Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 31 of 235
Found at i:9786076 original size:62 final size:62
Alignment explanation
Indices: 9785957--9786136 Score: 206
Period size: 62 Copynumber: 2.9 Consensus size: 62
9785947 TTGGTCTAAT
** * * *
9785957 AACAAATTTAGCTATCTAATATTTAC-ACATTCTATCAATTT-GATTCTAAATCT-AAAAAATTT
1 AACAAATTTAGCCCTC-AATATTTACAAAATT-TATCAATTTAG-TTCTAATTCTAAAAAAATTC
* * *
9786019 AACAAATTTAGCCCTCAATGTTTACAAAATTTTTCATTTTAG-TCTAAGTTCTAAAAAAATTC
1 AACAAATTTAGCCCTCAATATTTACAAAATTTATCAATTTAGTTCTAA-TTCTAAAAAAATTC
* *
9786081 AATAAATTTAGTCCTCAATATTTACAAAATTTATCAATTTAGTTCTAATTCTAAAA
1 AACAAATTTAGCCCTCAATATTTACAAAATTTATCAATTTAGTTCTAATTCTAAAA
9786137 TTTTCAAAAG
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
60 5 0.05
61 18 0.18
62 72 0.72
63 5 0.05
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.40
Consensus pattern (62 bp):
AACAAATTTAGCCCTCAATATTTACAAAATTTATCAATTTAGTTCTAATTCTAAAAAAATTC
Found at i:9786120 original size:31 final size:30
Alignment explanation
Indices: 9786012--9786123 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 30
9786002 CTAAATCTAA
* *
9786012 AAAATTTAACAAATTTAGCCCTCAATGTTTAC
1 AAAATTTATC-AATTTAGTCCTCAAT-TTTAC
* * * *
9786044 AAAATTTTTCATTTTAGT-CT-AAGTTCTAAA
1 AAAATTTATCAATTTAGTCCTCAA-TT-TTAC
* *
9786074 AAAATTCAATAAATTTAGTCCTCAATATTTAC
1 AAAATT-TATCAATTTAGTCCTCAAT-TTTAC
9786106 AAAATTTATCAATTTAGT
1 AAAATTTATCAATTTAGT
9786124 TCTAATTCTA
Statistics
Matches: 60, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
29 3 0.05
30 11 0.18
31 24 0.40
32 19 0.32
33 3 0.05
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATTTATCAATTTAGTCCTCAATTTTAC
Found at i:9786408 original size:24 final size:25
Alignment explanation
Indices: 9786367--9786413 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
9786357 ATTAAATTCC
*
9786367 TATAAAAAATATTTTTTTAAAGTAT
1 TATAAAAAATATTATTTTAAAGTAT
* *
9786392 TATAAAACA-ATTATTTTGAAGT
1 TATAAAAAATATTATTTTAAAGT
9786414 TTTTTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
TATAAAAAATATTATTTTAAAGTAT
Found at i:9789357 original size:18 final size:19
Alignment explanation
Indices: 9789320--9789358 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9789310 CAAAAAAGTA
* *
9789320 CAAACTCTCAATTGAAAAC
1 CAAAATCTCAAATGAAAAC
9789339 CAAAATCTCAAAT-AAAAC
1 CAAAATCTCAAATGAAAAC
9789357 CA
1 CA
9789359 TAATTAAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.18
Consensus pattern (19 bp):
CAAAATCTCAAATGAAAAC
Found at i:9792027 original size:20 final size:20
Alignment explanation
Indices: 9792002--9792041 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9791992 CAACACTCTT
9792002 CCCCCAGGATCCATTTCAGG
1 CCCCCAGGATCCATTTCAGG
9792022 CCCCCAGGATCCATTTCAGG
1 CCCCCAGGATCCATTTCAGG
9792042 AAAAAGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (20 bp):
CCCCCAGGATCCATTTCAGG
Found at i:9793620 original size:26 final size:27
Alignment explanation
Indices: 9793583--9793637 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
9793573 CCGCAGCCAA
9793583 TTCAAGATCATGCATTGGATAATTCCC
1 TTCAAGATCATGCATTGGATAATTCCC
*
9793610 TTCAA-ATCATGCGTTGGATAATTCCC
1 TTCAAGATCATGCATTGGATAATTCCC
9793636 TT
1 TT
9793638 TATGTGTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (27 bp):
TTCAAGATCATGCATTGGATAATTCCC
Found at i:9815902 original size:45 final size:45
Alignment explanation
Indices: 9815838--9815931 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
9815828 GCTCAAGCAA
9815838 TATCAGATGGTAAGAATGCTTTAATCCGCTTTAAACTTGGTGCTT
1 TATCAGATGGTAAGAATGCTTTAATCCGCTTTAAACTTGGTGCTT
*
9815883 TATCAGATGGTAAGAATGCTTTAATCCGTTTTAAACTTGGTGCTT
1 TATCAGATGGTAAGAATGCTTTAATCCGCTTTAAACTTGGTGCTT
9815928 TATC
1 TATC
9815932 TGTTGTTTCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (45 bp):
TATCAGATGGTAAGAATGCTTTAATCCGCTTTAAACTTGGTGCTT
Found at i:9826578 original size:14 final size:14
Alignment explanation
Indices: 9826559--9826600 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
9826549 CAACTTATAC
9826559 ATCAAGCACTCATG
1 ATCAAGCACTCATG
9826573 ATCAAGCACTCATG
1 ATCAAGCACTCATG
9826587 ATCAAGCACTCATG
1 ATCAAGCACTCATG
9826601 TTTAACCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
ATCAAGCACTCATG
Found at i:9828035 original size:25 final size:25
Alignment explanation
Indices: 9828007--9828059 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
9827997 TTATGTAAAA
9828007 TACATGGATGGTCATAAGCATAACT
1 TACATGGATGGTCATAAGCATAACT
9828032 TACATGGATGGTCATAAGCATAACT
1 TACATGGATGGTCATAAGCATAACT
9828057 TAC
1 TAC
9828060 TCACTTTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (25 bp):
TACATGGATGGTCATAAGCATAACT
Found at i:9830233 original size:30 final size:30
Alignment explanation
Indices: 9830199--9830299 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 30
9830189 GACCTGAATG
9830199 CATGTTTGACTATTACTATTTACTGCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
* *
9830229 CATG-TT-ATTATTATCTGATAAGGTTGACCTGAATG-
1 CATGTTTGACTATTA-CT-AT----TT-A-CTGCATGC
* *
9830264 CATGTTTGACTGTTACTATTTACTTCATGC
1 CATGTTTGACTATTACTATTTACTGCATGC
9830294 CATGTT
1 CATGTT
9830300 ATTATTATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
28 6 0.11
29 9 0.17
30 13 0.24
31 2 0.04
34 2 0.04
35 7 0.13
36 10 0.19
37 5 0.09
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.44
Consensus pattern (30 bp):
CATGTTTGACTATTACTATTTACTGCATGC
Found at i:9830286 original size:65 final size:65
Alignment explanation
Indices: 9830182--9830312 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
9830172 CCCCTAAGGT
9830182 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
* *
9830247 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTTCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
9830312 T
1 T
9830313 GCATGGGACT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTATTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:9831460 original size:49 final size:50
Alignment explanation
Indices: 9831407--9831538 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
