Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 243 of 279
Found at i:79018416 original size:46 final size:46
Alignment explanation
Indices: 79018241--79018416 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
79018231 TGTAACCCGC
* * *
79018241 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
79018287 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
79018337 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
79018380 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
79018417 TGCTCAAACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:79020851 original size:30 final size:30
Alignment explanation
Indices: 79020807--79020895 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
79020797 CAAAGATAAC
79020807 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
79020836 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
79020866 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
79020896 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:79020855 original size:15 final size:15
Alignment explanation
Indices: 79020807--79020886 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
79020797 CAAAGATAAC
*
79020807 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
79020821 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
79020836 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
79020851 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
79020866 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
79020881 AAGAAA
1 AAGAAA
79020887 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:79020895 original size:15 final size:15
Alignment explanation
Indices: 79020818--79020895 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
79020808 AGAAAACCGA
79020818 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
79020833 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
79020847 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
79020862 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
79020878 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
79020893 ATA
1 ATA
79020896 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:79025253 original size:29 final size:29
Alignment explanation
Indices: 79025211--79025311 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
79025201 CATGAAATTG
79025211 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
79025240 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
79025269 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
79025297 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
79025312 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:79032200 original size:31 final size:31
Alignment explanation
Indices: 79032164--79032226 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
79032154 TCCCTTCATC
79032164 TCTTTCACTAATTCCTCTCATATCTGTTACA
1 TCTTTCACTAATTCCTCTCATATCTGTTACA
*
79032195 TCTTTCCCTAATTCCTCTCATATCTGTTACA
1 TCTTTCACTAATTCCTCTCATATCTGTTACA
79032226 T
1 T
79032227 ATTCGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.21, C:0.30, G:0.03, T:0.46
Consensus pattern (31 bp):
TCTTTCACTAATTCCTCTCATATCTGTTACA
Found at i:79043676 original size:21 final size:21
Alignment explanation
Indices: 79043652--79043733 Score: 101
Period size: 21 Copynumber: 3.8 Consensus size: 21
79043642 GACACATAAA
* *
79043652 GTGCCTAAAATGACACACGAG
1 GTGCCTGAAACGACACACGAG
*
79043673 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
* *
79043694 ATGCCTGATACGACACACGAG
1 GTGCCTGAAACGACACACGAG
79043715 GTGCCTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
79043734 TAAAGTGCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 44 0.83
22 1 0.02
23 8 0.15
ACGTcount: A:0.34, C:0.27, G:0.24, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:79043689 original size:42 final size:43
Alignment explanation
Indices: 79043638--79043743 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
79043628 CCTGATCAGT
*
79043638 ATACGACACATAAAGTGCCTAAAATGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * *
79043680 ATACGACACA-CGAGATGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAG-TGCCTAAAACGACACACGAGGTGCCTG-A
79043724 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
79043744 GATCGATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.04
42 34 0.64
44 15 0.28
45 2 0.04
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:79043690 original size:23 final size:21
Alignment explanation
Indices: 79043663--79043733 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
79043653 TGCCTAAAAT
79043663 GACACACGAGGTGCCTGATAC
1 GACACACGAGGTGCCTGATAC
*
79043684 GACACACGAGATGCCTGATAC
1 GACACACGAGGTGCCTGATAC
79043705 GACACACGAGGTGCCTGAAATAC
1 GACACACGAGGTGCCTG--ATAC
79043728 GACACA
1 GACACA
79043734 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (21 bp):
GACACACGAGGTGCCTGATAC
Found at i:79043741 original size:23 final size:22
Alignment explanation
Indices: 79043638--79043745 Score: 89
Period size: 21 Copynumber: 5.0 Consensus size: 22
79043628 CCTGATCAGT
*
79043638 ATACGACACATAAAGTGCCT-A
1 ATACGACACACAAAGTGCCTGA
* * * *
79043659 AAATGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTGA
*
79043680 ATACGACACAC-GAGATGCCTG-
1 ATACGACACACAAAG-TGCCTGA
* *
79043701 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTG-A
*
79043724 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
79043746 TCGATAAAGC
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.01
21 47 0.69
22 2 0.03
23 18 0.26
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTGA
Found at i:79046595 original size:40 final size:40
Alignment explanation
Indices: 79046573--79046774 Score: 343
Period size: 40 Copynumber: 5.1 Consensus size: 40
79046563 AGCCCGGATG
*
79046573 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
79046613 TAGCAACCAGCATGAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
*
79046653 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGGAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
79046693 TAACAACCAGCA-GAATGCCTTCGGGACTTAACCCGGAAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
* *
79046732 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
79046772 TAA
1 TAA
79046775 TCCTCAATTG
Statistics
Matches: 153, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 38 0.25
40 115 0.75
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (40 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAA
Found at i:79046749 original size:79 final size:80
Alignment explanation
Indices: 79046573--79046774 Score: 352
Period size: 79 Copynumber: 2.5 Consensus size: 80
79046563 AGCCCGGATG
* *
79046573 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGGAAATAGCAACCAGCATGAATGCCTTCGG
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATGCCTTCGG
79046638 GACTTAACCCGGAAA
66 GACTTAACCCGGAAA
*
79046653 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGGAATAACAACCAGCA-GAATGCCTTCGG
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATGCCTTCGG
79046717 GACTTAACCCGGAAA
66 GACTTAACCCGGAAA
* *
79046732 TAACAACCAGCATGAATGCCTTCGGGACTTAACCCGGATATAA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAA
79046775 TCCTCAATTG
Statistics
Matches: 116, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
79 67 0.58
80 49 0.42
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (80 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAACAACCAGCATGAATGCCTTCGG
GACTTAACCCGGAAA
Found at i:79050821 original size:10 final size:11
Alignment explanation
Indices: 79050808--79050843 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
79050798 AAAAACAATT
79050808 AAAAAAATTCA
1 AAAAAAATTCA
79050819 AAAAAAATTCA
1 AAAAAAATTCA
79050830 AAAAAAATTCA
1 AAAAAAATTCA
79050841 AAA
1 AAA
79050844 TTTTTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:79050821 original size:22 final size:22
Alignment explanation
Indices: 79050796--79050843 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
79050786 TTTGTAAGTA
79050796 AAAAAAACAATT-AAAAAAATTC
1 AAAAAAA-AATTAAAAAAAATTC
79050818 -AAAAAAAATTCAAAAAAAATTC
1 AAAAAAAAATT-AAAAAAAATTC
79050840 AAAA
1 AAAA
79050844 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.17
21 6 0.26
22 10 0.43
23 3 0.13
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAAAAAAATTAAAAAAAATTC
Found at i:79051429 original size:21 final size:21
Alignment explanation
Indices: 79051403--79051443 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
79051393 GAGCAACGTG
* *
79051403 AAAGACCTCTTGAAGTAGTCA
1 AAAGACCTCCTCAAGTAGTCA
79051424 AAAGACCTCCTCAAGTAGTC
1 AAAGACCTCCTCAAGTAGTC
79051444 CAACCTAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (21 bp):
AAAGACCTCCTCAAGTAGTCA
Found at i:79052527 original size:16 final size:17
Alignment explanation
Indices: 79052508--79052544 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
79052498 AGAAGATTGT
*
79052508 AAAAAAATAA-AAGAAG
1 AAAAAAATAAGAAAAAG
79052524 AAAAAAATAAGAAAAAG
1 AAAAAAATAAGAAAAAG
79052541 AAAA
1 AAAA
79052545 CAAAAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (17 bp):
AAAAAAATAAGAAAAAG
Found at i:79055110 original size:50 final size:46
Alignment explanation
Indices: 79055006--79055110 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 46
79054996 GACAGGACAG
* * * *
79055006 GACAGAAATGAGCCATGTAAGTCCATATCATATATCTAGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATAGCATTGGA
*
79055052 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATA-T-CATATATATA--GCATTGGA
79055102 GACAGGAAT
1 GACAGGAAT
79055111 AATTCATGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 25 0.50
47 1 0.02
48 8 0.16
50 16 0.32
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (46 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATAGCATTGGA
Found at i:79065084 original size:33 final size:33
Alignment explanation
Indices: 79065042--79065107 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
79065032 TAAGTGTTTG
79065042 AAAATTTTTATATGTGATCGGTTTAGTCCCGAC
1 AAAATTTTTATATGTGATCGGTTTAGTCCCGAC
79065075 AAAATTTTTATATGTGATCGGTTTAGTCCCGAC
1 AAAATTTTTATATGTGATCGGTTTAGTCCCGAC
79065108 CCCTTCCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (33 bp):
AAAATTTTTATATGTGATCGGTTTAGTCCCGAC
Found at i:79067903 original size:23 final size:21
Alignment explanation
Indices: 79067856--79067896 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
79067846 ATAATTGATT
