Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 143 of 345
Found at i:38972717 original size:45 final size:45
Alignment explanation
Indices: 38972653--38972861 Score: 289
Period size: 45 Copynumber: 4.7 Consensus size: 45
38972643 TATCGTACAG
*
38972653 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCAGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
38972698 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
** * *
38972743 TACTATTTAGGCCTTTGAGCCTAGTAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* * * *
38972788 TACTATTCGGGCCTTCGAGCCTAGTAGGTTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
38972833 TGA-TA-TCGGG-CTTCGACCCTAGCAGGCTA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTA
38972862 AATGCTGGTG
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
43 16 0.11
44 5 0.03
45 127 0.85
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:38977874 original size:40 final size:40
Alignment explanation
Indices: 38977830--38978010 Score: 174
Period size: 40 Copynumber: 4.5 Consensus size: 40
38977820 ACTCGATTGT
* * *
38977830 CTTCGGGATATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGATATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
38977870 CTTCGGGA-ATTAGCTCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGATA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
38977910 CTTCGGGACT-TAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGA-TATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
38977950 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGATATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
38977991 CTTCGGGACT-TAGCCCGGAT
1 CTTCGGGA-TATAGCCCGGAT
38978011 ACCATTCAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.02
40 85 0.73
41 27 0.23
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
CTTCGGGATATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:38977929 original size:80 final size:81
Alignment explanation
Indices: 38977830--38978008 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 81
38977820 ACTCGATTGT
* * * *
38977830 CTTCGGGA-TATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCTCGGATTTA
1 CTTCGGGACT-TAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTA
* *
38977893 GTAAC-TCGCACAAATGC
64 GTAACTTAGCACAAAAGC
* * *
38977910 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
38977975 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
38977991 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
38978009 ATACCATTCA
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 56 0.66
81 29 0.34
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:38977997 original size:41 final size:39
Alignment explanation
Indices: 38977858--38978010 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 39
38977848 TTATAGTGAT
* *
38977858 TCGCACAATTGCCTTCGGGAATTAGCTCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * *
38977898 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
*
38977938 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
* * *
38977978 TTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 -TCGCACAAATGCCTTCGGGAATTA-CCCGGAT
38978011 ACCATTCAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
40 69 0.71
41 28 0.29
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:38986005 original size:80 final size:81
Alignment explanation
Indices: 38985907--38986079 Score: 224
Period size: 80 Copynumber: 2.1 Consensus size: 81
38985897 GCTCGATTGT
* * * * *
38985907 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATA-AGCCCGGATTTAG
1 CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATAGA-CCCGGATTTAG
* *
38985971 TAAC-TCGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
38985987 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATAGACCCGGATTTAGT
*
38986052 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
38986068 CTTCGGGACTTA
1 CTTCGGGACTTA
38986080 GCTCGGATAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 57 0.71
81 23 0.29
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATAGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:38986087 original size:41 final size:40
Alignment explanation
Indices: 38985907--38986087 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
38985897 GCTCGATTGT
* * *
38985907 CTTCGGGACA-TAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGA-ATTAGCCCGGATT-TAGTAACTCGCACAAATGC
*
38985947 CTTCGGGAATAAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
38985987 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
38986027 CTTCGGGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
* *
38986068 CTTCGGGACTTAGCTCGGAT
1 CTTCGGGAATTAGCCCGGAT
38986088 ACCATTCAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 88 0.75
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:38991899 original size:45 final size:45
Alignment explanation
Indices: 38991835--38992043 Score: 307
Period size: 45 Copynumber: 4.7 Consensus size: 45
38991825 TATCGTACAG
*
38991835 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGATGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
38991880 TACTATTCGGGTCTTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
38991925 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
38991970 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
* *
38992015 TGA-TA-TCAGG-CTTCGAGCCTAGCAGGCTA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTA
38992044 AATGCCAGTG
Statistics
Matches: 151, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
43 19 0.13
44 4 0.03
45 127 0.84
46 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
Found at i:38996712 original size:10 final size:9
Alignment explanation
Indices: 38996688--38996718 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
38996678 CTAATTTTTT
38996688 ATTTTATAAA
1 ATTTT-TAAA
38996698 ATTTTTAAA
1 ATTTTTAAA
38996707 ATTTTTAAA
1 ATTTTTAAA
38996716 ATT
1 ATT
38996719 AAAAAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:38997020 original size:100 final size:100
Alignment explanation
Indices: 38996904--38997097 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
38996894 AAAAAATTAT
*
38996904 CAACTAAATTTTATT-AAAAATTAAAAAATAAACTACCAAAAACTCAAGATAATAATTAAAAATA
1 CAACTAAATATTATTAAAAAATT-AAAAATAAACTACCAAAAACTCAAGATAATAATTAAAAATA
38996968 AATAAATTACACAATTAACATAATCTATAATTGACA
65 AATAAATTACACAATTAACATAATCTATAATTGACA
* *
38997004 CAACTAAATATTATTAAAAAATTAAAAATAAATTGCCAAAAACTCAAGATAATAATTAAAAATAA
1 CAACTAAATATTATTAAAAAATTAAAAATAAACTACCAAAAACTCAAGATAATAATTAAAAATAA
38997069 ATAAATTACACAATTAACATAATCTATAA
66 ATAAATTACACAATTAACATAATCTATAA
38997098 ATATAAAATT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
100 83 0.92
101 7 0.08
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (100 bp):
CAACTAAATATTATTAAAAAATTAAAAATAAACTACCAAAAACTCAAGATAATAATTAAAAATAA
ATAAATTACACAATTAACATAATCTATAATTGACA
Found at i:39000648 original size:6 final size:6
Alignment explanation
Indices: 39000633--39000676 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
39000623 AAATAAGTTC
*
39000633 AAAA-A AAAATA AAAATA AAAATA AAAATA AAAATA GAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
39000677 CAAAGTCCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 4 0.11
6 32 0.89
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:39000835 original size:19 final size:19
Alignment explanation
Indices: 39000781--39000829 Score: 84
Period size: 17 Copynumber: 2.7 Consensus size: 19
39000771 CATCTTTAAG
39000781 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39000800 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39000817 GATATGCAATCTT
1 GATATGCAATCTT
39000830 GAATATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.61
19 11 0.39
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39004614 original size:40 final size:39
Alignment explanation
Indices: 39004503--39004654 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 39
39004493 ATAATCACGT
* * *
39004503 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
39004543 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
39004583 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
39004623 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
39004655 CATTCAATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.02
40 93 0.98
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:39004637 original size:80 final size:80
Alignment explanation
Indices: 39004503--39004654 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
39004493 ATAATCACGT
* *
39004503 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
39004568 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
39004583 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
39004646 CCCGGATAT
64 CCCGGATAT
39004655 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:39012542 original size:40 final size:40
Alignment explanation
Indices: 39012484--39012647 Score: 172
Period size: 40 Copynumber: 4.1 Consensus size: 40
39012474 GAATATAACC
*
39012484 GATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAATAAC-TCGCACAAATGCCTTCGGGTCTTAGCCCG
*
39012524 GATAGAATAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
1 GATATAATAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
*** * * *
39012564 GATATAGCCACTAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATATAATAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
** * * *
39012604 GATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGCCCG
1 GATATAATAACTC-GCACAAATGCCTTCGGGTCTTAGCCCG
39012643 GATAT
1 GATAT
39012648 CATTCAATTT
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
GATATAATAACTCGCACAAATGCCTTCGGGTCTTAGCCCG
Found at i:39012631 original size:80 final size:79
Alignment explanation
Indices: 39012497--39012647 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 79
39012487 ATAATCACGT
*
39012497 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACAAATGCCTTCGGG-CTTAGCC
39012562 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * * *
39012577 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATAATTGTCTTCGGGCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACAAATGCCTTCGGGCTTAGCC
39012641 CGGATAT
65 CGGATAT
39012648 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 15 0.24
80 47 0.76
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACAAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:39021009 original size:29 final size:28
Alignment explanation
Indices: 39020977--39021048 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
39020967 TTCAAGCCCA
* *
39020977 CACACATAGTGCCATATAGTCCAAACTCG
1 CACAC-TAGTGCCATACAGTACAAACTCG
* *
39021006 CACACTTAGTGCCATACATTACAAGCTCG
1 CACAC-TAGTGCCATACAGTACAAACTCG
39021035 CACACTCAGTGCCA
1 CACACT-AGTGCCA
39021049 ATCCGTCACC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.32, C:0.33, G:0.14, T:0.21
Consensus pattern (28 bp):
CACACTAGTGCCATACAGTACAAACTCG
Found at i:39025479 original size:44 final size:45
Alignment explanation
Indices: 39025337--39025651 Score: 256
Period size: 44 Copynumber: 7.1 Consensus size: 45
39025327 AAAAGAAACA
39025337 AGATTTGGCATCCCTGTGTTTATAGGGAA-ACAGATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* * * * * **
39025382 AGATCTGACA-CTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAGATCGAAGATAGC
* *
39025427 AGCA--TGGCATCTCTGTGTTTATAGGGAACAAG-TTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
*
39025470 AGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* * * * * * * * ***
39025514 ATATCTGACATTCCTGTGCTTACAGCGAA-ACAGATCAAAGATTTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACA-AGATCGAAGATAGC
* * *
39025559 A-ATATGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATAAC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
* *
39025602 AGATTTGACATCCCTGTGTTTACAGGGAACAA-ATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAG--ATAGC
39025648 AGAT
1 AGAT
39025652 CTGATTTTCG
Statistics
Matches: 210, Mismatches: 44, Indels: 31
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.00
43 20 0.10
44 132 0.63
45 48 0.23
46 9 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (45 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGATCGAAGATAGC
Found at i:39025575 original size:132 final size:132
Alignment explanation
Indices: 39025329--39025655 Score: 485
Period size: 132 Copynumber: 2.5 Consensus size: 132
39025319 ATGTAGATAA
39025329 AAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAAACAGATCGAAGATAGCAGATCTGACAC
1 AAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGG-AACAGATCGAAGATAGCAGATCTGACAC
* * * * *
39025393 TCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGTTTATAGGGAACAA
64 TCCTGTGCTTACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAA
39025458 GTTG
129 GTTG
* * * *
39025462 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCATATCTGACATTC
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTC
* *
39025527 CTGTGCTTACAGCGAAACAGATCAAAGATTTTAATATGGCATCCCTGTGTTTATAGGGAACAAGT
66 CTGTGCTTACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGT
39025592 TG
131 TG
* * *
39025594 AAGATAACAGATTTGACATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAGATCTGA
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATCTGA
39025656 TTTTCGGATG
Statistics
Matches: 174, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
132 129 0.74
133 31 0.18
134 14 0.08
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (132 bp):
AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTC
CTGTGCTTACAGCGAAACAGATCAAAGATTTCAACATGGCATCCCTGTGTTTATAGGGAACAAGT
TG
Found at i:39025917 original size:175 final size:175
Alignment explanation
Indices: 39025616--39026185 Score: 908
Period size: 175 Copynumber: 3.3 Consensus size: 175
39025606 TTGACATCCC
* * *
39025616 TGTGTTTACAGGGAACAAATCGAAGACATAGCAGATCTGATTTTCGGATGTTCTCACACCAAAGC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
* *
39025681 AGATCCAAGATAATAGATTTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGTAGGTCTAACC
66 AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
*
39025746 TTCAGATGTTTATAATGAAGCAGATCCAAGATGATTTGGCATTCT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
* * * *
39025791 TGTGTTTACAAGGAACAAATCGAAGACATAACAGATTTGACTTTCGAATGTTCTCATACCAAAGT
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
* * *
39025856 AGATCCAAGATAACAGATCTGGCATCTCCATTTCAACGGAGAGCAGGTACGTAGCAGGTCTAACC
66 AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
*
39025921 TTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCT
131 TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
*
39025966 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
* * *
39026031 AAATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACC
66 AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
* *
39026096 TTCAGATGATTT-TACTGAAGCAAATCCAAGATGATTTGGCATCCT
131 TTCAGATG-TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
* * * *
39026141 TGTGTTCACAAGGAGCAAATCAAAGACATAGCAGATTTGGCTTTC
1 TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTC
39026186 ACGTGTTTAC
Statistics
Matches: 362, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 359 0.99
176 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
TGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGC
AGATCCAAGATAATAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACC
TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCT
Found at i:39026493 original size:11 final size:10
Alignment explanation
Indices: 39026477--39026510 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
39026467 AAAATAAGTT
39026477 AAAAAAATAA
1 AAAAAAATAA
39026487 AATAAAAATAA
1 AA-AAAAATAA
39026498 AAATAAAATAA
1 AAA-AAAATAA
39026509 AA
1 AA
39026511 CAAAGTCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 19 0.86
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:39026494 original size:6 final size:6
Alignment explanation
Indices: 39026479--39026510 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
39026469 AATAAGTTAA
39026479 AAAAAT -AAAAT AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
39026511 CAAAGTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.42
6 14 0.58
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:39026674 original size:36 final size:38
Alignment explanation
Indices: 39026633--39026711 Score: 117
Period size: 36 Copynumber: 2.1 Consensus size: 38
39026623 AATCTTTAAG
*
39026633 GATATGCAATCTTAGGTATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
39026669 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
39026709 GAT
1 GAT
39026712 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 22 0.58
38 7 0.18
40 9 0.24
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:39026680 original size:19 final size:19
Alignment explanation
Indices: 39026633--39026711 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
39026623 AATCTTTAAG
*
39026633 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
39026652 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39026669 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39026688 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
39026709 GAT
1 GAT
39026712 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 16 0.29
19 30 0.55
21 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39026865 original size:36 final size:38
Alignment explanation
Indices: 39026824--39026902 Score: 117
Period size: 36 Copynumber: 2.1 Consensus size: 38
39026814 AATCTTTAAG
*
39026824 GATATGCAATCTTAGGTATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
39026860 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
39026900 GAT
1 GAT
39026903 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 22 0.58
38 7 0.18
40 9 0.24
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:39026871 original size:19 final size:19
Alignment explanation
Indices: 39026824--39026902 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
39026814 AATCTTTAAG
*
39026824 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
39026843 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39026860 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
39026879 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
39026900 GAT
1 GAT
39026903 CTTGTAATCT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
17 16 0.29
19 30 0.55
21 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:39026895 original size:191 final size:191
Alignment explanation
Indices: 39026571--39026949 Score: 758
Period size: 191 Copynumber: 2.0 Consensus size: 191
39026561 AAATGGCCCA
39026571 TTACTTGAAAAGATTTAAGGTCCATCTATAAGCTTAACTCATATGGAAATATAATCTTTAAGGAT
1 TTACTTGAAAAGATTTAAGGTCCATCTATAAGCTTAACTCATATGGAAATATAATCTTTAAGGAT
39026636 ATGCAATCTTAGGTATGATACAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTT
66 ATGCAATCTTAGGTATGATACAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTT
39026701 GAAGATATGATCTTGTAATCTTGGAGATTTAATTTGTAGATATCCTTTAATCTTAATCATC
131 GAAGATATGATCTTGTAATCTTGGAGATTTAATTTGTAGATATCCTTTAATCTTAATCATC
39026762 TTACTTGAAAAGATTTAAGGTCCATCTATAAGCTTAACTCATATGGAAATATAATCTTTAAGGAT
1 TTACTTGAAAAGATTTAAGGTCCATCTATAAGCTTAACTCATATGGAAATATAATCTTTAAGGAT
39026827 ATGCAATCTTAGGTATGATACAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTT
66 ATGCAATCTTAGGTATGATACAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTT
39026892 GAAGATATGATCTTGTAATCTTGGAGATTTAATTTGTAGATATCCTTTAATCTTAATC
131 GAAGATATGATCTTGTAATCTTGGAGATTTAATTTGTAGATATCCTTTAATCTTAATC
39026950 GTTGATGTAA
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 188 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (191 bp):
TTACTTGAAAAGATTTAAGGTCCATCTATAAGCTTAACTCATATGGAAATATAATCTTTAAGGAT
ATGCAATCTTAGGTATGATACAATCTTAGATATGATATGCAATCTTAGATATGATATGCAATCTT
GAAGATATGATCTTGTAATCTTGGAGATTTAATTTGTAGATATCCTTTAATCTTAATCATC
Found at i:39038192 original size:29 final size:29
Alignment explanation
Indices: 39038127--39038259 Score: 90
Period size: 29 Copynumber: 4.6 Consensus size: 29
39038117 ATACTCGATT
* *
39038127 TCGCACACTTAGTGCCATGCGATTTAAGC
1 TCGCACACTTAGTGCCATGCCATTCAAGC
* * * * *
39038156 CCGTACACATAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATTCAAGC
** *
39038185 TCGCACACTTAGTGCCAT-ATATTTCCAGC
1 TCGCACACTTAGTGCCATGCCA-TTCAAGC
**** *
39038214 AT-GCACACTTAGTGCCATATTTTTCCAGC
1 -TCGCACACTTAGTGCCATGCCATTCAAGC
*
39038243 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
39038260 ATCTCGTCAC
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
29 81 0.98
30 2 0.02
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATGCCATTCAAGC
Found at i:39041913 original size:26 final size:26
Alignment explanation
Indices: 39041883--39041943 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
39041873 AAGTGAAAGA
39041883 AAAAT-TTGCAAGATGTTTGCCTCAGC
1 AAAATATT-CAAGATGTTTGCCTCAGC
* *
39041909 AAAATATTCTATATGTTTGCCTCAGC
1 AAAATATTCAAGATGTTTGCCTCAGC
39041935 AAAATATTC
1 AAAATATTC
39041944 TATCTCTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 30 0.94
27 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (26 bp):
AAAATATTCAAGATGTTTGCCTCAGC
Found at i:39041944 original size:26 final size:26
Alignment explanation
Indices: 39041895--39041946 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
39041885 AATTTGCAAG
39041895 ATGTTTGCCTCAGCAAAATATTCTAT
1 ATGTTTGCCTCAGCAAAATATTCTAT
39041921 ATGTTTGCCTCAGCAAAATATTCTAT
1 ATGTTTGCCTCAGCAAAATATTCTAT
39041947 CTCTAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (26 bp):
ATGTTTGCCTCAGCAAAATATTCTAT
Found at i:39055432 original size:27 final size:28
Alignment explanation
Indices: 39055376--39055445 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
39055366 AAACTTGTAC
39055376 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
39055404 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
39055431 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
39055446 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:39055456 original size:27 final size:27
Alignment explanation
Indices: 39055376--39055457 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
39055366 AAACTTGTAC
* *
39055376 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
39055404 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
39055431 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
39055458 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:39059696 original size:47 final size:47
Alignment explanation
Indices: 39059627--39059874 Score: 406
Period size: 47 Copynumber: 5.3 Consensus size: 47
39059617 CCCTTCGGGA
* * * * *
39059627 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* *
39059674 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
39059721 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
39059768 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
39059815 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
39059862 CTTATCACATATA
1 CTTATCACATATA
39059875 CATATCTTGT
Statistics
Matches: 189, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 189 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.37
Consensus pattern (47 bp):
CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:39063416 original size:40 final size:40
Alignment explanation
Indices: 39063384--39063771 Score: 535
Period size: 40 Copynumber: 9.7 Consensus size: 40
39063374 CCAGCATGAT
* * * * *
39063384 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
39063424 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
39063464 TGCTCTTCGGAATTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* **
39063504 TGCTCTTCGGAACTTATTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
39063544 TGCTCTTCGGGGCTTGGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
39063584 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * **
39063624 TGCTCTTCAGAACTTATTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
39063664 TGCTCTTCGGAACTTATCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
39063704 TGCTCTTCGGGGCTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
39063744 TGCTCTTCGGGGCTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
39063772 GTCGAGACCT
Statistics
Matches: 318, Mismatches: 30, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 4 0.01
40 314 0.99
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:39063894 original size:38 final size:38
Alignment explanation
Indices: 39063825--39063899 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
39063815 GAATTTTAAT
*
39063825 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
*
39063863 CCGGACATAATCTCT-T-CATATTGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGTACATA--GCCAGCGGGTCTTTA
39063900 AACTCGGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 4 0.12
37 1 0.03
38 28 0.85
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:39066225 original size:47 final size:47
Alignment explanation
Indices: 39066156--39066450 Score: 464
Period size: 47 Copynumber: 6.3 Consensus size: 47
39066146 CCCTTCGGGA
* * * *
39066156 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
39066203 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
39066250 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
39066297 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
39066344 CTTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
39066391 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
39066438 CTTATCACATATA
1 CTTATCACATATA
39066451 CATATCTTGT
Statistics
Matches: 230, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:39072315 original size:22 final size:22
Alignment explanation
Indices: 39072290--39072334 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
39072280 GGACGAAGTG
*
39072290 GAGTGTAG-GGCTGGATGGAGTA
1 GAGTGTAGAGGATGGATGG-GTA
39072312 GAGTGTAGAGGATGGATGGGTA
1 GAGTGTAGAGGATGGATGGGTA
39072334 G
1 G
39072335 GATCTCTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.24, C:0.02, G:0.51, T:0.22
Consensus pattern (22 bp):
GAGTGTAGAGGATGGATGGGTA
Found at i:39074909 original size:12 final size:12
Alignment explanation
Indices: 39074894--39074923 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
39074884 ATGTTATAGA
*
39074894 GTATGTTTGAAT
1 GTATGATTGAAT
39074906 GTATGATTGAAT
1 GTATGATTGAAT
39074918 GTATGA
1 GTATGA
39074924 GTGCTTGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (12 bp):
GTATGATTGAAT
Found at i:39088333 original size:40 final size:40
Alignment explanation
Indices: 39088225--39088394 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
39088215 CGGGATTTAA
* * * * *
39088225 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
39088265 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39088305 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39088345 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39088385 CCGGATATAT
1 CCGGATATAT
39088395 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:39096428 original size:40 final size:40
Alignment explanation
Indices: 39096320--39096489 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
39096310 CGGGATTTAA
* * * * *
39096320 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
39096360 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39096400 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39096440 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
39096480 CCGGATATAT
1 CCGGATATAT
39096490 TTCCAATGTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:39098317 original size:40 final size:39
Alignment explanation
Indices: 39098272--39098436 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
39098262 CGGAATATAA
39098272 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
39098312 CCGGATAGAATCTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39098350 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
39098390 CCGGATATAATTTC-CAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAA--TCACTGCACAAATGCCTTCGGGTCTTAGC
39098429 CCGGATAT
1 CCGGATAT
39098437 CATTCAATTT
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
38 32 0.31
39 13 0.13
40 56 0.54
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
CCGGATATAATCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:39106246 original size:40 final size:40
Alignment explanation
Indices: 39106201--39106368 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
39106191 CGGAATATAA
39106201 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39106241 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39106281 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
39106321 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
39106361 CCGGATAT
1 CCGGATAT
39106369 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39106351 original size:80 final size:80
Alignment explanation
Indices: 39106217--39106366 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
39106207 ATAATCACGT
*
39106217 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
39106281 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
39106297 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
39106360 CCCGGAT
64 CCCGGAT
39106367 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:39112944 original size:93 final size:93
Alignment explanation
Indices: 39112785--39112957 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
39112775 CGCCCACAAG
* * *
39112785 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
39112850 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
39112878 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
39112943 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
39112958 CAAACATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:39112953 original size:46 final size:46
Alignment explanation
Indices: 39112786--39112953 Score: 180
Period size: 46 Copynumber: 3.6 Consensus size: 46
39112776 GCCCACAAGC
* * * * *
39112786 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGT
* * * * * *
39112832 GAACTCAGACTCAACTCAACGAGTTCGG--ATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--TCCA--TAAGT
39112879 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGT
39112925 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
39112954 TGCCCAAACA
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 58 0.58
47 30 0.30