9831397 GTACATCAAA
* * * *
9831407 GTCGATGCCATGTCCCAGATAGGTTTTACACTGA-TTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAGCTCTCATATATCG-GT
* * *
9831456 GTCGATGTCGTGTCCCAGACAGGTCTTACACT-AGCTCTCATCTATCGGT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAGCTCTCATATATCGGT
*
9831505 GTCGATGCCATGTCCTAGACAGGTCTTACACTGA
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGA
9831539 CACATAACAA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.03
49 67 0.96
50 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (50 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGAGCTCTCATATATCGGT
Found at i:9832401 original size:20 final size:18
Alignment explanation
Indices: 9832364--9832414 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
9832354 CTATAGCAAC
9832364 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
9832381 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
9832401 TTACAACTTTACAA
1 TCACAA-TTTACAA
9832415 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:9835782 original size:21 final size:21
Alignment explanation
Indices: 9835758--9835810 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
9835748 GCACATGCCT
* *
9835758 GTGTGAAGCAGGGATACGGCC
1 GTGTGAAGCAGGGACACGACC
9835779 GTGTGAAGCAGGGACACGACC
1 GTGTGAAGCAGGGACACGACC
9835800 GTGTGAA-CAGG
1 GTGTGAAGCAGG
9835811 CCGTGTAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.26, C:0.19, G:0.42, T:0.13
Consensus pattern (21 bp):
GTGTGAAGCAGGGACACGACC
Found at i:9837551 original size:40 final size:39
Alignment explanation
Indices: 9837507--9837731 Score: 281
Period size: 40 Copynumber: 5.7 Consensus size: 39
9837497 GCCACTAGCT
*
9837507 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
9837547 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
9837586 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * *
9837626 CAAACGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGTATAGTAACTCGCA
* * ** * *
9837666 CGAATGCCTTCGGGACTTAGCCCGGAATCAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTAT-AGTAACTCGCA
9837706 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
9837732 TATCATCCGA
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 42 0.26
40 121 0.74
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:9837605 original size:79 final size:78
Alignment explanation
Indices: 9837507--9837731 Score: 281
Period size: 79 Copynumber: 2.8 Consensus size: 78
9837497 GCCACTAGCT
*
9837507 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
9837572 TATAATAACTCGCA
65 TATAATAACTCGCA
* * * *
9837586 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCAG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCC-G
* * *
9837651 ATATAGTAGCTCGCA
64 GTATAATAACTCGCA
* * ** *
9837666 CGAATGCCTTCGGGACTTAGCCCGGAATCAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTAT-AGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
9837730 GT
64 GT
9837732 TATCATCCGA
Statistics
Matches: 125, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 64 0.51
80 61 0.49
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:9839840 original size:21 final size:21
Alignment explanation
Indices: 9839821--9839861 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9839811 GAAAAGAAAG
9839821 AAAGTGAAAAATAATAGAAATA
1 AAAGT-AAAAATAATAGAAATA
*
9839843 AAAGTAATAATAATA-AAAT
1 AAAGTAAAAATAATAGAAAT
9839862 TAATAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (21 bp):
AAAGTAAAAATAATAGAAATA
Found at i:9839845 original size:15 final size:15
Alignment explanation
Indices: 9839827--9839873 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
9839817 AAAGAAAGTG
9839827 AAAAATAATAGA-AAT
1 AAAAATAATA-ATAAT
*
9839842 AAAAGTAATAATAAT
1 AAAAATAATAATAAT
* *
9839857 AAAATTAATAACAAT
1 AAAAATAATAATAAT
9839872 AA
1 AA
9839874 CCAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 1 0.04
15 27 0.96
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:9843439 original size:18 final size:19
Alignment explanation
Indices: 9843418--9843456 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9843408 AGAATTTTCC
*
9843418 TTTTAGTTTTGTTTT-TAG
1 TTTTAGTTTTCTTTTGTAG
9843436 TTTTAGTTTTCTTTTGTAG
1 TTTTAGTTTTCTTTTGTAG
9843455 TT
1 TT
9843457 AGGATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (19 bp):
TTTTAGTTTTCTTTTGTAG
Found at i:9853120 original size:15 final size:17
Alignment explanation
Indices: 9853102--9853133 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9853092 TAGCATAATT
9853102 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
9853117 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
9853134 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:9860244 original size:22 final size:22
Alignment explanation
Indices: 9860200--9860244 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9860190 TCCCCACATG
*
9860200 GTGTGTAGGGTTGGATGGAGTA
1 GTGTGTAGGGCTGGATGGAGTA
*
9860222 GTGTGTAGAGGCTGGCTGG-GTA
1 GTGTGTAG-GGCTGGATGGAGTA
9860244 G
1 G
9860245 GATTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.16, C:0.04, G:0.51, T:0.29
Consensus pattern (22 bp):
GTGTGTAGGGCTGGATGGAGTA
Found at i:9870066 original size:19 final size:18
Alignment explanation
Indices: 9870040--9870076 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
9870030 TAGTTGTATA
*
9870040 AACTAAGACAGATTAAAT
1 AACTAAGACAAATTAAAT
9870058 AACTCAAGACAAATTAAAT
1 AACT-AAGACAAATTAAAT
9870077 GGCTGTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.57, C:0.14, G:0.08, T:0.22
Consensus pattern (18 bp):
AACTAAGACAAATTAAAT
Found at i:9871649 original size:42 final size:44
Alignment explanation
Indices: 9871570--9871682 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 44
9871560 ATCGATTTGA
9871570 GATTTATGTGTAAGACCATGTCTGGGACATCGACATCG-TATAT
1 GATTTATGTGTAAGACCATGTCTGGGACATCGACATCGATATAT
* * * *
9871613 GATTT-TGTGTAAGACCCTGTTTGGGACAGT-GGCATCGATATTT
1 GATTTATGTGTAAGACCATGTCTGGGACA-TCGACATCGATATAT
** *
9871656 GA-TTACATGTAAGACCACGTCTGGGAC
1 GATTTATGTGTAAGACCATGTCTGGGAC
