
34423644 ATCTCGTCAC
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
86 4 0.04
87 105 0.94
88 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAGCACGCACAC
CCAGTGCCATATATTTCCAGCA
Found at i:34431613 original size:29 final size:29
Alignment explanation
Indices: 34431572--34431732 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
34431562 CCCTCCGACT
** * * *
34431572 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
34431601 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34431630 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34431659 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34431688 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
34431717 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34431733 ATCTCGTCAC
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:34434238 original size:8 final size:8
Alignment explanation
Indices: 34434227--34434266 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
34434217 TTAAAAATTA
34434227 TTAATAAT
1 TTAATAAT
34434235 TTAATAAAT
1 TTAAT-AAT
*
34434244 TAAATAAT
1 TTAATAAT
*
34434252 TTAAGAAT
1 TTAATAAT
34434260 TTAATAA
1 TTAATAA
34434267 AATTTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (8 bp):
TTAATAAT
Found at i:34434251 original size:17 final size:17
Alignment explanation
Indices: 34434214--34434266 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
34434204 TTTTCACATA
34434214 AATTTAAAAATTATTAAT
1 AATTTAAAAATTA-TAAT
34434232 AATTTAATAAATTA-AAT
1 AATTTAA-AAATTATAAT
*
34434249 AATTTAAGAATT-TAAT
1 AATTTAAAAATTATAAT
34434265 AA
1 AA
34434267 AATTTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.28
17 10 0.31
18 7 0.22
19 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTAAAAATTATAAT
Found at i:34434277 original size:17 final size:18
Alignment explanation
Indices: 34434213--34434273 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
34434203 ATTTTCACAT
*
34434213 AAATTTAA-AAATTATTA
1 AAATTTAAGAAATTAATA
*
34434230 ATAATTTAATAAATTAA-A
1 A-AATTTAAGAAATTAATA
* *
34434248 TAATTTAAGAATTTAATA
1 AAATTTAAGAAATTAATA
34434266 AAATTTAA
1 AAATTTAA
34434274 AATTGAAGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 14 0.39
18 16 0.44
19 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAATTTAAGAAATTAATA
Found at i:34434277 original size:25 final size:24
Alignment explanation
Indices: 34434211--34434282 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
34434201 TTATTTTCAC
*
34434211 ATAAATTTAAAAATTATTAATAATTTA
1 ATAAATTT-AAAA-T-TTAAGAATTTA
*
34434238 ATAAATTAAATAATTTAAGAATTTA
1 ATAAATTTAA-AATTTAAGAATTTA
*
34434263 ATAAAATTTAAAATTGAAGA
1 AT-AAATTTAAAATTTAAGA
34434283 GGTCTCACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 20 0.51
26 10 0.26
27 9 0.23
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
ATAAATTTAAAATTTAAGAATTTA
Found at i:34443608 original size:59 final size:59
Alignment explanation
Indices: 34443520--34443637 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
34443510 GAAAGACTAT
*
34443520 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCAC-ACTCGTGAACCCACACATTGGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAAC-CGTAAACCCACACATTGGAGATAG
*
34443579 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTAAACCTACACATTGGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTAAACCCACACATTGGAGATAG
34443638 CAATAGCAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
59 54 0.96
60 2 0.04
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (59 bp):
TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTAAACCCACACATTGGAGATAG
Found at i:34450250 original size:28 final size:28
Alignment explanation
Indices: 34450218--34450332 Score: 88
Period size: 28 Copynumber: 3.9 Consensus size: 28
34450208 CAGTGCAGTT
*
34450218 TGGGCCTTAGCCCTATATAGTGATAGTG
1 TGGGCCTAAGCCCTATATAGTGATAGTG
* * * *
34450246 TGGGCCTAAGTCGTATTCGGTAATAGCG-TAGTT
1 TGGGCCTAAGCCCTA-----T-ATAGTGATAGTG
*
34450279 TGGGCCTTAGCCCTATATAGTGATAGTG
1 TGGGCCTAAGCCCTATATAGTGATAGTG
* * *
34450307 TGGTCCTAAGCCCTAAATAGTAATAG
1 TGGGCCTAAGCCCTATATAGTGATAG
34450333 CACATGCAGG
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
27 5 0.08
28 39 0.59
33 17 0.26
34 5 0.08
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (28 bp):
TGGGCCTAAGCCCTATATAGTGATAGTG
Found at i:34450280 original size:61 final size:61
Alignment explanation
Indices: 34450185--34450318 Score: 223
Period size: 61 Copynumber: 2.2 Consensus size: 61
34450175 AGTAACGGAC
*
34450185 TGGGCCTAAGCCGTATTCGGTAACAGTGCAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
1 TGGGCCTAAGCCGTATTCGGTAACAGCGCAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
* * *
34450246 TGGGCCTAAGTCGTATTCGGTAATAGCGTAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
1 TGGGCCTAAGCCGTATTCGGTAACAGCGCAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
*
34450307 TGGTCCTAAGCC
1 TGGGCCTAAGCC
34450319 CTAAATAGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (61 bp):
TGGGCCTAAGCCGTATTCGGTAACAGCGCAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
Found at i:34450330 original size:61 final size:61
Alignment explanation
Indices: 34450185--34450333 Score: 183
Period size: 61 Copynumber: 2.4 Consensus size: 61
34450175 AGTAACGGAC
* * * * * *
34450185 TGGGCCTAAGCCGTATTCGGTAACAGTGCAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
1 TGGGCCTAAGCCCTAATCAGTAATAGCGTAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
* * * *
34450246 TGGGCCTAAGTCGTATTCGGTAATAGCGTAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
1 TGGGCCTAAGCCCTAATCAGTAATAGCGTAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
*
34450307 TGGTCCTAAGCCCTAAAT-AGTAATAGC
1 TGGGCCTAAGCCCT-AATCAGTAATAGC
34450334 ACATGCAGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
61 76 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (61 bp):
TGGGCCTAAGCCCTAATCAGTAATAGCGTAGTTTGGGCCTTAGCCCTATATAGTGATAGTG
Found at i:34450526 original size:27 final size:27
Alignment explanation
Indices: 34450496--34450557 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
34450486 AATGTGGTGT
* * *
34450496 AGCCACTAATATTAG-AATACATGGCAA
1 AGCCACTAA-AATAGTAAAACATGGAAA
*
34450523 AGCCACCAAAATAGTAAAACATGGAAA
1 AGCCACTAAAATAGTAAAACATGGAAA
34450550 AGCCACTA
1 AGCCACTA
34450558 GTACAGTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.48, C:0.21, G:0.15, T:0.16
Consensus pattern (27 bp):
AGCCACTAAAATAGTAAAACATGGAAA
Found at i:34459483 original size:29 final size:29
Alignment explanation
Indices: 34459441--34459572 Score: 228
Period size: 29 Copynumber: 4.5 Consensus size: 29
34459431 AAAATTGTAC
*
34459441 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
34459470 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
*
34459499 AGCATTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
*
34459529 GGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
34459558 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34459573 GATTCACTAT
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 70 0.72
30 27 0.28
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:34459538 original size:59 final size:58
Alignment explanation
Indices: 34459409--34459572 Score: 229
Period size: 59 Copynumber: 2.8 Consensus size: 58
34459399 GTGACAAGAT
* * * * *
34459409 TGGCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATA
1 TGGCACTAAGTGTGCGAG-CTGAAAA-TATATAGCACTAAGTGTGCGAACTGAAAATATA
* * *
34459469 TAGCACTAAGTGTGCGAGCTGAAAATATATAGCATTAAGTGTGCGAGCTGAAAATTATA
1 TGGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAACTGAAAA-TATA
34459528 TGGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
34459573 GATTCACTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
58 25 0.27
59 52 0.56
60 16 0.17
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAACTGAAAATATA
Found at i:34464500 original size:6 final size:6
Alignment explanation
Indices: 34464489--34464520 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
34464479 TCTATACCTG
*
34464489 ACTGTT ACTGTT ACTGTT ACTATT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
34464521 CCTTACGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:34472767 original size:27 final size:27
Alignment explanation
Indices: 34472663--34472769 Score: 101
Period size: 28 Copynumber: 3.9 Consensus size: 27
34472653 GCTGCCATAA
* *
34472663 CAGATAA-TGTGACAGAGTCACCAGAT
1 CAGATAATTGTGGCAGAGCCACCAGAT
* ** * *
34472689 ACATATAATCATGGCAGAACCACCAGAA
1 -CAGATAATTGTGGCAGAGCCACCAGAT
34472717 CAGAT-ATATGTGGGCAGAGCCACCAGAT
1 CAGATAAT-TGT-GGCAGAGCCACCAGAT
*
34472745 CAGATAATTGTGGCATAGCCACCAG
1 CAGATAATTGTGGCAGAGCCACCAG
34472770 GACGCTTCCT
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 2 0.03