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGT
Found at i:39115371 original size:15 final size:15
Alignment explanation
Indices: 39115347--39115423 Score: 86
Period size: 15 Copynumber: 5.2 Consensus size: 15
39115337 AGGAAACCGA
39115347 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
39115362 ATAGAGAAATCCAA-
1 ATAAAGAAATCCAAG
*
39115376 ATAAAGAATTCC-AG
1 ATAAAGAAATCCAAG
* *
39115390 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
39115406 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
39115421 ATA
1 ATA
39115424 TGATACTATG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 38 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:39115380 original size:29 final size:30
Alignment explanation
Indices: 39115345--39115423 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
39115335 CAAGGAAACC
*
39115345 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATCCA
* *
39115375 -AATAAAGAATTCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAATCCA
* *
39115404 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
39115424 TGATACTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
28 2 0.05
29 23 0.57
30 13 0.32
31 2 0.05
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATCCA
Found at i:39118609 original size:40 final size:39
Alignment explanation
Indices: 39118565--39118664 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 39
39118555 TTGCACAAAC
*
39118565 GCCTTCGGGTCTTAGCCCGGATAGAATG-ACTCGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTAGCAC-AATT
*
39118605 GCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATGAAG-CACTAGCACAATT
*
39118645 GCCTTCGGGTCTTAACCCGG
1 GCCTTCGGGTCTTAGCCCGG
39118665 TTATAATTTC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 49 0.91
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATGAAGCACTAGCACAATT
Found at i:39121822 original size:93 final size:93
Alignment explanation
Indices: 39121663--39121835 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
39121653 CGCCCACAAG
* * *
39121663 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39121728 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
39121756 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39121821 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
39121836 CAAACATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:39121831 original size:46 final size:46
Alignment explanation
Indices: 39121664--39121831 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 46
39121654 GCCCACAAGC
* * * *
39121664 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * *
39121710 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
39121757 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
39121803 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
39121832 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 56 0.54
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:39130349 original size:48 final size:48
Alignment explanation
Indices: 39130148--39130371 Score: 165
Period size: 48 Copynumber: 4.7 Consensus size: 48
39130138 GCCGACGCCG
* * ** * *
39130148 TGTCTCAGACATGGTCTTACACTAGCTCTGACATATCTGTACCAATTCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCAATACCAATGCTA
* * * *
39130198 TGTCCTAGACATGGTCTTACACT-GACAC-C-TCT-ATACGTGCCGATGCTA
1 TGTCCCAGACATGGTCTTACACTAG-CTCTCATCTCA-A--TACCAATGCTA
* ** * ** *
39130246 TGTCCCAAACAT-GTCTTACACCGGCT-TACATCTCGAGGCCGATGC-A
1 TGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCAATACCAATGCTA
* *
39130292 TGTCTCAGACATGGTCTTACACTAGCTCTCGTCTCAATACCAATGCTA
1 TGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATACCAATGCTA
39130340 TGTCCCAGACATGGTCTTACACTAGCTCTCAT
1 TGTCCCAGACATGGTCTTACACTAGCTCTCAT
39130372 AATGTGGCTG
Statistics
Matches: 135, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
46 13 0.10
47 43 0.32
48 51 0.38
49 5 0.04
50 23 0.17
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (48 bp):
TGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATACCAATGCTA
Found at i:39137170 original size:28 final size:28
Alignment explanation
Indices: 39137130--39137220 Score: 146
Period size: 28 Copynumber: 3.2 Consensus size: 28
39137120 ATTGCATGAT
*
39137130 TATGAATGTGATTGGGCCTGACGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
* *
39137158 TATGAAAGTGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
*
39137186 TATGAATGTGATTGGGCTTGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCCA
39137214 TATGAAT
1 TATGAAT
39137221 AAGATTGGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCCA
Found at i:39138921 original size:13 final size:13
Alignment explanation
Indices: 39138903--39138927 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39138893 ACAAATGATA
39138903 AAATTTTCACACG
1 AAATTTTCACACG
39138916 AAATTTTCACAC
1 AAATTTTCACAC
39138928 AAGTCAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:39148276 original size:30 final size:31
Alignment explanation
Indices: 39148197--39148279 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
39148187 TCAATCTTAA
39148197 CATAT-ACTGGGCCGAAGCCTTTGTATTATT
1 CATATCACTGGGCCGAAGCCTTTGTATTATT
* * *
39148227 CATGTCACTAGGCCAAAGCCTTT-TCATTA-T
1 CATATCACTGGGCCGAAGCCTTTGT-ATTATT
*
39148257 CATATCACTGGGCTGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
39148280 ACTGTAAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 25 0.57
31 19 0.43
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTGTATTATT
Found at i:39148519 original size:24 final size:25
Alignment explanation
Indices: 39148492--39148543 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
39148482 GCCTAGCCTC
39148492 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
39148516 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
39148541 TTT
1 TTT
39148544 CGGTAAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:39148527 original size:25 final size:25
Alignment explanation
Indices: 39148499--39148569 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
39148489 CTCTTTTAAT
*
39148499 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
39148524 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
39148549 AATTGGGACAAAAGCCCTTTT
1 AACTGGGGC-AAAGCCCTTTT
39148570 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 30 0.73
26 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:39156211 original size:30 final size:31
Alignment explanation
Indices: 39156133--39156215 Score: 116
Period size: 30 Copynumber: 2.7 Consensus size: 31
39156123 TCAATCTCAA
39156133 CATAT-ATTGGGCCGAAGCCTTTGCATTATT
1 CATATCATTGGGCCGAAGCCTTTGCATTATT
* * * *
39156163 CATGTCACTGGGCTGAAGCCTTTTCATTA-T
1 CATATCATTGGGCCGAAGCCTTTGCATTATT
39156193 CATATCATTGGGCCGAAGCCTTT
1 CATATCATTGGGCCGAAGCCTTT
39156216 ACTGTAAATG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 25 0.56
31 20 0.44
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (31 bp):
CATATCATTGGGCCGAAGCCTTTGCATTATT
Found at i:39156461 original size:24 final size:23
Alignment explanation
Indices: 39156409--39156480 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
39156399 ACTTTATCAT
39156409 ATAACTGGAGGCATAA-CCTCTTTTA
1 ATAACT-GAGGCA-AAGCC-CTTTTA
*
39156434 ATAACTGAGGCAAAGCCCTTTCTG
1 ATAACTGAGGCAAAGCCCTTT-TA
39156458 ATAAACT-AGGGCAAAGCCCTTTT
1 AT-AACTGA-GGCAAAGCCCTTTT
39156481 CAGTAAACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
23 6 0.14
24 13 0.31
25 23 0.55
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (23 bp):
ATAACTGAGGCAAAGCCCTTTTA
Found at i:39156499 original size:26 final size:26
Alignment explanation
Indices: 39156436--39156506 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
39156426 CTCTTTTAAT
* *
39156436 AACTGAGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCAGATA
*
39156461 AACTAGGGCAAAGCCCTTTTCAG-TA
1 AACTGGGGCAAAGCCCTTTTCAGATA
*
39156486 AACTGGGGCAAAAGCTCTTTT
1 AACTGGGGC-AAAGCCCTTTT
39156507 GCACCTCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 24 0.62
26 15 0.38
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCAGATA
Found at i:39158715 original size:17 final size:16
Alignment explanation
Indices: 39158689--39158722 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
39158679 CAAGCTCATA
39158689 TAAAATTTTTAAAACT
1 TAAAATTTTTAAAACT
*
39158705 TAAACATTTTTCAAACT
1 TAAA-ATTTTTAAAACT
39158722 T
1 T
39158723 GTACAGGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAAATTTTTAAAACT
Found at i:39159456 original size:40 final size:38
Alignment explanation
Indices: 39159395--39159472 Score: 88
Period size: 40 Copynumber: 2.0 Consensus size: 38
39159385 CATTCATATT
*
39159395 CATTACCAAAACCAAGCCAAATCACATGGCTAG-ATATACA
1 CATTACCAAAACCAAGACAAAT-ACAT--CTAGCATATACA
*
39159435 CATTACCAAAA-CATATACAAATACATCTAGCATATACA
1 CATTACCAAAACCA-AGACAAATACATCTAGCATATACA
39159473 TGCCATACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 4 0.12
38 7 0.21
39 6 0.18
40 17 0.50
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (38 bp):
CATTACCAAAACCAAGACAAATACATCTAGCATATACA
Found at i:39161304 original size:40 final size:39
Alignment explanation
Indices: 39161259--39161385 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
39161249 CGGAACATAA
39161259 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
39161299 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
39161339 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
39161379 CCGGATA
1 CCGGATA
39161386 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:39161403 original size:40 final size:40
Alignment explanation
Indices: 39161275--39161425 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
39161265 ATAACCATGT
* * *
39161275 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
39161315 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
39161355 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
39161395 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
39161426 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:39161409 original size:80 final size:80
Alignment explanation
Indices: 39161275--39161424 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