9871683 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
42 29 0.50
43 29 0.50
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (44 bp):
GATTTATGTGTAAGACCATGTCTGGGACATCGACATCGATATAT
Found at i:9871681 original size:43 final size:43
Alignment explanation
Indices: 9871519--9871690 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
9871509 CATAGGATTC
* * *
9871519 CGATATGTG-TTATCGTGTAAGACCACGTTTGGGACGTTGGAAT
1 CGATATTTGATTAT-GTGTAAGACCACGTCTGGGACGTTGGCAT
* * * * *
9871562 CGAT-TTGAGATTTATGTGTAAGACCATGTCTGGGACATCGACAT
1 CGATATT-TGA-TTATGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
9871606 CG-TATATGATTTTGTGTAAGACC-CTGTTTGGGACAG-TGGCAT
1 CGATATTTGATTATGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
**
9871648 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTATGTGTAAGACCACGTCTGGGACGTTGGCAT
9871691 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 29 0.29
43 39 0.39
44 27 0.27
45 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTATGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:9876591 original size:54 final size:54
Alignment explanation
Indices: 9876509--9876647 Score: 278
Period size: 54 Copynumber: 2.6 Consensus size: 54
9876499 CCTTGCAGCA
9876509 GGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
1 GGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
9876563 GGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
1 GGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
9876617 GGATTACCAGTCCAGGCTAAATCCCCTGCAA
1 GGATTACCAGTCCAGGCTAAATCCCCTGCAA
9876648 CGACAATTAC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (54 bp):
GGATTACCAGTCCAGGCTAAATCCCCTGCAATATAAACTCATAGAGTATTGTCG
Found at i:9878844 original size:55 final size:55
Alignment explanation
Indices: 9878757--9878869 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
9878747 CATTCATGCA
* *
9878757 TACTTAGCCTAGAAGAAAAGCCATAGTCCATGAATGTGTAGCCCTTTAATACTCC
1 TACTTAGCCTAGAAGAAAAGCCATAGTCCATGAATGTGCAACCCTTTAATACTCC
*
9878812 TACTTAGCCTAGAAGAAAAGCCATAGTTCATGAATGTGCAACCCTTTAATACTCC
1 TACTTAGCCTAGAAGAAAAGCCATAGTCCATGAATGTGCAACCCTTTAATACTCC
9878867 TAC
1 TAC
9878870 ATCTCCATTG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (55 bp):
TACTTAGCCTAGAAGAAAAGCCATAGTCCATGAATGTGCAACCCTTTAATACTCC
Found at i:9879602 original size:10 final size:10
Alignment explanation
Indices: 9879588--9879623 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9879578 TAAGCTTGGT
9879588 TGAGCTCAAA
1 TGAGCTCAAA
* *
9879598 CGAGCTGAAA
1 TGAGCTCAAA
9879608 TGAGCTCAAA
1 TGAGCTCAAA
9879618 TGAGCT
1 TGAGCT
9879624 GAATTGAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:9879611 original size:20 final size:20
Alignment explanation
Indices: 9879588--9879631 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
9879578 TAAGCTTGGT
9879588 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
* *
9879608 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGAAA
9879628 TGAG
1 TGAG
9879632 TTGGACGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:9879631 original size:10 final size:10
Alignment explanation
Indices: 9879588--9879631 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
9879578 TAAGCTTGGT
*
9879588 TGAGCTCAAA
1 TGAGCTGAAA
*
9879598 CGAGCTGAAA
1 TGAGCTGAAA
*
9879608 TGAGCTCAAA
1 TGAGCTGAAA
*
9879618 TGAGCTGAAT
1 TGAGCTGAAA
9879628 TGAG
1 TGAG
9879632 TTGGACGGAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.20
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:9881778 original size:14 final size:13
Alignment explanation
Indices: 9881729--9881795 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 13
9881719 TCTCATAATC
*
9881729 TTTTCTTTCCTCT
1 TTTTCTTTTCTCT
9881742 CTTTTCTTTTGATCTCTT
1 -TTTTC-TTT--TCTC-T
9881760 TTTTCTTTTCGTCT
1 TTTTCTTTTC-TCT
*
9881774 TTTTCTTTTCTCA
1 TTTTCTTTTCTCT
9881787 TTTTCTTTT
1 TTTTCTTTT
9881796 TACAAGAGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.24
14 18 0.39
15 5 0.11
16 3 0.07
17 8 0.17
18 1 0.02
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTTCTTTTCTCT
Found at i:9881790 original size:13 final size:14
Alignment explanation
Indices: 9881760--9881795 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
9881750 TTGATCTCTT
*
9881760 TTTTCTTTTCGTCT
1 TTTTCTTTTCGTCA
9881774 TTTTCTTTTC-TCA
1 TTTTCTTTTCGTCA
9881787 TTTTCTTTT
1 TTTTCTTTT
9881796 TACAAGAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (14 bp):
TTTTCTTTTCGTCA
Found at i:9884631 original size:14 final size:14
Alignment explanation
Indices: 9884608--9884638 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9884598 ATTTTGGTCA
*
9884608 AAATCGTTAGTTTC
1 AAATCATTAGTTTC
9884622 AAATCATTAGTTTC
1 AAATCATTAGTTTC
9884636 AAA
1 AAA
9884639 AAGACATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (14 bp):
AAATCATTAGTTTC
Found at i:9884814 original size:20 final size:21
Alignment explanation
Indices: 9884781--9884827 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
9884771 TTTGCCTCAC
*
9884781 TTTTCTCAGTTTTTCCTTTCT
1 TTTTCTCAGATTTTCCTTTCT
*
9884802 TTTTCTC-GATTTTCTTTTCT
1 TTTTCTCAGATTTTCCTTTCT
9884822 TTTTCT
1 TTTTCT
9884828 TTTTCGATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.04, C:0.21, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTCTCAGATTTTCCTTTCT
Found at i:9884834 original size:24 final size:25
Alignment explanation
Indices: 9884797--9884857 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 25
9884787 CAGTTTTTCC
9884797 TTTCTTTTTCTCGAT-TTTCTTTTCTT
1 TTTC-TTTTCTCGATCTTT-TTTTCTT
9884823 TTTCTTTT-TCGATCTTTTTTTCTT
1 TTTCTTTTCTCGATCTTTTTTTCTT
*
9884847 GTTCTTGTTCT
1 TTTCTT-TTCT
9884858 TTTACTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 17 0.55
25 9 0.29
26 5 0.16
ACGTcount: A:0.03, C:0.18, G:0.07, T:0.72
Consensus pattern (25 bp):
TTTCTTTTCTCGATCTTTTTTTCTT
Found at i:9884841 original size:36 final size:36
Alignment explanation
Indices: 9884799--9884868 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
9884789 GTTTTTCCTT
*
9884799 TCTTTTTCTCGATT-TTCTT-TTCTTTTTCTTTTTCGA