27 24 0.38
28 35 0.56
29 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (27 bp):
CAGATAATTGTGGCAGAGCCACCAGAT
Found at i:34475386 original size:40 final size:40
Alignment explanation
Indices: 34475341--34475507 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
34475331 CGGAATATAA
34475341 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34475381 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
34475421 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
34475461 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
34475500 CCGGATAT
1 CCGGATAT
34475508 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34483411 original size:40 final size:40
Alignment explanation
Indices: 34483366--34483533 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
34483356 CGGAATATAA
34483366 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
34483406 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
34483446 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
34483486 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
34483526 CCGGATAT
1 CCGGATAT
34483534 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:34485466 original size:24 final size:24
Alignment explanation
Indices: 34485439--34485509 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
34485429 CTAGATTTCC
**
34485439 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34485463 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
34485487 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
34485510 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:34487521 original size:46 final size:46
Alignment explanation
Indices: 34487454--34487582 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
34487444 TGTAACCCGC
* * *
34487454 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34487500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34487546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34487583 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34494149 original size:12 final size:12
Alignment explanation
Indices: 34494132--34494157 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34494122 GACTTTTAAG
34494132 TTTATTTGGGTT
1 TTTATTTGGGTT
34494144 TTTATTTGGGTT
1 TTTATTTGGGTT
34494156 TT
1 TT
34494158 CTAGTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.23, T:0.69
Consensus pattern (12 bp):
TTTATTTGGGTT
Found at i:34514193 original size:18 final size:19
Alignment explanation
Indices: 34514166--34514205 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
34514156 TCTGTAGACT
* *
34514166 TTTGGGTTTT-ATTTTGGA
1 TTTGGATTTTAATTTGGGA
34514184 TTTGGATTTTAATTTGGGA
1 TTTGGATTTTAATTTGGGA
34514203 TTT
1 TTT
34514206 CTAGCATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (19 bp):
TTTGGATTTTAATTTGGGA
Found at i:34521496 original size:48 final size:48
Alignment explanation
Indices: 34521404--34521786 Score: 435
Period size: 48 Copynumber: 8.0 Consensus size: 48
34521394 ATGAATCCAC
* * ** * *
34521404 ATATCATTACCGATGCCATGT-TTAGACATGGTCTTACACTGGCACAC
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** * * *
34521451 ATATCATCGTTGATGCCATGTCCCAAACATGGTCTTACACTGGCACAC
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * * *
34521499 ATATCATCACCGATGCCATGTCCCAAACAAGGTCTTACACTGGCACAT
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * *
34521547 ATATCGTCGCTGATGCCATGTCCCAGACATGGTCTTACATAGGCACAT
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * * * *
34521595 ATATTATTACCGATGCCATGTCCCAGATATTGTCTTACACAGGCACAT
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * * * *
34521643 ATATTATTACCGATGCCATGTCCCAGATATTGTCTTACACAGGCACAT
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
** * * *
34521691 ATATCATTGCTCATGCCATGTCTCAGACATGGTCTTACAAAGGCACAT
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * *
34521739 AAATCATCATTGATGACATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
34521787 TTAGCACGGT
Statistics
Matches: 292, Mismatches: 43, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
47 17 0.06
48 275 0.94
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (48 bp):
ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:34521786 original size:144 final size:144
Alignment explanation
Indices: 34521416--34521786 Score: 483
Period size: 144 Copynumber: 2.6 Consensus size: 144
34521406 ATCATTACCG
* ** * * *
34521416 ATGCCATGT-TTAGACATGGTCTTACACTGGCACACATATCATCGTTGATGCCATGTCCCAAACA
1 ATGCCATGTCTCAGACATGGTCTTACAAAGGCACATATATCATCATTGATGCCATGTCCCAGACA
* * *
34521480 TGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACAAGGTCTTACACTGGCAC
66 TGGTCTTACACAGGCACATATATCATCACCGATGCCATGTCCCAAACAAGGTCTTACACAGGCAC
* *
34521545 ATATATCGTCGCTG
131 ATATATCATCGCTC
* * * * ** *
34521559 ATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATTATTACCGATGCCATGTCCCAGATA
1 ATGCCATGTCTCAGACATGGTCTTACAAAGGCACATATATCATCATTGATGCCATGTCCCAGACA
* * * * * **
34521624 TTGTCTTACACAGGCACATATATTATTACCGATGCCATGTCCCAGATATTGTCTTACACAGGCAC
66 TGGTCTTACACAGGCACATATATCATCACCGATGCCATGTCCCAAACAAGGTCTTACACAGGCAC
*
34521689 ATATATCATTGCTC
131 ATATATCATCGCTC
* *
34521703 ATGCCATGTCTCAGACATGGTCTTACAAAGGCACATAAATCATCATTGATGACATGTCCCAGACA
1 ATGCCATGTCTCAGACATGGTCTTACAAAGGCACATATATCATCATTGATGCCATGTCCCAGACA
34521768 TGGTCTTACACAGGCACAT
66 TGGTCTTACACAGGCACAT
34521787 TTAGCACGGT
Statistics
Matches: 192, Mismatches: 35, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
143 9 0.05
144 183 0.95
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (144 bp):
ATGCCATGTCTCAGACATGGTCTTACAAAGGCACATATATCATCATTGATGCCATGTCCCAGACA
TGGTCTTACACAGGCACATATATCATCACCGATGCCATGTCCCAAACAAGGTCTTACACAGGCAC
ATATATCATCGCTC
Found at i:34527932 original size:13 final size:13
Alignment explanation
Indices: 34527914--34527938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34527904 TGTGGGTTCA
34527914 CATGGTCGTGTCG
1 CATGGTCGTGTCG
34527927 CATGGTCGTGTC
1 CATGGTCGTGTC
34527939 TAGCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.24, G:0.36, T:0.32
Consensus pattern (13 bp):
CATGGTCGTGTCG
Found at i:34528135 original size:55 final size:55
Alignment explanation
Indices: 34527998--34528121 Score: 151
Period size: 55 Copynumber: 2.3 Consensus size: 55
34527988 GTTAATTTAA
* * *
34527998 CAAGTTCGACCAC-AGGTGTTCCACACGGGTGTGTCGAACGCCCATGCCGTTTTGG
1 CAAGCTCGACCACGA-GTCTTCCACACGGGTGTGTCGAACACCCATGCCGTTTTGG
* * * * **
34528053 CAGGCTCGACCACGATTCTTCCACACGGGTGTGTCGCACACCCGTGTTGTTTTGG
1 CAAGCTCGACCACGAGTCTTCCACACGGGTGTGTCGAACACCCATGCCGTTTTGG
34528108 CAAGCTCGACCACG
1 CAAGCTCGACCACG
34528122 GTCATATCGC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 57 0.98
56 1 0.02
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.23
Consensus pattern (55 bp):
CAAGCTCGACCACGAGTCTTCCACACGGGTGTGTCGAACACCCATGCCGTTTTGG
Found at i:34532202 original size:13 final size:13
Alignment explanation
Indices: 34532184--34532210 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34532174 GCTCGGCAGG
34532184 GACACGCCCGTGT
1 GACACGCCCGTGT
34532197 GACACGCCCGTGT
1 GACACGCCCGTGT
34532210 G
1 G
34532211 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:34535857 original size:21 final size:19
Alignment explanation
Indices: 34535829--34535874 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
34535819 TGGGACTAAA
34535829 TCAAAAAC-TTAGAGAATTTT
1 TCAAAAACATT-GA-AATTTT
34535849 TCGAAAAACATTGAAATTTT
1 TC-AAAAACATTGAAATTTT
34535869 TCAAAA
1 TCAAAA
34535875 CTGTAGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 8 0.33
22 2 0.08
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.33
Consensus pattern (19 bp):
TCAAAAACATTGAAATTTT
Found at i:34539229 original size:6 final size:6
Alignment explanation
Indices: 34539215--34539249 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
34539205 GAGGCAATGG
* *
34539215 AATAAA AATAGA AATAAA GATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
34539250 TAGTAAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:34544933 original size:11 final size:11
Alignment explanation
Indices: 34544917--34544955 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
34544907 GTGCTAAGTG
34544917 ATGATTTTAAA
1 ATGATTTTAAA
34544928 ATGATTTTAAA
1 ATGATTTTAAA
* * *
34544939 CTTATTTTAAC
1 ATGATTTTAAA
34544950 ATGATT
1 ATGATT
34544956 AAGAGGTTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (11 bp):
ATGATTTTAAA
Found at i:34545692 original size:17 final size:17
Alignment explanation
Indices: 34545670--34545706 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
34545660 AATGCATGCA
* *
34545670 AGCCTTAATTTTATATG
1 AGCCTTAAATATATATG
34545687 AGCCTTAAATATATATG
1 AGCCTTAAATATATATG
34545704 AGC
1 AGC