39161265 ATAACCATGT
* *
39161275 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
39161339 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
39161355 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
39161418 CCCGGAT
64 CCCGGAT
39161425 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:39167303 original size:43 final size:43
Alignment explanation
Indices: 39167255--39167421 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
39167245 ATCGAGATGT
39167255 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * *
39167298 GATTACATGTAAGACCATGTTTGGGACATTGGCATCAT-TAATCA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGA
* * * * * * *
39167342 -ATTTCGTGTAAGACCCTGTGTGGAACATTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * *
39167384 GATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
39167422 CAAGATTATG
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 83 0.86
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:39170764 original size:55 final size:56
Alignment explanation
Indices: 39170699--39170813 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
39170689 AGCATGGCTG
* * *
39170699 CCAGATACAGA-AAATGTGACAGAG-TCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGGGCT-ACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* *
39170755 CCAGA-ACAGATATACGTGGCAGGGCTACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGGGCTACCAGAACAGATAATTTGTGGCATAGCCA
39170810 CCAG
1 CCAG
39170814 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 20 0.39
57 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGGGCTACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:39170812 original size:28 final size:27
Alignment explanation
Indices: 39170724--39170813 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
39170714 GTGACAGAGT
*
39170724 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
39170753 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
39170780 TACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
39170808 CACCAG
1 CACCAG
39170814 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:39170966 original size:28 final size:28
Alignment explanation
Indices: 39170919--39170983 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
39170909 AAATTAACCC
*
39170919 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
39170947 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
39170975 TAGGGGTAT
1 TAGGGGTAT
39170984 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:39176351 original size:40 final size:40
Alignment explanation
Indices: 39176307--39176589 Score: 289
Period size: 40 Copynumber: 7.1 Consensus size: 40
39176297 CGTTTTTAGC
**
39176307 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCATT
1 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
* * *
39176347 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAATGTCTCT
1 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
* * * * *
39176387 ACAGATCTAGCATTAGCTGCGCTTTTTGAAAAACGCTGCT
1 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
* *
39176427 ATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGTCGCT
1 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
* * * * *
39176467 ATAGGTTGACCATTAGCGGCACTTTTTAAAAAACACCGCT
1 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
* * * **** *
39176507 ATAGGTTGACCATTAGCTATGCTTTTTGAAAAATGCCGCT
1 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
* * * * *
39176547 ACAGATCGAGCATAAGCGAC-CTTTTTAAAAAACGCCACT
1 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
39176586 ATAG
1 ATAG
39176590 GCCGACCATT
Statistics
Matches: 201, Mismatches: 42, Indels: 1
0.82 0.17 0.00
Matches are distributed among these distances:
39 19 0.09
40 182 0.91
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (40 bp):
ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCGCT
Found at i:39176442 original size:80 final size:80
Alignment explanation
Indices: 39176309--39176615 Score: 321
Period size: 80 Copynumber: 3.9 Consensus size: 80
39176299 TTTTTAGCAT
* ** *
39176309 AGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCATTATAGATCGAGCATTAGCGGCACTTTTT
1 AGATCGAGCATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
*
39176374 GAAAAATGTCTCTAC
66 GAAAAATGTCGCTAC
* * * * *
39176389 AGATCTAGCATTAGCTGCGCTTTTTGAAAAACGCTGCTATAGATCGAGCATTAGCGGCGCTTTTT
1 AGATCGAGCATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
* *
39176454 GAAAAACGTCGCTAT
66 GAAAAATGTCGCTAC
* * * * * * * ***
39176469 AGGTTGACCATTAGCGGCACTTTTTAAAAAACACCGCTATAGGTTGACCATTAGCTATGCTTTTT
1 AGATCGAGCATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
*
39176534 GAAAAATGCCGCTAC
66 GAAAAATGTCGCTAC
* * * ** * * *
39176549 AGATCGAGCATAAGCGAC-CTTTTTAAAAAACGCCACTATAGGCCGACCATTTGCGG-GGTTTTT
1 AGATCGAGCATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
39176612 GAAA
66 GAAA
39176616 GACGCTGCAA
Statistics
Matches: 186, Mismatches: 41, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
78 10 0.05
79 31 0.17
80 145 0.78
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (80 bp):
AGATCGAGCATTAGCGGCACTTTTTAAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTT
GAAAAATGTCGCTAC
Found at i:39176521 original size:120 final size:119
Alignment explanation
Indices: 39176307--39176604 Score: 346
Period size: 120 Copynumber: 2.5 Consensus size: 119
39176297 CGTTTTTAGC
* * *
39176307 ATAGATCGAGCATTAGCGGCACTTTTTGAAAAACGCCATTATAGATCGAGCATTAGCGGCACTTT
1 ATAGATCGAGCATTAGCGGC-CTTTTTGAAAAACGCCACTATAGGTCGACCATTAGCGGCACTTT
* *** * * * *
39176372 TTGAAAAATGTCTCTACAGATCTAGCATTAGCTGCGCTTTTTGAAAAACGCTGCT
65 TTAAAAAACACCGCTACAGATCTACCATTAGCTACGCTTTTTGAAAAACGCCGCT
* * *
39176427 ATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGTCGCTATAGGTTGACCATTAGCGGCACTTT
1 ATAGATCGAGCATTAGCGGC-CTTTTTGAAAAACGCCACTATAGGTCGACCATTAGCGGCACTTT
* * * *
39176492 TTAAAAAACACCGCTATAGGT-TGACCATTAGCTATGCTTTTTGAAAAATGCCGCT
65 TTAAAAAACACCGCTACAGATCT-ACCATTAGCTACGCTTTTTGAAAAACGCCGCT
* * * * * *
39176547 ACAGATCGAGCATAAGCGACCTTTTTAAAAAACGCCACTATAGGCCGACCATTTGCGG
1 ATAGATCGAGCATTAGCGGCCTTTTTGAAAAACGCCACTATAGGTCGACCATTAGCGG
39176605 GGTTTTTGAA
Statistics
Matches: 149, Mismatches: 28, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
119 33 0.22
120 116 0.78
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.28
Consensus pattern (119 bp):
ATAGATCGAGCATTAGCGGCCTTTTTGAAAAACGCCACTATAGGTCGACCATTAGCGGCACTTTT
TAAAAAACACCGCTACAGATCTACCATTAGCTACGCTTTTTGAAAAACGCCGCT
Found at i:39177079 original size:19 final size:17
Alignment explanation
Indices: 39177041--39177076 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
39177031 TATATGACTG
39177041 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
39177058 ATTGTTTTTTAATTTAT
1 ATTGTTTTTTAATTTAT
39177075 AT
1 AT
39177077 ATTAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
ATTGTTTTTTAATTTAT
Found at i:39177218 original size:22 final size:22
Alignment explanation
Indices: 39177144--39177247 Score: 65
Period size: 22 Copynumber: 4.9 Consensus size: 22
39177134 TTAATTATCG
* *
39177144 TTAT-AGTTTAGGGTTTATAGT
1 TTATGAGTTTAAGGTTTATAGA
* *
39177165 TTA-GGGTTTAAGGTTTA-GGA
1 TTATGAGTTTAAGGTTTATAGA
*
39177185 GTTACT-ATTTTAAGGTTTATAGA
1 -TTA-TGAGTTTAAGGTTTATAGA
* * * *
39177208 TTATGAGTTTAGGGATTATGGT
1 TTATGAGTTTAAGGTTTATAGA
*
39177230 TTATG-GTTTATGGTTTAT
1 TTATGAGTTTAAGGTTTAT
39177248 GGTTTAAGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
20 1 0.02
21 29 0.46
22 31 0.49
23 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.26, T:0.49
Consensus pattern (22 bp):
TTATGAGTTTAAGGTTTATAGA
Found at i:39177235 original size:7 final size:7
Alignment explanation
Indices: 39177144--39177310 Score: 88
Period size: 7 Copynumber: 23.4 Consensus size: 7
39177134 TTAATTATCG
*
39177144 TTATAGT
1 TTATGGT
*
39177151 TTAGGGT
1 TTATGGT
*
39177158 TTATAGT
1 TTATGGT
*
39177165 TTAGGGT
1 TTATGGT
*
39177172 TTAAGGT
1 TTATGGT
*
39177179 TTAGGAGT
1 TTATG-GT
39177187 TACTAT--T
1 T--TATGGT
*
39177194 TTAAGGT
1 TTATGGT
* *
39177201 TTATAGA
1 TTATGGT
39177208 TTATGAGT
1 TTATG-GT
* *
39177216 TTAGGGA
1 TTATGGT
39177223 TTATGGT
1 TTATGGT
39177230 TTATGGT
1 TTATGGT
39177237 TTATGGT
1 TTATGGT
39177244 TTATGGT
1 TTATGGT
*
39177251 TTAAGGT
1 TTATGGT
* *
39177258 TTAGGGG
1 TTATGGT
*
39177265 TTA-GAGG
1 TTATG-GT
* *
39177272 TTAAGGG
1 TTATGGT
39177279 TTAGTGGT
1 TTA-TGGT
39177287 TTATGGT
1 TTATGGT
*
39177294 TTATGAT
1 TTATGGT
*
39177301 TTAGGGT
1 TTATGGT
39177308 TTA
1 TTA
39177311 GGGGATAAGG
Statistics
Matches: 124, Mismatches: 27, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
5 2 0.02
6 1 0.01
7 105 0.85
8 14 0.11
10 2 0.02
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:39177287 original size:43 final size:44
Alignment explanation
Indices: 39177240--39177332 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 44
39177230 TTATGGTTTA
* *
39177240 TGGTTTATGGTTTAAGGTTTAGGGGTTAGAGGTTAAGGGTT-AG
1 TGGTTTATGGTTTAAGATTTAGGGGTTAGAGGATAAGGGTTAAG
* * *
39177283 TGGTTTATGGTTTATGATTTAGGGTTTAGGGGATAAGGGTTAAG
1 TGGTTTATGGTTTAAGATTTAGGGGTTAGAGGATAAGGGTTAAG
39177327 -GGTTTA
1 TGGTTTA
39177333 GATTAATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (44 bp):
TGGTTTATGGTTTAAGATTTAGGGGTTAGAGGATAAGGGTTAAG
Found at i:39177291 original size:50 final size:50
Alignment explanation
Indices: 39177233--39177330 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
39177223 TTATGGTTTA
* *
39177233 TGGTTTATGGTTTATGGTTTAAGGTTTAGGGG-TTAGAGGTTAAGGGTTAG
1 TGGTTTATGGTTTATGATTTAAGGTTTAGGGGATAAG-GGTTAAGGGTTAG
*
39177283 TGGTTTATGGTTTATGATTTAGGGTTTAGGGGATAAGGGTTAAGGGTT
1 TGGTTTATGGTTTATGATTTAAGGTTTAGGGGATAAGGGTTAAGGGTT
39177331 TAGATTAATT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 41 0.93
51 3 0.07
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (50 bp):
TGGTTTATGGTTTATGATTTAAGGTTTAGGGGATAAGGGTTAAGGGTTAG
Found at i:39177311 original size:7 final size:7
Alignment explanation
Indices: 39177214--39177333 Score: 80
Period size: 7 Copynumber: 16.9 Consensus size: 7
39177204 TAGATTATGA
39177214 GTTTAGG
1 GTTTAGG
* *