1 TCTTTTTCTC--TTGTTCTTGTTCTTTTACTTTTTCGA
*
9884835 TCTTTTTTTCTTGTTCTTGTTCTTTTACTTTTTC
1 TCTTTTTCTCTTGTTCTTGTTCTTTTACTTTTTC
9884869 AACAGATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 2 0.07
35 5 0.17
36 23 0.77
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.71
Consensus pattern (36 bp):
TCTTTTTCTCTTGTTCTTGTTCTTTTACTTTTTCGA
Found at i:9886460 original size:15 final size:15
Alignment explanation
Indices: 9886428--9886456 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9886418 ATTTTTTGTG
9886428 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
9886443 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
9886457 ATTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:9887648 original size:45 final size:44
Alignment explanation
Indices: 9887599--9887760 Score: 174
Period size: 41 Copynumber: 3.8 Consensus size: 44
9887589 TATGTTTTCA
*
9887599 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGTGGTTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATATGAGGTTATG
* * *
9887644 TGTAAGACTATGTCTGGGACATTGGAATCGTAT-T-AGATT-TG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGGTTATG
* *
9887685 TGTAAGACCATGTCTGGGATAGTGGCATCG-ATATGAGG-TA-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGGTTATG
* * *
9887726 CATGTAAGACCACGTCTGGGACGTTGGCATTGTAT
1 --TGTAAGACCATGTCTGGGACATTGGCATCGTAT
9887761 GATATGTGTG
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
40 2 0.02
41 31 0.32
42 5 0.05
43 26 0.27
44 5 0.05
45 28 0.29
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGGTTATG
Found at i:9892651 original size:53 final size:53
Alignment explanation
Indices: 9892473--9892673 Score: 172
Period size: 53 Copynumber: 3.7 Consensus size: 53
9892463 AGGGTTTAAC
* * * * *
9892473 GATACCA-AGTAAGACCATGCCAAGGCATGGCATTGGAAAGTTTTACAAGGCAAG
1 GATACCATA-TAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGCAAG
* * * * * * * * *
9892527 GAAATCATTTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCATATAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGCAAG
* * * *
9892582 GAT-CCTGTGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACC-ATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAG
*
9892635 GATACCATATAAGACCATGTCAAGACATGGCAATGGTAA
1 GATACCATATAAGACCATGCCAAGACATGGCAATGGTAA
9892674 TTTTAAAAAG
Statistics
Matches: 113, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
53 40 0.35
54 36 0.32
55 37 0.33
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCATATAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGCAAG
Found at i:9895571 original size:43 final size:43
Alignment explanation
Indices: 9895480--9895621 Score: 160
Period size: 43 Copynumber: 3.3 Consensus size: 43
9895470 TTCGGGCCTC
* * * * *
9895480 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTG-A-AATAATATCAGGCTTCA
* **
9895524 GGCCTAGCAGGCTATAATGCCGGTGAGATAATATCAGGCTTTG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCA
* *
9895567 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCA
*
9895610 AGCCTAGCAGGC
1 GGCCTAGCAGGC
9895622 GAAATATCGG
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
43 61 0.73
44 16 0.19
45 6 0.07
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCAGGCTTCA
Found at i:9895716 original size:40 final size:41
Alignment explanation
Indices: 9895514--9895715 Score: 158
Period size: 43 Copynumber: 4.9 Consensus size: 41
9895504 AATAATATTA
* *
9895514 TCGGGCTTCAGGCCTAGCAGGCTATAATGCCGGTGAGAT-AAT
1 TCGGGCTTAAAGCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT
* ***
9895556 ATCAGGCTTTGGGCCTAGCAGGCTATAATGCCGGTGAAATG-AT
1 -TCGGGCTTAAAGCCTAGCAGGCTA-AATGCCGGTG-AATGAAT
* * ** *
9895599 ATCGGGCTTCAAGCCTAGCAGGCGAAATATCGGTGAATGAGT
1 -TCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGAATGAAT
* * * ***
9895641 TCAGACTTAAAGTCTAGCAGGCTTCGTGCCGGTG-ATGAAT
1 TCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGAATGAAT
* *
9895681 TCGGGTTTAAAACCTAGCAGGCTAAATGCCGGTGA
1 TCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGA
9895716 TTTGATAAAA
Statistics
Matches: 125, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
40 31 0.25
41 28 0.22
42 9 0.07
43 56 0.45
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (41 bp):
TCGGGCTTAAAGCCTAGCAGGCTAAATGCCGGTGAATGAAT
Found at i:9913101 original size:9 final size:10
Alignment explanation
Indices: 9913078--9913104 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9913068 AGTCAAATTT
9913078 TTTTTACATA
1 TTTTTACATA
9913088 TTTTTACATA
1 TTTTTACATA
9913098 TTTTTAC
1 TTTTTAC
9913105 CCCATACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTACATA
Found at i:9919675 original size:14 final size:13
Alignment explanation
Indices: 9919643--9919681 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
9919633 TCTTTAAAAA
9919643 ATTTTA-TTTATT
1 ATTTTATTTTATT
*
9919655 ATTTTATTTTTTT
1 ATTTTATTTTATT
9919668 ACTTTTATTTTATT
1 A-TTTTATTTTATT
9919682 TTAAGACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 6 0.26
13 6 0.26
14 11 0.48
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTATTTTATT
Found at i:9923440 original size:30 final size:30
Alignment explanation
Indices: 9923406--9923492 Score: 129
Period size: 30 Copynumber: 2.9 Consensus size: 30
9923396 GTCACACGGT
9923406 CGTGTGACACACACGGCCAAGAGACACGCC
1 CGTGTGACACACACGGCCAAGAGACACGCC
* * *
9923436 CGTGTGACGCACACAGCCAAGAGACATGCC
1 CGTGTGACACACACGGCCAAGAGACACGCC
* *
9923466 CGTGTGACATACACGGCCATGAGACAC
1 CGTGTGACACACACGGCCAAGAGACAC
9923493 ACCCTTGTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.10
Consensus pattern (30 bp):
CGTGTGACACACACGGCCAAGAGACACGCC
Found at i:9924728 original size:15 final size:15
Alignment explanation
Indices: 9924708--9924737 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9924698 ATAATCCTAA
*
9924708 TAATTATCTTAATAT
1 TAATTATCCTAATAT
9924723 TAATTATCCTAATAT
1 TAATTATCCTAATAT
9924738 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:9932276 original size:46 final size:48
Alignment explanation
Indices: 9932204--9932306 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