79067856 TAAATTTTTATGATATAAAAA
1 TAAATTTTTATGATATAAAAA
*
79067877 TAAATATTTTAT-ATTTAAAA
1 TAAAT-TTTTATGATATAAAA
79067897 TAGTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATTTTTATGATATAAAAA
Found at i:79071465 original size:20 final size:19
Alignment explanation
Indices: 79071436--79071473 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
79071426 AATAATGTAT
79071436 AAAACTTAAAATAAATAAA
1 AAAACTTAAAATAAATAAA
79071455 AAAAGCTTAAAATAAATAA
1 AAAA-CTTAAAATAAATAA
79071474 TATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAACTTAAAATAAATAAA
Found at i:79071520 original size:26 final size:24
Alignment explanation
Indices: 79071444--79071520 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
79071434 ATAAAACTTA
* * *
79071444 AAATAAATAAAAAAAGCTTAAAAT
1 AAATAAATATAAAAAGATTAAATT
79071468 AAAT-AATATAAAAA-ATTAAACTT
1 AAATAAATATAAAAAGATTAAA-TT
*
79071491 -AATAACATATAAAACAGTTTAAATT
1 AAATAA-ATATAAAA-AGATTAAATT
79071516 AAATA
1 AAATA
79071521 CTTTATATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 8 0.19
23 11 0.26
24 12 0.28
25 3 0.07
26 9 0.21
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (24 bp):
AAATAAATATAAAAAGATTAAATT
Found at i:79071787 original size:26 final size:26
Alignment explanation
Indices: 79071544--79071816 Score: 106
Period size: 28 Copynumber: 10.2 Consensus size: 26
79071534 TTTTGAGTAG
* *
79071544 ATAATATATGAAAATAATTTAAAATAA
1 ATAATATAT-ATAATAGTTTAAAATAA
* * * * *
79071571 AGAGTATATAAAATATATTTTAAAACAA
1 ATAATATAT-ATA-ATAGTTTAAAATAA
* *
79071599 ATAATATATAGAA-AGTTCAAAATAA
1 ATAATATATATAATAGTTTAAAATAA
* * * *
79071624 ATAATA-ATAAAAAGGAGTTTAGAATGA
1 ATAATATAT-ATAA-TAGTTTAAAATAA
* * * * * *
79071651 TTAATGTATAAAATAATAT-AACTAA
1 ATAATATATATAATAGTTTAAAATAA
* * * * *
79071676 ATAACATAAAAAATAACTTTTAAAATAG
1 ATAATATATATAAT-A-GTTTAAAATAA
79071704 ATAATATATATATAATAGTTTAAAATAA
1 AT-A-ATATATATAATAGTTTAAAATAA
* * * *
79071732 AAAAGGTATCTA-AAAATTTTCAAAATAA
1 ATAA--TATATATAATAGTTT-AAAATAA
*
79071760 ATAATATATATAATAGTTTAAAACAA
1 ATAATATATATAATAGTTTAAAATAA
* * * *
79071786 ATAATGTATATAA-AATCTAAAATGA
1 ATAATATATATAATAGTTTAAAATAA
79071811 ATAATA
1 ATAATA
79071817 ATTTAAAACA
Statistics
Matches: 181, Mismatches: 51, Indels: 30
0.69 0.19 0.11
Matches are distributed among these distances:
24 2 0.01
25 44 0.24
26 29 0.16
27 44 0.24
28 52 0.29
29 2 0.01
30 8 0.04
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (26 bp):
ATAATATATATAATAGTTTAAAATAA
Found at i:79071817 original size:54 final size:55
Alignment explanation
Indices: 79071696--79071818 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 55
79071686 AAATAACTTT
* * *
79071696 TAAAATAGATAAT-ATATATATAATAGTTTAAAATAAAAAAGGTATCTAAAAATTT
1 TAAAATA-ATAATAATATATATAATAGTTTAAAACAAAAAAGGTATATAAAAATTC
* *
79071751 TCAAAAT-A-AATAATATATATAATAGTTTAAAACAAATAATGTATAT-AAAA-TC
1 T-AAAATAATAATAATATATATAATAGTTTAAAACAAAAAAGGTATATAAAAATTC
79071803 TAAAATGAATAATAAT
1 TAAAAT-AATAATAAT
79071819 TTAAAACACA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
51 5 0.09
52 2 0.03
53 8 0.14
54 37 0.64
55 1 0.02
56 5 0.09
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (55 bp):
TAAAATAATAATAATATATATAATAGTTTAAAACAAAAAAGGTATATAAAAATTC
Found at i:79071858 original size:44 final size:42
Alignment explanation
Indices: 79071769--79071862 Score: 107
Period size: 44 Copynumber: 2.2 Consensus size: 42
79071759 AATAATATAT
* * * * *
79071769 ATAATAGTTTAAAACAAATAATGTATATAAAATCTAAAATGA
1 ATAATAATTTAAAACAAATAATGTAAAAAAAAACTAAAATAA
* *
79071811 ATAATAATTTAAAACACATAGCATGTAAAAAAAAACTAAATTAA
1 ATAATAATTTAAAACAAATA--ATGTAAAAAAAAACTAAAATAA
79071855 ATAATAAT
1 ATAATAAT
79071863 AAAATGATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 18 0.42
44 25 0.58
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (42 bp):
ATAATAATTTAAAACAAATAATGTAAAAAAAAACTAAAATAA
Found at i:79072929 original size:15 final size:15
Alignment explanation
Indices: 79072911--79072961 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
79072901 TTTCTTCTCT
79072911 TTGTTTTTTTGTTTG
1 TTGTTTTTTTGTTTG
79072926 TTGTTTTTTTGTTTG
1 TTGTTTTTTTGTTTG
* * *
79072941 TTGTTTGTTTCTGTG
1 TTGTTTTTTTGTTTG
79072956 TTGTTT
1 TTGTTT
79072962 GTACTGCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.00, C:0.02, G:0.22, T:0.76
Consensus pattern (15 bp):
TTGTTTTTTTGTTTG
Found at i:79072942 original size:19 final size:18
Alignment explanation
Indices: 79072910--79072963 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
79072900 TTTTCTTCTC
79072910 TTTG-TTTT-TTTGTTTG
1 TTTGTTTTTGTTTGTTTG
*
79072926 TTGTTTTTTTGTTTG-TTG
1 TT-TGTTTTTGTTTGTTTG
*
79072944 TTTGTTTCTGTGTTGTTTG
1 TTTGTTTTTGT-TTGTTTG
79072963 T
1 T
79072964 ACTGCTTGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.07
17 8 0.27
18 12 0.40
19 8 0.27
ACGTcount: A:0.00, C:0.02, G:0.22, T:0.76
Consensus pattern (18 bp):
TTTGTTTTTGTTTGTTTG
Found at i:79073330 original size:48 final size:48
Alignment explanation
Indices: 79073259--79073356 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
79073249 TGGATTTCAC
** *
79073259 AATAATTATGATTAATTGTGTAAACAAGATACTTAATGCTTGTCAGGT
1 AATAATTATGATTAATTACGTAAACAAGATACTTAATGCTTGTAAGGT
* *
79073307 AATAATTATGATTAATTACGTAAACGAGATATTTAATGCTTGTAAGGT
1 AATAATTATGATTAATTACGTAAACAAGATACTTAATGCTTGTAAGGT
79073355 AA
1 AA
79073357 ATAAATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (48 bp):
AATAATTATGATTAATTACGTAAACAAGATACTTAATGCTTGTAAGGT
Found at i:79077325 original size:49 final size:49
Alignment explanation
Indices: 79077253--79077527 Score: 307
Period size: 49 Copynumber: 5.5 Consensus size: 49
79077243 TCAGGTCACG
*
79077253 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * * *
79077302 TGTGTAGTACTAAGTGTAAGCTACTATGCGTACCCGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAA--TTGGTCGCA
* * *
79077353 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCA
* * * * * * *
79077402 TGTGTAGTACTAAGTGTAAGCTACTATGCGTACCCGATAACTTTGATCACG
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAA--TTGGTCGCA
* * *
79077453 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCA
* *
79077502 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAAGCTACTA
79077528 TGCGTACCAG
Statistics
Matches: 182, Mismatches: 40, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
49 104 0.57
51 78 0.43
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCA
Found at i:79077573 original size:100 final size:100
Alignment explanation
Indices: 79077248--79077546 Score: 535
Period size: 100 Copynumber: 3.0 Consensus size: 100
79077238 TATTGTCAGG
* * * *
79077248 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
79077313 AAGTGTAAGCTACTATGCGTACCCGATAACTTTGA
66 AAGTGTAAGCTACTATGCGTACCCGATAACTTTGA
79077348 TCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
79077413 AAGTGTAAGCTACTATGCGTACCCGATAACTTTGA
66 AAGTGTAAGCTACTATGCGTACCCGATAACTTTGA
79077448 TCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
* * *
79077513 AAGTGTAGGCTACTATGCGTACCAGATAGCTTTG
66 AAGTGTAAGCTACTATGCGTACCCGATAACTTTG
79077547 GCTACAAGTG
Statistics
Matches: 192, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 192 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
AAGTGTAAGCTACTATGCGTACCCGATAACTTTGA
Found at i:79086551 original size:27 final size:27
Alignment explanation
Indices: 79086520--79086639 Score: 141
Period size: 27 Copynumber: 4.4 Consensus size: 27
79086510 TGGATAAGTT
79086520 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
* * *
79086547 ATAGAATTACCTAAATACCCTTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAGG
* * *
79086574 GTAGAAATACCGAAATACCCCTGTAAG
1 GTAGAATTACCAAAATACCCCTGTAGG
* * * *
79086601 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCCTGTAGG
*
79086628 GTAAAATTACCA
1 GTAGAATTACCA
79086640 TTTTGCCCCT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAGG
Found at i:79086595 original size:54 final size:54
Alignment explanation
Indices: 79086520--79086639 Score: 163
Period size: 54 Copynumber: 2.2 Consensus size: 54
79086510 TGGATAAGTT
* *
79086520 GTAGAATTACCAAAATACCCCTGT-AGGATAGAATTACCTAAATACCCTTGTAGG
1 GTAGAAATACCAAAATACCCCTGTAAGG-TAGAATTACCGAAATACCCTTGTAGG
* * *
79086574 GTAGAAATACCGAAATACCCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
79086628 GTA-AAATTACCA
1 GTAGAAA-TACCA
79086640 TTTTGCCCCT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 3 0.05
54 52 0.90
55 3 0.05
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (54 bp):
GTAGAAATACCAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAGG
Found at i:79090189 original size:18 final size:18
Alignment explanation
Indices: 79090151--79090189 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
79090141 TAGGGTGGCA
* *
79090151 TTTTTCTCTTTTTTTTTT
1 TTTTTCTCTTTTCTTTCT
*
79090169 TTTTTTTCTTTTCTTTCT
1 TTTTTCTCTTTTCTTTCT
79090187 TTT
1 TTT
79090190 CACTTGTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTCTCTTTTCTTTCT
Found at i:79091658 original size:25 final size:26
Alignment explanation
Indices: 79091587--79091683 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
79091577 GAGGAAGTGC
79091587 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
79091613 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
79091639 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
79091664 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
79091684 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 32 0.47
26 36 0.53
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:79091667 original size:51 final size:51
Alignment explanation
Indices: 79091587--79091683 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
79091577 GAGGAAGTGC
**
79091587 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTTTATTG
* *
79091639 AAAAGGGCTT-TGCCCTAGTTTACCGAAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
79091684 ATTAAAGAGG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 9 0.22
51 22 0.54
52 10 0.24
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:79093977 original size:50 final size:49
Alignment explanation
Indices: 79093923--79094048 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 49
79093913 CTGGTGCGCA
* * *
79093923 TAGTAGCCTGCACTTAGTACTGCACATGC-GAAATATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTAC-G-ACACGCGGAAATAACAATCTGATACACG