39177221 GATTATG
1 GTTTAGG
*
39177228 GTTTATG
1 GTTTAGG
*
39177235 GTTTATG
1 GTTTAGG
*
39177242 GTTTATG
1 GTTTAGG
*
39177249 GTTTAAG
1 GTTTAGG
39177256 GTTTAGG
1 GTTTAGG
*
39177263 GGTTAGAG
1 GTTTAG-G
*
39177271 GTTAAGG
1 GTTTAGG
39177278 G-TTAGTG
1 GTTTAG-G
*
39177285 GTTTATG
1 GTTTAGG
*
39177292 GTTTATG
1 GTTTAGG
*
39177299 ATTTAGG
1 GTTTAGG
39177306 GTTTAGGG
1 GTTTA-GG
* *
39177314 GATAAGG
1 GTTTAGG
*
39177321 GTTAAGG
1 GTTTAGG
39177328 GTTTAG
1 GTTTAG
39177334 ATTAATTATT
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
6 3 0.03
7 76 0.83
8 13 0.14
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:39178740 original size:207 final size:207
Alignment explanation
Indices: 39178385--39178800 Score: 760
Period size: 207 Copynumber: 2.0 Consensus size: 207
39178375 AACAAAAGAT
** *
39178385 TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCATGGTCTATGGGAACTGTTAGCTCCCGTC
1 TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTC
39178450 GGCCACTGCGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
66 GGCCACTGCGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
*
39178515 TAACACTTGTAATTTTAAATTGTTTTAAAAACTTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
131 TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
39178580 AATATGCAAGTA
196 AATATGCAAGTA
* * *
39178592 TTTGAATTCTTATTGAGCAAGCCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTT
1 TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTC
*
39178657 GGCCGCTGCGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
66 GGCCACTGCGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
39178722 TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
131 TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
39178787 AATATGCAAGTA
196 AATATGCAAGTA
39178799 TT
1 TT
39178801 AGGATGGTTC
Statistics
Matches: 201, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
207 201 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (207 bp):
TTTGAATTCTTATTGAACAAACCAAAATAGGAGTTCACAGTCTATGGGAACTGCTAGCTCCCGTC
GGCCACTGCGTGTCCGTTGAAACCGTAGCCGAAAAGAAACTCGCCATCGGTGAACTCTGAATCCC
TAACACTTGTAATTTTAAATTGTTTTAAAAAATTATTTACTTTGTGTGTGTGTGTTTTGTTTTTG
AATATGCAAGTA
Found at i:39180710 original size:54 final size:54
Alignment explanation
Indices: 39180618--39180724 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
39180608 CATAGCTGCT
* *
39180618 AGAATAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACA
1 AGAATAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACA
* * *
39180672 AGAATAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCAC
1 AGAATAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
39180725 CAGGACGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (54 bp):
AGAATAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACA
Found at i:39180725 original size:27 final size:27
Alignment explanation
Indices: 39180623--39180727 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
39180613 CTGCTAGAAT
* *
39180623 AGATAA-TGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCAGAGCCACCAGAT-C
* *
39180650 AGATAATCGTGGCAGAGCCACAAGAAT-
1 AGATAATTGTGGCAGAGCCACCAG-ATC
39180677 AGA-AATATGTGGCAGAGCCACCAGATC
1 AGATAAT-TGTGGCAGAGCCACCAGATC
*
39180704 AGATAATTGTGGCATAGCCACCAG
1 AGATAATTGTGGCAGAGCCACCAG
39180728 GACGCTTCCT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.08
27 43 0.65
28 16 0.24
29 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (27 bp):
AGATAATTGTGGCAGAGCCACCAGATC
Found at i:39182173 original size:24 final size:24
Alignment explanation
Indices: 39182146--39182216 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
39182136 CTAGATTTCC
**
39182146 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
39182170 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
39182194 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
39182217 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:39188562 original size:27 final size:27
Alignment explanation
Indices: 39188457--39188567 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
39188447 AGCATGGCTG
* *
39188457 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
39188483 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
39188511 CCAGAACA-A-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
39188537 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
39188564 CCAG
1 CCAG
39188568 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.04
26 25 0.34
27 28 0.38
28 18 0.24
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:39190008 original size:24 final size:24
Alignment explanation
Indices: 39189981--39190027 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
39189971 CTAGATTTCC
* * *
39189981 TCCCTTATCTATTCTTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
39190005 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
39190028 CTCCTGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:39192300 original size:43 final size:43
Alignment explanation
Indices: 39192017--39192293 Score: 315
Period size: 43 Copynumber: 6.5 Consensus size: 43
39192007 AAATATTTTT
* * * * *
39192017 TAAAAGTCATGTTCTTTAGCGGCGTTTGTGGG-AGAGCGTCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
39192059 TAAAAGTCATGTTCTATAGTGGCGTTTCTGGGAAAAGCGCCAC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
*
39192102 TAAAGGTCTTGTTCTATAACGGCGTTTGTGGG-AAAGACGCCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAG-CGCCGC
* * * *
39192145 TAAAGGTTTTGTTCTATAGCAGCGTTTGTGGGAAAAACGCTGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
39192188 TAAAGGTCTTATTCTATAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
39192231 TAAAAGTTTTGTTCTATAGCGGCGTTTGTTGGAGAAGCACTGC
1 TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
*
39192274 TAAAGGTCATGTTCTATAGC
1 TAAAGGTCTTGTTCTATAGC
39192294 TACGTTTTTC
Statistics
Matches: 200, Mismatches: 32, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.17
43 164 0.82
44 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:39192300 original size:86 final size:85
Alignment explanation
Indices: 39192017--39192293 Score: 347
Period size: 86 Copynumber: 3.2 Consensus size: 85
39192007 AAATATTTTT
* * * * ** *
39192017 TAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAGAGCGTCGCTAAAAGTCATGTTCTATAGTGGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAGCGCCGCTAAAAGTTTTGTTCTATAGCGGC
* **
39192082 GTTTCTGGGAAAAGCGCCAC
66 GTTTGTGGGAAAAGCGCTGC
* * * *
39192102 TAAAGGTCTTGTTCTATAACGGCGTTTGTGGGAAAGACGCCGCTAAAGGTTTTGTTCTATAGCAG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAG-CGCCGCTAAAAGTTTTGTTCTATAGCGG
*
39192167 CGTTTGTGGGAAAAACGCTGC
65 CGTTTGTGGGAAAAGCGCTGC
* * *
39192188 TAAAGGTCTTATTCTATAGCGGCGTTTGTGGGAAAAGCACCGCTAAAAGTTTTGTTCTATAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAAGTTTTGTTCTATAGCGG
* * *
39192253 CGTTTGTTGGAGAAGCACTGC
65 CGTTTGTGGGAAAAGCGCTGC
39192274 TAAAGGTCATGTTCTATAGC
1 TAAAGGTCATGTTCTATAGC
39192294 TACGTTTTTC
Statistics
Matches: 164, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 31 0.19
86 129 0.79
87 4 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (85 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAGCGCCGCTAAAAGTTTTGTTCTATAGCGGC
GTTTGTGGGAAAAGCGCTGC
Found at i:39193236 original size:118 final size:118
Alignment explanation
Indices: 39193083--39193319 Score: 429
Period size: 118 Copynumber: 2.0 Consensus size: 118
39193073 TGAATGAATG
*
39193083 TGAATGTTTTATATTTGAAAATGGAAAAGTGTATGAGAAATGTATGTTTAATTGTGTTATAAGTT
1 TGAATGTTTTATATTTGAAAATGGAAAAGTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
39193148 TGGTAATACTCCGTAACCCTATTATGGCAATGAATACTGGTGAGGGCTGTCCT
66 TGGTAATACTCCGTAACCCTATTATGGCAATGAATACTGGTGAGGGCTGTCCT
39193201 TGAATGTTTTATATTTGAAAATGGAAAAGTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
1 TGAATGTTTTATATTTGAAAATGGAAAAGTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
* * * *
39193266 TGGTAATACTTCGTAACCCTATTCTGGCAATGAATACTTGTGAGGGGTGTCCT
66 TGGTAATACTCCGTAACCCTATTATGGCAATGAATACTGGTGAGGGCTGTCCT
39193319 T
1 T
39193320 ATGGGCCAAT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 114 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.38
Consensus pattern (118 bp):
TGAATGTTTTATATTTGAAAATGGAAAAGTATATGAGAAATGTATGTTTAATTGTGTTATAAGTT
TGGTAATACTCCGTAACCCTATTATGGCAATGAATACTGGTGAGGGCTGTCCT
Found at i:39194878 original size:25 final size:26
Alignment explanation
Indices: 39194847--39194906 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
39194837 TAACTGGGAC
39194847 AGCCCTTTTT-GATAAACTAGGGCAA
1 AGCCCTTTTTCGATAAACTAGGGCAA
* * * *
39194872 AGCCCTTTTTCGGTAAATTGGGGCAT
1 AGCCCTTTTTCGATAAACTAGGGCAA
39194898 AGCCCTTTT
1 AGCCCTTTT
39194907 GCACTTCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (26 bp):
AGCCCTTTTTCGATAAACTAGGGCAA
Found at i:39195091 original size:24 final size:25
Alignment explanation
Indices: 39195041--39195091 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
39195031 AATAAAACCC
* *
39195041 TAGGGGTATAACAGTCATTTTTACA
1 TAGGGGCAAAACAGTCATTTTTACA
39195066 TAGGGGCAAAACAGTCATTTTT-CA
1 TAGGGGCAAAACAGTCATTTTTACA
39195090 TA
1 TA
39195092 TTATAAGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (25 bp):
TAGGGGCAAAACAGTCATTTTTACA
Found at i:39202005 original size:25 final size:26
Alignment explanation
Indices: 39201970--39202040 Score: 108
Period size: 26 Copynumber: 2.8 Consensus size: 26
39201960 CTCTTTTAAT
*
39201970 AACTGGAGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
39201995 AACTGGGGCAAAGCCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
39202021 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
39202041 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 20 0.48
26 22 0.52
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:39202201 original size:25 final size:25
Alignment explanation
Indices: 39202173--39202221 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
39202163 ATAATTAAAC
* * *
39202173 CCTAAGGGTATAACGGTCATTTTTA
1 CCTAAGGGCAAAACAGTCATTTTTA
*
39202198 CCTAGGGGCAAAACAGTCATTTTT
1 CCTAAGGGCAAAACAGTCATTTTT
39202222 CATATTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (25 bp):
