Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 238 of 316
Found at i:78390084 original size:28 final size:28
Alignment explanation
Indices: 78390013--78390101 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
78390003 AAATATTTAA
* * *
78390013 AAAAATAT-AAAATACTATAAAAGGTCAT
1 AAAAATATAAAAAAATTATAAAA-ATCAT
* * * *
78390041 AGAAAATTATATAAAATTTATTAAAATGAT
1 A-AAAA-TATAAAAAAATTATAAAAATCAT
78390071 AAAAATATAAAAAAATTATAAAAATCAT
1 AAAAATATAAAAAAATTATAAAAATCAT
78390099 AAA
1 AAA
78390102 TTCTTTTTGT
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
28 23 0.49
29 8 0.17
30 7 0.15
31 9 0.19
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (28 bp):
AAAAATATAAAAAAATTATAAAAATCAT
Found at i:78390085 original size:19 final size:20
Alignment explanation
Indices: 78390063--78390101 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
78390053 AAAATTTATT
78390063 AAAATGATAAAAAT-ATAAA
1 AAAATGATAAAAATCATAAA
*
78390082 AAAATTATAAAAATCATAAA
1 AAAATGATAAAAATCATAAA
78390102 TTCTTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATGATAAAAATCATAAA
Found at i:78392206 original size:21 final size:21
Alignment explanation
Indices: 78392180--78392225 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
78392170 GTTAGTCACA
* *
78392180 CGGCCGTGTCTCGCACATGGC
1 CGGCCGCGTCTCGCACACGGC
78392201 CGGCCGCGTCTCGCACACGGC
1 CGGCCGCGTCTCGCACACGGC
78392222 CGGC
1 CGGC
78392226 TGCACATCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.43, G:0.35, T:0.13
Consensus pattern (21 bp):
CGGCCGCGTCTCGCACACGGC
Found at i:78397796 original size:18 final size:18
Alignment explanation
Indices: 78397773--78397833 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
78397763 GAACAATTAT
*
78397773 TTATTCAATAATAGTCAG
1 TTATTCAATAATAATCAG
* * *
78397791 TTATTCATTAACAATCAA
1 TTATTCAATAATAATCAG
78397809 TTATTCAATAATAATCAG
1 TTATTCAATAATAATCAG
78397827 TTATTCA
1 TTATTCA
78397834 GTATCAATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (18 bp):
TTATTCAATAATAATCAG
Found at i:78397805 original size:36 final size:36
Alignment explanation
Indices: 78397764--78397846 Score: 121
Period size: 36 Copynumber: 2.3 Consensus size: 36
78397754 AGTCAATCAG
* * *
78397764 AACAATTATTTATTCAATAATAGTCAGTTATTCATT
1 AACAATCAATTATTCAATAATAATCAGTTATTCATT
*
78397800 AACAATCAATTATTCAATAATAATCAGTTATTCAGT
1 AACAATCAATTATTCAATAATAATCAGTTATTCATT
*
78397836 ATCAATCAATT
1 AACAATCAATT
78397847 GATCGGTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (36 bp):
AACAATCAATTATTCAATAATAATCAGTTATTCATT
Found at i:78397842 original size:18 final size:18
Alignment explanation
Indices: 78397773--78397843 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
78397763 GAACAATTAT
*
78397773 TTATTCAATAAT-AGTCAG
1 TTATTCAAT-ATCAATCAG
* * *
78397791 TTATTCATTAACAATCAA
1 TTATTCAATATCAATCAG
78397809 TTATTCAATAAT-AATCAG
1 TTATTCAAT-ATCAATCAG
*
78397827 TTATTCAGTATCAATCA
1 TTATTCAATATCAATCA
78397844 ATTGATCGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.07
18 38 0.90
19 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.06, T:0.39
Consensus pattern (18 bp):
TTATTCAATATCAATCAG
Found at i:78397917 original size:19 final size:19
Alignment explanation
Indices: 78397868--78397917 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
78397858 CAATAATAGT
78397868 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAAAAATCA
* * * *
78397887 GA-TATACAGTAACAATTA
1 AATTATTCAGTAAAAATCA
78397905 AATTATTCAGTAA
1 AATTATTCAGTAA
78397918 TAGTCGATCT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.50, C:0.10, G:0.08, T:0.32
Consensus pattern (19 bp):
AATTATTCAGTAAAAATCA
Found at i:78398046 original size:6 final size:6
Alignment explanation
Indices: 78398038--78398071 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
78398028 AAGCCGGAAT
*
78398038 AGTAAT AGTAAC AGTAAC AGTAAC AGTAAC AGTA
1 AGTAAC AGTAAC AGTAAC AGTAAC AGTAAC AGTA
78398072 CGGTACACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
AGTAAC
Found at i:78399718 original size:22 final size:21
Alignment explanation
Indices: 78399687--78399727 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
78399677 TTTTATTTCA
*
78399687 TAATATAATATCAATAATAAT
1 TAATATAATAACAATAATAAT
*
78399708 TAATAATAATAACATTAATA
1 TAAT-ATAATAACAATAATA
78399728 TTTACTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATAATAACAATAATAAT
Found at i:78403672 original size:21 final size:20
Alignment explanation
Indices: 78403638--78403715 Score: 55
Period size: 19 Copynumber: 4.2 Consensus size: 20
78403628 TATAATTTCT
*
78403638 ATTTTTAT-AGTTTCAAAATA
1 ATTTTTATAATTTTC-AAATA
78403658 ATTTTTATAATTTTCTAAAT-
1 ATTTTTATAATTTTC-AAATA
*
78403678 -TTATTATAATATTT--AATA
1 ATTTTTATAAT-TTTCAAATA
78403696 ATTTTTA-AA-TTT-AAATA
1 ATTTTTATAATTTTCAAATA
78403713 ATT
1 ATT
78403716 AAAAATCAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
16 3 0.06
17 10 0.20
18 2 0.04
19 14 0.29
20 11 0.22
21 9 0.18
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (20 bp):
ATTTTTATAATTTTCAAATA
Found at i:78403686 original size:28 final size:28
Alignment explanation
Indices: 78403655--78403708 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
78403645 TAGTTTCAAA
* *
78403655 ATAAT-TTTTATAATTTTCTAAATTTATT
1 ATAATATTTAATAA-TTTTTAAATTTATT
78403683 ATAATATTTAATAATTTTTAAATTTA
1 ATAATATTTAATAATTTTTAAATTTA
78403709 AATAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
ATAATATTTAATAATTTTTAAATTTATT
Found at i:78403706 original size:8 final size:9
Alignment explanation
Indices: 78403655--78403707 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
78403645 TAGTTTCAAA
78403655 ATAATTTTT
1 ATAATTTTT
78403664 ATAATTTTCT
1 ATAATTTT-T
78403674 A-AATTTATT
1 ATAATTT-TT
*
78403683 ATAATATTTA
1 ATAAT-TTTT
78403693 ATAATTTTT
1 ATAATTTTT
78403702 A-AATTT
1 ATAATTT
78403708 AAATAATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 5 0.13
9 19 0.50
10 12 0.32
11 2 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (9 bp):
ATAATTTTT
Found at i:78412641 original size:19 final size:19
Alignment explanation
Indices: 78412606--78412672 Score: 77
Period size: 18 Copynumber: 3.6 Consensus size: 19
78412596 ATTTTTAAAA
*
78412606 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
78412624 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
78412642 TAAAAATTATTTTGAATTTT
1 TATAAA-TATTTTGAATTTT
*
78412662 TTTAAA-ATTTT
1 TATAAATATTTT
78412673 TGTTGAGACA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
18 20 0.48
19 15 0.36
20 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:78412673 original size:19 final size:20
Alignment explanation
Indices: 78412526--78412674 Score: 78
Period size: 21 Copynumber: 7.3 Consensus size: 20
78412516 ACAAAATTAT
78412526 TATTTTGTAATTTTTTT-AAA
1 TATTTTG-AATTTTTTTAAAA
* * *
78412546 TCTTTT-AACTTTTTT-ATA
1 TATTTTGAATTTTTTTAAAA
* *
78412564 TATTGATTGGATTTTTTTAGAA
1 TATT--TTGAATTTTTTTAAAA
* * *
78412586 TATTTTTATAATTTTTAAAATA
1 TATTTTGA-ATTTTTTTAAA-A
*
78412608 TAAATTTTGGAATTTTTAT-AAA
1 T--ATTTT-GAATTTTTTTAAAA
*
78412630 TATTTTGAA--TTTTAAAAA
1 TATTTTGAATTTTTTTAAAA
78412648 TTATTTTGAATTTTTTTAAAA
1 -TATTTTGAATTTTTTTAAAA
78412669 T-TTTTG
1 TATTTTG
78412675 TTGAGACAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 27
0.67 0.14 0.19
Matches are distributed among these distances:
17 3 0.03
18 16 0.17
19 17 0.18
20 15 0.16
21 23 0.24
22 9 0.09
23 2 0.02
24 10 0.10
25 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.59
Consensus pattern (20 bp):
TATTTTGAATTTTTTTAAAA
Found at i:78414853 original size:27 final size:27
Alignment explanation
Indices: 78414823--78414978 Score: 123
Period size: 27 Copynumber: 5.8 Consensus size: 27
78414813 GTCCTTTGGA
*
78414823 ATAGTAAACACGGGGTAGTTCGTCGGG
1 ATAGTAAACACGGGGTAGTTCATCGGG
* * * * *
78414850 ATAGTAAGCATGGGGTAGTTCGTTGAG
1 ATAGTAAACACGGGGTAGTTCATCGGG
* *** **
78414877 ACAGTAAATGTGGGGTAGTTCATCGAT
1 ATAGTAAACACGGGGTAGTTCATCGGG
* * *
78414904 ATAGTAAACGCGGAGTAGTTCATCAGG
1 ATAGTAAACACGGGGTAGTTCATCGGG
* * * **
78414931 ACAGTAAACATGGGGTAGTTAATTAGG
1 ATAGTAAACACGGGGTAGTTCATCGGG
*
78414958 ATAGTAAACACGTGGTAGTTC
1 ATAGTAAACACGGGGTAGTTC
78414979 GCTAAGACAG
Statistics
Matches: 101, Mismatches: 28, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (27 bp):
ATAGTAAACACGGGGTAGTTCATCGGG
Found at i:78414975 original size:81 final size:81
Alignment explanation
Indices: 78414823--78414978 Score: 179
Period size: 81 Copynumber: 1.9 Consensus size: 81
78414813 GTCCTTTGGA
* * * * * ** ***
78414823 ATAGTAAACACGGGGTAGTTCGTCGGGATAGTAAGCATGGGGTAGTTCGTTGAGACAGTAAATGT
1 ATAGTAAACACGGAGTAGTTCATCAGGACAGTAAACATGGGGTAGTTAATTGAGACAGTAAACAC
78414888 GGGGTAGTTCATCGAT
66 GGGGTAGTTCATCGAT
* *
78414904 ATAGTAAACGCGGAGTAGTTCATCAGGACAGTAAACATGGGGTAGTTAATT-AGGATAGTAAACA
1 ATAGTAAACACGGAGTAGTTCATCAGGACAGTAAACATGGGGTAGTTAATTGA-GACAGTAAACA
*
78414968 CGTGGTAGTTC
65 CGGGGTAGTTC
78414979 GCTAAGACAG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
80 1 0.02
81 60 0.98
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (81 bp):
ATAGTAAACACGGAGTAGTTCATCAGGACAGTAAACATGGGGTAGTTAATTGAGACAGTAAACAC
GGGGTAGTTCATCGAT
Found at i:78417609 original size:15 final size:17
Alignment explanation
Indices: 78417589--78417630 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
78417579 GTGTTTAATG
78417589 AGATGAAATGT-A-TAC
1 AGATGAAATGTAAGTAC
*
78417604 AGATGAATATGTAAGTAG
1 AGATGAA-ATGTAAGTAC
78417622 AGATGAAAT
1 AGATGAAAT
78417631 TTGTCGAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 3 0.13
18 9 0.39
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (17 bp):
AGATGAAATGTAAGTAC
Found at i:78417757 original size:29 final size:28
Alignment explanation
Indices: 78417721--78417798 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
78417711 TCATGAGATT