34545707 ACTATATCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (17 bp):
AGCCTTAAATATATATG
Found at i:34550094 original size:29 final size:28
Alignment explanation
Indices: 34550062--34550164 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
34550052 GTGACGAGAT
* *
34550062 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
** *
34550091 TGGCACTAAGTGTGCGAATTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
34550120 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
34550149 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34550165 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:34557138 original size:29 final size:28
Alignment explanation
Indices: 34557106--34557208 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
34557096 GTGACGAGAT
* *
34557106 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
** *
34557135 TGGCACTAAGTGTGCGAATTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
34557164 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
34557193 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34557209 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.93
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:34568453 original size:15 final size:16
Alignment explanation
Indices: 34568419--34568454 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34568409 TTGGATTAAA
34568419 TTGAATGAAATTATGT
1 TTGAATGAAATTATGT
*
34568435 TTGAATGAGATTA-GT
1 TTGAATGAAATTATGT
34568450 TTGAA
1 TTGAA
34568455 ATTGTATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (16 bp):
TTGAATGAAATTATGT
Found at i:34570060 original size:2 final size:2
Alignment explanation
Indices: 34570053--34570088 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
34570043 GAGACTAGTC
34570053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34570089 GTACATGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34571306 original size:66 final size:64
Alignment explanation
Indices: 34571192--34571342 Score: 178
Period size: 66 Copynumber: 2.3 Consensus size: 64
34571182 CACATGGTGA
* * * * * * *
34571192 CACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTATCTACATGGTGCCTTCACCTGGAA
1 CACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTG--TACACATAGAA
34571256 C
64 C
* * * *
34571257 CACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTACACATAGTAT
1 CACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTGTACACATAGAAC
34571321 CACCCATGCGACCTAGCTACAT
1 CACCCATGCGACCTAGCTACAT
34571343 CATAATGTCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 28 0.38
65 16 0.22
66 29 0.40
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (64 bp):
CACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTATCTACATGGTGTACACATAGAAC
Found at i:34572124 original size:30 final size:29
Alignment explanation
Indices: 34572076--34572135 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
34572066 TCCTTAACTC
34572076 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTT-CCCCT
* * * *
34572106 AAACTTTTGCATATTTACACTTTTCCCCT
1 AAACTTTTGAAAAATTACAATTTTCCCCT
34572135 A
1 A
34572136 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (29 bp):
AAACTTTTGAAAAATTACAATTTTCCCCT
Found at i:34575191 original size:24 final size:24
Alignment explanation
Indices: 34575137--34575188 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
34575127 GAGTTTAAGC
*
34575137 GAGCC-ATGTTAGGAAGCTCATAA
1 GAGCCTATATTAGGAAGCTCATAA
*
34575160 GAGCCTATATTAGGATGCTCATGAA
1 GAGCCTATATTAGGAAGCTCAT-AA
34575185 GAGC
1 GAGC
34575189 TATGTTTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 14 0.56
25 6 0.24
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (24 bp):
GAGCCTATATTAGGAAGCTCATAA
Found at i:34578586 original size:58 final size:58
Alignment explanation
Indices: 34578517--34578632 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
34578507 AATATCCCAC
34578517 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
1 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
34578575 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
1 CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
34578633 TCTTTCAGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (58 bp):
CCCATGCACATGTGATATGTCATACAATATTTTAGTCAAATGCACATTTCATATGTAT
Found at i:34578626 original size:29 final size:29
Alignment explanation
Indices: 34578536--34578627 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
34578526 ATGTGATATG
34578536 TCATACAATATTTTAGTCAAATGCACATT
1 TCATACAATATTTTAGTCAAATGCACATT
** *** * * * *
34578565 TCATA-TGTATCCCA-TGCACATGTGATATG
1 TCATACAATATTTTAGT-CAAATG-CACATT
34578594 TCATACAATATTTTAGTCAAATGCACATT
1 TCATACAATATTTTAGTCAAATGCACATT
34578623 TCATA
1 TCATA
34578628 TGTATTCTTT
Statistics
Matches: 41, Mismatches: 18, Indels: 8
0.61 0.27 0.12
Matches are distributed among these distances:
27 1 0.02
28 9 0.22
29 21 0.51
30 9 0.22
31 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (29 bp):
TCATACAATATTTTAGTCAAATGCACATT
Found at i:34580134 original size:44 final size:42
Alignment explanation
Indices: 34580080--34580182 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
34580070 TTCCGATATG
**
34580080 TGATTTCGTGTAAGACCACGTCTGGGACATTAGCATC-CATT
1 TGATTTCGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
* * *
34580121 TGAGATTTACGTGTAAGACCATGTCTAAGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
34580166 TGATTTCGTGTAAGACC
1 TGATTTCGTGTAAGACC
34580183 CTGTCTAGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 11 0.21
43 10 0.19
44 27 0.51
45 4 0.08
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTAAGACATTAGCATCGCATT
Found at i:34580188 original size:42 final size:42
Alignment explanation
Indices: 34580080--34580225 Score: 143
Period size: 42 Copynumber: 3.4 Consensus size: 42
34580070 TTCCGATATG
* * *
34580080 TGATTTCGTGTAAGACCAC-GTCTGGGACATTAGCATC-CATT
1 TGATTTCGTGTAAGACC-CTGTCTAGGACATTGGCATCGTATT
* *
34580121 TGAGATTTACGTGTAAGACCATGTCTAAGACATTGGCATCGTATT
1 T--GATTT-CGTGTAAGACCCTGTCTAGGACATTGGCATCGTATT
* * *
34580166 TGATTTCGTGTAAGACCCTGTCTAGGACAGTGACATCGATACT
1 TGATTTCGTGTAAGACCCTGTCTAGGACATTGGCATCG-TATT
* *
34580209 TGATTACATGTAAGACC
1 TGATTTCGTGTAAGACC
34580226 ACATCTGAGA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.32
43 28 0.32
44 26 0.30
45 4 0.05
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTAGGACATTGGCATCGTATT
Found at i:34585114 original size:5 final size:5
Alignment explanation
Indices: 34585104--34585130 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34585094 TTGTGTGTTC
34585104 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
34585131 ACAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:34586575 original size:60 final size:60
Alignment explanation
Indices: 34586486--34586652 Score: 167
Period size: 60 Copynumber: 2.8 Consensus size: 60
34586476 AAACAAGGAA
*
34586486 TGCCAAGGCCTCCATTTGGT-ATGGGTAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
1 TGCCAAGGCCTCCATTTGGTAAT-GATAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
* * * ** * * *
34586546 TGCCCAGTCCTCCATTTGGTAATGATAGCTCTTCGGATGTTGGTT-TTGATTGCTTGGGGT
1 TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTT-GTTGCTAATGGCTTGGGGT
* * * * **
34586606 TGCTAAGGCCTCCATTTGGTAAGGACAACTCCTCCCATGTTGTTGCT
1 TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTGTTGCT
34586653 TATGCCTTAG
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
59 3 0.04
60 77 0.91
61 5 0.06
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (60 bp):
TGCCAAGGCCTCCATTTGGTAATGATAGCTCCTCAAATGTTGTTGCTAATGGCTTGGGGT
Found at i:34588338 original size:40 final size:40
Alignment explanation
Indices: 34588283--34588364 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
34588273 TAAAAGAAAA
34588283 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
1 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
34588323 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
1 AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
34588363 AA
1 AA
34588365 AGTAGATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (40 bp):
AACAAAAGGTAAAGATTGGGTGTTGTACTCTTTAATTAGT
Found at i:34588599 original size:22 final size:23
Alignment explanation
Indices: 34588574--34588619 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34588564 CAACCAAACC
34588574 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
34588596 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
34588619 A
1 A
34588620 CGACATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:34606479 original size:41 final size:41
Alignment explanation
Indices: 34606434--34606623 Score: 227
Period size: 41 Copynumber: 4.6 Consensus size: 41
34606424 AATTATTCTT
*