** *
79093973 TAGTAGCCTGCACTTAGTACGACACGCGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACGACACGCG-GAAATAACAATCTGATACACG
79094023 TAGTAGCCTGCACTTAGTACGACACG
1 TAGTAGCCTGCACTTAGTACGACACG
79094049 TACACATAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 5 0.07
49 1 0.01
50 62 0.91
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACGACACGCGGAAATAACAATCTGATACACG
Found at i:79094053 original size:32 final size:32
Alignment explanation
Indices: 79094017--79094079 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
79094007 AACCATCTGA
*
79094017 TACACGTAGTAGCCTGCACTTAGTACGACACG
1 TACACATAGTAGCCTGCACTTAGTACGACACG
*
79094049 TACACATAGTAGCCTGCACTTAGTACTACAC
1 TACACATAGTAGCCTGCACTTAGTACGACAC
79094080 ACGTGATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (32 bp):
TACACATAGTAGCCTGCACTTAGTACGACACG
Found at i:79094564 original size:19 final size:20
Alignment explanation
Indices: 79094536--79094582 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
79094526 AAGAAAATGT
79094536 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
79094557 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
79094576 TATATAT
1 TATATAT
79094583 GCTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:79096695 original size:15 final size:14
Alignment explanation
Indices: 79096675--79096720 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
79096665 AAACTAGGAT
*
79096675 TAAGAAGTCCAAGA
1 TAAGAAATCCAAGA
*
79096689 TAGAGAAATCTAAGA
1 TA-AGAAATCCAAGA
79096704 TAAGGAAATCCAAGA
1 TAA-GAAATCCAAGA
79096719 TA
1 TA
79096721 CAATATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.17
Consensus pattern (14 bp):
TAAGAAATCCAAGA
Found at i:79096696 original size:30 final size:30
Alignment explanation
Indices: 79096662--79096720 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
79096652 ATAGATAATA
* *
79096662 AGAAAACTAGGATTAA-GAAGTCCAAGATAG
1 AGAAAACTAAGA-TAAGGAAATCCAAGATAG
*
79096692 AGAAATCTAAGATAAGGAAATCCAAGATA
1 AGAAAACTAAGATAAGGAAATCCAAGATA
79096721 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (30 bp):
AGAAAACTAAGATAAGGAAATCCAAGATAG
Found at i:79100262 original size:50 final size:50
Alignment explanation
Indices: 79100197--79100633 Score: 856
Period size: 50 Copynumber: 8.7 Consensus size: 50
79100187 ACTGATGCTC
* *
79100197 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100247 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100297 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100347 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100397 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100447 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100497 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100547 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
79100597 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
79100634 CGTGAATCAC
Statistics
Matches: 385, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 385 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
Found at i:79101016 original size:19 final size:20
Alignment explanation
Indices: 79100988--79101034 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
79100978 AAGAACATGT
79100988 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
79101009 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
79101028 TATATAT
1 TATATAT
79101035 ACTTGCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:79102425 original size:17 final size:17
Alignment explanation
Indices: 79102403--79102441 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
79102393 TGTGTGCCTA
79102403 GCCGTGTGCAAGGCACG
1 GCCGTGTGCAAGGCACG
* *
79102420 GCCGTGTGCAGGGCATG
1 GCCGTGTGCAAGGCACG
79102437 GCCGT
1 GCCGT
79102442 ATGGTGGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.13, C:0.28, G:0.44, T:0.15
Consensus pattern (17 bp):
GCCGTGTGCAAGGCACG
Found at i:79103966 original size:12 final size:13
Alignment explanation
Indices: 79103942--79103966 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
79103932 TTTTTTATTG
79103942 AAAATTTGAAAAA
1 AAAATTTGAAAAA
79103955 AAAATTTGAAAA
1 AAAATTTGAAAA
79103967 TTTTATGTAT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAAATTTGAAAAA
Found at i:79105125 original size:23 final size:23
Alignment explanation
Indices: 79105099--79105143 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
79105089 TAGAAATCGG
79105099 CTGTAACCAACAATCCAATCACA
1 CTGTAACCAACAATCCAATCACA
*
79105122 CTGTAACCAACGATCCAATCAC
1 CTGTAACCAACAATCCAATCAC
79105144 CATTCTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.36, G:0.07, T:0.18
Consensus pattern (23 bp):
CTGTAACCAACAATCCAATCACA
Found at i:79113608 original size:28 final size:27
Alignment explanation
Indices: 79113553--79113661 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
79113543 AGCATGGCTG
* *
79113553 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
79113579 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
* * *
79113607 CCAGAACAGATATTTGTGGGAGATCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
79113634 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
79113661 C
1 C
79113662 TAGGACACTT
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.07
27 49 0.71
28 15 0.22
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:79114106 original size:8 final size:8
Alignment explanation
Indices: 79114080--79114109 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
79114070 CAAAATATCA
79114080 GCTTTTCG
1 GCTTTTCG
*
79114088 GCATTTCG
1 GCTTTTCG
79114096 GCTTTTCG
1 GCTTTTCG
79114104 GCTTTT
1 GCTTTT
79114110 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.50
Consensus pattern (8 bp):
GCTTTTCG
Found at i:79116081 original size:46 final size:45
Alignment explanation
Indices: 79116026--79116122 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 45
79116016 AAATGCTTAT
* ** *
79116026 GACCATAGTTGAAAGACATTATGCCATTATACCAAAGAATAAATAA
1 GACCATAGTTGAAAGACACTATGCCACCATACCAAA-AACAAATAA
* *
79116072 GACCATAGTTGAAAGACACTATGGCACCATACCAAAAACGAATAA
1 GACCATAGTTGAAAGACACTATGCCACCATACCAAAAACAAATAA
79116117 GACCAT
1 GACCAT
79116123 GACTGAAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
45 13 0.29
46 32 0.71
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (45 bp):
GACCATAGTTGAAAGACACTATGCCACCATACCAAAAACAAATAA
Found at i:79116140 original size:45 final size:42
Alignment explanation
Indices: 79116091--79116187 Score: 95
Period size: 45 Copynumber: 2.2 Consensus size: 42
79116081 TGAAAGACAC
79116091 TATGGCACCATACCAAAAACGAATAAGACCATGACTGAAAGATGT
1 TATGGCACCATACCAAAAA-G--TAAGACCATGACTGAAAGATGT
* * * **
79116136 TATGGAATCACGATTCTATCAAGTAAGACCATGACTGAAAGATGT
1 TATGG---CACCATACCAAAAAGTAAGACCATGACTGAAAGATGT
79116181 TATGGCA
1 TATGGCA
79116188 TCACAATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
42 2 0.05
45 32 0.73
47 1 0.02
48 9 0.20
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (42 bp):
TATGGCACCATACCAAAAAGTAAGACCATGACTGAAAGATGT
Found at i:79116191 original size:45 final size:45
Alignment explanation
Indices: 79116114--79116257 Score: 218
Period size: 45 Copynumber: 3.2 Consensus size: 45
79116104 CAAAAACGAA
* *
79116114 TAAGACCATGACTGAAAGATGTTATGGAATCACGATTCTATCAAG
1 TAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCGAG
*
79116159 TAAGACCATGACTGAAAGATGTTATGGCATCACAATTCTATCGAG
1 TAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCGAG
* **
79116204 TAAGACCATGATTGAAAGGCGTTA-GAGCATCACGATTCTATCGAG
1 TAAGACCATGACTGAAAGATGTTATG-GCATCACGATTCTATCGAG
79116249 TAAGACCAT
1 TAAGACCAT
79116258 AGCTAAAAGA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 90 0.99
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (45 bp):
TAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCGAG
Found at i:79116279 original size:45 final size:45
Alignment explanation
Indices: 79116114--79116328 Score: 191
Period size: 45 Copynumber: 4.8 Consensus size: 45
79116104 CAAAAACGAA
*** * *
79116114 TAAGACCATGACTGAAAGATGTTATGGAATCACGATTCTATCAAG
1 TAAGACCATGACTGAAAGACACTATGGCATCACGATTCTATCGAG
*** *
79116159 TAAGACCATGACTGAAAGATGTTATGGCATCACAATTCTATCGAG
1 TAAGACCATGACTGAAAGACACTATGGCATCACGATTCTATCGAG
* * **
79116204 TAAGACCATGATTGAAAGGCGTTA-GAGCATCACGATTCTATCGAG
1 TAAGACCATGACTGAAAGACACTATG-GCATCACGATTCTATCGAG
* * * ** * *
79116249 TAAGACCAT-AGCTAAAAGACACTATGGCATCACAAATAAAACGAA
1 TAAGACCATGA-CTGAAAGACACTATGGCATCACGATTCTATCGAG
** *
79116294 TAAGACCATGGTTGAAAGACACTATGGCAACACGA
1 TAAGACCATGACTGAAAGACACTATGGCATCACGA
79116329 CAGAAAATGA
Statistics
Matches: 143, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
44 2 0.01
45 140 0.98
46 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGACCATGACTGAAAGACACTATGGCATCACGATTCTATCGAG
Found at i:79116298 original size:90 final size:90
Alignment explanation
Indices: 79116069--79116313 Score: 271
Period size: 90 Copynumber: 2.7 Consensus size: 90
79116059 AAAGAATAAA
* * * * *
79116069 TAAGACCATAGTTGAAAGACACTATGGCACCATACCA-AAAACGAATAAGACCATGACTGAAAGA
1 TAAGACCATAGCTGAAAGACACTATGGCATCACA-AATAAAACGAATAAGACCATGATTGAAAGA
*
79116133 TGTTATGGAATCACGATTCTATCAAG
65 CGTTATGGAATCACGATTCTATCAAG
*** * ** * * *
79116159 TAAGACCAT-GACTGAAAGATGTTATGGCATCACAATTCTATCGAGTAAGACCATGATTGAAAGG
1 TAAGACCATAG-CTGAAAGACACTATGGCATCACAAATAAAACGAATAAGACCATGATTGAAAGA
* *
79116223 CGTTA-GAGCATCACGATTCTATCGAG
65 CGTTATG-GAATCACGATTCTATCAAG
* *
79116249 TAAGACCATAGCTAAAAGACACTATGGCATCACAAATAAAACGAATAAGACCATGGTTGAAAGAC
1 TAAGACCATAGCTGAAAGACACTATGGCATCACAAATAAAACGAATAAGACCATGATTGAAAGAC
79116314 ACTATGGCAA
Statistics
Matches: 123, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
89 2 0.02
90 120 0.98
91 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (90 bp):
TAAGACCATAGCTGAAAGACACTATGGCATCACAAATAAAACGAATAAGACCATGATTGAAAGAC
GTTATGGAATCACGATTCTATCAAG
Found at i:79116352 original size:46 final size:46
Alignment explanation
Indices: 79116249--79116414 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
79116239 TTCTATCGAG
* * * * * *
79116249 TAAGACCATAGCTAAAAGACACTATGGCATCAC-AAATAAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
*
79116294 TAAGACCATGGTTGAAAGACACTATGGCAACACGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
* * * * *
79116340 TAACACCATGGTTGAAAGACACTATAGCATCAAGAC-GAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
*
79116385 TAAGACCATGGTTGAAAGACACCATGGCAT
1 TAAGACCATGGTTGAAAGACACTATGGCAT
79116415 GCTCCGATCA
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 63 0.61