78417721 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
78417751 -GCACTAAGCGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
78417778 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
78417799 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:78417935 original size:29 final size:29
Alignment explanation
Indices: 78417900--78417967 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
78417890 GCGGAAATGG
78417900 TAAGTGTGCGAACTTGAAA-TGCATGGCAC
1 TAAGTGTGCG-ACTTGAAAGTGCATGGCAC
* * *
78417929 TAAGTGTGTGAGTTTAAAGTGCATGGCAC
1 TAAGTGTGCGACTTGAAAGTGCATGGCAC
78417958 TAAGTGTGCG
1 TAAGTGTGCG
78417968 CGGTTGATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (29 bp):
TAAGTGTGCGACTTGAAAGTGCATGGCAC
Found at i:78418016 original size:174 final size:174
Alignment explanation
Indices: 78417751--78418252 Score: 914
Period size: 174 Copynumber: 2.9 Consensus size: 174
78417741 AAATTGTACA
* *
78417751 GCACTAAGCGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
78417816 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
78417881 TTTTGGACAGCGGAAATGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
78417925 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
78417990 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCTACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
78418055 ATTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
78418099 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
78418164 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
78418229 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
78418253 ACCTTGAGTT
Statistics
Matches: 314, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 314 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:78419857 original size:40 final size:40
Alignment explanation
Indices: 78419774--78419996 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
78419764 TTGAATGCTG
* * * * * *
78419774 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
78419814 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
78419854 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
78419894 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
78419934 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
78419973 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78419997 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 119 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:78420016 original size:79 final size:80
Alignment explanation
Indices: 78419849--78420031 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
78419839 GTGCGAGATA
** * *
78419849 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
78419914 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
78419929 TTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
78419993 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
78420008 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
78420032 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 15 0.17
79 45 0.51
80 28 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:78427757 original size:40 final size:40
Alignment explanation
Indices: 78427674--78427896 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
78427664 TTGAATGCTG
* * * * * *
78427674 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
78427714 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
78427754 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
78427794 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
78427834 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
78427873 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
78427897 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 119 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:78443938 original size:40 final size:40
Alignment explanation
Indices: 78443878--78444012 Score: 211
Period size: 40 Copynumber: 3.4 Consensus size: 40
78443868 ATATTCGGAT
*
78443878 TATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTAC
*
78443918 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTAC
78443958 TATATCCGGGGCTTAAGTCCCGAAGGCATTTGAGCGAG-TAGC
1 TATATCC-GGGC-TAAGTCCCGAAGGCATTTGAGCGAGTTA-C
78444000 TATATCC-GGCTAA
1 TATATCCGGGCTAA
78444013 AACCGAATGT
Statistics
Matches: 89, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
39 3 0.03
40 48 0.54
41 6 0.07
42 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTAC
Found at i:78446138 original size:14 final size:14
Alignment explanation
Indices: 78446116--78446145 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78446106 GATAAATACT
*
78446116 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
78446130 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
78446144 TT
1 TT
78446146 CTTGTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:78452132 original size:20 final size:20
Alignment explanation
Indices: 78452109--78452147 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
78452099 AAGACTTTAC
* *
78452109 TTTATTTTTATTTTTATTTG
1 TTTACTTTTATCTTTATTTG
78452129 TTTACTTTTATCTTTATTT
1 TTTACTTTTATCTTTATTT
78452148 ACCTTCTTAA
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:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (20 bp):
TTTACTTTTATCTTTATTTG
Found at i:78454230 original size:13 final size:13
Alignment explanation
Indices: 78454212--78454236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78454202 AGCCACCTCA
78454212 CACGGGCATGTCG
1 CACGGGCATGTCG
78454225 CACGGGCATGTC
1 CACGGGCATGTC
78454237 CCTGTCGAGC
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:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGGCATGTCG
Found at i:78455059 original size:13 final size:13
Alignment explanation
Indices: 78455043--78455068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78455033 CTGTGCATTC
78455043 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
78455056 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
78455069 ACTAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:78456009 original size:16 final size:16
Alignment explanation
Indices: 78455988--78456019 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78455978 CATGTCACTC
*
78455988 ACTTGAAAACCCTTAA
1 ACTTGAAAACACTTAA
78456004 ACTTGAAAACACTTAA
1 ACTTGAAAACACTTAA
78456020 GATTTATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (16 bp):
ACTTGAAAACACTTAA
Found at i:78456961 original size:18 final size:18
Alignment explanation
Indices: 78456938--78456978 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
78456928 GTATACTTAT
78456938 CATATGTTCATATATATA
1 CATATGTTCATATATATA
78456956 CATATGTTCATATATATA
1 CATATGTTCATATATATA
78456974 CATAT
1 CATAT
78456979 ACATAAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (18 bp):
CATATGTTCATATATATA
Found at i:78457858 original size:27 final size:27
Alignment explanation
Indices: 78457828--78457959 Score: 108
Period size: 27 Copynumber: 5.3 Consensus size: 27
78457818 ATAATCTCGC
*
78457828 ATTTTCTCGATTTAGACCCGAATTTTG
1 ATTTTCTCGATTTAGACCCGAATTTCG
* *
78457855 ATTTTCTTGATCTA-A--C---TTTCG
1 ATTTTCTCGATTTAGACCCGAATTTCG
*
78457876 CATTTTCTCGATTTAGACCCGAATTTTG
1 -ATTTTCTCGATTTAGACCCGAATTTCG
* *
78457904 ATTTTCTTGATCTA-A--C---TTTCG
1 ATTTTCTCGATTTAGACCCGAATTTCG
78457925 CATTTTCTCGATTTAGACCCGAATTTCG
1 -ATTTTCTCGATTTAGACCCGAATTTCG
78457953 ATTTTCT
1 ATTTTCT
78457960 TGATCTAGCT
Statistics
Matches: 80, Mismatches: 11, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
21 8 0.10
22 24 0.30
23 2 0.03
24 2 0.03
25 2 0.03
26 2 0.03
27 31 0.39
28 9 0.11
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (27 bp):
ATTTTCTCGATTTAGACCCGAATTTCG
Found at i:78457881 original size:49 final size:49
Alignment explanation
Indices: 78457824--78457971 Score: 278
Period size: 49 Copynumber: 3.0 Consensus size: 49
78457814 GTCCATAATC
78457824 TCGCATTTTCTCGATTTAGACCCGAATTTTGATTTTCTTGATCTAACTT
1 TCGCATTTTCTCGATTTAGACCCGAATTTTGATTTTCTTGATCTAACTT
78457873 TCGCATTTTCTCGATTTAGACCCGAATTTTGATTTTCTTGATCTAACTT
1 TCGCATTTTCTCGATTTAGACCCGAATTTTGATTTTCTTGATCTAACTT
* *
78457922 TCGCATTTTCTCGATTTAGACCCGAATTTCGATTTTCTTGATCTAGCTT
1 TCGCATTTTCTCGATTTAGACCCGAATTTTGATTTTCTTGATCTAACTT
78457971 T
1 T
78457972 ACAAATATAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 97 1.00
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.47
Consensus pattern (49 bp):
TCGCATTTTCTCGATTTAGACCCGAATTTTGATTTTCTTGATCTAACTT
Found at i:78457883 original size:22 final size:22
Alignment explanation
Indices: 78457855--78457932 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 22
78457845 CCGAATTTTG
78457855 ATTTTCTTGATCTAACTTTCGC
1 ATTTTCTTGATCTAACTTTCGC
* * *
78457877 ATTTTCTCGATTTAGACCCGAATTTTG-
1 ATTTTCTTGATCTA-A--C---TTTCGC
78457904 ATTTTCTTGATCTAACTTTCGC
1 ATTTTCTTGATCTAACTTTCGC
78457926 ATTTTCT
1 ATTTTCT
78457933 CGATTTAGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
21 4 0.09
22 19 0.44
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 12 0.28
28 4 0.09
ACGTcount: A:0.19, C:0.21, G:0.10, T:0.50
Consensus pattern (22 bp):
ATTTTCTTGATCTAACTTTCGC
Found at i:78465159 original size:46 final size:47
Alignment explanation
Indices: 78465047--78465321 Score: 219
Period size: 46 Copynumber: 5.9 Consensus size: 47
78465037 CAGCCATATT
* ** *
78465047 ATGAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGGATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAG
* * *
78465095 ACGAGAGCTAGTATAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCTCGAG
*
78465141 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-CGAG
* * * *
78465187 AT--GTGTCAGTGTAAGACCATATCTGGGACATGGCATCG-GTACGGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCT-C-GAG
* * * * *
78465233 ATGTGAGAGCCAGTGTAAAACCATTTCTAGGACATGGCATCGACT--TG