34606434 TGAATTGCACATACATGCCCTTGTTTGTACTTTGATACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
** * **
34606475 TGAATTGCACATATGTGCCCCTGTTTCTACTTTGATACCAT
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* *
34606516 TGAATTGCACATATATGCCCCTGTTTGTACTTTGATATCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* * * * * *
34606557 TGAATTGAACATACGTGCCCTTATTTGTACTTCGGTACCCC
1 TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
* * *
34606598 TGAATAGCACCTACTTGCCCCTGTTT
1 TGAATTGCACATACATGCCCCTGTTT
34606624 ACACTCCGGC
Statistics
Matches: 124, Mismatches: 25, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (41 bp):
TGAATTGCACATACATGCCCCTGTTTGTACTTTGATACCCC
Found at i:34611310 original size:2 final size:2
Alignment explanation
Indices: 34611303--34611333 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
34611293 TATCATTTTC
34611303 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34611334 GTTTTTCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34614633 original size:20 final size:18
Alignment explanation
Indices: 34614595--34614637 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
34614585 CTAATTGGTC
34614595 ATTAATTAACATAGTTTA
1 ATTAATTAACATAGTTTA
*
34614613 ATTAATTTAACCATGGTTTA
1 ATTAA-TTAA-CATAGTTTA
34614633 ATTAA
1 ATTAA
34614638 CATAACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.23
19 4 0.18
20 13 0.59
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
ATTAATTAACATAGTTTA
Found at i:34616631 original size:37 final size:37
Alignment explanation
Indices: 34616589--34616662 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
34616579 ATTTGAACTG
* *
34616589 TTTATTTGCTTATGACTTATTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATAACTTACTAAGCTATAAAAGCTTA
* *
34616626 TTTATTTGTTTATAATTTACTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATAACTTACTAAGCTATAAAAGCTTA
34616663 CTTTGTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.47
Consensus pattern (37 bp):
TTTATTTGCTTATAACTTACTAAGCTATAAAAGCTTA
Found at i:34624558 original size:37 final size:37
Alignment explanation
Indices: 34624516--34624589 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
34624506 ATTTGAACTG
*
34624516 TTTATTTGCTTATGACTTATTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
*
34624553 TTTATTTGGTTATGACTTACTAAGCTATAAAAGCTTA
1 TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
34624590 CTCTGTGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (37 bp):
TTTATTTGCTTATGACTTACTAAGCTATAAAAGCTTA
Found at i:34627886 original size:20 final size:18
Alignment explanation
Indices: 34627850--34627892 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
34627840 GAGATTAGTA
34627850 AAATTTTAATCTTAAGT-
1 AAATTTTAATCTTAAGTC
34627867 AAATTTTAATCATTTTAAGTC
1 AAATTTTAATC---TTAAGTC
34627888 AAATT
1 AAATT
34627893 AATCTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.47
Consensus pattern (18 bp):
AAATTTTAATCTTAAGTC
Found at i:34636070 original size:48 final size:48
Alignment explanation
Indices: 34635916--34636473 Score: 456
Period size: 48 Copynumber: 11.7 Consensus size: 48
34635906 TTGTGAGAGC
**
34635916 CAGTGTAAGACCATGTCTGGGACATGGCATCGG--CAT-TGAGAAGAAAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATAT-AG-AG-GTGT
*
34635963 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATATAGAGGTGT
* **
34636008 CAGTGAAAGACCATGTCTGGGACATGGCATCAACACATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAGGTGT
* * * * *
34636056 CAATATAAGACCATGTTTGGGACATGGCATCGGCACTTATAAAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAGGTGT
* * * *
34636104 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATAT-GTAAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATATAG-AGGTGT
*
34636153 CTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACATATAGAGGTGT
* **
34636199 CAGTGTAAGACCATGTCTGGGACATGACATCAACACATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAGGTGT
* * * *
34636247 TAGTATAAGACCATGTGTGGGACATGGCATCGGCACTTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAGGTGT
* * * * *
34636295 CAGTGTGAGACTATGTTTGGGACATGGCATCGGCACGGATAT-GTAAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--ATATAG-AGGTGT
* * *
34636344 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGA--TAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC-ATATAGAGGT-GT
* * * * * * *
34636394 CAGTGTAAGACCATGTTTGGGAAATGGCATC-G-ACTTGATGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATAGAGGTGT
*
34636441 CAGTGTAAGACCATGTCTGAGACATGGCATCGG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG
34636474 TATTATACCC
Statistics
Matches: 415, Mismatches: 62, Indels: 67
0.76 0.11 0.12
Matches are distributed among these distances:
44 9 0.02
45 48 0.12
46 27 0.07
47 46 0.11
48 170 0.41
49 41 0.10
50 71 0.17
51 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATAGAGGTGT
Found at i:34636244 original size:191 final size:191
Alignment explanation
Indices: 34635916--34636378 Score: 779
Period size: 191 Copynumber: 2.4 Consensus size: 191
34635906 TTGTGAGAGC
* * ** * *
34635916 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAAG-AA-AGCTAGTGTAAGA-CATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
*
34635978 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGAAAGACCATGTCTGGGACATGGCATCAACA
66 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGAAAGACCATGTCTGGGACATGACATCAACA
*
34636043 CATATAGAGGTGTCAATATAAGACCATGTTTGGGACATGGCATCGGCACTTATAAAGGTGT
131 CATATAGAGGTGTCAATATAAGACCATGTGTGGGACATGGCATCGGCACTTATAAAGGTGT
34636104 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
*
34636169 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTCTGGGACATGACATCAACA
66 TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGAAAGACCATGTCTGGGACATGACATCAACA
* * *
34636234 CATATAGAGGTGTTAGTATAAGACCATGTGTGGGACATGGCATCGGCACTTATAGAGGTGT
131 CATATAGAGGTGTCAATATAAGACCATGTGTGGGACATGGCATCGGCACTTATAAAGGTGT
*
34636295 CAGTGTGAGACTATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
1 CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
34636360 TCTGGGACATGGCATCGGC
66 TCTGGGACAT-GCATCGGC
34636379 CTCGATTTTG
Statistics
Matches: 258, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
188 37 0.14
189 2 0.01
190 13 0.05
191 198 0.77
192 8 0.03
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (191 bp):
CAGTGTGAGACCATGTTTGGGACATGGCATCGGCACGGATATGTAAGAGCTAGTGTAAGACCATG
TCTGGGACATGCATCGGCTACAAGATGTGTCAGTGAAAGACCATGTCTGGGACATGACATCAACA
CATATAGAGGTGTCAATATAAGACCATGTGTGGGACATGGCATCGGCACTTATAAAGGTGT
Found at i:34643716 original size:48 final size:47
Alignment explanation
Indices: 34643654--34644070 Score: 270
Period size: 47 Copynumber: 8.8 Consensus size: 47
34643644 ACCACATTAT
* *
34643654 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAGA
1 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
** *
34643701 CGAGAGCTAGTGTAAGA-CATGTCTAAGACAT-GCATCGGCCTCGAGAT-
1 -GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-G-GATA
* **
34643748 GTA-AGCTAGTGTAAGA-TATGTCTGGGACAT-GCATCGGC-TACA-A
1 G-AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * *
34643791 GATGTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGTATA
1 GA-GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * * *
34643839 GAG-GTGTCAGTGTAAGACCATGTTTGGG-CATGGCATTGGCACT-TATA
1 GAGAG-CT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGGATA
* * * * *
34643886 GAGGTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGACACGGATA
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* * * *
34643934 TGTAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTTGATTTCA
1 -G--AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGA--T-A
* * * * * *
34643987 -ATAG-TCAATGTAAGACCATATCTGGGACATGGTATCGGC-TTGATG
1 GAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
* **
34644032 GATGAGCCAGCATAAGACCATGTCTGGGACATGGCATCG
1 GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
34644071 ACATTATACC
Statistics
Matches: 295, Mismatches: 46, Indels: 57
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 10 0.03
45 14 0.05
46 52 0.18
47 82 0.28
48 63 0.21
49 33 0.11
50 34 0.12
51 1 0.00
52 1 0.00
53 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATA
Found at i:34643755 original size:46 final size:46
Alignment explanation
Indices: 34643654--34643829 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
34643644 ACCACATTAT
* *
34643654 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGAGAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
** * *
34643702 GAGAGCTAGTGTAAGACATGTCTAAGACATGCATCGGCCTCGAGAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* * *
34643748 GTA-AGCTAGTGTAAGATATGTCTGGGACATGCATCGGC-TACAAGAT
1 G-AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGAC
* *
34643794 GTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCG
34643830 ACATGTATAG
Statistics
Matches: 110, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
44 9 0.08
45 15 0.14
46 58 0.53
47 13 0.12
48 15 0.14
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:34643914 original size:95 final size:98
Alignment explanation
Indices: 34643655--34643976 Score: 282
Period size: 95 Copynumber: 3.4 Consensus size: 98
34643645 CCACATTATG
* * ** *
34643655 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--TGGAGACGAGAG-CTAGTGTAAG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACTTATAGA-G-GTGTC-AGTGTAAG
** * * *
34643717 A-CATGTCTAAGACAT-GCATCGGC-CTCGAGATGT-
63 ACCATGTCTGGGACATGGCATCGACAC-GGATATGTA
* * *
34643750 A-AGCTAGTGTAAGA-TATGTCTGGGACAT-GCATCGGCTAC--A-AGATGTGTCAGTGTAAGAC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACTTATAGAGGTGTCAGTGTAAGAC
* *
34643809 CATGTCTGGGACATGGCATCGACATGTATA-G-A
65 CATGTCTGGGACATGGCATCGACACGGATATGTA
* * * *
34643841 GGTG-TCAGTGTAAGACCATGTTTGGG-CATGGCATTGGCACTTATAGAGGTGTTAGTGTAAGAC
1 AGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATTGGCACTTATAGAGGTGTCAGTGTAAGAC
*
34643904 CATGTTTGGGACATGGCATCGACACGGATATGTA
65 CATGTCTGGGACATGGCATCGACACGGATATGTA
*
34643938 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTTGGC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC
34643977 CTTGATTTCA
Statistics
Matches: 183, Mismatches: 26, Indels: 33
0.76 0.11 0.14
Matches are distributed among these distances:
90 11 0.06
91 15 0.08
92 35 0.19
93 29 0.16
94 13 0.07
95 45 0.25
96 1 0.01
97 22 0.12
98 12 0.07
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (98 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCACTTATAGAGGTGTCAGTGTAAGACC
ATGTCTGGGACATGGCATCGACACGGATATGTA
Found at i:34647671 original size:19 final size:19
Alignment explanation
Indices: 34647647--34647709 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
34647637 TAATTCAACT
34647647 AAAACATGTATCAATATTA
1 AAAACATGTATCAATATTA
*
34647666 AAAACAT-CAGT-AA-ATTA
1 AAAACATGTA-TCAATATTA
*
34647683 ACTAAA-ATGTATCAATGTTA
1 A--AAACATGTATCAATATTA
34647703 AAAACAT
1 AAAACAT
34647710 CAATAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 14
0.67 0.06 0.27
Matches are distributed among these distances:
17 5 0.15
18 9 0.26
19 16 0.47
20 4 0.12
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAACATGTATCAATATTA
Found at i:34647696 original size:37 final size:38
Alignment explanation
Indices: 34647638--34647724 Score: 131
Period size: 37 Copynumber: 2.3 Consensus size: 38
34647628 AAATCCTAAT
*
34647638 AATTCAACTAAAACATGTATCAATATTAAAAACATCAGTA
1 AATT-AACT-AAACATGTATCAATATTAAAAACATCAATA
*
34647678 AATTAACTAAA-ATGTATCAATGTTAAAAACATCAATA
1 AATTAACTAAACATGTATCAATATTAAAAACATCAATA
34647715 AATTAACTAA
1 AATTAACTAA
34647725 CATTATTACC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 34 0.76
38 3 0.07
39 4 0.09
40 4 0.09
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.29
Consensus pattern (38 bp):
AATTAACTAAACATGTATCAATATTAAAAACATCAATA
Found at i:34667635 original size:60 final size:60
Alignment explanation
Indices: 34667571--34667721 Score: 153
Period size: 60 Copynumber: 2.5 Consensus size: 60
34667561 TTTTCCTTGA
**
34667571 AATTTTTAGATTTAGAACTAAATTGATAAATTTTGTAAATGTTAAAC-GTTAAATTTATTG
1 AATTTTTAGATTTAGAACTAAATTGATAAATTTTGTAAACATT-AACGGTTAAATTTATTG
* * ** * * * *
34667631 AATTTTCATAAATAAAATTAAAATGATAAATTTTGTAAACATTGACGGTTAAATTTATTG
1 AATTTTTAGATTTAGAACTAAATTGATAAATTTTGTAAACATTAACGGTTAAATTTATTG
* *
34667691 AACTTTTTAGAGTTAAGATC-AAATTGATAAA
1 AA-TTTTTAGA-TTTAGAACTAAATTGATAAA
34667722 ATGTATAAAC
Statistics
Matches: 69, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
59 2 0.03
60 49 0.71
61 16 0.23
62 2 0.03
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (60 bp):
AATTTTTAGATTTAGAACTAAATTGATAAATTTTGTAAACATTAACGGTTAAATTTATTG
Found at i:34672703 original size:40 final size:38
Alignment explanation
Indices: 34672646--34672797 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 38
34672636 TTTGGTGGCT
34672646 TTAGCGG-CTCTTTCTAAAAACGCCGCTAAAGATCGAGTA
1 TTAGCGGCCT-TTTCTAAAAACGCCGCTAAAGATC-AGTA
* * *
34672685 TTAGCGGCACTTTTCTAAAAAAGCCGCTATATG-TACACCT-
1 TTAGCGGC-CTTTTCTAAAAACGCCGCTA-AAGAT-CA-GTA
*
34672725 TTAGCGGCGCTTTT-TAGAAAACGCCGCTAAAGATCAAGCA
1 TTAGCGGC-CTTTTCTA-AAAACGCCGCTAAAGATC-AGTA
*
34672765 TTAGCGGCGTTTTCTAAAAAGCGCCGCTAAAGA
1 TTAGCGGCCTTTTCTAAAAA-CGCCGCTAAAGA
34672798 ATTTTGTAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
39 20 0.22
40 67 0.72
41 6 0.06
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (38 bp):
TTAGCGGCCTTTTCTAAAAACGCCGCTAAAGATCAGTA
Found at i:34672791 original size:80 final size:79
Alignment explanation
Indices: 34672644--34672793 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 79
34672634 CCTTTGGTGG
* * *
34672644 CTTTAGCGGCTCTTTCTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCACTTTTCTAAAAAAGC
1 CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCAAGCATTAGCGGCACTTTTCTAAAAAAGC
34672709 CGCTATATGTACAC
66 CGCTATATGTACAC
* * *
34672723 CTTTAGCGGCGCTTTTTAGAAAACGCCGCTAAAGATCAAGCATTAGCGGC-GTTTTCTAAAAAGC
1 CTTTAGCGGCGCTTTCTA-AAAACGCCGCTAAAGATCAAGCATTAGCGGCACTTTTCTAAAAA-A
34672787 GCCGCTA
64 GCCGCTA
34672794 AAGAATTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
79 27 0.43
80 36 0.57
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (79 bp):
CTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCAAGCATTAGCGGCACTTTTCTAAAAAAGC
CGCTATATGTACAC
Found at i:34673158 original size:15 final size:15
Alignment explanation
Indices: 34673140--34673178 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
34673130 ATGTTTATGT
34673140 ATTATGGGTTTAGGG
1 ATTATGGGTTTAGGG
*
34673155 ATTAT-GGTTTATGG
1 ATTATGGGTTTAGGG
*
34673169 TTTATGGGTT
1 ATTATGGGTT
34673179 AAAGGTTAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (15 bp):
ATTATGGGTTTAGGG
Found at i:34673244 original size:22 final size:22
Alignment explanation
Indices: 34673186--34673244 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
34673176 GTTAAAGGTT
*
34673186 AGGGTTTAAGTTTTAGGGTATT
1 AGGGTTTAAGTTTTAGGGTATA
* *
34673208 GGGGTTTAAGGTTTAGGAGT-TA
1 AGGGTTTAAGTTTTAGG-GTATA
*
34673230 AGGGTTTATGTTTTA
1 AGGGTTTAAGTTTTA
34673245 TTGTTTAAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (22 bp):
AGGGTTTAAGTTTTAGGGTATA
Found at i:34673634 original size:43 final size:43
Alignment explanation
Indices: 34673581--34673689 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
34673571 TTTATTTGAA
*
34673581 AAAAACGCCGCTAAAGATCGTGACCTTTAGCGGCGCTTATCCC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTATCCC
* *
34673624 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTATCCC
* *
34673667 ACAAACGCCGCTAAAGGTCATGA
1 AAAAACGCCGCTAAAGATCATGA
34673690 AATTCAAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTATCCC
Found at i:34673975 original size:18 final size:19
Alignment explanation
Indices: 34673938--34673978 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34673928 ATTTAGAATC
34673938 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* *
34673957 AAAACTAGATTAAAT-ATA
1 AAAACTAAAATAAATAATA
34673975 AAAA
1 AAAA
34673979 TATCAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:34679577 original size:18 final size:17
Alignment explanation
Indices: 34679548--34679586 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
34679538 TGTTGATTAA
34679548 TTTTAAATTTTTTTTAT
1 TTTTAAATTTTTTTTAT
34679565 TTTTAACATTTTTTTTAT
1 TTTTAA-ATTTTTTTTAT
34679583 TTTT
1 TTTT
34679587 CTCTTTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTAAATTTTTTTTAT
Found at i:34679585 original size:25 final size:25
Alignment explanation
Indices: 34679556--34679611 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
34679546 AATTTTAAAT
* *
34679556 TTTTTTTATTTTTAACATTTTTTTTA
1 TTTTTCTATTTTGAA-ATTTTTTTTA
*
34679582 TTTTTCTCTTTTGAAATTTTTTTTA
1 TTTTTCTATTTTGAAATTTTTTTTA
*
34679607 ATTTT
1 TTTTT
34679612 GAATATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTTCTATTTTGAAATTTTTTTTA
Found at i:34679673 original size:7 final size:7
Alignment explanation
Indices: 34679663--34679756 Score: 77
Period size: 7 Copynumber: 13.6 Consensus size: 7
34679653 AATATTAAAT
34679663 TTTTTAA
1 TTTTTAA
34679670 -TTTT--
1 TTTTTAA
34679674 TTTTTAA
1 TTTTTAA
*
34679681 TTTTTTA
1 TTTTTAA
34679688 TTTTTAAA
1 TTTTT-AA
*
34679696 TTTTAAA
1 TTTTTAA
*
34679703 TTTTAAA
1 TTTTTAA
34679710 TTTTTAAA
1 TTTTT-AA
*
34679718 TTTTAAA
1 TTTTTAA
*
34679725 TTTTAAA
1 TTTTTAA
34679732 TTTTTAA
1 TTTTTAA
* *
34679739 ATTTTAT
1 TTTTTAA
*
34679746 TTTTTGA
1 TTTTTAA
34679753 TTTT
1 TTTT
34679757 ATTTTTTATT