46 41 0.39
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
Found at i:79116402 original size:45 final size:46
Alignment explanation
Indices: 79116292--79116406 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
79116282 AAATAAAACG
* * *
79116292 AATAAGACCATGGTTGAAAGACACTATGGCAACACGACAGAAAATG
1 AATAAGACCATGGTTGAAAGACACTATAGCAACAAGACAGAAAATA
* * *
79116338 AATAACACCATGGTTGAAAGACACTATAGCATCAAGAC-GAGAATA
1 AATAAGACCATGGTTGAAAGACACTATAGCAACAAGACAGAAAATA
79116383 AATAAGACCATGGTTGAAAGACAC
1 AATAAGACCATGGTTGAAAGACAC
79116407 CATGGCATGC
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
45 28 0.45
46 34 0.55
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATAGCAACAAGACAGAAAATA
Found at i:79119778 original size:34 final size:34
Alignment explanation
Indices: 79119734--79119804 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
79119724 GTAGCCTATT
*
79119734 TATGATGCACATTATTCAAATTGACTCAAAATCA
1 TATGACGCACATTATTCAAATTGACTCAAAATCA
79119768 TATGACGCACATTATTCAAATTGACTCAAAATCA
1 TATGACGCACATTATTCAAATTGACTCAAAATCA
79119802 TAT
1 TAT
79119805 TTTCACAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (34 bp):
TATGACGCACATTATTCAAATTGACTCAAAATCA
Found at i:79121964 original size:17 final size:15
Alignment explanation
Indices: 79121906--79121978 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
79121896 TAGATATGGT
*
79121906 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
* * * *
79121920 AAGTAGTCCGAGACA
1 AAGAAATCCAAGATA
79121935 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
79121950 AAGAAACTCCCAAGATT
1 AAGAAA-T-CCAAGATA
*
79121967 CAGAAATCCAAG
1 AAGAAATCCAAG
79121979 TTACAATACC
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
14 7 0.16
15 24 0.53
16 2 0.04
17 12 0.27
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:79122589 original size:45 final size:44
Alignment explanation
Indices: 79122537--79122626 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 44
79122527 TGGTTACCAC
79122537 ACTCTTTCAACATCGTGTCTAAATCAGTCGGTTTACCAAAGTTA
1 ACTCTTTCAACATCGTGTCTAAATCAGTCGGTTTACCAAAGTTA
*
79122581 ANCTCTTTCAACATCGTGTCTGAATCAGTCGGTTTACCAAAGTTA
1 A-CTCTTTCAACATCGTGTCTAAATCAGTCGGTTTACCAAAGTTA
79122626 A
1 A
79122627 TTTCTCCTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.33
Consensus pattern (44 bp):
ACTCTTTCAACATCGTGTCTAAATCAGTCGGTTTACCAAAGTTA
Found at i:79128648 original size:12 final size:12
Alignment explanation
Indices: 79128631--79128655 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
79128621 GGTTTGGCAT
79128631 GGCCTAGCACAC
1 GGCCTAGCACAC
79128643 GGCCTAGCACAC
1 GGCCTAGCACAC
79128655 G
1 G
79128656 AGCGTCTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.40, G:0.28, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:79133520 original size:13 final size:12
Alignment explanation
Indices: 79133504--79133576 Score: 65
Period size: 13 Copynumber: 5.8 Consensus size: 12
79133494 TTCCAATTTC
79133504 TTTTTCTTTATTA
1 TTTTTCTTT-TTA
* *
79133517 TTTTTGTTTTTG
1 TTTTTCTTTTTA
*
79133529 TTTTTCGTTCTTTC
1 TTTTTC-TT-TTTA
*
79133543 TTTTTCTTTATTC
1 TTTTTCTTT-TTA
*
79133556 TTTTTGTTTTTA
1 TTTTTCTTTTTA
79133568 TTTTTCTTT
1 TTTTTCTTT
79133577 GTTTCTTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
12 18 0.36
13 23 0.46
14 9 0.18
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTTCTTTTTA
Found at i:79133551 original size:39 final size:39
Alignment explanation
Indices: 79133500--79133584 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
79133490 ACATTTCCAA
*
79133500 TTTCTTTTTCTTTATTATTTTTGTTTTTGTTTTTCGTTC
1 TTTCTTTTTCTTTATTATTTTTGTTTTTATTTTTCGTTC
* * *
79133539 TTTCTTTTTCTTTATTCTTTTTGTTTTTATTTTTCTTTG
1 TTTCTTTTTCTTTATTATTTTTGTTTTTATTTTTCGTTC
79133578 TTTCTTT
1 TTTCTTT
79133585 CTGTGTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.05, C:0.11, G:0.06, T:0.79
Consensus pattern (39 bp):
TTTCTTTTTCTTTATTATTTTTGTTTTTATTTTTCGTTC
Found at i:79133558 original size:7 final size:6
Alignment explanation
Indices: 79133500--79133576 Score: 73
Period size: 6 Copynumber: 12.2 Consensus size: 6
79133490 ACATTTCCAA
* * *
79133500 TTTCTT TTTCTT TATTATT TTTGTT TTTGTT TTTCGTT CTTTCTT TTTCTT
1 TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTC-TT -TTTCTT TTTCTT
* *
79133551 TATTCTT TTTGTT TTTATT TTTCTT T
1 T-TTCTT TTTCTT TTTCTT TTTCTT T
79133577 GTTTCTTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
6 42 0.69
7 15 0.25
8 4 0.07
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:79133582 original size:26 final size:25
Alignment explanation
Indices: 79133500--79133594 Score: 84
Period size: 26 Copynumber: 3.6 Consensus size: 25
79133490 ACATTTCCAA
* *
79133500 TTTCTTTTTCTTTATTATTTTTGTTT
1 TTTCTTTTTGTTT-TTATTTTTCTTT
* *
79133526 TTGT-TTTTCGTTCTTTCTTTTTCTTT
1 TT-TCTTTTTGTT-TTTATTTTTCTTT
*
79133552 ATTCTTTTTGTTTTTATTTTTCTTT
1 TTTCTTTTTGTTTTTATTTTTCTTT
*
79133577 GTTTCTTTCTGTGTTTTA
1 -TTTCTTTTTGT-TTTTA
79133595 GATTTATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
25 13 0.24
26 35 0.64
27 7 0.13
ACGTcount: A:0.05, C:0.11, G:0.07, T:0.77
Consensus pattern (25 bp):
TTTCTTTTTGTTTTTATTTTTCTTT
Found at i:79143831 original size:132 final size:131
Alignment explanation
Indices: 79143569--79144928 Score: 1198
Period size: 132 Copynumber: 10.2 Consensus size: 131
79143559 TCCAATTCAA
* * * * *
79143569 TCCACTGCAACTTCAAGGATATAGGATTTGTAGCCTC-ATCTTGCTCTGCA-GA-AACTTCAGGG
1 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATC-TGCTC--CACTACAACTTCAGGG
* * *
79143631 AGATAAGATTTGTGACTGCAACTTCATTCTACACCACTGCAACTTTAGGG-GCATAAGATTAGTA
63 AGATAAGATTTGT-A--G---CTTCAATCTACTCCACTGCAACTTTAGGGAG-ATAAGATTTGTA
* *
79143695 GCTTCATCTTGT
121 GCTTAATC-TGC
* * * *
79143707 TCCACTACAACTTCAAGGAGATAAGACTTGTAGTTTCAATCTGCTTCACTACAACTTTAGGGAGA
1 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGA
* *
79143772 TAATATTTGTAACTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCT
66 TAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTT-AATCT
*
79143837 TC
130 GC
* * * * ** *
79143839 TTCACTGCAACTTCAAGGATATAAGATTCACTATGGTAGATTCAATCCAAC-CCACTGCAACTTC
1 TCCACTACAACTTCAAGGAGATAAGA-T---T-T-GTAGCTTCAAT-CTGCTCCACTACAACTTC
* * **
79143903 AGGG-G-TATAGAATTTGTAGCTTTAATCTACTCCACAGCAACTTTAGGGAGATAAGATTCATAG
59 AGGGAGATA-AG-ATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAG
*
79143966 TTTCAATCTGC
122 CTT-AATCTGC
* * * *
79143977 TCCATTACAACTTCACGAAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGA
1 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGA
* * * *
79144042 TAAGATTTCTAGCTTTAATCTACTCCACTACAACTTTAGGGAGATAAGATTTGTAGCTTTAATAT
66 TAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC-TTAATCT
*
79144107 CC
130 GC
* * * * * *
79144109 TCTACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATATGCTCTATTACAACTTCAGGGAGA
1 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGA
** * * * *
79144174 TAAGATTCATAGCTTCAATCTGCTCTACTGCAACTTCAAGGG-GATAAGATTTGTAGTTTTAATC
66 TAAGATTTGTAGCTTCAATCTACTCCACTGCAACTT-TAGGGAGATAAGATTTGTAG-CTTAATC
*
79144238 TAC
129 TGC
* *** * **
79144241 TCCACTGCAACTTC-AGAGAGATAAGATTCAAAGCTTCAATCTGCTCCACTGCAACTTCAATGAG
1 TCCACTACAACTTCAAG-GAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAG
* * * * * *
79144305 ATAAGACTTGTAGCTAT-AATCTGCTCCACTACAACTTCAGGGAGACAAGATTTCTAGCTTTAAT
65 ATAAGATTTGTAGCT-TCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC-TTAAT
79144369 CTGC
128 CTGC
* ** * * * *
79144373 TCCATTACAACTTC-AGGAGGATAAGATTTGTATTTTCAATCTACTCCACTATAGCTTTAGGGAG
1 TCCACTACAACTTCAAGGA-GATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAG
* * * * * *
79144437 ATAAGATTCGTACCTTTAATATGCTCCACTGAAACTTTAGGGAGATAAGATTTGTAGCTTCAATC
65 ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTT-AATC
79144502 TGC
129 TGC
* * * * * * *
79144505 TCCACTGCAACTTC-AGAGAGATAAGATTCGTAGCCTCAATTTGCTCTACTATAACTTCAAGGAG
1 TCCACTACAACTTCAAG-GAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAG
* * * *
79144569 ATAAGATTTGTAGCTTTAATCTACTCTACTGCAACCTTAGGGAGATAAGATTTGTAGCTTTAATA
65 ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC-TTAATC
79144634 TGC
129 TGC
*
79144637 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTATAACTTCAGGGAGA
1 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGA
* * * * *
79144702 TAAGATTCGTAGCTTCAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTTTAGCTTTAATCT
66 TAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC-TTAATCT
79144767 GC
130 GC
* * ** ** * *
79144769 ACTACTGTAACTTTGAGGAGACAAGATTTGTAGCTTTAA-----T----TACAACTTCAGGGAGA
1 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGA
* * * * * *
79144825 TAATATTCGCTATGGTAGATTCAATCTA-TCCCACTGCAACTTTAGGGGGTGTAGGATATGTAGC
66 TAAGA-T---T-T-GTAGCTTCAATCTACT-CCACTGCAACTTTAGGGAG-ATAAGATTTGTAGC
*
79144889 TTAAATATGC
123 TT-AATCTGC
*
79144899 TCCACTACAACTTTAAGGAGATAAGATTTG
1 TCCACTACAACTTCAAGGAGATAAGATTTG
79144929 CTATGGTGAT
Statistics
Matches: 1003, Mismatches: 180, Indels: 86
0.79 0.14 0.07
Matches are distributed among these distances:
123 19 0.02
124 1 0.00
127 2 0.00
128 1 0.00
129 30 0.03
130 40 0.04
131 13 0.01
132 701 0.70
133 21 0.02
134 3 0.00
136 5 0.00
137 6 0.01
138 156 0.16
139 5 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (131 bp):
TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAGGGAGA
TAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTAATCTG
C
Found at i:79144805 original size:44 final size:45
Alignment explanation
Indices: 79143664--79144808 Score: 980
Period size: 44 Copynumber: 25.9 Consensus size: 45
79143654 TCATTCTACA
* * * *
79143664 CCACTGCAACTTT-AGGG-GCATAAGATTAGTAGC-TTCATCTTGTT
1 CCACTACAACTTTCAGGGAG-ATAAGATTTGTAGCTTTAATC-TGCT
* *
79143708 CCACTACAAC-TTCAAGGAGATAAGACTTGTAG-TTTCAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTT-AATCTGCT
* * * * *
79143752 TCACTACAACTTT-AGGGAGATAATATTTGTAACTTCAATCTACT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * *
79143796 CCACTGCAACTTT-AGGGAGATAAGATTTGTAGCTTCAATCTTCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * * * * **
79143840 TCACTGCAAC-TTCAAGGATATAAGATTCACTATGGTAGATTCAATCCAAC-
1 CCACTACAACTTTCAGGGAGATAAGA-T---T-T-GTAGCTTTAAT-CTGCT
* *
79143890 CCACTGCAAC-TTCAGGG-G-TATAGAATTTGTAGCTTTAATCTACT
1 CCACTACAACTTTCAGGGAGATA-AG-ATTTGTAGCTTTAATCTGCT
**
79143934 CCAC-AGCAACTTT-AGGGAGATAAGATTCATAG-TTTCAATCTGCT