1 A--TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAG
* *
78465280 ATGGATGAGCCAGTGTAAGACCATGTCTGGGACGTGGTATCG
1 AT-GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
78465322 GCATTACACC
Statistics
Matches: 187, Mismatches: 27, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.06
45 20 0.11
46 61 0.33
47 48 0.26
48 15 0.08
50 31 0.17
51 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCTCGAG
Found at i:78467260 original size:35 final size:35
Alignment explanation
Indices: 78467130--78467268 Score: 170
Period size: 35 Copynumber: 4.0 Consensus size: 35
78467120 CGATTCACAA
** * * * *
78467130 CTCAGTATGGTTAATACCATACCTATGTTTCACAA
1 CTCAGTATGGAAAATACCATACCTACGTATCATAG
* *
78467165 CTCGGTATGGAAAATACCATACCTACGTATTATAG
1 CTCAGTATGGAAAATACCATACCTACGTATCATAG
* * * *
78467200 CTCGGTATAGAAAATACCTTACCTACATATCATAG
1 CTCAGTATGGAAAATACCATACCTACGTATCATAG
78467235 CTCAGTATGGAAAATACCATACCTACGTATCATA
1 CTCAGTATGGAAAATACCATACCTACGTATCATA
78467269 ACTTTACCAT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (35 bp):
CTCAGTATGGAAAATACCATACCTACGTATCATAG
Found at i:78472413 original size:20 final size:19
Alignment explanation
Indices: 78472388--78472444 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
78472378 CATTAAATTA
78472388 AATTTAATATTAAGATAAT
1 AATTTAATATTAAGATAAT
78472407 CAATTTAATATTAA-ATTAAT
1 -AATTTAATATTAAGA-TAAT
**
78472427 AAAATAATATTAAGATAA
1 AATTTAATATTAAGATAA
78472445 ATATAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
AATTTAATATTAAGATAAT
Found at i:78472456 original size:68 final size:70
Alignment explanation
Indices: 78472333--78472468 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 70
78472323 TGATTAAACT
* * ** * *
78472333 TAATCACTTTAATATTTCAATTAATCTAATATTTATCAAGATAAACATTAAATTAAATTTAATAT
1 TAATCAATTTAATATTTAAATTAATAAAATATATATCAAGATAAACATAAAATTAAATTTAATAT
78472398 TAAGA
66 TAAGA
* *
78472403 TAATCAATTTAATA-TTAAATTAATAAAATA-ATATTAAGATAAATATAAAATTAAATTTAATAT
1 TAATCAATTTAATATTTAAATTAATAAAATATATATCAAGATAAACATAAAATTAAATTTAATAT
78472466 TAA
66 TAA
78472469 ATCTATTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 32 0.55
69 13 0.22
70 13 0.22
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (70 bp):
TAATCAATTTAATATTTAAATTAATAAAATATATATCAAGATAAACATAAAATTAAATTTAATAT
TAAGA
Found at i:78477458 original size:30 final size:30
Alignment explanation
Indices: 78477393--78477460 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
78477383 ATGGGGCAGA
* *
78477393 CCGTGCGTCACACATGGTCTAGACACACCC
1 CCGTGTGTCACACACGGTCTAGACACACCC
* *
78477423 CCGTGTGTCACACACGGTCTAGGCACACGC
1 CCGTGTGTCACACACGGTCTAGACACACCC
78477453 CCGTGTGT
1 CCGTGTGT
78477461 ATACACATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.19, C:0.37, G:0.25, T:0.19
Consensus pattern (30 bp):
CCGTGTGTCACACACGGTCTAGACACACCC
Found at i:78478363 original size:48 final size:48
Alignment explanation
Indices: 78478303--78478620 Score: 317
Period size: 48 Copynumber: 6.9 Consensus size: 48
78478293 ATATCGGTGC
* * *
78478303 CGATGCCATGTTCCAAACATGGTCTTATACTAGCCCACATGTCGAGAT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
* *
78478351 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAT--AAATT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGA-T
* * **
78478398 CTGATGTCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGC
1 C-GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
*
78478447 CGATGCCATG-TCCGAAACATGGTCTTACACTAGCTCTCATAT--A-A-
1 CGATGCCATGTTCC-AAACATGGTCTTACACTAGCTCACATATCGAGAT
* * * *
78478491 --ATGCC----TCCAAACATGGTCTTACACTGGATCACATATCGTGGT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
* * *
78478533 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT--AAAT
1 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
*
78478579 GCCGATGCCATGTT-CAAACATGGTCTTACACTGGCTCACATA
1 --CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
78478621 ACCCTAGTAT
Statistics
Matches: 223, Mismatches: 30, Indels: 35
0.77 0.10 0.12
Matches are distributed among these distances:
38 25 0.11
39 3 0.01
42 5 0.02
44 5 0.02
46 4 0.02
47 31 0.14
48 148 0.66
49 1 0.00
50 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCGAGAT
Found at i:78478451 original size:96 final size:96
Alignment explanation
Indices: 78478251--78478620 Score: 474
Period size: 96 Copynumber: 3.9 Consensus size: 96
78478241 AGGGTAAGAT
* * * * **
78478251 GTCGATGCCATGTCCCAGACATGGCCTTACATTGGCTCTCATATATCGGTGCCGATGCCATGTTC
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA--AATGCCGATGCCATGTTC
* * * *
78478316 CAAACATGGTCTTATACTAGCCCACATGTCGAG
64 CAAACATGGTCTTACACTGGCTCACATATCGAG
* * * * *
78478349 ATCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAATTCTGATGTCATGTTCCA
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
78478414 AACATGGTCTTACACTGGCTCACATATCGAG
66 AACATGGTCTTACACTGGCTCACATATCGAG
* *
78478445 GCCGATGCCATGTCCGAAACATGGTCTTACACTAGCTCTCATAT-AA-----ATGCC----TCCA
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
* *
78478500 AACATGGTCTTACACTGGATCACATATCGTG
66 AACATGGTCTTACACTGGCTCACATATCGAG
78478531 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTT-CA
1 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
78478595 AACATGGTCTTACACTGGCTCACATA
66 AACATGGTCTTACACTGGCTCACATA
78478621 ACCCTAGTAT
Statistics
Matches: 237, Mismatches: 25, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
86 75 0.32
87 2 0.01
90 4 0.02
92 5 0.02
95 29 0.12
96 83 0.35
98 39 0.16
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (96 bp):
GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAATGCCGATGCCATGTTCCA
AACATGGTCTTACACTGGCTCACATATCGAG
Found at i:78478555 original size:86 final size:86
Alignment explanation
Indices: 78478410--78478581 Score: 308
Period size: 86 Copynumber: 2.0 Consensus size: 86
78478400 GATGTCATGT
* *
78478410 TCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCGAAACATGGTCTTAC
1 TCCAAACATGGTCTTACACTGGATCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTAC
78478475 ACTAGCTCTCATATAAATGCC
66 ACTAGCTCTCATATAAATGCC
* *
78478496 TCCAAACATGGTCTTACACTGGATCACATATCGTGGTCGATGCCATGTCCCAAACATGGTCTTAC
1 TCCAAACATGGTCTTACACTGGATCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTAC
78478561 ACTAGCTCTCATATAAATGCC
66 ACTAGCTCTCATATAAATGCC
78478582 GATGCCATGT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 82 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
TCCAAACATGGTCTTACACTGGATCACATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTAC
ACTAGCTCTCATATAAATGCC
Found at i:78481381 original size:17 final size:18
Alignment explanation
Indices: 78481359--78481393 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
78481349 ATTAGAAACT
78481359 AAATCCAAAA-AGTTTAA
1 AAATCCAAAATAGTTTAA
78481376 AAATCCAAAATAGTTTAA
1 AAATCCAAAATAGTTTAA
78481394 TAAAACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (18 bp):
AAATCCAAAATAGTTTAA
Found at i:78486089 original size:13 final size:14
Alignment explanation
Indices: 78486054--78486095 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
78486044 AGGAAAAAAA
78486054 TTATGTAAAAATA-
1 TTATGTAAAAATAT
*
78486067 -TATTTATAAAATAT
1 TTATGTA-AAAATAT
78486081 TTATGTAAAAATAT
1 TTATGTAAAAATAT
78486095 T
1 T
78486096 AATAGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
12 5 0.21
13 6 0.25
14 8 0.33
15 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
TTATGTAAAAATAT
Found at i:78493402 original size:12 final size:12
Alignment explanation
Indices: 78493385--78493416 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
78493375 TCATGTCCCA
78493385 GCCCGTGTTCGT
1 GCCCGTGTTCGT
78493397 GCCCGTGTTCGT
1 GCCCGTGTTCGT
78493409 GCCCGTGT
1 GCCCGTGT
78493417 AACTCACTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.34, G:0.34, T:0.31
Consensus pattern (12 bp):
GCCCGTGTTCGT
Found at i:78504467 original size:40 final size:40
Alignment explanation
Indices: 78504412--78504790 Score: 381
Period size: 40 Copynumber: 9.5 Consensus size: 40
78504402 GTTAGATCTA
* * * * *
78504412 CCGAA-CACACTAGACAGAATCTCATAAGAGTTGATGCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * * *
78504451 CCGAAGCACACCAGACAGAAGCTCATAAGAACTAATCCAA
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
78504491 CCGTAA-CATACCAAACAGAAGCTCATAAGAGGTAATCCAC
1 CCG-AAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
*
78504531 CCGAAGCACACCAGACAGAAGCTCATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
78504571 CTGAAGCACACCAAATAGAAGCTTATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * *
78504611 CTGAAGGACACCAGACAGAAGCTCATAAGAGCTGATCCAC
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * * * *
78504651 CTGAAGCACACTAGGAA-A-AAGCTCACAAGAGTTGATCCAA
1 CCGAAGCACACCA--AACAGAAGCTCATAAGAGCTGATCCAC
* *
78504691 TCGTAA-CACACCAAACAGAAGCTCATAAGAGCTGATCCAA
1 CCG-AAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* * ** * *
78504731 TCGAAACATGCCAAACAGAAGCTCATAAGAGTTGATCCAA
1 CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
* *
78504771 TCGAAGCACGCCAAACAGAA
1 CCGAAGCACACCAAACAGAA
78504791 AGTATAACAC
Statistics
Matches: 291, Mismatches: 40, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 10 0.03
40 273 0.94
41 5 0.02
42 1 0.00
ACGTcount: A:0.41, C:0.27, G:0.18, T:0.14
Consensus pattern (40 bp):
CCGAAGCACACCAAACAGAAGCTCATAAGAGCTGATCCAC
Found at i:78508546 original size:51 final size:51
Alignment explanation
Indices: 78508462--78508600 Score: 142
Period size: 51 Copynumber: 2.7 Consensus size: 51
78508452 GGATGCCCGA
* *
78508462 TGGCCTACACATAGTACCACCCTTGT-AGTCAAAGCTAACTTCTTCACA-A-AG
1 TGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTAACTT-TT-ACATATAG
* *
78508513 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACATATAG
1 TGGCCTTCACATAGTACCACACTTGTGATCAAAGCTAACTTTTACATATAG
* * * *