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
5 4 0.06
6 4 0.06
7 52 0.73
8 11 0.15
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.69
Consensus pattern (7 bp):
TTTTTAA
Found at i:34679678 original size:11 final size:11
Alignment explanation
Indices: 34679662--34679686 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34679652 AAATATTAAA
34679662 TTTTTTAATTT
1 TTTTTTAATTT
34679673 TTTTTTAATTT
1 TTTTTTAATTT
34679684 TTT
1 TTT
34679687 ATTTTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTAATTT
Found at i:34679704 original size:22 final size:22
Alignment explanation
Indices: 34679650--34679756 Score: 109
Period size: 22 Copynumber: 5.0 Consensus size: 22
34679640 GACTAAATTA
*
34679650 TTAAATATTAAATTTTTTAATTT
1 TTAAATTTTAAATTTTTT-ATTT
34679673 TT---TTTT-AATTTTTTATTT
1 TTAAATTTTAAATTTTTTATTT
**
34679691 TTAAATTTTAAATTTTAAATTT
1 TTAAATTTTAAATTTTTTATTT
**
34679713 TTAAATTTTAAATTTTAAATTT
1 TTAAATTTTAAATTTTTTATTT
34679735 TTAAATTTT--ATTTTTTGATTT
1 TTAAATTTTAAATTTTTT-ATTT
34679756 T
1 T
34679757 ATTTTTTATT
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
18 6 0.08
19 8 0.11
20 8 0.11
21 9 0.12
22 41 0.55
23 2 0.03
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (22 bp):
TTAAATTTTAAATTTTTTATTT
Found at i:34679744 original size:15 final size:15
Alignment explanation
Indices: 34679643--34679744 Score: 108
Period size: 15 Copynumber: 7.1 Consensus size: 15
34679633 AAATATGGAC
* *
34679643 TAAATTATTAAATAT
1 TAAATTTTTAAATTT
*
34679658 TAAATTTTTTAATTT
1 TAAATTTTTAAATTT
34679673 T---TTTTT-AATTT
1 TAAATTTTTAAATTT
**
34679684 TTTATTTTTAAATTT
1 TAAATTTTTAAATTT
34679699 TAAA-TTTTAAATTTT
1 TAAATTTTTAAA-TTT
34679714 TAAA-TTTTAAATTT
1 TAAATTTTTAAATTT
34679728 TAAATTTTTAAATTT
1 TAAATTTTTAAATTT
34679743 TA
1 TA
34679745 TTTTTTGATT
Statistics
Matches: 76, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
11 6 0.08
12 5 0.07
14 19 0.25
15 46 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAAATTTTTAAATTT
Found at i:34679750 original size:15 final size:15
Alignment explanation
Indices: 34679671--34679763 Score: 61
Period size: 15 Copynumber: 6.4 Consensus size: 15
34679661 ATTTTTTAAT
*
34679671 TTTTTTTTAATTTT-
1 TTTTTTTAAATTTTA
34679685 TTATTTTTAAATTTTA
1 TT-TTTTTAAATTTTA
**
34679701 -AATTTTAAATTTT-
1 TTTTTTTAAATTTTA
**
34679714 TAAATTTTAAATTTTA
1 T-TTTTTTAAATTTTA
**
34679730 AATTTTTAAATTTTA
1 TTTTTTTAAATTTTA
*
34679745 -TTTTTT-GATTTTA
1 TTTTTTTAAATTTTA
34679758 TTTTTT
1 TTTTTT
34679764 ATTTCAGTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
13 6 0.09
14 23 0.35
15 37 0.56
ACGTcount: A:0.29, C:0.00, G:0.01, T:0.70
Consensus pattern (15 bp):
TTTTTTTAAATTTTA
Found at i:34680816 original size:46 final size:41
Alignment explanation
Indices: 34680662--34680888 Score: 269
Period size: 41 Copynumber: 5.4 Consensus size: 41
34680652 CGCTTTTGGT
* * *
34680662 AAAGCGCCGCTAATGCT-CTAGTTTTTAGCGGCGTTTTACCA
1 AAAGCGCCGCTATTGCTCCGA-CTTTTAGCGGCGTTTTACCA
*
34680703 AAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACTA
1 AAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCA
*
34680744 AAAGCGCCGCTATTGCTCCGAATTTTAGCGGCGTTTTACCA
1 AAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCA
34680785 AAAGCAAAACGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCA
1 AAAG-----CGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCA
* * * * * *
34680831 AAAGCACCGCTATTACTCTG-TTTTTAGCGGCGTGTTAACA
1 AAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCA
* *
34680871 AAAACGCCACTATTGCTC
1 AAAGCGCCGCTATTGCTC
34680889 TGTGTTTTAC
Statistics
Matches: 163, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
40 31 0.19
41 90 0.55
42 2 0.01
46 40 0.25
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (41 bp):
AAAGCGCCGCTATTGCTCCGACTTTTAGCGGCGTTTTACCA
Found at i:34680835 original size:87 final size:82
Alignment explanation
Indices: 34680662--34680888 Score: 287
Period size: 87 Copynumber: 2.7 Consensus size: 82
34680652 CGCTTTTGGT
* *
34680662 AAAGCGCCGCTAATGCT-CTAGTTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGACT
1 AAAGCGCCGCTATTGCTCCGA-TTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGACT
*
34680726 TTTAGCGGCGTTTTACTA
65 TTTAGCGGCGTTTTACCA
*
34680744 AAAGCGCCGCTATTGCTCCGAATTTTAGCGGCGTTTTACCAAAAGCAAAACGCCGCTATTGCTCC
1 AAAGCGCCGCTATTGCTCCGATTTTTAGCGGCGTTTTACCAAAAG-----CGCCGCTATTGCTCC
34680809 GACTTTTAGCGGCGTTTTACCA
61 GACTTTTAGCGGCGTTTTACCA
* * * * * * *
34680831 AAAGCACCGCTATTACTCTG-TTTTTAGCGGCGTGTTAACAAAAACGCCACTATTGCTC
1 AAAGCGCCGCTATTGCTCCGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTC
34680889 TGTGTTTTAC
Statistics
Matches: 127, Mismatches: 12, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
81 13 0.10
82 39 0.31
83 2 0.02
86 20 0.16
87 53 0.42
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (82 bp):
AAAGCGCCGCTATTGCTCCGATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCCGACTT
TTAGCGGCGTTTTACCA
Found at i:34681706 original size:40 final size:40
Alignment explanation
Indices: 34681599--34681711 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 40
34681589 AATTTTTTAC
* * *
34681599 CGGCGTTTTTATGAAAAACGCTACAAAAAATTAACAATAA
1 CGGCGTTTTTATAAAAAACACCACAAAAAATTAACAATAA
34681639 CGGCGTTTTTATAAAAAA-ACTCGACAAAAAATTAACAATAA
1 CGGCGTTTTTATAAAAAACAC-C-ACAAAAAATTAACAATAA
34681680 CGGCGTTTTTATAAAAAACACCACAAATAAAT
1 CGGCGTTTTTATAAAAAACACCACAAA-AAAT
34681712 CTCAAAAGGG
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
39 1 0.02
40 22 0.33
41 41 0.62
42 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.25
Consensus pattern (40 bp):
CGGCGTTTTTATAAAAAACACCACAAAAAATTAACAATAA
Found at i:34686144 original size:43 final size:43
Alignment explanation
Indices: 34686079--34686178 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
34686069 AGGTCATATT
* * * *
34686079 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAAGTCATGACC
1 TTTAGCGGCTTTTTTAGAAAAAGCACCGCGAAAAGTCATGACC
* **
34686122 TTTAGCGGCATTTTTTA-AAAAAGCACCGCGAAAAGTCCTGGTC
1 TTTAGCGGC-TTTTTTAGAAAAAGCACCGCGAAAAGTCATGACC
*
34686165 TTTAGCGGCGTTTT
1 TTTAGCGGCTTTTT
34686179 ATTCTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 4 0.08
43 38 0.79
44 6 0.12
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCTTTTTTAGAAAAAGCACCGCGAAAAGTCATGACC
Found at i:34687497 original size:6 final size:6
Alignment explanation
Indices: 34687486--34687515 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
34687476 GTTAGTGAAC
34687486 AAATAT AAATAT AAATAT AAATATT AAATA
1 AAATAT AAATAT AAATAT AAATA-T AAATA
34687516 CAAGATCTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:34687679 original size:22 final size:22
Alignment explanation
Indices: 34687654--34687713 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
34687644 TCATGCTAAG
*
34687654 AGTTCGCACAACGCATGGAAGA
1 AGTTCGCACAATGCATGGAAGA
** * *
34687676 AGTTTACACAATGCAAGGATGA
1 AGTTCGCACAATGCATGGAAGA
*
34687698 GGTTCGCACAATGCAT
1 AGTTCGCACAATGCAT
34687714 AAGTTTAATA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (22 bp):
AGTTCGCACAATGCATGGAAGA
Found at i:34691653 original size:36 final size:35
Alignment explanation
Indices: 34691613--34691712 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 35
34691603 ATTTTGCCAA
*
34691613 TTTTATCAACTTTATCAGCTTCATCAACTATTGGTG
1 TTTTATCAACTTCATCAGCTTCATCAACTATT-GTG
* * * *
34691649 TTTTAGCAACTTCATTAGCTTTATCAACTGTTGTG
1 TTTTATCAACTTCATCAGCTTCATCAACTATTGTG
* *
34691684 TTTTAGT-AACTTCATCAACTTCAACAACT
1 TTTTA-TCAACTTCATCAGCTTCATCAACT
34691713 TGCCCTTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
35 26 0.49
36 27 0.51
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (35 bp):
TTTTATCAACTTCATCAGCTTCATCAACTATTGTG
Found at i:34691695 original size:35 final size:36
Alignment explanation
Indices: 34691613--34691712 Score: 121
Period size: 35 Copynumber: 2.8 Consensus size: 36
34691603 ATTTTGCCAA
* *
34691613 TTTTATCAACTTTATCAGCTTCATCAACTATTGGTG
1 TTTTAGCAACTTCATCAGCTTCATCAACTATTGGTG
* * *
34691649 TTTTAGCAACTTCATTAGCTTTATCAACTGTT-GTG
1 TTTTAGCAACTTCATCAGCTTCATCAACTATTGGTG
* * *
34691684 TTTTAGTAACTTCATCAACTTCAACAACT
1 TTTTAGCAACTTCATCAGCTTCATCAACT
34691713 TGCCCTTTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 27 0.50
36 27 0.50
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (36 bp):
TTTTAGCAACTTCATCAGCTTCATCAACTATTGGTG
Found at i:34693033 original size:65 final size:65
Alignment explanation
Indices: 34692906--34693131 Score: 201
Period size: 65 Copynumber: 3.5 Consensus size: 65
34692896 TGACTTTAAT
* * * * * ****
34692906 TCTTTAAGGTAACATGTTTCTTTGAAGC-AACCTATGTTATACACTTCTTTAAAGCAAATTTACC
1 TCTTTAAGGTAACAAGCTTCTTTAAAGCGAACCTTTGTTACACACTTCTTTAAAGTGGCTTTACC
*