9932194 GACAGGACAG
* * * *
9932204 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
9932250 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
9932298 GACAGGAAT
1 GACAGGAAT
9932307 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:9934742 original size:10 final size:10
Alignment explanation
Indices: 9934727--9934758 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
9934717 TAAATACATT
9934727 TAATTAAAGA
1 TAATTAAAGA
9934737 TAATTAAAGA
1 TAATTAAAGA
9934747 TAATTAAA-A
1 TAATTAAAGA
9934756 TAA
1 TAA
9934759 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:9939535 original size:27 final size:27
Alignment explanation
Indices: 9939274--9939536 Score: 224
Period size: 27 Copynumber: 9.7 Consensus size: 27
9939264 TTAGTTTACC
** * * *
9939274 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTATA
* **
9939301 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTTGATTTATA
* * * * *
9939328 AAATTACCCAAATATCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTATA
* * **
9939355 AAATTACCGAAATACCC-TCAGTTTGCA
1 AAATTACCAAAATACCCTTGA-TTTATA
* * *
9939382 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTATA
* **
9939409 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTTGATTTATA
* *
9939436 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTATA
* * *
9939463 AAATTACCAAAATATCCC-TAATTTGTG
1 AAATTACCAAAATA-CCCTTGATTTATA
* *
9939490 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTATA
9939517 AAATTACCAAAATACCCTTG
1 AAATTACCAAAATACCCTTG
9939537 TAGGGTAGAA
Statistics
Matches: 189, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
26 4 0.02
27 181 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTATA
Found at i:9939548 original size:27 final size:27
Alignment explanation
Indices: 9939518--9939794 Score: 376
Period size: 27 Copynumber: 10.3 Consensus size: 27
9939508 TGGTTTACAA
* *
9939518 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
9939545 AATTA-CTAAGATACACCTGTAGGGTAG
1 AATTACCGAA-ATACCCCTGTAGGGTAG
* *
9939572 AATTACTGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9939599 AATTACCGAAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9939626 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
9939653 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9939680 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9939707 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
9939734 AAATACCGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
9939761 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
9939788 AATTACC
1 AATTACC
9939795 ATTTTGCCCC
Statistics
Matches: 221, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
26 3 0.01
27 216 0.98
28 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:9939549 original size:54 final size:52
Alignment explanation
Indices: 9939383--9939779 Score: 229
Period size: 54 Copynumber: 7.4 Consensus size: 52
9939373 CAGTTTGCAA
* * * * * *
9939383 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCA--ATAA
1 AATTACCAAAATACCCTTGG-GTA-AAAATTACCGAAATACCCTTG-T-AGGGTAG
* * * * *
9939437 AATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATATCCCTAAT-TTGTG-A-
1 AATTACCAAAATACCCTTGG-GTA-AAAATTACCGAAATA-CCCT--TGTAGGGTAG
* *
9939491 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGG-GTA-AAAATTACCGAAATACCCTTGTAGGGTAG
* * * *
9939545 AATTACTAAGATACACCTGTAGGGT-AGAATTACTGAAATA-CCTCTGTAGGGTAG
1 AATTACCAAAATAC-CCT-T-GGGTAAAAATTACCGAAATACCCT-TGTAGGGTAG
* * * *
9939599 AATTACCGAAATACTCCTGTAGGGT-AGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACCAAAATAC-CCT-T-GGGTAAAAATTACCGAAATACCCTTGTAGGGTAG
** * *
9939653 AATTACTGAAATACCCCTATAGGGTAGAAA-TACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATA-CCCT-T-GGGTAAAAATTACCGAAATACCCTTGTAGGGTAG
* * * *
9939707 AATTACCGAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCCTGTATGGTAG
1 AATTACCAAAATACCC-T-T-GGGTAAAAATTACCGAAATACCCTTGTAGGGTAG
* *
9939761 AATTACCGAGATACCCTTG
1 AATTACCAAAATACCCTTG
9939780 TGGGGTAAAA
Statistics
Matches: 295, Mismatches: 32, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
51 2 0.01
52 4 0.01
53 12 0.04
54 259 0.88
55 14 0.05
56 2 0.01
57 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (52 bp):
AATTACCAAAATACCCTTGGGTAAAAATTACCGAAATACCCTTGTAGGGTAG
Found at i:9940271 original size:6 final size:6
Alignment explanation
Indices: 9940202--9940321 Score: 50
Period size: 6 Copynumber: 19.3 Consensus size: 6
9940192 TTGCATTCAC
* * * *
9940202 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTA ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
9940252 -TTACCTG ATACTG ATTCTG ATTTTG ATTTTG -TCACCTA ATT-TCG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCT-G ATTCTG
*
9940302 ATTCTG ATTCTA ATTCTG AT
1 ATTCTG ATTCTG ATTCTG AT
9940322 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
5 6 0.07
6 62 0.74
7 13 0.15
8 3 0.04
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:9940299 original size:31 final size:31
Alignment explanation
Indices: 9940202--9940312 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
9940192 TTGCATTCAC
9940202 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
9940234 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
9940265 ATTCTGATTTTGATTTTGTCACCTAAT-TTCG
1 ATTCTGATTTTGATTCTGTTACCTGATACT-G
*
9940296 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
9940313 AATTCTGATA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
30 1 0.01
31 63 0.90
32 6 0.09
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:9940330 original size:18 final size:17
Alignment explanation
Indices: 9940309--9940342 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9940299 CTGATTCTGA
9940309 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
9940327 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
9940343 GGTTCAAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:9942326 original size:27 final size:27
Alignment explanation
Indices: 9942271--9942504 Score: 193