78508564 TGG-CTTGCACTTAGTGCCACACATGTGATCGAAGCTA
1 TGGCCTT-CACATAGTACCACACTTGTGATCAAAGCTA
78508601 TCGGGTATGC
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
49 3 0.04
50 6 0.08
51 65 0.87
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGATCAAAGCTAACTTTTACATATAG
Found at i:78511429 original size:15 final size:15
Alignment explanation
Indices: 78511376--78511448 Score: 58
Period size: 15 Copynumber: 4.9 Consensus size: 15
78511366 AGAATTCAAG
* *
78511376 ATAAGGAAATCCATA
1 ATAAAGAAATCCAAA
** *
78511391 ATGGAGAAATCC-AG
1 ATAAAGAAATCCAAA
* *
78511405 ATATAGAAATCCAAC
1 ATAAAGAAATCCAAA
78511420 ATAAAGAAATCCAAA
1 ATAAAGAAATCCAAA
* *
78511435 ACAAAAAAATCCAA
1 ATAAAGAAATCCAA
78511449 TCAGACTGAT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
14 10 0.22
15 35 0.78
ACGTcount: A:0.58, C:0.16, G:0.11, T:0.15
Consensus pattern (15 bp):
ATAAAGAAATCCAAA
Found at i:78515057 original size:50 final size:50
Alignment explanation
Indices: 78514930--78515118 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
78514920 AGCTATATTT
* * * * * *
78514930 TACACATAGTGGCTTGCACTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTAA-CCATCTGG
** * *
78514981 TATGCATAATAGCTTGCACTTAGTACTACACATGCGACCTAACCATCTGG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTAACCATCTGG
* * * **
78515031 TACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATTTTA
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCT--AACCATCTGG
* * *
78515083 AACACATAGTAGCCTGCACATAGTACTACACATGTG
1 TACACATAGTAGCTTGCACTTAGTACTACACATGTG
78515119 TTCTCACAAC
Statistics
Matches: 112, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 40 0.36
51 34 0.30
52 38 0.34
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACATAGTAGCTTGCACTTAGTACTACACATGTGACCTAACCATCTGG
Found at i:78515101 original size:52 final size:50
Alignment explanation
Indices: 78514985--78515114 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 50
78514975 ATCGGGTATG
* * **
78514985 CATAATAGCTTGCACTTAGTACTACACATGCGACCTAACCATCTGGTACA
1 CATAGTAGCTTGCACTTAGTACTACACACGCGACCTAACCATCTGAAACA
* * * *
78515035 CGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATTTTAAACA
1 CATAGTAGCTTGCACTTAGTACTACACACGCGACCT--AACCATCTGAAACA
* *
78515087 CATAGTAGCCTGCACATAGTACTACACA
1 CATAGTAGCTTGCACTTAGTACTACACA
78515115 TGTGTTCTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 32 0.48
52 35 0.52
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (50 bp):
CATAGTAGCTTGCACTTAGTACTACACACGCGACCTAACCATCTGAAACA
Found at i:78515486 original size:25 final size:26
Alignment explanation
Indices: 78515457--78515513 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
78515447 GTTACTAGTC
*
78515457 ATATATCATTGTTCTCA-CAAATTTT-
1 ATATATCATTCTT-TCATCAAATTTTA
* *
78515482 ATATACCATTCTTTCATCACATTTTA
1 ATATATCATTCTTTCATCAAATTTTA
78515508 ATATAT
1 ATATAT
78515514 TAAATCATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.12
25 18 0.69
26 5 0.19
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (26 bp):
ATATATCATTCTTTCATCAAATTTTA
Found at i:78522729 original size:15 final size:17
Alignment explanation
Indices: 78522698--78522729 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78522688 ACTCGTATTC
78522698 ATATTGTCACTAAATTG
1 ATATTGTCACTAAATTG
78522715 ATATTGT-AC-AAATTG
1 ATATTGTCACTAAATTG
78522730 TTAAGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 2 0.13
17 7 0.47
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (17 bp):
ATATTGTCACTAAATTG
Found at i:78539426 original size:43 final size:43
Alignment explanation
Indices: 78539263--78539426 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 43
78539253 AGCTCGTACA
*** *
78539263 ATGCCAACGTCCCAGACGAT-GTCTTACATTTAATC-AAATATAG
1 ATGCCAACGTCCCAGAC-ATGGTCTTACACGAAATCTAAA-ATCG
* * * *
78539306 ATGCC-ACTGTCCCAAACAGGGTCTTACACGAAATCTTATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCTAAAATCG
* * * *
78539348 AGGCCAATGTCCTAGACATGGTCTTACAATC-AAATCTCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTAC-A-CGAAATCTAAAATCG
78539392 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATC
78539427 ACGTACCGAA
Statistics
Matches: 95, Mismatches: 18, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
42 25 0.26
43 42 0.44
44 28 0.29
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCTAAAATCG
Found at i:78542428 original size:46 final size:46
Alignment explanation
Indices: 78542373--78542495 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
78542363 GATGAGTGCT
78542373 GGTGTAAGACATGTCTGGGACATACATCGGCCT-CGAGACACAAGT-A
1 GGTGTAAGACATGTCTGGGACATACATCGGCCTACGAG--ACAAGTCA
* ***
78542419 GGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTGTCA
1 GGTGTAAGACATGTCTGGGACATACATCGGCCTACGAGACAAGTCA
78542464 -GTGTAAGACCATGTCTGGGACATAGCATCGGC
1 GGTGTAAGA-CATGTCTGGGACATA-CATCGGC
78542496 ACCTTACGCC
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
44 11 0.16
45 17 0.25
46 39 0.58
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
GGTGTAAGACATGTCTGGGACATACATCGGCCTACGAGACAAGTCA
Found at i:78556244 original size:12 final size:11
Alignment explanation
Indices: 78556225--78556255 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
78556215 TCTATAAAAC
78556225 TTATTTTATTA
1 TTATTTTATTA
78556236 TTAATTTTATTA
1 TT-ATTTTATTA
78556248 TTATTTTA
1 TTATTTTA
78556256 AAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:78556449 original size:12 final size:12
Alignment explanation
Indices: 78556419--78556451 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
78556409 TATATATTTT
78556419 AAAATT-ATATA
1 AAAATTAATATA
78556430 AAAA-TAATATA
1 AAAATTAATATA
78556441 AAAATTAATAT
1 AAAATTAATAT
78556452 GGGCAGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:78557635 original size:21 final size:21
Alignment explanation
Indices: 78557597--78557636 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
78557587 AGCAATTGTG
**
78557597 ACTGTTAGTAAGCTGTTAGAA
1 ACTGTTAGTAAGAAGTTAGAA
*
78557618 ACTGTTAGTAATAAGTTAG
1 ACTGTTAGTAAGAAGTTAG
78557637 TAGCAGTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (21 bp):
ACTGTTAGTAAGAAGTTAGAA
Found at i:78560066 original size:28 final size:28
Alignment explanation
Indices: 78560026--78560084 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
78560016 ATTCAGTTTT
78560026 AGAGAATAGTTAATACTCAATTTGGGAA
1 AGAGAATAGTTAATACTCAATTTGGGAA
*
78560054 AGAGAATGGTTAATACTCAATTTGGGAA
1 AGAGAATAGTTAATACTCAATTTGGGAA
78560082 AGA
1 AGA
78560085 CATTAAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.27
Consensus pattern (28 bp):
AGAGAATAGTTAATACTCAATTTGGGAA
Found at i:78560866 original size:69 final size:69
Alignment explanation
Indices: 78560733--78560867 Score: 193
Period size: 69 Copynumber: 2.0 Consensus size: 69
78560723 TTCACTGTTT
* * *
78560733 TTTGGAAAATGATGTAGGTGCCTTGGCTCCTAGTAGTAGCACCTCTCCCCCCACACTTGGGTTGT
1 TTTGGAAAATGATGTAGGTGCCTTGGATCCTAGTAGCAGCACCTCTCCCCCCACACTCGGGTTGT
78560798 CACC
66 CACC
* *
78560802 TTTGGAAAATGATGTAGGTGCCTTGGATCAC-AGTAGCAGCACTTCTTCCCCCACAC-CGGTGTT
1 TTTGGAAAATGATGTAGGTGCCTTGGATC-CTAGTAGCAGCACCTCTCCCCCCACACTCGG-GTT
78560865 GTC
64 GTC
78560868 TACAACTTCG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 2 0.03
69 56 0.95
70 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (69 bp):
TTTGGAAAATGATGTAGGTGCCTTGGATCCTAGTAGCAGCACCTCTCCCCCCACACTCGGGTTGT
CACC
Found at i:78562546 original size:16 final size:16
Alignment explanation
Indices: 78562525--78562558 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
78562515 AAGTTAGGTG
78562525 AATGTTAGAGTTTGTT
1 AATGTTAGAGTTTGTT
78562541 AATGTTAGAGTTTGTT
1 AATGTTAGAGTTTGTT
78562557 AA
1 AA
78562559 AACAATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (16 bp):
AATGTTAGAGTTTGTT
Found at i:78563402 original size:17 final size:17
Alignment explanation
Indices: 78563380--78563412 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78563370 AGGGTTTTCT
78563380 TAAAAA-ATAAAGATAAA
1 TAAAAAGATAAA-ATAAA
78563397 TAAAAAGATAAAATAA
1 TAAAAAGATAAAATAA
78563413 TTTTTACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (17 bp):
TAAAAAGATAAAATAAA
Found at i:78563555 original size:20 final size:20
Alignment explanation
Indices: 78563532--78563575 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
78563522 AATGAAAAAG
*
78563532 AAAAATT-AATTTTTTCTAT
1 AAAAATTCAATTTTTCCTAT
78563551 AAAAATTCAATTTTTCCTAT
1 AAAAATTCAATTTTTCCTAT
78563571 AAAAA
1 AAAAA
78563576 CCTAAGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAAATTCAATTTTTCCTAT
Found at i:78568726 original size:111 final size:111
Alignment explanation
Indices: 78568526--78568782 Score: 311
Period size: 111 Copynumber: 2.3 Consensus size: 111
78568516 ACATGTAATT
** * * ** *
78568526 ACATATCAATGCC-ACTGTCCCAAATAGGGTCTTACTCGTAAACACATATCGGAATCACCTATCG
1 ACATATCAATGCCAAC-GTATCAAACATGGTCTTACTCACAAACACATATCGGAATCACATATCG
* *
78568590 ATGCCAACGTATTAAAGTGGCCTTACTCGCACACACATATCGGAATC
65 ATGCCAACGTATTAAAGTAGCCTTACTCGCACACACATATCAGAATC
* * * * *
78568637 ACATATCGATGCCAACGTGTCAAACGTGGTCTTACTCACACACACATATCGGTATCACATATC-A
1 ACATATCAATGCCAACGTATCAAACATGGTCTTACTCACAAACACATATCGGAATCACATATCGA
* * *
78568701 TGTCAACGTATTAAACGTAGTCTTACTTGCACACACATATCAGAATC
66 TGCCAACGTATTAAA-GTAGCCTTACTCGCACACACATATCAGAATC
* *
78568748 ACATATTAATGCCAACGTATTAAACATGGTCTTAC
1 ACATATCAATGCCAACGTATCAAACATGGTCTTAC
78568783 ACGTAATCAT
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
110 15 0.12
111 106 0.86
112 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (111 bp):
ACATATCAATGCCAACGTATCAAACATGGTCTTACTCACAAACACATATCGGAATCACATATCGA
TGCCAACGTATTAAAGTAGCCTTACTCGCACACACATATCAGAATC
Found at i:78568797 original size:56 final size:56
Alignment explanation
Indices: 78568553--78568782 Score: 311
Period size: 55 Copynumber: 4.1 Consensus size: 56