1 CCACTA-CAACTTTCAGGGAGATAAGATTTGTAGCTTT-AATCTGCT
* * *
79143978 CCATTACAAC-TTCACGAAGATAAGATTTGTAGCTTTAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
79144022 CCACTACAAC-TTCAGGGAGATAAGATTTCTAGCTTTAATCTACT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
79144066 CCACTACAACTTT-AGGGAGATAAGATTTGTAGCTTTAATATCCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * * * *
79144110 CTACTGCAAC-TTCAAGGAGATAAGATTTGTAACTTCAATATGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * ** *
79144154 CTATTACAAC-TTCAGGGAGATAAGATTCATAGCTTCAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
79144198 CTACTGCAAC-TTCAAGGG-GATAAGATTTGTAGTTTTAATCTACT
1 CCACTACAACTTTC-AGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * *** *
79144242 CCACTGCAAC-TTCAGAGAGATAAGATTCAAAGCTTCAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* ** * *
79144286 CCACTGCAAC-TTCAATGAGATAAGACTTGTAGCTATAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
79144330 CCACTACAAC-TTCAGGGAGACAAGATTTCTAGCTTTAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * *
79144374 CCATTACAAC-TTCA-GGAGGATAAGATTTGTA-TTTTCAATCTACT
1 CCACTACAACTTTCAGGGA-GATAAGATTTGTAGCTTT-AATCTGCT
* * * * *
79144418 CCACTATAGCTTT-AGGGAGATAAGATTCGTACCTTTAATATGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
*
79144462 CCACTGA-AACTTT-AGGGAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACT-ACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * * * *
79144506 CCACTGCAAC-TTCAGAGAGATAAGATTCGTAGCCTCAATTTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
79144550 CTACTATAAC-TTCAAGGAGATAAGATTTGTAGCTTTAATCTACT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
79144594 CTACTGCAACCTT-AGGGAGATAAGATTTGTAGCTTTAATATGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* *
79144638 CCACTACAAC-TTCAAGGAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * *
79144682 CCACTATAAC-TTCAGGGAGATAAGATTCGTAGCTTCAATCTGCT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* * * *
79144726 CCATTGCAAC-TTCAGGGAGATAAGATTTTTAGCTTTAATCTGCA
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
* ** * *
79144770 CTACTGTAACTTTGA-GGAGACAAGATTTGTAGCTTTAAT
1 CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAAT
79144809 TACAACTTCA
Statistics
Matches: 913, Mismatches: 148, Indels: 80
0.80 0.13 0.07
Matches are distributed among these distances:
43 27 0.03
44 809 0.89
45 39 0.04
46 3 0.00
48 3 0.00
49 4 0.00
50 26 0.03
51 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (45 bp):
CCACTACAACTTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCT
Found at i:79162163 original size:42 final size:42
Alignment explanation
Indices: 79162103--79162198 Score: 156
Period size: 42 Copynumber: 2.3 Consensus size: 42
79162093 ATAGCCCAAC
** *
79162103 TATGGTCTTATTCAAAATCTCATATTGATGCCATATCCTAGA
1 TATGGTCTTACACAAAATCTCATAATGATGCCATATCCTAGA
*
79162145 TATGGTCTTACACGAAATCTCATAATGATGCCATATCCTAGA
1 TATGGTCTTACACAAAATCTCATAATGATGCCATATCCTAGA
79162187 TATGGTCTTACA
1 TATGGTCTTACA
79162199 GATAGTCTCG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (42 bp):
TATGGTCTTACACAAAATCTCATAATGATGCCATATCCTAGA
Found at i:79166308 original size:19 final size:20
Alignment explanation
Indices: 79166286--79166336 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
79166276 GGGTATTTTT
*
79166286 ATGAAATTTAATGCAT-ATG-
1 ATGAAATGTAATG-ATGATGA
79166305 ATGAAATGTAATGATGATGA
1 ATGAAATGTAATGATGATGA
79166325 ATGAAATG-AATG
1 ATGAAATGTAATG
79166337 CAAAAAGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 19 0.66
20 8 0.28
ACGTcount: A:0.45, C:0.02, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGAAATGTAATGATGATGA
Found at i:79173400 original size:16 final size:15
Alignment explanation
Indices: 79173379--79173409 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
79173369 AGACTGTTTA
79173379 TCTGTATTTGTATATT
1 TCTGTATTTG-ATATT
79173395 TCTGTATTTGATATT
1 TCTGTATTTGATATT
79173410 GGGGATGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (15 bp):
TCTGTATTTGATATT
Found at i:79176290 original size:40 final size:40
Alignment explanation
Indices: 79176228--79176325 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
79176218 AAACCAAGTA
* *
79176228 CCTTCGGGA-TTCAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTT-AGCCCGGATATA-CTAACTCGCACAAATG
*
79176267 CCTTCGGGACTTAGCCCGGATATATTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATACTAACTCGCACAAATG
79176307 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79176326 TTATCATCCG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
39 12 0.23
40 41 0.77
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATACTAACTCGCACAAATG
Found at i:79180364 original size:27 final size:27
Alignment explanation
Indices: 79180334--79180508 Score: 199
Period size: 27 Copynumber: 6.4 Consensus size: 27
79180324 TTGAGTCCGT
* * * *
79180334 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* *
79180361 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
79180388 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAGTCAAA-TCGC
** * *
79180416 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
79180443 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
79180470 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
79180497 ACACTTAGTGCT
1 ACACTTAGTGCT
79180509 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:79180471 original size:82 final size:81
Alignment explanation
Indices: 79180352--79180507 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79180342 TGCTATATAA
* *
79180352 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
79180417 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
79180434 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
79180498 CACTTAGTGC
65 CACTTAGTGC
79180508 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:79180918 original size:12 final size:12
Alignment explanation
Indices: 79180901--79180926 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
79180891 ATGGCATACT
79180901 TATGTATATATA
1 TATGTATATATA
79180913 TATGTATATATA
1 TATGTATATATA
79180925 TA
1 TA
79180927 CACTTCGGAA
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:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:79186014 original size:40 final size:40
Alignment explanation
Indices: 79185925--79186188 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
79185915 TTGAATGATG
* *
79185925 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
79185964 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
79186004 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
79186043 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
79186083 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
79186123 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
79186164 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
79186189 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:79186206 original size:120 final size:118
Alignment explanation
Indices: 79185925--79186221 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
79185915 TTGAATGATG
* *
79185925 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
79185985 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
79186043 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
79186108 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
79186164 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
79186222 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:79193997 original size:39 final size:40
Alignment explanation
Indices: 79193899--79194159 Score: 286
Period size: 40 Copynumber: 6.6 Consensus size: 40
79193889 AATGATGTCT
* *
79193899 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCC
*
79193939 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTCC
*
79193979 GGGCTAAG-CCCGAAGGCATTTGTGCGAGATGCTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCC
* * *
79194018 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCC
* * *
79194057 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCC
* * *
79194097 GGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-TCC
*
79194137 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
79194160 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
39 72 0.37
40 111 0.57
41 12 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCC
Found at i:79194177 original size:80 final size:78
Alignment explanation
Indices: 79193899--79194192 Score: 264
Period size: 80 Copynumber: 3.7 Consensus size: 78
79193889 AATGATGTCT
* * **
79193899 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-CCATATCCGGACTAAGAT-CCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GAGCTA-ATCCGGGTTAAG-TCCCGAAGGCATTT
*
79193961 GTGCGAGA-TACTAATTCC
62 GTGCGA-ATTACTAA-ACC
*
79193979 GGGCTAAG-CCCGAAGGCATTTGTGCGA-GATGCTAATTCCGGGCTAAG-CCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-GCTAA-TCCGGGTTAAGTCCCGAAGGCATTTGT
* *
79194041 GCGAGTTACTAAATCT
64 GCGAATTACTAAA-CC
* *
79194057 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-GAGCT-AATCCGGGTTAAGTCCCGAAGGCATTTGT
*
79194121 GTGAATTACTATAACC
64 GCGAATTACTA-AACC
* ** * *
79194137 GGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGGAGCTA-ATCCGGGTTAAGTCCCGAAGG
79194193 TACGTGATTT
Statistics
Matches: 180, Mismatches: 19, Indels: 31
0.78 0.08 0.13
Matches are distributed among these distances:
77 2 0.01
78 33 0.18
79 69 0.38
80 73 0.41
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGGAGCTAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
GAATTACTAAACC
Found at i:79197342 original size:40 final size:40
Alignment explanation
Indices: 79197261--79197358 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
79197251 AAACCAAGTA
* * * *
79197261 CCTTCGGGATTTAG-CCAGATATAGCTACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
79197300 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
79197340 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
79197359 TTATCATCCG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.26
40 39 0.74
ACGTcount: A:0.22, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:79205235 original size:13 final size:13
Alignment explanation
Indices: 79205219--79205244 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79205209 TTCATATGAT
79205219 TATATTCAATTAA
1 TATATTCAATTAA
79205232 TATATTCAATTAA
1 TATATTCAATTAA
79205245 CTCATACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTCAATTAA
Found at i:79205994 original size:75 final size:72
Alignment explanation
Indices: 79205915--79206096 Score: 179
Period size: 70 Copynumber: 2.4 Consensus size: 72
79205905 ATTCATTTTC
* * * *
79205915 CAATTAAATTCAAATCACTAATTACTTTTCAATCAATATGCATTTCAAATACTCACATATTTTCT
1 CAATTAAATTCAAATCACT-ATTACTTTCCAATCAATATAC-TTTCAAATACTCACATA-ATTCA
*
79205980 TCATTCAATT
63 TAATTCAATT
* * *
79205990 CAATTTGATTCAATTCAAATCACTTTTAGTTTCCAATCAATATACTTTCAAATATTCACATAATT
1 CAA-TT-A---AATTCAAATCACTATTACTTTCCAATCAATATACTTTCAAATACTCACATAATT
79206055 CATAATTCAATT
61 CATAATTCAATT
* * *
79206067 -ACTT-AATTCAAATCACTTTTAATTTCCAAT
1 CAATTAAATTCAAATCACTATTACTTTCCAAT
79206097 TTGTTCACAT
Statistics
Matches: 92, Mismatches: 10, Indels: 15
0.79 0.09 0.13
Matches are distributed among these distances:
70 25 0.27
75 5 0.05
76 3 0.03
77 13 0.14
78 16 0.17
79 17 0.18
80 13 0.14
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (72 bp):
CAATTAAATTCAAATCACTATTACTTTCCAATCAATATACTTTCAAATACTCACATAATTCATAA
TTCAATT
Found at i:79206406 original size:11 final size:11
Alignment explanation
Indices: 79206390--79206414 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
79206380 TTAAATTTTC
79206390 CTATTCAATTT
1 CTATTCAATTT
79206401 CTATTCAATTT
1 CTATTCAATTT
79206412 CTA
1 CTA
79206415 CCTTAAATTC
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:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:79217936 original size:5 final size:5
Alignment explanation
Indices: 79217926--79217960 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
79217916 AATTTGTGTG
*
79217926 TTATT TTATT TTTTCT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTAT
79217961 CTTTTTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:79226371 original size:40 final size:40
Alignment explanation
Indices: 79226320--79227368 Score: 1909
Period size: 40 Copynumber: 26.2 Consensus size: 40
79226310 CCTTCGAGGT
* * * *
79226320 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
**
79226360 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
*
79226400 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
*
79226440 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
**
79226480 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226520 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226560 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226600 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226640 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226680 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226720 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226760 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226800 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226840 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226880 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226920 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79226960 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79227000 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79227040 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79227080 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79227120 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
*
79227160 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
* * **
79227200 TTAGCCCGGATACATCACTAGCACGAATGCTCTTTGGGAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
*
79227240 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
* * *
79227280 TTAGCTCGGATACATTACTAGCACAAATGCTCTTTGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
* *
79227320 TTAGCCCGGATACATCATTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
79227360 TTAGCCCGG
1 TTAGCCCGG
79227369 CTATATATCT
Statistics
Matches: 985, Mismatches: 24, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 985 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
Found at i:79234113 original size:27 final size:27
Alignment explanation
Indices: 79234082--79234259 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
79234072 TAAATTGTAC
79234082 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
79234109 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79234135 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
79234163 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
79234191 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79234218 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
79234245 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79234260 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:79234196 original size:82 final size:81
Alignment explanation
Indices: 79234083--79234238 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79234073 AAATTGTACA
* *
79234083 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
79234147 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
79234164 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
79234229 TGCGAGTTGA
65 TGCGAATTGA
79234239 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79234250 original size:82 final size:81
Alignment explanation
Indices: 79234079--79234259 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
79234069 GATTAAATTG
* *
79234079 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79234144 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
79234160 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
79234224 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
79234242 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
79234260 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79241703 original size:93 final size:92
Alignment explanation
Indices: 79241600--79241767 Score: 214
Period size: 93 Copynumber: 1.8 Consensus size: 92
79241590 CTGTCGAGGC
** ** **
79241600 CGATGCATGTCCCAAACAT-GTCTTACT-CTGGCACTCATAATTTGGGTGAAGCATGTCCTGGAC
1 CGATGCATGTCCCAAACATGGTCTTA-TACTGGCACTCAT-ATGCGGCCGAAGCATGTCCCAGAC
79241663 ATGTCTTACACTAGCCCTTGTTTAGATGT
64 ATGTCTTACACTAGCCCTTGTTTAGATGT
* * *
79241692 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATATGCGGCCGAAGCGTGTCCCAGACA
1 CGATG-CATGTCCCAAACATGGTCTTATACTGGCACTCATATGCGGCCGAAGCATGTCCCAGACA
79241757 TGTCTTACACT
65 TGTCTTACACT
79241768 GGCGTACAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
92 5 0.08
93 43 0.67
94 16 0.25
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGGTCTTATACTGGCACTCATATGCGGCCGAAGCATGTCCCAGACAT
GTCTTACACTAGCCCTTGTTTAGATGT
Found at i:79255728 original size:17 final size:18
Alignment explanation
Indices: 79255708--79255741 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79255698 TATTATGCAT
*
79255708 GAATTGT-TATTTTATGC
1 GAATTGTCTATTCTATGC
79255725 GAATTGTCTATTCTATG
1 GAATTGTCTATTCTATG
79255742 TGAACCGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.50
Consensus pattern (18 bp):
GAATTGTCTATTCTATGC
Found at i:79256730 original size:38 final size:38
Alignment explanation
Indices: 79256680--79256775 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 38
79256670 CCAACTCCGT
* * *
79256680 CCAA-CCTAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAACCCT-ACACACCATATGGGGATAAAATCAAACCAC
* *
79256718 CCATCCCTACACACCAAATATGGGGATAAAATCAAACCAT
1 CCAACCCTACACACC--ATATGGGGATAAAATCAAACCAC
79256758 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
79256776 GAGTACTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
38 13 0.27
39 3 0.06
40 33 0.67
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAAAATCAAACCAC
Found at i:79256745 original size:40 final size:40
Alignment explanation
Indices: 79256698--79256773 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
79256688 ACACACCATG
* * *
79256698 TGGGGATAAAATCGACCCACCCATCCCTACACACCAAATA
1 TGGGGATAAAATCAAACCACCCAACCCTACACACCAAATA
*
79256738 TGGGGATAAAATCAAACCATCCAACCCTACACACCA
1 TGGGGATAAAATCAAACCACCCAACCCTACACACCA
79256774 TAGAGTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.39, C:0.34, G:0.12, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAAACCACCCAACCCTACACACCAAATA
Found at i:79262209 original size:27 final size:28
Alignment explanation
Indices: 79262179--79262265 Score: 144
Period size: 27 Copynumber: 3.2 Consensus size: 28
79262169 GTGACGAAGT
79262179 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
79262206 CACCAGA-ACAGATATTTGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
*
79262233 CACCAGAT-CAGATATTTGTGGCATAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
79262260 CACCAG
1 CACCAG
79262266 GATGCTTCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
26 7 0.12
27 50 0.88
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGATACAGATATTTGTGGCAGAGC
Found at i:79263885 original size:26 final size:26
Alignment explanation
Indices: 79263849--79263956 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
79263839 TGAAATGCCC
* *
79263849 ATCATGGAACATTTACCTAAACAATT
1 ATCATGGAACATTTACCTAACCCATT
79263875 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
79263901 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
79263927 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79263953 ATCA
1 ATCA
79263957 CTTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79270264 original size:26 final size:26
Alignment explanation
Indices: 79270233--79270392 Score: 248
Period size: 26 Copynumber: 6.2 Consensus size: 26
79270223 TGAAATGCCC
*
79270233 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
79270259 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
79270285 ATCATGAAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
79270311 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
79270337 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
79270363 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79270389 ATCA
1 ATCA
79270393 ATTTGTACCA
Statistics
Matches: 119, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 119 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79270290 original size:52 final size:52
Alignment explanation
Indices: 79270233--79270392 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
79270223 TGAAATGCCC
* *
79270233 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
79270285 ATCATGAAATATTTACCTAAACCATTATCATAGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
79270337 ATCATGAAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
79270389 ATCA
1 ATCA