Period size: 27 Copynumber: 8.7 Consensus size: 27
9942261 TTAGTTTACC
* ** *
9942271 AAATTACCAAAATTCCCTCGGCTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
9942298 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * * *
9942325 AAATTACCCAAATATCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
9942352 AAATTATCGAAATACCCTC-AGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * * *
9942379 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* **
9942406 AAATCACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
9942433 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * * *
9942460 AAATTACCAAAATACCATTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTATA
*
9942487 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
9942505 TGTAGGGTAG
Statistics
Matches: 162, Mismatches: 41, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.01
27 160 0.99
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:9942500 original size:81 final size:81
Alignment explanation
Indices: 9942271--9942504 Score: 256
Period size: 81 Copynumber: 2.9 Consensus size: 81
9942261 TTAGTTTACC
* * * ** *
9942271 AAATTACCAAAATTCCCTCGGCTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
* **
9942336 ATATCCTCGACTTGTA
66 ATACCCTCGACTAATA
* * * * * * *
9942352 AAATTATCGAAATACCCTCAGTTTGTAAAATTACTAAAATACCCTTGGTTTACAAAATCACCAAA
1 AAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
9942417 ATACCCTCGA-TCAATA
66 ATACCCTCGACT-AATA
* * * *
9942433 AAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCATTGATTTGTGAAATTACCGA
1 AAATTACCAAAATACCCTC-GGTTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAA
9942497 AATACCCT
65 AATACCCT
9942505 TGTAGGGTAG
Statistics
Matches: 124, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
80 2 0.02
81 122 0.98
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAA
ATACCCTCGACTAATA
Found at i:9942518 original size:27 final size:27
Alignment explanation
Indices: 9942488--9942737 Score: 356
Period size: 27 Copynumber: 9.3 Consensus size: 27
9942478 TGATTTGTGA
*
9942488 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
9942515 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
9942542 AATTACTGAGATACACCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9942569 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9942596 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9942623 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
9942650 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
9942677 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
9942704 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
9942731 AATTACC
1 AATTACC
9942738 ATTTTGCCCC
Statistics
Matches: 198, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 198 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:9942519 original size:81 final size:82
Alignment explanation
Indices: 9942434--9942737 Score: 352
Period size: 81 Copynumber: 3.8 Consensus size: 82
9942424 CGATCAATAA
* ** * **
9942434 AATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCATTG-ATTTGT-GAAATTACCG
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCGAAATACCATTGTA-GGGTAG-AATTACCG
* *
9942496 AAATACCCTTGTAGGGTAG
64 AAATACCCCTATAGGGTAG
* * * *
9942515 AATTACCGAAATA-CCCTTGTAGGGTAAAATTACTGAGATA-CACCTGTAGGGTAGAATTACCGA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCGAAATACCA-TTGTAGGGTAGAATTACCGA
9942578 AATACCCCTATAGGGTAG
65 AATACCCCTATAGGGTAG
*
9942596 AATTACCGAAATACCCCT-GTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAA
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCGAAATACCATTGTAGGGTAGAATTACCGAA
9942660 ATACCCCTATAGGGTAG
66 ATACCCCTATAGGGTAG
* * * * * * *
9942677 AAATACTGAAATACCCCT-GTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCCTGGTAGGGTAAAATTACCGAAATACCATTGTAGGGTAGAATTACC
9942738 ATTTTGCCCC
Statistics
Matches: 195, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
80 8 0.04
81 180 0.92
82 7 0.04
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (82 bp):
AATTACCGAAATACCCCTGGTAGGGTAAAATTACCGAAATACCATTGTAGGGTAGAATTACCGAA
ATACCCCTATAGGGTAG
Found at i:9942749 original size:81 final size:81
Alignment explanation
Indices: 9942488--9942737 Score: 394
Period size: 81 Copynumber: 3.1 Consensus size: 81
9942478 TGATTTGTGA
* * * *
9942488 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAAAATTACTGAGA
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAGA
9942553 TACACC-TGTAGGGTAG
66 TAC-CCTTGTAGGGTAG
*
9942569 AATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAA
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAGA
9942634 TACCCTTGTAGGGTAG
66 TACCCTTGTAGGGTAG
* * *
9942650 AATTACCGAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTACCGAGA
1 AATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAGA
* *
9942715 TACCCTTGTGGGGTAA
66 TACCCTTGTAGGGTAG
9942731 AATTACC
1 AATTACC
9942738 ATTTTGCCCC
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
80 2 0.01
81 155 0.99
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAGA
TACCCTTGTAGGGTAG
Found at i:9943190 original size:31 final size:31
Alignment explanation
Indices: 9943145--9943255 Score: 168
Period size: 31 Copynumber: 3.5 Consensus size: 31
9943135 TTGCATTCAC
*
9943145 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTCTGATTCTGTTACCTGATACTG
* *
9943177 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
9943208 ATTCTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
9943239 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
9943256 AGCTTTGATA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 68 0.92
32 6 0.08
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:9943208 original size:6 final size:6
Alignment explanation
Indices: 9943145--9943255 Score: 84
Period size: 6 Copynumber: 17.8 Consensus size: 6
9943135 TTGCATTCAC
* * * *
9943145 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
9943195 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TTACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