78568543 TCCCAAATAG
* * *
78568553 GGTCTTACTCGTAAACACATATCGGAATCACCTATCGATGCCAACGTATTAAA-GT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
78568608 GGCCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTGTCAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
78568664 GGTCTTACTCACACACACATATCGGTATCACATATC-ATGTCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * * ** *
78568719 AGTCTTACTTGCACACACATATCAGAATCACATATTAATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
78568775 GGTCTTAC
1 GGTCTTAC
78568783 ACGTAATCAT
Statistics
Matches: 152, Mismatches: 21, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
55 93 0.61
56 59 0.39
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:78571518 original size:14 final size:14
Alignment explanation
Indices: 78571507--78571534 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78571497 TTTTCTAATG
78571507 ATACTATTCTAACA
1 ATACTATTCTAACA
78571521 ATACTATTCTAACA
1 ATACTATTCTAACA
78571535 TGTAATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
ATACTATTCTAACA
Found at i:78572160 original size:6 final size:6
Alignment explanation
Indices: 78572146--78572214 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
78572136 GGGGCATACA
* * * * * *
78572146 AGCCAG AGCCCG AGCCAG AGCTAG AGCCAA AGCCCG AGCCAA AGCCAA
1 AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG AGCCAG
* * *
78572194 AGCTAG AGCTAG AGCCCG AGC
1 AGCCAG AGCCAG AGCCAG AGC
78572215 TGTCGCATAC
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.33, C:0.33, G:0.29, T:0.04
Consensus pattern (6 bp):
AGCCAG
Found at i:78572185 original size:30 final size:30
Alignment explanation
Indices: 78572158--78572214 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
78572148 CCAGAGCCCG
*
78572158 AGCCAGAGCTAGAGCCAAAGCCCGAGCCAA
1 AGCCAAAGCTAGAGCCAAAGCCCGAGCCAA
* *
78572188 AGCCAAAGCTAGAGCTAGAGCCCGAGC
1 AGCCAAAGCTAGAGCCAAAGCCCGAGC
78572215 TGTCGCATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.35, C:0.32, G:0.28, T:0.05
Consensus pattern (30 bp):
AGCCAAAGCTAGAGCCAAAGCCCGAGCCAA
Found at i:78572215 original size:18 final size:18
Alignment explanation
Indices: 78572158--78572209 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
78572148 CCAGAGCCCG
78572158 AGCCAGAGCTAGAGCCAA
1 AGCCAGAGCTAGAGCCAA
* * *
78572176 AGCCCGAGCCAAAGCCAA
1 AGCCAGAGCTAGAGCCAA
*
78572194 AGCTAGAGCTAGAGCC
1 AGCCAGAGCTAGAGCC
78572210 CGAGCTGTCG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.37, C:0.31, G:0.27, T:0.06
Consensus pattern (18 bp):
AGCCAGAGCTAGAGCCAA
Found at i:78572738 original size:49 final size:49
Alignment explanation
Indices: 78572679--78572818 Score: 235
Period size: 49 Copynumber: 2.9 Consensus size: 49
78572669 GTATTTATTT
* *
78572679 AATTAGATTAATTGAAACATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
* *
78572728 AATTAAATTAATTGCAACATTAAAACTTGGAATAAACTTTATGGTCATA
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
*
78572777 AATTAGATTATTTGCAACATTAAAACTTGGAACAAACTTTAT
1 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTAT
78572819 AATATAAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (49 bp):
AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTATGGTCATA
Found at i:78576568 original size:4 final size:4
Alignment explanation
Indices: 78576559--78576598 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
78576549 AAAAATGCAT
*
78576559 TTTC TTTC TTTC TTTC TTCTC TTTTC TTTT TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TTTC TT
78576599 CCCCCCCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 26 0.81
5 4 0.12
6 2 0.06
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:78576586 original size:22 final size:22
Alignment explanation
Indices: 78576558--78576599 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
78576548 TAAAAATGCA
78576558 TTTTCTTTCTTTCTTTCTTCTC
1 TTTTCTTTCTTTCTTTCTTCTC
*
78576580 TTTTCTTTTTTTCTTTCTTC
1 TTTTCTTTCTTTCTTTCTTC
78576600 CCCCCCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCTTTCTTTCTTTCTTCTC
Found at i:78577292 original size:2 final size:2
Alignment explanation
Indices: 78577285--78577310 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78577275 CTTTGCCAAT
78577285 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
78577311 AATGGCTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:78583755 original size:25 final size:25
Alignment explanation
Indices: 78583727--78583806 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
78583717 TTACAAAGAG
** *
78583727 AAAGTCCTAATCTAATTCCTAATTT
1 AAAGTCCTAATAGAATTCTTAATTT
*
78583752 AAAGTACTAATAGAATTCTTAATTT
1 AAAGTCCTAATAGAATTCTTAATTT
78583777 AAAG-CCTTAATAGAATTCTTAATTT
1 AAAGTCC-TAATAGAATTCTTAATTT
78583802 AAAGT
1 AAAGT
78583807 TTATAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (25 bp):
AAAGTCCTAATAGAATTCTTAATTT
Found at i:78585306 original size:26 final size:26
Alignment explanation
Indices: 78585270--78585324 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
78585260 TCAAAGTAGC
*
78585270 TGTTAAATAAAGAACTGTAGCCAATA
1 TGTTAAATAAAGAACTGTAGCCAACA
78585296 TGTTAAATAAAGAACTGTAGCCAACA
1 TGTTAAATAAAGAACTGTAGCCAACA
78585322 TGT
1 TGT
78585325 ATACCCCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (26 bp):
TGTTAAATAAAGAACTGTAGCCAACA
Found at i:78590879 original size:17 final size:16
Alignment explanation
Indices: 78590859--78590894 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
78590849 GTCTTTTTAA
*
78590859 ATTTTATTTGATTTTTT
1 ATTTTATTT-ATTTGTT
78590876 ATTTTATTTATTTGTT
1 ATTTTATTTATTTGTT
78590892 ATT
1 ATT
78590895 ATTAGGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (16 bp):
ATTTTATTTATTTGTT
Found at i:78591169 original size:10 final size:9
Alignment explanation
Indices: 78591137--78591347 Score: 59
Period size: 10 Copynumber: 21.7 Consensus size: 9
78591127 TTAAAAAAAT
*
78591137 AAAATTTTA
1 AAAATTATA
*
78591146 AAATATTAAGA
1 AAA-ATT-ATA
*
78591157 AAAATTATT
1 AAAATTATA
78591166 AAAATTATA
1 AAAATTATA
*
78591175 TAAACTTATA
1 -AAAATTATA
78591185 AAAATTATAA
1 AAAATTAT-A
78591195 AATTAACTTATA
1 AA--AA-TTATA
*
78591207 AATATTATAAA
1 AAAATTAT--A
78591218 AAAAGTTAT-
1 AAAA-TTATA
* *
78591227 AAATTTCTTA
1 AAAATT-ATA
**
78591237 ATAAATCCTA
1 A-AAATTATA
*
78591247 ATAATTATAA
1 AAAATTAT-A
78591257 AAAATTAT-
1 AAAATTATA
*
78591265 AAAGTTAATA
1 AAAATT-ATA
*
78591275 AAACA-TATTT
1 AAA-ATTA-TA
*
78591285 AAAATAATA
1 AAAATTATA
*
78591294 ATATATTATA
1 A-AAATTATA
*
78591304 AAAATGTATT
1 AAAAT-TATA
* *
78591314 AGAATTCTTA
1 AAAATT-ATA
78591324 AAAATTATA
1 AAAATTATA
* *
78591333 AAAAATATT
1 AAAATTATA
78591342 AAAATT
1 AAAATT
78591348 GATATAAGCT
Statistics
Matches: 145, Mismatches: 35, Indels: 44
0.65 0.16 0.20
Matches are distributed among these distances:
8 7 0.05
9 55 0.38
10 59 0.41
11 11 0.08
12 9 0.06
13 4 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.37
Consensus pattern (9 bp):
AAAATTATA
Found at i:78591171 original size:9 final size:9
Alignment explanation
Indices: 78591157--78591199 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
78591147 AATATTAAGA
78591157 AAAATTATT
1 AAAATTATT
78591166 AAAATTATAT
1 AAAATTAT-T
* *
78591176 AAACTTATA
1 AAAATTATT
78591185 AAAATTA-T
1 AAAATTATT
78591193 AAAATTA
1 AAAATTA
78591200 ACTTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 7 0.24
9 14 0.48
10 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATT
Found at i:78591228 original size:21 final size:22
Alignment explanation
Indices: 78591174--78591230 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
78591164 TTAAAATTAT
*
78591174 ATAAACTTATAAAAATTATAAA
1 ATAAACTTATAAATATTATAAA
*
78591196 ATTAACTTATAAATATTATAAA
1 ATAAACTTATAAATATTATAAA
*
78591218 A-AAAGTTATAAAT
1 ATAAACTTATAAAT
78591231 TTCTTAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
ATAAACTTATAAATATTATAAA
Found at i:78596078 original size:73 final size:73
Alignment explanation
Indices: 78595918--78596055 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
78595908 AAAATAATAA
* * *
78595918 AAAATAGAATAAAATCCATTAAACAGCGGGAATAAATCTTGAAACAGATTTTATTTACTTTTAAT
1 AAAATAGAATAAAATCCATTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTACTTTCAAT
78595983 TTGAAAAC
66 TTGAAAAC
* ** *
78595991 AAAATTGAATAAAATCTGTTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTAGTTTCAAT
1 AAAATAGAATAAAATCCATTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTACTTTCAAT
78596056 ATTCATTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 58 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (73 bp):
AAAATAGAATAAAATCCATTAAACAACGGGAATAAATCTTGAAACAAATTTTATTTACTTTCAAT
TTGAAAAC
Found at i:78600056 original size:27 final size:26
Alignment explanation
Indices: 78600006--78600193 Score: 216
Period size: 27 Copynumber: 7.0 Consensus size: 26
78599996 CAACGAGGCT
* * *
78600006 ATCAGATATTGTGACAAAGTCACCAG
1 ATCAGATATTGTGGCAGAGCCACCAG
*
78600032 ATATAGATATTGTGGCAGAGCCACCAG
1 AT-CAGATATTGTGGCAGAGCCACCAG
* *
78600059 AACAGATATATGTGGAAGAGCCACCAG
1 ATCAGATAT-TGTGGCAGAGCCACCAG
*
78600086 ATCAGATAATTGTGGCATAGCCACCAGG
1 ATCAGAT-ATTGTGGCAGAGCCACCA-G
78600114 A-CAGATATATGTGGCAGAGCCACCAG
1 ATCAGATAT-TGTGGCAGAGCCACCAG
*
78600140 ATCAGATAATTATGGCAGAGCCACCAG
1 ATCAGAT-ATTGTGGCAGAGCCACCAG
* *
78600167 ATCAGATAATTATGGCATAGCCACCAG
1 ATCAGAT-ATTGTGGCAGAGCCACCAG
78600194 GACGCTTCTT
Statistics
Matches: 142, Mismatches: 13, Indels: 13
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.08
27 124 0.87
28 6 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
ATCAGATATTGTGGCAGAGCCACCAG
Found at i:78600111 original size:81 final size:81
Alignment explanation
Indices: 78600036--78600196 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 81
78600026 CACCAGATAT
*
78600036 AGATAT-TGTGGCAGAGCCACCAGAACAGAT-ATATGTGGAAGAGCCACCAGATCAGATAATTGT