79270393 ATTTGTACCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGAAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:79274513 original size:27 final size:26
Alignment explanation
Indices: 79274478--79274589 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
79274468 AGCATGGCTG
* *
79274478 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
79274504 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
79274532 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
79274559 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
79274586 CCAG
1 CCAG
79274590 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:79274537 original size:54 final size:54
Alignment explanation
Indices: 79274478--79274589 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
79274468 AGCATGGCTG
*
79274478 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
** * *
79274532 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
79274586 CCAG
1 CCAG
79274590 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:79274737 original size:26 final size:27
Alignment explanation
Indices: 79274693--79274767 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 27
79274683 CAAAAGTAAC
* *
79274693 CTTAGGGGTATAAT-GGTAATTT-TACA
1 CTTAGGGGTAT-ATCAGTAATTTCCACA
*
79274719 CTTAGGGGTATATCAGTAATTTCCATA
1 CTTAGGGGTATATCAGTAATTTCCACA
*
79274746 CATAGGGGTAT-TCAAGTAATTT
1 CTTAGGGGTATATC-AGTAATTT
79274768 AACTATTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.05
26 20 0.48
27 20 0.48
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (27 bp):
CTTAGGGGTATATCAGTAATTTCCACA
Found at i:79277555 original size:27 final size:26
Alignment explanation
Indices: 79277507--79277558 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79277497 GCGAGGCTAC
*
79277507 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
79277533 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
79277559 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79291911 original size:27 final size:27
Alignment explanation
Indices: 79291873--79291949 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
79291863 NNNNNNNNNN
*
79291873 GGTAAAATAGTAATTTTATAAATCCAG
1 GGTAAAATAGTAATTCTATAAATCCAG
*
79291900 GGTAAAATAGTAATTCTATAAATCGAG
1 GGTAAAATAGTAATTCTATAAATCCAG
** *
79291927 GGTAAAACGGTAATTCTGTAAAT
1 GGTAAAATAGTAATTCTATAAAT
79291950 TGGGGGTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (27 bp):
GGTAAAATAGTAATTCTATAAATCCAG
Found at i:79298924 original size:27 final size:26
Alignment explanation
Indices: 79298876--79298927 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79298866 GCGAGGCTGC
*
79298876 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
79298902 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
79298928 TTACAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79299667 original size:54 final size:54
Alignment explanation
Indices: 79299584--79300647 Score: 1639
Period size: 54 Copynumber: 19.7 Consensus size: 54
79299574 ATCGATAGTC
* * * *
79299584 CTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAGGGTATTTTGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* * * * *
79299638 CTACCCTAGAGGGGCATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* * * * *
79299692 CAACCTTATAGAGGTATTTTAGTAATTCTACCTTACAAGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79299746 CTACCTTACAGGGGGTA-TTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATT
1 CTACCTTACA-GGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* * * *
79299800 CTACCTTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* * * * *
79299854 CAACCTTATAGAGGTATTTTAGTAATTCTACCTTACAAGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79299908 CTACCTTACAGGGGGTA-TTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATT
1 CTACCTTACA-GGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* * * *
79299962 CTACCTTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* * * * *
79300016 CAACCTTATAGAGGTATTTTAGTAATTCTACCTTACAAGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300070 CTACCTTACAGGGGGTA-TTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATT
1 CTACCTTACA-GGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* * * *
79300124 CTACCTTATAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300178 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300232 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300286 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300340 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300394 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300448 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300502 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
*
79300556 CTACCTTACAGGGGTATTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATT
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
* *
79300610 CTACCTTACAGGGGTATTTTAGTAATGCTAGCCTACAG
1 CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAG
79300648 ATATGAGATT
Statistics
Matches: 933, Mismatches: 71, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
53 15 0.02
54 903 0.97
55 15 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
CTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
Found at i:79304219 original size:43 final size:42
Alignment explanation
Indices: 79304165--79304294 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 42
79304155 ATATCGTACA
*
79304165 ATGCCAATGTCCCAGACGTGGTCTTACATGAACTCACATATTG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGAA-TCACATATTG
** * *
79304208 ATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACA-TGAATCACATATTG
* * * *
79304251 ATGCCAAC-GTCCCAAATGTGGTCTTACACGAAAACACATATTG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATG-AATCACATATTG
79304294 A
1 A
79304295 AAATCCAATT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 66 0.93
44 5 0.07
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGAATCACATATTG
Found at i:79304484 original size:43 final size:42
Alignment explanation
Indices: 79304430--79304559 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 42
79304420 ATATCGTACA
*
79304430 ATGCCAATGTCCCAGACGTGGTCTTACATGAACTCACATATTG
1 ATGCCACTGTCCCAGACGTGGTCTTACATGAA-TCACATATTG
** * *
79304473 ATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACATATCG
1 ATGCCACTGTCCCAGACGTGGTCTTACA-TGAATCACATATTG
* * * *
79304516 ATGCCAAC-GTCCCAAATGTGGTCTTACACGAAAACACATATTG
1 ATGCC-ACTGTCCCAGACGTGGTCTTACATG-AATCACATATTG
79304559 A
1 A
79304560 AAATCCAATT
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 66 0.93
44 5 0.07
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACGTGGTCTTACATGAATCACATATTG
Found at i:79304592 original size:265 final size:265
Alignment explanation
Indices: 79304119--79304648 Score: 1060
Period size: 265 Copynumber: 2.0 Consensus size: 265
79304109 CCCATTGAAC
79304119 TGTTCGAAATTGAATAGGATACTTGGATAATCACACATATCGTACAATGCCAATGTCCCAGACGT
1 TGTTCGAAATTGAATAGGATACTTGGATAATCACACATATCGTACAATGCCAATGTCCCAGACGT
79304184 GGTCTTACATGAACTCACATATTGATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACATAT
66 GGTCTTACATGAACTCACATATTGATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACATAT
79304249 CGATGCCAACGTCCCAAATGTGGTCTTACACGAAAACACATATTGAAAATCCAATTTCATGACAT
131 CGATGCCAACGTCCCAAATGTGGTCTTACACGAAAACACATATTGAAAATCCAATTTCATGACAT
79304314 ATGTATCCTAGATATTCCTTAGGTTTGTACGGGGCTTTTGGACGTCATAACTCGATCGAATCGAA
196 ATGTATCCTAGATATTCCTTAGGTTTGTACGGGGCTTTTGGACGTCATAACTCGATCGAATCGAA
79304379 TTCGT
261 TTCGT
79304384 TGTTCGAAATTGAATAGGATACTTGGATAATCACACATATCGTACAATGCCAATGTCCCAGACGT
1 TGTTCGAAATTGAATAGGATACTTGGATAATCACACATATCGTACAATGCCAATGTCCCAGACGT
79304449 GGTCTTACATGAACTCACATATTGATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACATAT
66 GGTCTTACATGAACTCACATATTGATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACATAT
79304514 CGATGCCAACGTCCCAAATGTGGTCTTACACGAAAACACATATTGAAAATCCAATTTCATGACAT
131 CGATGCCAACGTCCCAAATGTGGTCTTACACGAAAACACATATTGAAAATCCAATTTCATGACAT
79304579 ATGTATCCTAGATATTCCTTAGGTTTGTACGGGGCTTTTGGACGTCATAACTCGATCGAATCGAA
196 ATGTATCCTAGATATTCCTTAGGTTTGTACGGGGCTTTTGGACGTCATAACTCGATCGAATCGAA
79304644 TTCGT
261 TTCGT
79304649 AAACATAGCT
Statistics
Matches: 265, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
265 265 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (265 bp):
TGTTCGAAATTGAATAGGATACTTGGATAATCACACATATCGTACAATGCCAATGTCCCAGACGT
GGTCTTACATGAACTCACATATTGATGCCACTGTCCCAGACAAGGTCTTACACTTAATCACATAT
CGATGCCAACGTCCCAAATGTGGTCTTACACGAAAACACATATTGAAAATCCAATTTCATGACAT
ATGTATCCTAGATATTCCTTAGGTTTGTACGGGGCTTTTGGACGTCATAACTCGATCGAATCGAA
TTCGT
Found at i:79310369 original size:37 final size:37
Alignment explanation
Indices: 79310319--79310397 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
79310309 TTATTACGAA
* * *
79310319 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
79310356 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
79310393 GTCTT
1 GTCTT
79310398 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:79310594 original size:47 final size:47
Alignment explanation
Indices: 79310516--79310863 Score: 624
Period size: 47 Copynumber: 7.4 Consensus size: 47
79310506 CCCTTCGGGA
* * * * * *
79310516 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79310563 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79310610 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79310657 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79310704 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79310751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79310798 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79310845 CTTATCACATATATACACT
1 CTTATCACATATATACACT
79310864 GTCTTGACTG
Statistics
Matches: 291, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 291 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79314086 original size:40 final size:40
Alignment explanation
Indices: 79314042--79314511 Score: 739
Period size: 40 Copynumber: 11.8 Consensus size: 40
79314032 CCAGCACTAT
* * * * * *
79314042 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* ** * *
79314082 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
79314122 TGCTCTTCG-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAG-ACTTAGCCCGGATACATCACTAGCACGAA
79314162 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCAC-AA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