9943245 ATTCTG ATTCT
1 ATTCTG ATTCT
9943256 AGCTTTGATA
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.07
6 62 0.73
7 13 0.15
8 4 0.05
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:9945243 original size:93 final size:92
Alignment explanation
Indices: 9945086--9945257 Score: 222
Period size: 93 Copynumber: 1.8 Consensus size: 92
9945076 ACATCAAGGT
* * * * *
9945086 CGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCACTTATTTGTGTCGATGCCATGTCCCAG
1 CGATGCCATGTCCAAGATAGGTCTTACACTAGCTCTCAC-TATTTGGGTCAATGCCATGCCCCAG
*
9945151 GCAGGTCTTACACTAACACACCTCAAGC
65 ACAGGTCTTACACTAACACACCTCAAGC
* *
9945179 CGATGCCATGTCCAAGATAGGTCTTACACTAGCT-TGCAC-ATCTTGAGGTCAATGTCGTGCCCC
1 CGATGCCATGTCCAAGATAGGTCTTACACTAGCTCT-CACTAT-TTG-GGTCAATGCCATGCCCC
9945242 AGACAGGTCTTACACT
63 AGACAGGTCTTACACT
9945258 GGTTCTCATC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
91 2 0.03
92 4 0.06
93 62 0.91
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
CGATGCCATGTCCAAGATAGGTCTTACACTAGCTCTCACTATTTGGGTCAATGCCATGCCCCAGA
CAGGTCTTACACTAACACACCTCAAGC
Found at i:9951678 original size:43 final size:43
Alignment explanation
Indices: 9951624--9951920 Score: 477
Period size: 43 Copynumber: 6.9 Consensus size: 43
9951614 GTGCTGGTAT
* *
9951624 TATTCGGGCCTTCATGCCTAGCAGGCCTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
9951667 TATTCAGGCCTTCGTGCCTAGCAGGCTAAGTGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
9951710 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
9951753 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
9951796 TATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
9951839 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
9951882 TATTCGGGCCTTCATGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
9951921 AATGATATGT
Statistics
Matches: 237, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 237 1.00
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:9952304 original size:45 final size:45
Alignment explanation
Indices: 9952235--9952344 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
9952225 TGTTGACTGG
* *
9952235 ATTATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGA-T
1 ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA-ACT
**
9952280 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAACT
1 ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAACT
*
9952325 AATA-TCGGGCC-TCGAGCCTA
1 ATTATTCGGGCCTTCGAGCCTA
9952345 ACAGGCGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 9 0.15
44 8 0.14
45 42 0.71
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAACT
Found at i:9965047 original size:43 final size:43
Alignment explanation
Indices: 9964999--9965169 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 43
9964989 AGCTTGTAAA
* *
9964999 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGTAATCAAATATCG
* *
9965042 ATGCCACTGCCCCAAACAG-GGTCTTACACG-AAGTCAAATA-CG
1 ATGCCAATGTCCCAAAC-GTGGTCTTACACGTAA-TCAAATATCG
* * * *
9965084 ATGTCGATGTCCCAAACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAATGTCCCAAACGTGGTCTTACACGT-AATC-AAATATCG
* * * *
9965128 ATGCCAACGTCCCAGACGTGGTCTTACACGAAATCACATATC
1 ATGCCAATGTCCCAAACGTGGTCTTACACGTAATCAAATATC
9965170 AAAATCCTAT
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
42 29 0.28
43 41 0.40
44 32 0.31
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACGTGGTCTTACACGTAATCAAATATCG
Found at i:9965557 original size:16 final size:17
Alignment explanation
Indices: 9965533--9965566 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9965523 GACATTTTAG
*
9965533 TCCCTAATTA-ACAAAA
1 TCCCAAATTACACAAAA
9965549 TCCCAAATTACACAAAA
1 TCCCAAATTACACAAAA
9965566 T
1 T
9965567 TTCCTTATAC
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:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (17 bp):
TCCCAAATTACACAAAA
Found at i:9969638 original size:46 final size:46
Alignment explanation
Indices: 9969513--9969734 Score: 217
Period size: 46 Copynumber: 4.8 Consensus size: 46
9969503 ATAATTTTCA
*
9969513 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATC
* * * *
9969562 C-TCA-CGAACTCAGACTCAACTCAACAAGTTCGGACATTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
* *
9969606 CATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CTAGTTA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TC
* *
9969652 CATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
1 CA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
9969699 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
9969735 TGCTCAACCA
Statistics
Matches: 143, Mismatches: 17, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
44 6 0.04
45 6 0.04
46 56 0.39
47 56 0.39
48 6 0.04
49 5 0.03
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATC
Found at i:9969672 original size:93 final size:93
Alignment explanation
Indices: 9969513--9969737 Score: 423
Period size: 93 Copynumber: 2.4 Consensus size: 93
9969503 ATAATTTTCA
9969513 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCAGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCAGACT
9969578 CAACTCAACAAGTTCGGACATTCGCATC
66 CAACTCAACAAGTTCGGACATTCGCATC
* *
9969606 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATCTCACGAACTCGGACT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCAGACT
*
9969671 CAACTCAACGAGTTCGGACATTCGCATC
66 CAACTCAACAAGTTCGGACATTCGCATC
9969699 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
9969738 TCAACCATCC
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 128 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACGAACTCAGACT
CAACTCAACAAGTTCGGACATTCGCATC
Found at i:9977793 original size:16 final size:16
Alignment explanation
Indices: 9977772--9977803 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9977762 AATACATATC
9977772 ACAAACCAACTTCCTA
1 ACAAACCAACTTCCTA
9977788 ACAAACCAACTTCCTA
1 ACAAACCAACTTCCTA
9977804 TACATGCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (16 bp):
ACAAACCAACTTCCTA
Found at i:9978834 original size:51 final size:49
Alignment explanation