1 AGATATATGTGGCAGAGCCACCAGAACAGATAAT-TATGGAAGAGCCACCAGATCAGATAATTGT
78600099 GGCATAGCCACCAGGAC
65 GGCATAGCCACCAGGAC
* * *
78600116 AGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCAGAGCCACCAGATCAGATAATTATG
1 AGATATATGTGGCAGAGCCACCAGAACAGATAATTATGGAAGAGCCACCAGATCAGATAATTGTG
78600181 GCATAGCCACCAGGAC
66 GCATAGCCACCAGGAC
78600197 GCTTCTTCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
80 6 0.08
81 67 0.89
82 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (81 bp):
AGATATATGTGGCAGAGCCACCAGAACAGATAATTATGGAAGAGCCACCAGATCAGATAATTGTG
GCATAGCCACCAGGAC
Found at i:78601190 original size:26 final size:26
Alignment explanation
Indices: 78601161--78601219 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
78601151 TAATTACATA
* * *
78601161 ATTATCATGGAATATTTACCTAATCC
1 ATTATCATGGAACATTCACCTAACCC
78601187 ATTATCATGGAACATTCACCTAACCC
1 ATTATCATGGAACATTCACCTAACCC
78601213 ATTATCA
1 ATTATCA
78601220 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
ATTATCATGGAACATTCACCTAACCC
Found at i:78606537 original size:27 final size:27
Alignment explanation
Indices: 78606489--78606647 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
78606479 GCGAGGTTGT
* *
78606489 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
78606516 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
78606542 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
78606569 CAGATAATTGTGGCATAGCCATCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
78606596 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
78606623 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
78606648 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:78606649 original size:54 final size:54
Alignment explanation
Indices: 78606507--78606650 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
78606497 GTGACGAAGT
* * *
78606507 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
78606561 CACCAGATCAGATAATTGTGGCATAGCCATCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
78606615 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
78606651 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 4 0.05
54 80 0.95
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:78607638 original size:22 final size:22
Alignment explanation
Indices: 78607608--78607663 Score: 58
Period size: 26 Copynumber: 2.4 Consensus size: 22
78607598 TAAGCTTTAA
* *
78607608 TTACATAATTATCATGGAATAT
1 TTACCTAATTATCATGGAACAT
78607630 TTACCTAATCCATTATCATGGAACAT
1 TTACCT-A---ATTATCATGGAACAT
78607656 TTACCTAA
1 TTACCTAA
78607664 CCCATTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
22 6 0.21
23 1 0.04
25 1 0.04
26 20 0.71
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TTACCTAATTATCATGGAACAT
Found at i:78607644 original size:26 final size:26
Alignment explanation
Indices: 78607615--78607673 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
78607605 TAATTACATA
* *
78607615 ATTATCATGGAATATTTACCTAATCC
1 ATTATCATGGAACATTTACCTAACCC
78607641 ATTATCATGGAACATTTACCTAACCC
1 ATTATCATGGAACATTTACCTAACCC
78607667 ATTATCA
1 ATTATCA
78607674 ATTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (26 bp):
ATTATCATGGAACATTTACCTAACCC
Found at i:78609141 original size:96 final size:96
Alignment explanation
Indices: 78608974--78609159 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 96
78608964 CCGAGGAAGT
* * * *
78608974 CTATCATCTAAAGGAATGATAGAGTAGACAAGGGGCCCAAAAAGCTTGGTTCGAGCAAAGGAAAA
1 CTATCATCGAAAGGAACGATAGAGCAGACAAGGAGCCCAAAAAGCTTGGTTCGAGCAAAGGAAAA
*
78609039 GCCGAAGCCAAGAGAGCAAAGAGGAACAAGC
66 ACCGAAGCCAAGAGAGCAAAGAGGAACAAGC
* * * *
78609070 CTATCATCGAAGGGAACGATATAGCAGACAAGGAGCCCAAGAAGTTTGGTTCGAGC-AAGAGAAA
1 CTATCATCGAAAGGAACGATAGAGCAGACAAGGAGCCCAAAAAGCTTGGTTCGAGCAAAG-GAAA
* * *
78609134 AATCGAAGCCAATAGGGCAAAGAGGA
65 AACCGAAGCCAAGAGAGCAAAGAGGA
78609160 GAAAAAAGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 3 0.04
96 74 0.96
ACGTcount: A:0.42, C:0.17, G:0.28, T:0.12
Consensus pattern (96 bp):
CTATCATCGAAAGGAACGATAGAGCAGACAAGGAGCCCAAAAAGCTTGGTTCGAGCAAAGGAAAA
ACCGAAGCCAAGAGAGCAAAGAGGAACAAGC
Found at i:78614034 original size:6 final size:6
Alignment explanation
Indices: 78614023--78614051 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
78614013 AGAGAGAAGA
78614023 GAAGGG GAAGGG GAAGGG GAAGGG GAAGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGG
78614052 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:78616619 original size:33 final size:33
Alignment explanation
Indices: 78616555--78616619 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 33
78616545 CTCCTTTCAG
* * *
78616555 CTCGTATCCACCGCATTACTCCAGTCTTCCCGA
1 CTCGTATCCACCGCAGTACTCCACTCCTCCCGA
* * *
78616588 CTCGTATCTACTGCAGTACTCTACTCCTCCCG
1 CTCGTATCCACCGCAGTACTCCACTCCTCCCG
78616620 GCTTAAGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.17, C:0.42, G:0.12, T:0.29
Consensus pattern (33 bp):
CTCGTATCCACCGCAGTACTCCACTCCTCCCGA
Found at i:78617034 original size:48 final size:48
Alignment explanation
Indices: 78616879--78617036 Score: 201
Period size: 48 Copynumber: 3.3 Consensus size: 48
78616869 GTATTTATTT
* * **
78616879 AATTAGATTA-ATTGCAACATTCAAACTTGGAACAAACTTTGTAATATA
1 AATTAGA-TACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
* * * *
78616927 AATTAGATAAATTAAAACATTAAAATGAAGAACAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
*
78616975 AATTAGATACATTACAACATTAAAACGAGGAAAAAACTTTGTAATATA
1 AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
**
78617023 AATTACTTACATTA
1 AATTAGATACATTA
78617037 GCTCAATTCC
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
47 2 0.02
48 93 0.98
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (48 bp):
AATTAGATACATTACAACATTAAAACGAGGAACAAACTTTGTAATATA
Found at i:78620585 original size:46 final size:46
Alignment explanation
Indices: 78620358--78620584 Score: 330
Period size: 46 Copynumber: 4.9 Consensus size: 46
78620348 TTTGACATGA
* * * * *
78620358 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
78620404 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
78620450 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
78620496 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
78620542 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
78620585 GAGAGTACAC
Statistics
Matches: 169, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 165 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:78622731 original size:11 final size:11
Alignment explanation
Indices: 78622715--78622760 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
78622705 CTTTATATAC
78622715 TAATAAAATAA
1 TAATAAAATAA
78622726 TAATAAAATATA
1 TAATAAAATA-A
* *
78622738 TTATTAAAATAT
1 -TAATAAAATAA
78622750 TAATAAAATAA
1 TAATAAAATAA
78622761 ATTTATCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 19 0.66
12 1 0.03
13 9 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:78622745 original size:24 final size:24
Alignment explanation
Indices: 78622709--78622759 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
78622699 TTCTTTCTTT
78622709 ATATACTAATAAAATAATAATAAA
1 ATATACTAATAAAATAATAATAAA
* * *
78622733 ATATATTATTAAAATATTAATAAA
1 ATATACTAATAAAATAATAATAAA
78622757 ATA
1 ATA
78622760 AATTTATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
ATATACTAATAAAATAATAATAAA
Found at i:78627691 original size:13 final size:14
Alignment explanation
Indices: 78627675--78627710 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
78627665 CAATCTCATA
78627675 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
78627688 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
78627701 TCTC-ATTTCA
1 TCTCAATTTCA
78627711 TTCCAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:78627693 original size:26 final size:25
Alignment explanation
Indices: 78627655--78627717 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
78627645 AACCTTTTGG
*
78627655 TTCATATTTTCAATCTC-ATATCTCAAT
1 TTCA-ATTCTCAAT-TCAATATCTC-AT
*
78627682 TTCAATTCTCAATTCAATTTCTCAT
1 TTCAATTCTCAATTCAATATCTCAT
78627707 TTC-ATTC-CAAT
1 TTCAATTCTCAAT
78627718 AGTTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 7 0.21
26 14 0.42
27 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCAATTCTCAATTCAATATCTCAT
Found at i:78627700 original size:18 final size:19
Alignment explanation
Indices: 78627662--78627702 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
78627652 TGGTTCATAT
78627662 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
78627681 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
78627699 TTTC
1 TTTC
78627703 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:78627936 original size:23 final size:23
Alignment explanation
Indices: 78627878--78627938 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
78627868 GACACATAAA
78627878 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
78627899 GTGCCTG--ATATGACACACGAG
1 GTGCCTGAAATACGACACACGAG
78627920 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
78627939 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 24 0.71
23 9 0.26
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.15
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:78627946 original size:23 final size:23
Alignment explanation
Indices: 78627865--78627950 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 23
78627855 CTGATCAGAG
*
78627865 TACGACACATAAAGTGCCT-AAA
1 TACGACACACAAAGTGCCTGAAA
* *
78627887 -ACGACACACGAGGTGCCTG--A
1 TACGACACACAAAGTGCCTGAAA
* * *
78627907 TATGACACACGAGGTGCCTGAAA
1 TACGACACACAAAGTGCCTGAAA
*
78627930 TACGACACATAAAGTGCCTGA
1 TACGACACACAAAGTGCCTGA
78627951 TCGATAAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.63
23 18 0.35
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
TACGACACACAAAGTGCCTGAAA