34692970 TCTTTAAGGTAACACAG-TTCTTTAAAGCGAACCTTTATTACACACTTCTTTAAAGTGGCTTTAC
1 TCTTTAAGGTAACA-AGCTTCTTTAAAGCGAACCTTTGTTACACACTTCTTTAAAGTGGCTTTAC
34693034 C
65 C
* * ** ** *
34693035 T-TTATAAGGTAATACA-CTTTTTTAAA-TTAAAGTTGTGTTGCACACTTCTTTAAAGTGGCTTT
1 TCTT-TAAGGTAACA-AGCTTCTTTAAAGCGAACCTT-TGTTACACACTTCTTTAAAGTGGCTTT
34693097 ACC
63 ACC
* * *
34693100 TCTTTAAAGTAACATGCTTCTTTAAAGTGAAC
1 TCTTTAAGGTAACAAGCTTCTTTAAAGCGAAC
34693132 TTAGATATCA
Statistics
Matches: 131, Mismatches: 23, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
64 30 0.23
65 96 0.73
66 5 0.04
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (65 bp):
TCTTTAAGGTAACAAGCTTCTTTAAAGCGAACCTTTGTTACACACTTCTTTAAAGTGGCTTTACC
Found at i:34699657 original size:46 final size:48
Alignment explanation
Indices: 34699515--34699779 Score: 251
Period size: 47 Copynumber: 5.6 Consensus size: 48
34699505 GTAAAGTGCC
* ** **
34699515 GATGCCATGTCCTAGACATGGTCTTACACTGGCT-TATATCTCAA-G-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCT-CGTCTCAATGCT
* * * * *
34699561 CGATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTC-GTAGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAAT-GCT
*
34699610 GATG-CATGTCCCAGACAT-ATCTTACACTAACTCTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAATGCT
* * * * *
34699656 GATGCCATGTCCCAAACATGGTCTTACACTAGCT-TACGACTCAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCT-CGTCTCAATGCT
* * *
34699704 GATG-CATGTCTCAGACAT-ATCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAATGCT
*
34699750 GATGCCATGTCCCAAACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
34699780 GGCTCTCATA
Statistics
Matches: 183, Mismatches: 24, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
46 51 0.28
47 91 0.50
48 40 0.22
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAATGCT
Found at i:34699827 original size:94 final size:93
Alignment explanation
Indices: 34699562--34699828 Score: 337
Period size: 94 Copynumber: 2.8 Consensus size: 93
34699552 ATCTCAAGTC
* * * * * *
34699562 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCAT-CTCGTAGCTGATGCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCT-TCATAAT-GTGGCCGATGCATGTCCCAGAC
*
34699626 ATATCTTACACTAACTCTCGTCTCAATGCT
64 ATATCTTACACTAGCTCTCGTCTCAATGCT
* *
34699656 GATGCCATGTCCCAAACATGGTCTTACACTAGCTTACGACTCAA---GGCCGATGCATGTCTCAG
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTT-C-A-T-AATGTGGCCGATGCATGTCCCAG
34699718 ACATATCTTACACTAGCTCTCGTCTCAATGCT
62 ACATATCTTACACTAGCTCTCGTCTCAATGCT
34699750 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCC-GAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCT-TCATAATGTGGCCGATGCATGTCCCAG-AC
*
34699814 ATGTCTTACACTAGC
64 ATATCTTACACTAGC
34699829 CAACAATAAC
Statistics
Matches: 151, Mismatches: 12, Indels: 20
0.83 0.07 0.11
Matches are distributed among these distances:
91 2 0.01
92 1 0.01
93 3 0.02
94 142 0.94
95 2 0.01
96 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTTCATAATGTGGCCGATGCATGTCCCAGACAT
ATCTTACACTAGCTCTCGTCTCAATGCT
Found at i:34712052 original size:19 final size:19
Alignment explanation
Indices: 34712028--34712066 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
34712018 ATAGACTTTT
34712028 ATACACTAAATTCTTCCTA
1 ATACACTAAATTCTTCCTA
34712047 ATACACTAAATTCTTCCTA
1 ATACACTAAATTCTTCCTA
34712066 A
1 A
34712067 CTTCTGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (19 bp):
ATACACTAAATTCTTCCTA
Found at i:34716375 original size:7 final size:7
Alignment explanation
Indices: 34716365--34716398 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
34716355 CTTTTGGGGT
34716365 TTGGGAA
1 TTGGGAA
34716372 TTGGGAA
1 TTGGGAA
34716379 TTGGGAA
1 TTGGGAA
34716386 TTGGGAA
1 TTGGGAA
34716393 TTGGGA
1 TTGGGA
34716399 CCAAAAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.44, T:0.29
Consensus pattern (7 bp):
TTGGGAA
Found at i:34718464 original size:18 final size:19
Alignment explanation
Indices: 34718443--34718487 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34718433 ATAAAAATTA
34718443 AAAATAAAG-GAAAAAAAT
1 AAAATAAAGTGAAAAAAAT
* *
34718461 AAAATTAAGTGAAATAAAT
1 AAAATAAAGTGAAAAAAAT
34718480 AAAGATAA
1 AAA-ATAA
34718488 GCTCTTCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (19 bp):
AAAATAAAGTGAAAAAAAT
Found at i:34718573 original size:28 final size:29
Alignment explanation
Indices: 34718532--34718589 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
34718522 AAAATAAAAT
* *
34718532 TATATACTTTATCATACT-TAAACCTACG
1 TATATACTTCATCATACTCAAAACCTACG
34718560 TATATACTTCATCATACTCAAAACCTACG
1 TATATACTTCATCATACTCAAAACCTACG
34718589 T
1 T
34718590 CCTCTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.36, C:0.24, G:0.03, T:0.36
Consensus pattern (29 bp):
TATATACTTCATCATACTCAAAACCTACG
Found at i:34718602 original size:2 final size:2
Alignment explanation
Indices: 34718595--34718653 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
34718585 TACGTCCTCT
34718595 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34718637 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
34718654 TAAGTTAAGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:34719544 original size:48 final size:45
Alignment explanation
Indices: 34719413--34719552 Score: 124
Period size: 48 Copynumber: 3.0 Consensus size: 45
34719403 CTGTGTGATA
* *
34719413 ATTATTTTTCTCTAATTAATTTAAATTAATAAAGA-AATATTAAAT
1 ATTATTTATCTCTAATTAA-TTAAATTAATAAAGATAATATCAAAT
* * * * *
34719458 TTTATATTACCACTAATTAA-AAAAATAATTAAATGATAATATCAAAT
1 ATTAT-TTATCTCTAATTAATTAAATTAA-TAAA-GATAATATCAAAT
*
34719505 GATTATTGTATCTCTAATTAATTAAATTAATAAGAGATAA-ATAAAAT
1 -ATTATT-TATCTCTAATTAATTAAATTAATAA-AGATAATATCAAAT
34719552 A
1 A
34719553 GTTTAAAATC
Statistics
Matches: 74, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
44 6 0.08
45 8 0.11
46 14 0.19
47 16 0.22
48 23 0.31
49 7 0.09
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (45 bp):
ATTATTTATCTCTAATTAATTAAATTAATAAAGATAATATCAAAT
Found at i:34719658 original size:53 final size:53
Alignment explanation
Indices: 34719573--34719678 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 53
34719563 TTTTAGAACA
* * ** * * *
34719573 ATCAAATGGAGTAGTTAAATTCTACATGAACTCTTTTTTATTCATGTGATTGG
1 ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
34719626 ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
1 ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
34719679 CACTATAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (53 bp):
ATCAAATGGAGCAGATAAATTCTACAAAAACTCTCTTTTATTCAAGTAATTGG
Found at i:34729649 original size:38 final size:38
Alignment explanation
Indices: 34729598--34729673 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
34729588 TTTCAGTACA
*
34729598 CTTCTTCTAAATAATATCAACCCAACCTAATACAATGC
1 CTTCTTCCAAATAATATCAACCCAACCTAATACAATGC
34729636 CTTCTTCCAAATAATATCAACCCAACCTAATACAATGC
1 CTTCTTCCAAATAATATCAACCCAACCTAATACAATGC
34729674 AACATATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.30, G:0.03, T:0.28
Consensus pattern (38 bp):
CTTCTTCCAAATAATATCAACCCAACCTAATACAATGC
Found at i:34731787 original size:40 final size:40
Alignment explanation
Indices: 34731742--34731871 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
34731732 CGGAATATAA
34731742 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
34731782 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
34731822 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
34731862 CCGGATATAA
1 CCGGATATAA
34731872 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:34731886 original size:40 final size:39
Alignment explanation
Indices: 34731758--34731908 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
34731748 ATAACCATGT
* * *
34731758 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
34731798 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
34731838 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
34731877 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
34731909 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:34731892 original size:80 final size:79
Alignment explanation
Indices: 34731742--34731908 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
34731732 CGGAATATAA
*
34731742 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
34731807 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
34731822 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
34731884 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
34731901 CCGGATAT
1 CCGGATAT
34731909 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:34734522 original size:164 final size:164
Alignment explanation
Indices: 34734251--34734582 Score: 628
Period size: 164 Copynumber: 2.0 Consensus size: 164
34734241 ATCATATAAC