CCTAAGGGCAAAACAGTCATTTTTA
Found at i:39205901 original size:28 final size:28
Alignment explanation
Indices: 39205870--39205923 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
39205860 TTGTACATTT
* *
39205870 TTATTTCTATTTTATTTTACTTATTTAC
1 TTATTTATATTGTATTTTACTTATTTAC
*
39205898 TTATTTATATTGTATTTTTCTTATTT
1 TTATTTATATTGTATTTTACTTATTT
39205924 GGTGTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (28 bp):
TTATTTATATTGTATTTTACTTATTTAC
Found at i:39223095 original size:46 final size:46
Alignment explanation
Indices: 39223045--39223169 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
39223035 ACAAGTCTTG
*
39223045 TACCCCTGAGTTGCAGTGGGATGGATTGAAGAAGATACAAATCCTA
1 TACCCCTGAGTTGCAGTGGGATGGATTGAAGAAGATACAAAGCCTA
* * * * * * *
39223091 TACCCTTGAGTTGTAGCGGGATGCATTAAAGATGGTACAAAGCCTA
1 TACCCCTGAGTTGCAGTGGGATGGATTGAAGAAGATACAAAGCCTA
* *
39223137 TACCCCTGAGTTACAGTGGGATGGATGGAAGAA
1 TACCCCTGAGTTGCAGTGGGATGGATTGAAGAA
39223170 ACCACAAATT
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (46 bp):
TACCCCTGAGTTGCAGTGGGATGGATTGAAGAAGATACAAAGCCTA
Found at i:39223588 original size:44 final size:45
Alignment explanation
Indices: 39223540--39223638 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
39223530 GAGGTGGAGT
* * *
39223540 AGATTGAAGCCACAG-GTCTTATCTCCCTAAAGTTACAGCAGAGC
1 AGATTAAAGCCACAGAATCTTATCTCCCTAAAGTTACAGCAGAAC
* * * * *
39223584 AGATTAAAGACAGAGAATCTTATTTCCCTAAAGTTGCAGTAGAAC
1 AGATTAAAGCCACAGAATCTTATCTCCCTAAAGTTACAGCAGAAC
39223629 AGATTAAAGC
1 AGATTAAAGC
39223639 TACAAATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 12 0.27
45 33 0.73
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (45 bp):
AGATTAAAGCCACAGAATCTTATCTCCCTAAAGTTACAGCAGAAC
Found at i:39223846 original size:44 final size:44
Alignment explanation
Indices: 39223768--39223868 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
39223758 AGTTCCAGCA
* *
39223768 GAGTAGATTGAAACTAAAAATCTCTTCTCCCTGAAATTACATTG
1 GAGTAGATTGAAGCTAAAAATCTCTTCTCCCTGAAATTACAGTG
* * *
39223812 GAGTAGATTGAAGCT-AAAATC-CTTATCTCTCTGAAGTTGCAGTG
1 GAGTAGATTGAAGCTAAAAATCTC-T-TCTCCCTGAAATTACAGTG
*
39223856 GAGCAGATTGAAG
1 GAGTAGATTGAAG
39223869 GCACCAGCCT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.02
43 7 0.14
44 41 0.84
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
GAGTAGATTGAAGCTAAAAATCTCTTCTCCCTGAAATTACAGTG
Found at i:39224089 original size:142 final size:143
Alignment explanation
Indices: 39223833--39224142 Score: 419
Period size: 142 Copynumber: 2.2 Consensus size: 143
39223823 AGCTAAAATC
* * * * * * *
39223833 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGGCACCAGCCTTATCTCCCTGAAGTTGCAG
1 CTTATCTTTCTAAAGTTGCAGTGAACCAAATTGAAGCCACCAGCCTTATCTCCCTGAAATTGCAG
* * * *
39223898 CGGAGTAGACTGAAGATAGCGAATCTTATTTCTATGAAATTACAGTGGAACAGATTGAAGCTACA
66 CGGAGCAGACTAAAGAAAGCGAATCTTATTCCTATGAAATTACAGTGGAACAGATTGAAGCTACA
39223963 AACTATGG-GGAT
131 AACTATGGTGGAT
* *
39223975 CTTATCTTTCTAAAGTTGCAGTGAACCAAATTGGAGCCACCAGCCTTATCTTCCTGAAATTGCAG
1 CTTATCTTTCTAAAGTTGCAGTGAACCAAATTGAAGCCACCAGCCTTATCTCCCTGAAATTGCAG
* **
39224040 CGGAGCAGACTAAAGAAAGCGAATCTTATGTCCT-TGGAATTGTAGTGGAACAGATTGAAGCTAC
66 CGGAGCAGACTAAAGAAAGCGAATCTTAT-TCCTATGAAATTACAGTGGAACAGATTGAAGCTAC
*
39224104 AAATTATGGTGGAT
130 AAACTATGGTGGAT
*
39224118 CTTATCTTCCTGAAA-TTGCAGTGAA
1 CTTATCTTTCT-AAAGTTGCAGTGAA
39224143 GTAGATCGAA
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
142 117 0.80
143 27 0.18
144 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (143 bp):
CTTATCTTTCTAAAGTTGCAGTGAACCAAATTGAAGCCACCAGCCTTATCTCCCTGAAATTGCAG
CGGAGCAGACTAAAGAAAGCGAATCTTATTCCTATGAAATTACAGTGGAACAGATTGAAGCTACA
AACTATGGTGGAT
Found at i:39225602 original size:19 final size:19
Alignment explanation
Indices: 39225580--39225617 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39225570 CTAAATCTAA
**
39225580 TTTTCTTTTTATTTTATTT
1 TTTTCTTTGAATTTTATTT
39225599 TTTTCTTTGAATTTTATTT
1 TTTTCTTTGAATTTTATTT
39225618 CAGTTTCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTCTTTGAATTTTATTT
Found at i:39233788 original size:23 final size:23
Alignment explanation
Indices: 39233758--39233814 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
39233748 CTAGCGTCGA
39233758 AGAAATCACTACTGGTAACCTAC
1 AGAAATCACTACTGGTAACCTAC
39233781 AGAAATCACTACTGGTAACCTAC
1 AGAAATCACTACTGGTAACCTAC
39233804 AGAAATCACTA
1 AGAAATCACTA
39233815 GACTCAATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (23 bp):
AGAAATCACTACTGGTAACCTAC
Found at i:39239343 original size:16 final size:17
Alignment explanation
Indices: 39239322--39239355 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
39239312 AATGTTAGGG
*
39239322 GCAAAAGTGT-AATTTT
1 GCAAAAGTATGAATTTT
39239338 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
39239355 G
1 G
39239356 GACTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:39240674 original size:151 final size:151
Alignment explanation
Indices: 39240401--39240674 Score: 325
Period size: 151 Copynumber: 1.8 Consensus size: 151
39240391 CGGGCGTGTG
* *
39240401 GCTTGGCCGTATGACCTAACTCAGAGAGTTACACGGGCACAGACACGAGCTAGGACACGACCATG
1 GCTTGGCCATATGACCTAACTCAGAGAGTTACACGAGCACAGACACGAGCTAGGACACGACCATG
* * * *** ** *
39240466 TGACCCTATTTTGATTGTTACATGGCCTAAGACATGGGCGTGTGTCTCAGCTATGTGTATCACAC
66 TGACCCTATTTCGATTGTTAAACGGCCTAAGACACAAGCGTGCATCTCAGCCATGTGTATCACAC
39240531 GGCCTGGTACACAGACATGCA
131 GGCCTGGTACACAGACATGCA
* * * * * * * *
39240552 GCTTGGCCATGTGACCTAATTTAGAGAGTTACACTAGCACGGACATGGGCT-GGTACACGGCCAT
1 GCTTGGCCATATGACCTAACTCAGAGAGTTACACGAGCACAGACACGAGCTAGG-ACACGACCAT
* * * *
39240616 GTGTCCCTATTTCGATTGTTAAACGGCCTGAGACACAAGTGTGCATCTCAGCCGTGTGT
65 GTGACCCTATTTCGATTGTTAAACGGCCTAAGACACAAGCGTGCATCTCAGCCATGTGT
39240675 GTCAAATAGC
Statistics
Matches: 99, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
150 2 0.02
151 97 0.98
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.25
Consensus pattern (151 bp):
GCTTGGCCATATGACCTAACTCAGAGAGTTACACGAGCACAGACACGAGCTAGGACACGACCATG
TGACCCTATTTCGATTGTTAAACGGCCTAAGACACAAGCGTGCATCTCAGCCATGTGTATCACAC
GGCCTGGTACACAGACATGCA
Found at i:39243476 original size:26 final size:26
Alignment explanation
Indices: 39243445--39243497 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
39243435 CTCCCATTTT
39243445 ATTTCTTTGAGAGCTTAATTTTTGTA
1 ATTTCTTTGAGAGCTTAATTTTTGTA
39243471 ATTTCTTTGAGAGCTTAATTTTTGTA
1 ATTTCTTTGAGAGCTTAATTTTTGTA
39243497 A
1 A
39243498 ACACATACCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.53
Consensus pattern (26 bp):
ATTTCTTTGAGAGCTTAATTTTTGTA
Found at i:39248264 original size:19 final size:18
Alignment explanation
Indices: 39248228--39248264 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
39248218 TGTATCGTCC
*
39248228 TCACTTCATTCCCCTTAT
1 TCACTTCATTCACCTTAT
39248246 TCACTTCATTGCACCTTAT
1 TCACTTCATT-CACCTTAT
39248265 ATTGGTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.19, C:0.35, G:0.03, T:0.43
Consensus pattern (18 bp):
TCACTTCATTCACCTTAT
Found at i:39251559 original size:2 final size:2
Alignment explanation
Indices: 39251552--39251581 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39251542 TGAGTTGTAA
39251552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39251582 GTTGTCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39255274 original size:79 final size:80
Alignment explanation
Indices: 39255176--39255358 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 80
39255166 TACTCATTCA
* *
39255176 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
39255239 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
39255256 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
*
39255320 ATAGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
39255335 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
39255359 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:39255358 original size:40 final size:40
Alignment explanation
Indices: 39255174--39255358 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
39255164 GCTACTCATT
* *
39255174 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
39255214 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
39255254 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
39255293 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
39255334 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39255359 CATCATTCGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 81 0.64
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39256289 original size:66 final size:66
Alignment explanation
Indices: 39256183--39256317 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
39256173 GAATAACAAC
39256183 CATATTTCTCCTCTACTTTCTACCATGGCCGAATGCATCACAACACCATACCATTTCAATCTTGG
1 CATATTTCTCCTCTACTTTCTACCATGGCCGAATGCATCACAACACCATACCATTTCAATCTTGG
39256248 T
66 T
*
39256249 CATATTTCTCCTCTACTTTCTACCATGGCCGAATGCATCACAACACCATACCATTTCAATTTTGG
1 CATATTTCTCCTCTACTTTCTACCATGGCCGAATGCATCACAACACCATACCATTTCAATCTTGG
39256314 T
66 T
39256315 CAT
1 CAT
39256318 GGTTAAACAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (66 bp):
CATATTTCTCCTCTACTTTCTACCATGGCCGAATGCATCACAACACCATACCATTTCAATCTTGG
T
Found at i:39266148 original size:2 final size:2
Alignment explanation
Indices: 39266141--39266166 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39266131 GAGACTAGTC
39266141 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
39266167 GCATGTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39269080 original size:45 final size:44
Alignment explanation
Indices: 39269031--39269207 Score: 175
Period size: 45 Copynumber: 4.0 Consensus size: 44
39269021 TAGGATTTTG
39269031 ATATGTATTTCTGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
1 ATATGTATTTC-GAGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * *
39269076 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGT-ATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * * *
39269121 ATACGTGGTTACGTGTAAGACCATGTCTGGGACATTGGCATC-AT
1 ATATGT-ATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
* * * *