Found at i:78628347 original size:15 final size:15
Alignment explanation
Indices: 78628322--78628379 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
78628312 TCATATATAT
78628322 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
78628338 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
78628353 AATAATTTCAATCAA
1 TATAAATTCAATCAA
78628368 TATAAATTCAAT
1 TATAAATTCAAT
78628380 AAAACAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:78628364 original size:30 final size:28
Alignment explanation
Indices: 78628325--78628383 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
78628315 TATATATTAT
78628325 ATAATTCAATCAATATAAATTCAATCAAA
1 ATAATTCAATCAATATAAATTCAAT-AAA
78628354 ATAATTTCAATCAATATAAATTCAATAAA
1 ATAA-TTCAATCAATATAAATTCAATAAA
78628383 A
1 A
78628384 CAAATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATTCAATCAATATAAATTCAATAAA
Found at i:78628542 original size:2 final size:2
Alignment explanation
Indices: 78628535--78628580 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
78628525 ATATCTCATT
78628535 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
78628577 CA CA
1 CA CA
78628581 TATATATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:78629369 original size:13 final size:13
Alignment explanation
Indices: 78629351--78629378 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
78629341 CCTCTTTTTA
78629351 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
78629364 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
78629377 TT
1 TT
78629379 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:78632457 original size:44 final size:42
Alignment explanation
Indices: 78632383--78632504 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 42
78632373 AATGACGAAT
* * * *
78632383 CTTATCTCCTTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAA-C
1 CTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAG-CA-CAAGC
* * *
78632427 CTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCACAAGT
1 CTTATCTCCCTGAAGTTGCAGT-GAGCAGATTGAAGCACAAGC
*
78632470 CTTATCTCCCTGAAGTTGCGGTGAAGCAGATTGAA
1 CTTATCTCCCTGAAGTTGCAGTG-AGCAGATTGAA
78632505 TATGCGAATC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.05
43 32 0.49
44 30 0.46
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTATCTCCCTGAAGTTGCAGTGAGCAGATTGAAGCACAAGC
Found at i:78632547 original size:87 final size:88
Alignment explanation
Indices: 78632382--78632555 Score: 194
Period size: 87 Copynumber: 2.0 Consensus size: 88
78632372 TAATGACGAA
*
78632382 TCTTATCTCCTTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
* *
78632447 GTAGAGCAGATTAAAGC-ACAAG
66 GTAGAACAAATTAAAGCTACAAG
* * * * *
78632469 TCTTATCTCCCTGAAGTTGCGGT-GAAGCAGATTGAA-T-ATGCGAATCTTATTTCCTTGAAGTT
1 TCTTATCTCCCTAAAGTTGCAGTGGAA-CAGATTGAAGTCA-G-GAACCTTATCTCCCTGAAGTT
** *
78632531 GTAGTGGAACAAATTAAAGCTACAA
63 ACAGTAGAACAAATTAAAGCTACAA
78632556 ATTACAAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
85 1 0.01
86 5 0.07
87 62 0.86
88 4 0.06
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGTCAGGAACCTTATCTCCCTGAAGTTACA
GTAGAACAAATTAAAGCTACAAG
Found at i:78632838 original size:51 final size:51
Alignment explanation
Indices: 78632751--78632860 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
78632741 TGAAGATGCT
* * * * *
78632751 AATCTTTTTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
*
78632802 AGTCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
1 AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
78632853 AATCTTAT
1 AATCTTAT
78632861 CTTTCTAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (51 bp):
AATCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACA
Found at i:78632878 original size:146 final size:148
Alignment explanation
Indices: 78632656--78632942 Score: 346
Period size: 146 Copynumber: 1.9 Consensus size: 148
78632646 TACCATAGAG
* * * * * *
78632656 AGTCTTATCTCCCTGGAGTTGCAATGGAATAAACTAAAGCTACAAGCTATAAATCTTATCTCTCT
1 AGTCTTATCTCCCTGAACTTACAATGGAACAAACTAAAGCTAAAAGCTACAAATCTTATCTCTCT
* * * *
78632721 GAAATTGCAGTGGAGCAGATTGAAG-AT-GCTAATCTTTTTTCCCTGAAGTTGCAGTGGAACAGA
66 GAAATTCCAGTGGAGCAGATTGAAGTATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGA
78632784 TTAAAGCTACAAGTTACA
131 TTAAAGCTACAAGTTACA
* * * * *
78632802 AGTCTTATTTCCCTGAACTTACAGTGGAACAAATTAAAGCTAAAAGTTACAAATCTTATCTTTCT
1 AGTCTTATCTCCCTGAACTTACAATGGAACAAACTAAAGCTAAAAGCTACAAATCTTATCTCTCT
*
78632867 -AAATTTCCAGTGGAGTAGATTGAAGTTATCATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
66 GAAA-TTCCAGTGGAGCAGATTGAAG---T-ATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* *
78632931 GCAGATTGAAGC
126 ACAGATTAAAGC
78632943 CATAGATCTT
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
145 3 0.03
146 73 0.63
151 2 0.02
152 38 0.33
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (148 bp):
AGTCTTATCTCCCTGAACTTACAATGGAACAAACTAAAGCTAAAAGCTACAAATCTTATCTCTCT
GAAATTCCAGTGGAGCAGATTGAAGTATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGA
TTAAAGCTACAAGTTACA
Found at i:78632967 original size:44 final size:44
Alignment explanation
Indices: 78632904--78633029 Score: 173
Period size: 44 Copynumber: 2.9 Consensus size: 44
78632894 ATCATGGCAA
* *
78632904 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAG
* * **
78632948 ATCTTATC-CTCTTGAAGTTGCAGTGAAGTAGATTGAAGTTACAG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAG
*
78632992 ATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
78633030 ATATAAAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
43 1 0.01
44 69 0.97
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACAG
Found at i:78633095 original size:89 final size:88
Alignment explanation
Indices: 78632901--78633118 Score: 224
Period size: 89 Copynumber: 2.5 Consensus size: 88
78632891 GTTATCATGG
* * * * *
78632901 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCATAGATCTTATCCTCTTGAAGT
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACATAAATATCATCCTCTTGAAGT
* * *
78632966 TGCAGTGAAGTAGATTGAAGTTA
66 TACAATGAAGTAGATTAAAGTTA
* * * * *
78632989 CAGATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTGAAGATATAAAATATCAT-CTCTCTGAA
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAT-AAATATCATCCTCT-TGAA
*
78633053 GTTACAAT-AGAGTAGGTTAAAGTTA
64 GTTACAATGA-AGTAGATTAAAGTTA
* * * * *
78633078 TAAACCTTATATCCCTGAAGTTACAGTGGGGCAGGTTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
78633119 TTACGAGTCT
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
88 45 0.42
89 61 0.58
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (88 bp):
CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACATAAATATCATCCTCTTGAAGT
TACAATGAAGTAGATTAAAGTTA
Found at i:78633275 original size:141 final size:141
Alignment explanation
Indices: 78633083--78633338 Score: 343
Period size: 141 Copynumber: 1.8 Consensus size: 141
78633073 AGTTATAAAC
* * * *
78633083 CTTATATCCCTGAAGTTACAGTGGGGCAGGTTGAAGTTACGAGTCTTATCTCCCTAAAGTTGCAA
1 CTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
* * *
78633148 TTGAGCAGATTAAAGATGGCGAATCTTACTTT-CCTGAAGTTGCAGTGGAACAAGATTAATGATA
66 TAGAGCAGATCAAAGATAGCGAATCTTA-TTTCCCTGAAGTTGCAGTGGAACAAGATTAATGATA
78633212 CAAATGGAAAAT
130 CAAATGGAAAAT
* * * * * * *
78633224 CTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGTTATAAATCTTATCTCTCTAAAGTTGTAG
1 CTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
* * *
78633289 TAGAGTAGATCAAAGATAGTGAATCTTATTTCCCTGAAGTTGTAGTGGAA
66 TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAA
78633339 TATATCAAGC
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
140 3 0.03
141 94 0.97
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (141 bp):
CTTATATCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCCCTAAAGTTGCAA
TAGAGCAGATCAAAGATAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAAGATTAATGATAC
AAATGGAAAAT
Found at i:78633329 original size:45 final size:44
Alignment explanation
Indices: 78633220--78633931 Score: 157
Period size: 44 Copynumber: 15.6 Consensus size: 44
78633210 TACAAATGGA
* * * ** *
78633220 AAATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * *
78633264 AAATCTTATCTCTCTAAAGTTGTAGTAGAGTAGATCAAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATA-T
* * * ** * *
78633309 GAATCTTATTTCCCTGAAGTTGTAGTGGAATATATCAAGCTACAAGTAAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAA---A-GA-T-AT
* * * * *
78633359 AAATCCTATAC-CTCTGAAGTTGTAGTA-AGTCGGATCAAATCTACCATT
1 AAATCTTAT-CTCCCTGAAGTTGTAGTAGAG-CAGATCAAA--GA-TA-T
* * * * ** **
78633407 GCGAATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACT
1 --AAATCTTATCTCCCTGAAGTTGTAGTAG-AGCAGATCAAAGATA-T
** * * * *
78633454 -AATCTTATCTCCCTGAAGTTACAGTGGAGCA-ATATAAAAATAAAA
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGAT-CAAAGAT--AT
* * * * * * *
78633499 AAACCTTATCTCCCTGAAGTTGCA-AAGGAGCAGGTTAAAAATAAAAC
1 AAATCTTATCTCCCTGAAGTTGTAGTA-GAGCAGATCAAAGAT---AT
* * * * *
78633546 AAATCTTATCTCTCTGAAGTTGCAGT-GTAGAAGATTGAAGACAGGCTAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAG-AGCAGA-T-CA-A-A-GATAT
* * * ** *
78633595 AAATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * * * ** *
78633639 AAATCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATA-T
** ** * * * *
78633684 AAATCTTATCTATCTGAAGTTACAGTAGAGCAGATTAAGGCTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * * * *
78633728 AAA-CATTATCTCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAGC
1 AAATC-TTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATA-T
* * * * *
78633773 AAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * * * * * ** * *
78633817 AAACCTTATCTCTCTTAAGTTGCAGTGGAGCGGGTTGAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
* * * ** *
78633861 AAATCTTATCTCCCTGAAGTT-TCAATGGAGTAGATTGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGT-AGTAGAGCAGATCAAAGAT-AT