34734251 TACTTAACATAAGTTAGCATAATTATCATCAAGTATCTTAGGCTTAGCTTACTCATTAGCATTCT
1 TACTTAACATAAGTTAGCATAATTATCATCAAGTATCTTAGGCTTAGCTTACTCATTAGCATTCT
34734316 TACCAAGAGTTCATCTCATACTAAAGTCCATACTCATGAGTTTTACATACGTACCTGTACCAACT
66 TACCAAGAGTTCATCTCATACTAAAGTCCATACTCATGAGTTTTACATACGTACCTGTACCAACT
*
34734381 CATAACATAGTTGCACACTTTGTCATCTTTTACA
131 CATAACATAGTTGCACACTTTGTCATCTTTGACA
*
34734415 TACTTAACATAAGTTAGCATAATTATCATCCAGTATCTTAGGCTTAGCTTACTCATTAGCATTCT
1 TACTTAACATAAGTTAGCATAATTATCATCAAGTATCTTAGGCTTAGCTTACTCATTAGCATTCT
*
34734480 TACCAAGAGTTTATCTCATACTAAAGTCCATACTCATGAGTTTTACATACGTACCTGTACCAACT
66 TACCAAGAGTTCATCTCATACTAAAGTCCATACTCATGAGTTTTACATACGTACCTGTACCAACT
*
34734545 CATAATATAGTTGCACACTTTGTCATCTTTGACA
131 CATAACATAGTTGCACACTTTGTCATCTTTGACA
34734579 TACT
1 TACT
34734583 CTTCGGATTA
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (164 bp):
TACTTAACATAAGTTAGCATAATTATCATCAAGTATCTTAGGCTTAGCTTACTCATTAGCATTCT
TACCAAGAGTTCATCTCATACTAAAGTCCATACTCATGAGTTTTACATACGTACCTGTACCAACT
CATAACATAGTTGCACACTTTGTCATCTTTGACA
Found at i:34736971 original size:13 final size:13
Alignment explanation
Indices: 34736955--34736986 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
34736945 AATGAAACCC
34736955 TTAAATATTTATA
1 TTAAATATTTATA
34736968 TTAAATATTTATA
1 TTAAATATTTATA
34736981 TTAAAT
1 TTAAAT
34736987 GCTTACGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAATATTTATA
Found at i:34739936 original size:10 final size:9
Alignment explanation
Indices: 34739913--34739948 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
34739903 TTATTATATA
*
34739913 ATTTTCAAT
1 ATTTTTAAT
34739922 ATTTTTAAT
1 ATTTTTAAT
34739931 ATTTTTAAT
1 ATTTTTAAT
34739940 ATTATTTAA
1 ATT-TTTAA
34739949 GTGTTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:34740416 original size:681 final size:669
Alignment explanation
Indices: 34739040--34740620 Score: 1706
Period size: 681 Copynumber: 2.3 Consensus size: 669
34739030 TATTGAAAAC
* *
34739040 TTGTTGACAATATGACT-AATTCCAAGTTAAATAACATAAATACCATATGAATTTAAGAACTCAT
1 TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAATTTAAGAACTC-T
* * *
34739104 TTTAGAACAAAATAAGAGAAAAAAACCAAGATAATTAGAATGATAAACTTGAATTGATAGTTTAC
65 TTTAAAACAAAATAAGAGAAAAACA-CAAGATAATTAGAATGATAGACTTGAATTGATAGTTTAC
* * * *
34739169 TTGTTTAAGGCTACGAATTTATCATTCT-GAA-ATTT--T-AAATAATAATTTAGCTTTATTATA
129 TTGTTTAAGGCTTCAAATTTATCATTCTAGAATTTTTAATAAAATAATAATTTAGCATTATTATA
* * *
34739229 TAATTTTCAAGAATTTTAAATATTTTTATATAATATTTAAGTTTTTTTAATTTATATATATTTAT
194 TAATTTTCAA-TATTTTTAATATTTTTATATAATATTTAAGTTGTTTTAATTTATATATATTTAT
* **
34739294 AAAATTTTGTGAAAACATTTTATAAAAATGTTGAATTTTTTAAGATTATTTGAATTTTGTTTTTA
258 AAAATTTTGGGAAAACA-TTTATAAAAATGTTGAATTTTAGAAGATTATTTGAATTTTGTTTTTA
* * * * * * * *
34739359 CAGAGGCTTATTTGCACATTTTCAAAACTATCAGCAACCCAAGGGGTATTTACCTCAGTTTGTTA
322 CAGAAGATTATTTGCACATTTTCAAAACTACCAGCAACCCAAGGAGTACTTACATCAATTTATTA
* *
34739424 TTCAAGTTGTGAAATTCAACTAACTCAAACTCGAAAAAATGAATCACTTATTCGAGTTGATTCAA
387 TCCAAGTTGTGAAATTCAACTAACTCAAACTCGAAAAAATGAAT-AC-TA-T--AGTTGATTAAA
*
34739489 AAAAATCGATTAACTAGAAATTTAAAGAAATTATACATTCTTCAAATCAAATTGAGTTTTGCTCA
447 AAAAATCGATTAACTAGAAATTCAAAGAAATTATACATTCTTCAAATCAAATTGAGTTTTGCTCA
* * * ** **
34739554 CCACTAATCAAAAGAATGTAGCTTCGATGAGTTGATTACTATGTTTTCTTTAAATGGGAATAAGA
512 CCACTAACCAAAAGAATGTAGATTCGATGAATTGATTACTATGTAATCTAAAAATGGGAATAAGA
** * * *
34739619 TTGTTACTTTACCTCTATTTAACAGAATCCACAAATATAATCGAAAAATTTGTTAGAGTCAAATA
577 TAATTACTTTACCTCTAATTAACAGAATCCACAAATACAATCAAAAAATTTGTTAGAGTCAAATA
* * *
34739684 AAAGAAAGTAAACTAGTCATATTGAAATT
642 AAAAAAAGTAAACCAATCATATT-AAATT
* * * * *
34739713 TTGTTAACAATATGATTAAATTCTAAGTTAAAGAACATAAATATCATA-AAAGTCTAAGAACTCT
1 TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAA-TTTAAGAACTCT
* * ** * *
34739777 TTATAAAACAAAATAAGAGAAAAACACAAAGATATTTCGAATGATAGGTTTAAATGGATAGTTTA
65 TT-TAAAACAAAATAAGAGAAAAACAC-AAGATAATTAGAATGATAGACTTGAATTGATAGTTTA
*
34739842 CTTGTTTAAGGCTTCAAATTTATCATTTTAGAATTTTTAAAATAATAATAATAATTTAGCATTAT
128 CTTGTTTAAGGCTTCAAATTTATCATTCTAGAATTTTT--AATAA-AATAATAATTTAGCATTAT
* * *
34739907 TATATAATTTTCAATATTTTTAATATTTTTA-ATATTATTTAAG-TGTTTTCATTTATATGTATT
190 TATATAATTTTCAATATTTTTAATATTTTTATATAATATTTAAGTTGTTTTAATTTATATATATT
* *
34739970 TAT-AAATTTTGGGAAAACA-TTATAAATATTTTGAATTTTAGAAGATTATTTGAATTTTTTTTT
255 TATAAAATTTTGGGAAAACATTTATAAAAATGTTGAATTTTAGAAGATTATTTGAA-----TTTT
** * * * * *
34740033 GGATTTTTTTTGAGAAAGATTAATTTGCACATTTTCAAAACTGCCAAG-GACCTAATGATTACTT
315 -G---TTTTTACAG-AAGATT-ATTTGCACATTTTCAAAACTACC-AGCAACCCAAGGAGTACTT
*
34740097 ACATCAATTTATTATCCAAGTTGTGAAATTCAACTCAACTCGAAACTC-ATAAAATTGAAT-C-A
373 ACATCAATTTATTATCCAAGTTGTGAAATTCAACT-AACTC-AAACTCGA-AAAAATGAATACTA
* * *
34740159 -AGTTGATTAAAAAAAATTGATTAAATTA-AAATTCGAAGAAAATT-T-CTATTCTTC-AATCAA
435 TAGTTGATTAAAAAAAATCGATT-AACTAGAAATTCAAAG-AAATTATAC-ATTCTTCAAATCAA
* * * * * *
34740219 TTTGAGTTTTGCTCTCCTCTAGCCAAAAGTATGTAGATTATGATGAATTGATTACT-TAGTAATC
497 ATTGAGTTTTGCTCACCACTAACCAAAAGAATGTAGATT-CGATGAATTGATTACTAT-GTAATC
* *
34740283 TAAAAATGGGGATAAGATAATTACTTTACCTCTAATTAATAGAATCCA-AAAGTACAATCAAATA
560 TAAAAATGGGAATAAGATAATTACTTTACCTCTAATTAACAGAATCCACAAA-TACAATCAAA-A
* * *
34740347 AATTTGTTTGAGTCAAATTTTAAAAAAAATTAAACCAATCTTA-T-AATT
623 AATTTGTTAGAGTCAAA---TAAAAAAAAGTAAACCAATCATATTAAATT
** * *
34740395 ATTGTTGGC-A-ATGACTAAATTCCAAGTTAATTAATATAAATACCATATAAATTTAAGAACTCT
1 -TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAATTTAAGAACTCT
34740458 TTTAGAAACAAAATAAGAGTAAAAAC-CAAGATAATTAGAATGATAGACTTGAATTGATAGTTTA
65 TTTA-AAACAAAATAAGAG-AAAAACACAAGATAATTAGAATGATAGACTTGAATTGATAGTTTA
* * * * * * * * *
34740522 CTTATTTAAGACTTTAAATTTATCATTCTACATTTTTTAA-AAAACAATAATTTAGTATCATTAC
128 CTTGTTTAAGGCTTCAAATTTATCATTCTAGAATTTTTAATAAAATAATAATTTAGCATTATTAT
* *
34740586 ATAATTTTCAGTATTTTTAATAATTTTTATTTAAT
193 ATAATTTTCAATATTTTTAAT-ATTTTTATATAAT
34740621 TTATATATTT
Statistics
Matches: 757, Mismatches: 108, Indels: 81
0.80 0.11 0.09
Matches are distributed among these distances:
673 21 0.03
674 114 0.15
675 3 0.00
676 72 0.10
677 9 0.01
678 20 0.03
679 20 0.03
680 120 0.16
681 182 0.24
682 73 0.10
683 6 0.01
684 1 0.00
685 26 0.03
686 4 0.01
687 63 0.08
688 8 0.01
689 15 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.39
Consensus pattern (669 bp):
TTGTTAACAATATGACTAAATTCCAAGTTAAATAACATAAATACCATATAAATTTAAGAACTCTT
TTAAAACAAAATAAGAGAAAAACACAAGATAATTAGAATGATAGACTTGAATTGATAGTTTACTT
GTTTAAGGCTTCAAATTTATCATTCTAGAATTTTTAATAAAATAATAATTTAGCATTATTATATA
ATTTTCAATATTTTTAATATTTTTATATAATATTTAAGTTGTTTTAATTTATATATATTTATAAA
ATTTTGGGAAAACATTTATAAAAATGTTGAATTTTAGAAGATTATTTGAATTTTGTTTTTACAGA
AGATTATTTGCACATTTTCAAAACTACCAGCAACCCAAGGAGTACTTACATCAATTTATTATCCA
AGTTGTGAAATTCAACTAACTCAAACTCGAAAAAATGAATACTATAGTTGATTAAAAAAAATCGA
TTAACTAGAAATTCAAAGAAATTATACATTCTTCAAATCAAATTGAGTTTTGCTCACCACTAACC
AAAAGAATGTAGATTCGATGAATTGATTACTATGTAATCTAAAAATGGGAATAAGATAATTACTT
TACCTCTAATTAACAGAATCCACAAATACAATCAAAAAATTTGTTAGAGTCAAATAAAAAAAAGT
AAACCAATCATATTAAATT
Found at i:34742460 original size:20 final size:20
Alignment explanation
Indices: 34742435--34742473 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34742425 ATATATTATC
*
34742435 ACTGTTCATGATTTAACCTT
1 ACTGTTCATAATTTAACCTT
*
34742455 ACTGTTTATAATTTAACCT
1 ACTGTTCATAATTTAACCT
34742474 CATTATTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (20 bp):
ACTGTTCATAATTTAACCTT
Found at i:34747275 original size:2 final size:2
Alignment explanation
Indices: 34747268--34747294 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34747258 CCAAGATGAC
34747268 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
34747295 CAATTATAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34758839 original size:13 final size:13
Alignment explanation
Indices: 34758821--34758845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34758811 TTAAACGATA
34758821 AAATTTTCACACG
1 AAATTTTCACACG
34758834 AAATTTTCACAC
1 AAATTTTCACAC
34758846 ATATCTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:34764667 original size:10 final size:10
Alignment explanation
Indices: 34764652--34764677 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34764642 CCATTTTAAC
34764652 TACCAAATCA
1 TACCAAATCA
34764662 TACCAAATCA
1 TACCAAATCA
34764672 TACCAA
1 TACCAA
34764678 GATTACCATA
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:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (10 bp):
TACCAAATCA
Found at i:34766513 original size:13 final size:13
Alignment explanation
Indices: 34766495--34766519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34766485 TTAAACGATA
34766495 AAATTTTCACACG
1 AAATTTTCACACG
34766508 AAATTTTCACAC
1 AAATTTTCACAC
34766520 ACATCTCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Done.