39269165 AT-TAG-A-TTCGAGTAAGACCCTGTTTGGGAAG-TGGCACCGAT
1 ATAT-GTATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
39269206 AT
1 AT
39269208 GAGATAGCAT
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
40 6 0.05
41 23 0.21
44 5 0.04
45 74 0.66
46 4 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
ATATGTATTTCGAGTAAGACCATGTCTGGGACGTTGGCATCGAT
Found at i:39270019 original size:6 final size:6
Alignment explanation
Indices: 39270008--39270201 Score: 161
Period size: 6 Copynumber: 31.8 Consensus size: 6
39269998 AACCAAAATG
*
39270008 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
39270056 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
39270105 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT ACGTGA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC
*
39270154 AGAATC AGAATC AGAATC A-ATATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC AGAATC AGAATC AGA-ATC A-G-AATC AGAATC AGAATC AGAAT
39270202 GTGAATGCAA
Statistics
Matches: 153, Mismatches: 16, Indels: 38
0.74 0.08 0.18
Matches are distributed among these distances:
5 12 0.08
6 126 0.82
7 10 0.07
8 4 0.03
9 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:39270023 original size:30 final size:30
Alignment explanation
Indices: 39270008--39270201 Score: 275
Period size: 31 Copynumber: 6.4 Consensus size: 30
39269998 AACCAAAATG
*
39270008 AGAATCAGAATCAGAATCAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
39270038 AGAATCAGAATCA-ATATTAGTAACAGAATC
1 AGAATCAGAATCAGA-ATTAGTAACAGAATC
*
39270068 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
39270099 AGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTAACAGAATC
*
39270129 AGAATCAGAATCAGAATTACGTGACAGAATC
1 AGAATCAGAATCAGAATTA-GTAACAGAATC
*
39270160 AGAATCAGAATCA-ATATCAGGTAACAGAATC
1 AGAATCAGAATCAGA-ATTA-GTAACAGAATC
*
39270191 AAAATCAGAAT
1 AGAATCAGAAT
39270202 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
29 1 0.01
30 73 0.49
31 75 0.50
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATTAGTAACAGAATC
Found at i:39270107 original size:61 final size:60
Alignment explanation
Indices: 39270008--39270201 Score: 316
Period size: 61 Copynumber: 3.2 Consensus size: 60
39269998 AACCAAAATG
* *
39270008 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTAGTGACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
*
39270068 AGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATC
1 AGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
*
39270129 AGAATCAGAATCAGAATTACGTGACAGAATCAGAATCAGAATCAATATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATTA-GTGACAGAATCAGAATCAGAATCAATATTA-GTAACAGAATC
*
39270191 AAAATCAGAAT
1 AGAATCAGAAT
39270202 GTGAATGCAA
Statistics
Matches: 125, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
60 18 0.14
61 86 0.69
62 21 0.17
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (60 bp):
AGAATCAGAATCAGAATTAGTGACAGAATCAGAATCAGAATCAATATTAGTAACAGAATC
Found at i:39270368 original size:27 final size:27
Alignment explanation
Indices: 39270320--39270395 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
39270310 GTGAAGCTGC
* * *
39270320 CAGATATTGTGACGAAGTCACCAG-AT
1 CAGATATTGTGGCAAAGCCACCAGAAT
*
39270346 ACAGATATTGTGGTAAAGCCACCAGAAT
1 -CAGATATTGTGGCAAAGCCACCAGAAT
* *
39270374 CAGATAATGTGGCAAACCCACC
1 CAGATATTGTGGCAAAGCCACC
39270396 TAACAGAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 39 0.95
28 2 0.05
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAT
Found at i:39270569 original size:27 final size:26
Alignment explanation
Indices: 39270497--39270572 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
39270487 GGTAAATATG
* * *
39270497 ATTGTGACAGAGTCACCAAATACAGAT
1 ATTGTGGCAGAGCCACCAGA-ACAGAT
39270524 ATTGTGGCAGAGCCACCAGAACAGAT
1 ATTGTGGCAGAGCCACCAGAACAGAT
*
39270550 ATTTGTGGCATAGCCACCAGAAC
1 A-TTGTGGCAGAGCCACCAGAAC
39270573 GCTTCCTCCG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.16
27 37 0.84
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
ATTGTGGCAGAGCCACCAGAACAGAT
Found at i:39270801 original size:27 final size:27
Alignment explanation
Indices: 39270771--39270966 Score: 167
Period size: 27 Copynumber: 7.3 Consensus size: 27
39270761 GGGGCAAAAT
* * *
39270771 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCAACAAGGGTATTTC
* *
39270798 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATTTC
*
39270825 GGTATTTCTACCCAACAAGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATTTC
* * * * *
39270852 GATAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCAACAAGGGTATTTC
* * * *
39270879 GATAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATTTC
* * * *
39270906 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATTTC
*** * *
39270933 AAAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCAACAAGGGTATTTC
*
39270960 AGTAATT
1 GGTAATT
39270967 GGTAAACTAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCAACAAGGGTATTTC
Found at i:39270915 original size:81 final size:81
Alignment explanation
Indices: 39270800--39270958 Score: 219
Period size: 81 Copynumber: 2.0 Consensus size: 81
39270790 GGTATCTCGG
* * * * *
39270800 TAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCAACAAGGGTATTTCGATAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCAACAAGGGTATTTCAAAAATTCTACCC
*
39270865 TATAGGGGTATTTTGA
66 TACAGGGGTATTTTGA
* * * * *
39270881 TAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAAAAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCAACAAGGGTATTTCAAAAATTCTACCC
39270946 TACAGGGGTATTT
66 TACAGGGGTATTT
39270959 CAGTAATTGG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCAACAAGGGTATTTCAAAAATTCTACCC
TACAGGGGTATTTTGA
Found at i:39270940 original size:54 final size:54
Alignment explanation
Indices: 39270773--39270966 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
39270763 GGCAAAATGG
* * * * * *
39270773 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
* * *
39270827 TATTTCTACCCAACAAGGGTATTTC-GATAATTCTACCCTATAGGGGTATTTTGA
1 TAATTCTACCCTACAAGGGTATTTCAG-TAATTCTACCCTATAGGGGTATTTCGA
* * *
39270881 TAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
* *
39270935 AAATTCTACCCTACAGGGGTATTTCAGTAATT
1 TAATTCTACCCTACAAGGGTATTTCAGTAATT
39270967 GGTAAACTAA
Statistics
Matches: 121, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 119 0.98
55 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGA
Found at i:39270966 original size:81 final size:81
Alignment explanation
Indices: 39270774--39270966 Score: 217
Period size: 81 Copynumber: 2.4 Consensus size: 81
39270764 GCAAAATGGT
* * * * * * * *
39270774 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCA
1 AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCA
* *
39270839 ACAAGGGTATTTCGAT
66 ACAAGGGTATTTCAAA
* * * *
39270855 AATTCTACCCTATAGGGGTATTT-TGATAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 AATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* * *
39270919 TATAGGGGTATTTCAAA
65 AACAAGGGTATTTCAAA
39270936 AATTCTACCCTACAGGGGTATTTCAGTAATT
1 AATTCTACCCTACAGGGGTATTTCAGTAATT
39270967 GGTAAACTAA
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
80 1 0.01
81 90 0.98
82 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (81 bp):
AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCA
ACAAGGGTATTTCAAA
Found at i:39277016 original size:45 final size:45
Alignment explanation
Indices: 39276917--39277125 Score: 289
Period size: 45 Copynumber: 4.7 Consensus size: 45
39276907 CATCGGCATT
*
39276917 TAGCCTGCTAGGCTCAAA-GCCCG-ATA-TCATTTCACCGGCATTA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATTTCACCGGCATCA
* * *
39276960 TAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCTCACCGGTATCA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
* *
39277005 TAGCCTACTAGGCTCAAAAGCCCGAATAGTATTTCACCGGCATCA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
* *
39277050 GAGCCTGCTAGGCTAAAAGGCCCGAATAGTATTTCACCGGCATCA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
** *
39277095 TAGCCTGCTACTCTCAAAGGCTCGAATAGTA
1 TAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
39277126 CTATACGATA
Statistics
Matches: 145, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
43 17 0.12
44 5 0.03
45 122 0.84
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
TAGCCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCA
Found at i:39277253 original size:13 final size:13
Alignment explanation
Indices: 39277235--39277282 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
39277225 ATTACATTTC
39277235 ATCATTTGCACTT
1 ATCATTTGCACTT
* *
39277248 ATCATTTGATAGTT
1 ATCATTTG-CACTT
39277262 -TACATTTGCACTT
1 AT-CATTTGCACTT
39277275 ATCATTTG
1 ATCATTTG
39277283 ATAGTTTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (13 bp):
ATCATTTGCACTT
Found at i:39277268 original size:27 final size:27
Alignment explanation
Indices: 39277237--39277292 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
39277227 TACATTTCAT
39277237 CATTTGCACTTATCATTTGATAGTTTA
1 CATTTGCACTTATCATTTGATAGTTTA
39277264 CATTTGCACTTATCATTTGATAGTTTA
1 CATTTGCACTTATCATTTGATAGTTTA
39277291 CA
1 CA
39277293 CATAACATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (27 bp):
CATTTGCACTTATCATTTGATAGTTTA
Found at i:39281655 original size:17 final size:17
Alignment explanation
Indices: 39281633--39281667 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
39281623 CCAAACAGAT
39281633 AGTGGCGCCATATTTTC
1 AGTGGCGCCATATTTTC
39281650 AGTGGCGCCATATTTTC
1 AGTGGCGCCATATTTTC
39281667 A
1 A
39281668 ATTCGAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (17 bp):
AGTGGCGCCATATTTTC
Found at i:39288769 original size:31 final size:31
Alignment explanation
Indices: 39288733--39288798 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
39288723 CCAACCTAAG
39288733 AATGCAAATTAAATGATATAATAATGAGAAA
1 AATGCAAATTAAATGATATAATAATGAGAAA
39288764 AATGCAAATTAAATGATATAATAATGAGAAA
1 AATGCAAATTAAATGATATAATAATGAGAAA
39288795 AATG
1 AATG
39288799 ATAAATAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.58, C:0.03, G:0.14, T:0.26
Consensus pattern (31 bp):
AATGCAAATTAAATGATATAATAATGAGAAA
Done.