78633906 AAATCTTATAC-CCCTGAAGTTGTAGT
1 AAATCTTAT-CTCCCTGAAGTTGTAGT
78633932 GGGTTAGTTT
Statistics
Matches: 513, Mismatches: 115, Indels: 79
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.01
44 206 0.40
45 127 0.25
46 39 0.08
47 36 0.07
48 6 0.01
49 35 0.07
50 54 0.11
51 2 0.00
52 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGTAGTAGAGCAGATCAAAGATAT
Found at i:78633473 original size:44 final size:44
Alignment explanation
Indices: 78633410--78633933 Score: 390
Period size: 44 Copynumber: 11.6 Consensus size: 44
78633400 TACCATTGCG
* * ** *
78633410 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGG-AGCAGATTAAAGATACA
* * *
78633454 AATCTTATCTCCCTGAAGTTACAGTGGAGCA-ATATAAAAATAAAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGAT--ACA
* ** * *
78633500 AACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGTTAAAAATAAAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT---ACA
* * * * *
78633547 AATCTTATCTCTCTGAAGTTGCAGTGTAGAAGATTGAAGACAGGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A-A-A-GATACA
* * **
78633596 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
78633640 AATCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
** * * * *
78633685 AATCTTATCTATCTGAAGTTACAGTAGAGCAGATTAAGGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
78633729 AA-CATTATCTCCTTAAAGTTGCAGTAGAGTAGATTAAAGATAGCA
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATA-CA
* * * * *
78633774 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * * * * *
78633818 AACCTTATCTCTCTTAAGTTGCAGTGGAGCGGGTTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
* * * *
78633862 AATCTTATCTCCCTGAAGTTTCAATGGAGTAGATTGAAGATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT-ACA
*
78633907 AATCTTATAC-CCCTGAAGTTGTAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
78633934 GTTAGTTTGA
Statistics
Matches: 385, Mismatches: 78, Indels: 33
0.78 0.16 0.07
Matches are distributed among these distances:
43 5 0.01
44 173 0.45
45 97 0.25
46 38 0.10
47 34 0.09
49 35 0.09
50 1 0.00
51 1 0.00
52 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATACA
Found at i:78633567 original size:47 final size:46
Alignment explanation
Indices: 78633454--78633569 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 46
78633444 TGAAGCCACT
* **
78633454 AATCTTATCTCCCTGAAGTTACAGTGGAGCAATATAAAAATAAAAA
1 AATCTTATCTCCCTGAAGTTGCAAAGGAGCAATATAAAAATAAAAA
* *
78633500 AACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGT-TAAAAATAAAACA
1 AATCTTATCTCCCTGAAGTTGCAAAGGAGCA-ATATAAAAATAAAA-A
*
78633547 AATCTTATCTCTCTGAAGTTGCA
1 AATCTTATCTCCCTGAAGTTGCA
78633570 GTGTAGAAGA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 38 0.62
47 23 0.38
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.27
Consensus pattern (46 bp):
AATCTTATCTCCCTGAAGTTGCAAAGGAGCAATATAAAAATAAAAA
Found at i:78633740 original size:89 final size:88
Alignment explanation
Indices: 78633410--78633881 Score: 389
Period size: 89 Copynumber: 5.2 Consensus size: 88
78633400 TACCATTGCG
* * * * * *
78633410 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAAGCCACTAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGCTAC-AAACTTATCTCCTTGAAGTT
* * * * **
78633474 ACAGTGGAGCA-ATATAAAAATAAAAA
64 GCAGTGGAGTAGAT-TGAAGAT-AGCA
* * * **
78633500 AACCTTATCTCCCTGAAGTTGCA-AAGGAGCAGGTTAAAAATAAAACAAATCTTATCT-CTCTGA
1 AATCTTATCTCCCTGAAGTTGCAGTA-GAGCAGATTAAAGCT---ACAAA-CTTATCTCCT-TGA
* * *
78633563 AGTTGCAGTGTAGAAGATTGAAGACAGGCTATA
60 AGTTGCAGTGGAGTAGATTGAAGATA-GC---A
* * * *
78633596 AATCTTATCTCCCTGAAGTTGTAGTGGAGAAGATTAAAGCCACAAATCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAA-CTTATCTCCTTGAAGTTG
*
78633661 CAATGGAGTAGATTGAAGATAGCA
65 CAGTGGAGTAGATTGAAGATAGCA
** * * *
78633685 AATCTTATCTATCTGAAGTTACAGTAGAGCAGATTAAGGCTACAAACATTATCTCCTTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAAC-TTATCTCCTTGAAGTTG
* *
78633750 CAGTAGAGTAGATTAAAGATAGCA
65 CAGTGGAGTAGATTGAAGATAGCA
* * *
78633774 AACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCTT-AAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAA-CTTATCTC-CTTGAAGTT
** * *
78633838 GCAGTGGAGCGGGTTGAAGCTA-CA
64 GCAGTGGAGTAGATTGAAGATAGCA
78633862 AATCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTT
78633882 TCAATGGAGT
Statistics
Matches: 309, Mismatches: 56, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
88 21 0.07
89 147 0.48
90 33 0.11
92 6 0.02
93 66 0.21
94 4 0.01
96 32 0.10
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAACTTATCTCCTTGAAGTTGC
AGTGGAGTAGATTGAAGATAGCA
Found at i:78633764 original size:133 final size:132
Alignment explanation
Indices: 78633410--78633927 Score: 447
Period size: 133 Copynumber: 3.8 Consensus size: 132
78633400 TACCATTGCG
* * * *
78633410 AATCTTATCTCCCTGAAGTTGCAATGGAAG-AGATTGAA-GCCACTAATCTTATCTCCCTGAAGT
1 AATCTTATCTCTCTGAAGTTGCAGT-G-AGCAGATTGAAGGCTACAAATCTTATCTCCCTGAAGT
* * * * * * *
78633473 TACAGTGGAGCA-ATATAAAAATAAAAAAACCTTATCTCCCTGAAGTTGCAAAGGAGCAGGTTAA
64 TGCAGTGGAGTAGAT-T--AAAGAAACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAA
*
78633537 AAATAAAACA
126 AGAT---ACA
* *
78633547 AATCTTATCTCTCTGAAGTTGCAGTGTAGAAGATTGAAGACAGGCTATAAATCTTATCTCCCTGA
1 AATCTTATCTCTCTGAAGTTGCAGTG-AGCAGATT---GA-AGGCTACAAATCTTATCTCCCTGA
* * ** * * *
78633612 AGTTGTAGTGGAGAAGATTAAAGCCACAAATCTTATCTCCTTGAAGTTGCAATGGAGTAGATTGA
61 AGTTGCAGTGGAGTAGATTAAAGAAACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAA
78633677 AGATAGCA
126 AGATA-CA
* * * *
78633685 AATCTTATCTATCTGAAGTTACAGTAGAGCAGATT-AAGGCTACAAA-CATTATCTCCTTAAAGT
1 AATCTTATCTCTCTGAAGTTGCAGT-GAGCAGATTGAAGGCTACAAATC-TTATCTCCCTGAAGT
* * * * * *
78633748 TGCAGTAGAGTAGATTAAAGATAGCAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAG
64 TGCAGTGGAGTAGATTAAAGA-AACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAG
* *
78633813 CTATA
128 ATACA
* * * *
78633818 AACCTTATCTCTCTTAAGTTGCAGTGGAGCGGGTTGAA-GCTACAAATCTTATCTCCCTGAAGTT
1 AATCTTATCTCTCTGAAGTTGCAGT-GAGCAGATTGAAGGCTACAAATCTTATCTCCCTGAAGTT
* * *
78633882 TCAATGGAGTAGATTGAAGATAACAAATCTTATAC-CCCTGAAGTTG
65 GCAGTGGAGTAGATTAAAGA-AACAAATCTTAT-CTCCCTGAAGTTG
78633928 TAGTGGGTTA
Statistics
Matches: 310, Mismatches: 57, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
132 1 0.00
133 127 0.41
134 41 0.13
136 3 0.01
137 29 0.09
138 32 0.10
139 1 0.00
140 41 0.13
141 1 0.00
142 32 0.10
143 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (132 bp):
AATCTTATCTCTCTGAAGTTGCAGTGAGCAGATTGAAGGCTACAAATCTTATCTCCCTGAAGTTG
CAGTGGAGTAGATTAAAGAAACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGATA
CA
Found at i:78638373 original size:5 final size:6
Alignment explanation
Indices: 78638357--78638382 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
78638347 CCATTCTATT
78638357 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
78638383 CATTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:78638421 original size:18 final size:18
Alignment explanation
Indices: 78638398--78638443 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
78638388 TCTTTCTTTT
*
78638398 TTTCTTCTTCGTTATTTC
1 TTTCTTCTCCGTTATTTC
* *
78638416 TTTCTTCTCCTTTCTTTC
1 TTTCTTCTCCGTTATTTC
78638434 TTTCTTCTCC
1 TTTCTTCTCC
78638444 CTCTTTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTCTTCTCCGTTATTTC
Found at i:78638437 original size:22 final size:22
Alignment explanation
Indices: 78638386--78638439 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
78638376 AAAAATACAT
* *
78638386 TTTCTTTCTTTTTTTCTTCTTC
1 TTTCTTTCTTTTTCTCCTCTTC
* *
78638408 GTTATTTCTTTCTTCTCCT-TTC
1 TTTCTTTCTTT-TTCTCCTCTTC
78638430 TTTCTTTCTT
1 TTTCTTTCTT
78638440 CTCCCTCTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTCTTTTTCTCCTCTTC
Found at i:78638564 original size:27 final size:27
Alignment explanation
Indices: 78638534--78638606 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
78638524 TAATACCCTG
*
78638534 GTGCCACCTATCAAATAGGGGTCACCA
1 GTGCCGCCTATCAAATAGGGGTCACCA
* *
78638561 GTGCCGCCTACCAAATAAGGGTCACCA
1 GTGCCGCCTATCAAATAGGGGTCACCA
*
78638588 GTGCCGCCTATCAGATAGG
1 GTGCCGCCTATCAAATAGG
78638607 CAACACACCC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (27 bp):
GTGCCGCCTATCAAATAGGGGTCACCA
Found at i:78648419 original size:51 final size:50
Alignment explanation
Indices: 78648327--78648453 Score: 200
Period size: 51 Copynumber: 2.5 Consensus size: 50
78648317 ATATCACCTT
* *
78648327 AATTTTATATAAAAATTATAAAAAAAATCGAAACTATTTAAAAGCTAGAA
1 AATTCTATATAAAAATTATAAAAAAAATCGAAACTATTTAAAAACTAGAA
*
78648377 AATTCTATATAAAAATTATAAAATAAAATCGAAACTGTTTAAAAACTAGAA
1 AATTCTATATAAAAATTATAAAA-AAAATCGAAACTATTTAAAAACTAGAA
* *
78648428 AATTCTATAGAAAAATTCTAAAAAAA
1 AATTCTATATAAAAATTATAAAAAAA
78648454 TATATCGAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 25 0.35
51 46 0.65
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (50 bp):
AATTCTATATAAAAATTATAAAAAAAATCGAAACTATTTAAAAACTAGAA
Found at i:78649932 original size:19 final size:19
Alignment explanation
Indices: 78649910--78649956 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
78649900 GTAAAAAAAA
78649910 TTAAATTTA-AATAAAAATT
1 TTAAATTTAGAAT-AAAATT
*
78649929 TTAAAATTCAGAATAAAATT
1 TT-AAATTTAGAATAAAATT
*
78649949 ATAAATTT
1 TTAAATTT
78649957 TACATCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 3 0.13
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAAATTTAGAATAAAATT
Found at i:78660270 original size:21 final size:20
Alignment explanation
Indices: 78660241--78660279 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
78660231 GTGCTTATTC
*
78660241 TATTTATATTAAAATTATTAA
1 TATTCATATT-AAATTATTAA
*
78660262 TATTCATATTTAATTATT
1 TATTCATATTAAATTATT
78660280 TTATATCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTCATATTAAATTATTAA
Done.