79314201 TGCTCTTCGAGACTTAGCCCGGATACATTACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
79314241 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCAC-AA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
79314280 TGCTCTTCGAGACTTAGCCCGGATACATTACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
79314320 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
* *
79314360 TGCTCTTTGAGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
79314400 TGCTCTTCGAGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
79314440 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
*
79314480 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGAGACTTAGCCCGGATACATCACT
79314512 CTCAATTCTC
Statistics
Matches: 404, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
39 77 0.19
40 326 0.81
41 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:79314751 original size:30 final size:30
Alignment explanation
Indices: 79314660--79314751 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
79314650 ATACCACTCC
*
79314660 TTCAAAATTGCATCACTTATACCCTTATAA
1 TTCAAAATTGCATCACTCATACCCTTATAA
** * * *
79314690 TTCAATCCTT-TAT-AGTCATAACCC-TCT--
1 TTCAA-AATTGCATCACTCAT-ACCCTTATAA
79314717 TTCAAAATTGCATCACTCATACCCTTATAA
1 TTCAAAATTGCATCACTCATACCCTTATAA
79314747 TTCAA
1 TTCAA
79314752 TCCAAATCGA
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
26 2 0.05
27 11 0.25
28 7 0.16
29 6 0.14
30 16 0.36
31 2 0.05
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (30 bp):
TTCAAAATTGCATCACTCATACCCTTATAA
Found at i:79320979 original size:43 final size:43
Alignment explanation
Indices: 79320923--79321052 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
79320913 ATATCGTACA
** *
79320923 ATGCCAACATCCCAGATGTGGTCTTACATGTAGTCACATATTG
1 ATGCCAATGTCCCAGATGTGGTCTTACATGTAATCACATATTG
* * *** *
79320966 ATGCCACTGTCCCAAACAAGGTCTTACACT-TAATCACATATCG
1 ATGCCAATGTCCCAGATGTGGTCTTACA-TGTAATCACATATTG
** * *
79321009 ATGCCAATGTCTTAGATGTGGTCTTACATGAAAACACATATTG
1 ATGCCAATGTCCCAGATGTGGTCTTACATGTAATCACATATTG
79321052 A
1 A
79321053 AAATCCTATG
Statistics
Matches: 66, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
42 1 0.02
43 64 0.97
44 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATGTGGTCTTACATGTAATCACATATTG
Found at i:79327521 original size:22 final size:23
Alignment explanation
Indices: 79327467--79327518 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
79327457 TATAAAACCT
79327467 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
79327489 AATAAAAAGTAGTCTTAAA-ATAA
1 AATAAAAAGTAGTCTTAAAGA-AA
79327512 AATAAAA
1 AATAAAA
79327519 GTAAAAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:79332458 original size:26 final size:27
Alignment explanation
Indices: 79332405--79332467 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
79332395 AATTACTAGA
*
79332405 ATACCCCTAAGTATGGAAAATTAACATT
1 ATACCCCTAAG-ATGGAAAATGAACATT
* *
79332433 ATACCCCTAAG-TGTAAAATGACCATT
1 ATACCCCTAAGATGGAAAATGAACATT
79332459 ATACCCCTA
1 ATACCCCTA
79332468 GAGTTAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 21 0.66
28 11 0.34
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.27
Consensus pattern (27 bp):
ATACCCCTAAGATGGAAAATGAACATT
Found at i:79332614 original size:27 final size:27
Alignment explanation
Indices: 79332574--79332685 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
79332564 GAGGAACATC
*
79332574 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
* *
79332601 CTGGTGGCTCTGCCACAAATATCTATT
1 CTGGTGGCTATGCCACAAATATCTGTT
* *
79332628 CTGGTGGCTCTACCACAAATATCTGTAT
1 CTGGTGGCTATGCCACAAATATCTGT-T
* * *
79332656 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGTT
79332682 CTGG
1 CTGG
79332686 CAGCCATGAT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 56 0.76
28 13 0.18
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAAATATCTGTT
Found at i:79349012 original size:26 final size:27
Alignment explanation
Indices: 79348977--79349027 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
79348967 CTAAGTATGG
*
79348977 AAAATTACCATTATACCCC-TGGGTGT
1 AAAATGACCATTATACCCCTTGGGTGT
79349003 AAAATGACCATTATACCCCTTGGGT
1 AAAATGACCATTATACCCCTTGGGT
79349028 TAATTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (27 bp):
AAAATGACCATTATACCCCTTGGGTGT
Found at i:79349171 original size:27 final size:27
Alignment explanation
Indices: 79349131--79349215 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
79349121 AGGAAGCGTC
79349131 CTGGTGGCTATGCCACAATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTT
* *
79349158 CTGGTGGCTCTGCCACAAATATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTGT-T
* *
79349186 CTGGTGACTATGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGTT
79349212 CTGG
1 CTGG
79349216 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.10
27 32 0.63
28 14 0.27
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGTT
Found at i:79349231 original size:54 final size:54
Alignment explanation
Indices: 79349131--79349236 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
79349121 AGGAAGCGTC
* **
79349131 CTGGTGGCTATGCCACAATTATCTGTTCTGGTGGCTCTGCCACAAATATCTGTAT
1 CTGGTGACTATGCCACAATTATCTGTTCTGGCAGCTCTGCCACAAAT-TCTGTAT
* **
79349186 CTGGTGACTATGTCAC-ATTATCTGTTCTGGCAGC-CATGCTGCAAATTCTGT
1 CTGGTGACTATGCCACAATTATCTGTTCTGGCAGCTC-TGCCACAAATTCTGT
79349237 GGCGTGTAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
53 6 0.14
54 24 0.55
55 14 0.32
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
CTGGTGACTATGCCACAATTATCTGTTCTGGCAGCTCTGCCACAAATTCTGTAT
Found at i:79355670 original size:50 final size:50
Alignment explanation
Indices: 79355552--79355727 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
79355542 TTGGTACGCA
* * * *
79355552 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAAATTATCAGGTACACG
* * * *
79355601 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAAATTATCAGGTACACG
*
79355651 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCAAAGTTATCAGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-AAA-TTATCAGGTACACG
79355702 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
79355728 TGCGACCTAG
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
49 31 0.27
50 46 0.41
51 36 0.32
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTAAATTATCAGGTACACG
Found at i:79355754 original size:101 final size:99
Alignment explanation
Indices: 79355552--79355743 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 99
79355542 TTGGTACGCA
* * * *
79355552 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
* * *
79355617 GTACTACACACGTGACTTAACTATCTGATACACG
66 GTACTACACACGCGACCTAACTATATGATACACG
*
79355651 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCAGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CAAA-TTATCAGGTACACATAGTAGCCTGCACT
* *
79355716 TAGTACTACACATGCGACCTAGCTATAT
64 TAGTACTACACACGCGACCTAACTATAT
79355744 ATATCCCGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 29 0.36
100 3 0.04
101 49 0.60
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACAAATTATCAGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACTATATGATACACG
Found at i:79363605 original size:43 final size:43
Alignment explanation
Indices: 79363547--79363630 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
79363537 CAATTCCAAC
* * *
79363547 GTCCCAGACATGGTCTTACA-TGTACA-CACATATTGATGCCACT
1 GTCCCAAACAAGGTCTTACACT-TA-ATCACATATCGATGCCACT
79363590 GTCCCAAACAAGGTCTTACACTTAATCACATATCGATGCCA
1 GTCCCAAACAAGGTCTTACACTTAATCACATATCGATGCCA
79363631 ACATCCCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 34 0.94
44 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (43 bp):
GTCCCAAACAAGGTCTTACACTTAATCACATATCGATGCCACT
Found at i:79369462 original size:79 final size:81
Alignment explanation
Indices: 79369326--79369510 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
79369316 TTGAATGATG
* *
79369326 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
79369390 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
79369405 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
79369467 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
79369485 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
79369511 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:79369524 original size:40 final size:40
Alignment explanation
Indices: 79369327--79369510 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
79369317 TGAATGATGT
* * * *
79369327 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
79369367 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
79369407 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
79369445 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
79369486 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
79369511 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:79369532 original size:79 final size:79
Alignment explanation
Indices: 79369379--79369543 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
79369369 GGACTAAGAT
* * **
79369379 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
79369444 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
79369458 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
79369521 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
79369537 CCGAAGG
1 CCGAAGG
79369544 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:79375346 original size:31 final size:31
Alignment explanation
Indices: 79375311--79375373 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
79375301 AGGCAATCTA
**
79375311 ACCATGCCACACCATCTTGCTAAATGATCCC
1 ACCATGCCACACCATCTCACTAAATGATCCC
** *
79375342 ACCATGCCTTACCATCTCACTAAGTGATCCC
1 ACCATGCCACACCATCTCACTAAATGATCCC
79375373 A
1 A
79375374 TCACACCTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.29, C:0.38, G:0.10, T:0.24
Consensus pattern (31 bp):
ACCATGCCACACCATCTCACTAAATGATCCC
Found at i:79400153 original size:34 final size:34
Alignment explanation
Indices: 79400106--79400171 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
79400096 CGGTTTAGTT
79400106 GTCCCGAAACCACTTTCCTACTAGGGTCACTTCG
1 GTCCCGAAACCACTTTCCTACTAGGGTCACTTCG
*
79400140 GTCCCGAAGCCACTTTCCTACTAGGGTCACTT
1 GTCCCGAAACCACTTTCCTACTAGGGTCACTT
79400172 TAGGGCTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (34 bp):
GTCCCGAAACCACTTTCCTACTAGGGTCACTTCG
Done.