Indices: 9978701--9978835 Score: 135
Period size: 50 Copynumber: 2.7 Consensus size: 49
9978691 GAAGCTATCT
* * *
9978701 GGTATGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCT
1 GGTACGCATAGTAG-CTGCACTTAGTACTACACACGTGACCACACCATCG
** * * * ***
9978751 AATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGC-TGCACTTAGTACTACACACGTGACCACA-CCATCG
9978802 GGTACGCATAGTAGTCTGCACTTAGTACTACACA
1 GGTACGCATAGTAG-CTGCACTTAGTACTACACA
9978836 TGCGACCTCA
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
49 1 0.01
50 35 0.52
51 30 0.45
52 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
GGTACGCATAGTAGCTGCACTTAGTACTACACACGTGACCACACCATCG
Found at i:9981697 original size:41 final size:41
Alignment explanation
Indices: 9981640--9981723 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
9981630 TGGCCCTGTC
9981640 TTACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGA
1 TTACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGA
9981681 TTACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGA
1 TTACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGA
9981722 TT
1 TT
9981724 GTTTCGTTAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (41 bp):
TTACGAGAACCTGAATATCTCTTAACATACTGTCCGTATGA
Found at i:9985094 original size:49 final size:49
Alignment explanation
Indices: 9985035--9985266 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 49
9985025 CTGGTATGCA
* *
9985035 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
*
9985084 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * ** * *
9985133 TAATAGCCTGCACTTAGTACTGCACATGTGGCCTAACCATCTGCTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * * * * *
9985183 TAGTGGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATTATCCGGTACACG
*
9985234 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
9985267 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 76 0.50
50 39 0.25
51 37 0.24
52 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:9985208 original size:99 final size:100
Alignment explanation
Indices: 9985033--9985266 Score: 301
Period size: 99 Copynumber: 2.4 Consensus size: 100
9985023 ATCTGGTATG
* * ** *
9985033 CATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACT
1 CATAATAGCCTGCACTTAGTACTACACATGCGACCAACCATCCGCTACACGTAGTAGCCTGCACT
9985098 TAGTACTACACACGTGA-C-CAATTATCCGGTACA
66 TAGTACTACACACGTGATCACAATTATCCGGTACA
* * * * * *
9985131 CGTAATAGCCTGCACTTAGTACTGCACATGTGGCCTAACCATCTGCTACACGTAGTGGCCTGCAC
1 CATAATAGCCTGCACTTAGTACTACACATGCGACC-AACCATCCGCTACACGTAGTAGCCTGCAC
* * * *
9985196 TTAGTACTACACACGTGATCACAGTTTTCGGGTACG
65 TTAGTACTACACACGTGATCACAATTATCCGGTACA
*
9985232 CATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 CATAATAGCCTGCACTTAGTACTACACATGCGACC
9985267 TCACAATAGA
Statistics
Matches: 113, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
98 29 0.26
99 42 0.37
100 1 0.01
101 41 0.36
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (100 bp):
CATAATAGCCTGCACTTAGTACTACACATGCGACCAACCATCCGCTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGATCACAATTATCCGGTACA
Found at i:9989137 original size:44 final size:44
Alignment explanation
Indices: 9989072--9989158 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
9989062 TTGATATCTC
* * *
9989072 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAAGAAGAATTGACGGA
* * *
9989116 AAAGTCCAT-GTTCATAACATGGCATTTAAAGAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGAAATTAAAGAAGAATTGACGG
9989159 TTAAGGATAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 3 0.08
44 33 0.92
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAAGAAGAATTGACGGA
Found at i:9989371 original size:54 final size:57
Alignment explanation
Indices: 9989307--9989439 Score: 152
Period size: 54 Copynumber: 2.4 Consensus size: 57
9989297 AGATAATGAT
*
9989307 ATCATGTAAGACCATGCCAAGGCACA-G-CATTGATAAGTT-CTACAAGG-TAAGGAA
1 ATCATGTAAGACCATGCCAAGGCACATGACATTGATAAGTTACTACAAGGCAAAGG-A
* * * *
9989361 ATCATGTAAGACCATGTCAA-G-ACATGACATTGATGAGTTACTATAAGGCAAAGGT
1 ATCATGTAAGACCATGCCAAGGCACATGACATTGATAAGTTACTACAAGGCAAAGGA
**
9989416 CCCATGTAAGACCATGCCAAGGCA
1 ATCATGTAAGACCATGCCAAGGCA
9989440 TGGCATTGGT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
52 3 0.05
53 2 0.03
54 30 0.46
55 24 0.37
56 5 0.08
57 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (57 bp):
ATCATGTAAGACCATGCCAAGGCACATGACATTGATAAGTTACTACAAGGCAAAGGA
Found at i:9989430 original size:55 final size:54
Alignment explanation
Indices: 9989304--9989707 Score: 330
Period size: 55 Copynumber: 7.6 Consensus size: 54
9989294 CTAAGATAAT
* * * ** * * *
9989304 GATATCATGTAAGACCATGCCAAGGCACAGCATTGATAAGTTCTACAAGGTAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* * *
9989358 GAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAG
* * * * *
9989414 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGACAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
* * *** **
9989466 GATACTATGTAAGAGCATGTTTGGAACATGGCATT--TG-G-----TAAGATAAG
1 GATACCATGTAAGACCATGTCAAG-ACATGGCATTGATGAGTTCTATAAGGCAAG
* * * *
9989513 GATACCATGTAAAACCATGCCAACG-CATGGCATTAATAAGTTCTATAAGGCAAG
1 GATACCATGTAAGACCATGTCAA-GACATGGCATTGATGAGTTCTATAAGGCAAG
* *
9989567 GAAATCATGTAAGACCATGTCAAAGACATGGCATTGATGAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTT-CTATAAGGC-AAG
** * * * *
9989624 G-TGGCATTTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
*
9989676 GATACCACGTAAGACCATGTCAAGACATGGCA
1 GATACCATGTAAGACCATGTCAAGACATGGCA
9989708 ATGGTAAGTT
Statistics
Matches: 277, Mismatches: 55, Indels: 37
0.75 0.15 0.10
Matches are distributed among these distances:
46 9 0.03
47 24 0.09
48 2 0.01
49 1 0.00
51 1 0.00
52 10 0.04
53 52 0.19
54 71 0.26
55 76 0.27
56 27 0.10
57 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGCAAG
Found at i:9989533 original size:209 final size:210
Alignment explanation
Indices: 9989295--9989695 Score: 642
Period size: 210 Copynumber: 1.9 Consensus size: 210
9989285 GCATTAGCAC
* * * * * *
9989295 TAAGATAATGATATCATGTAAGACCATGCCAAGGCACAGCATTGATAAGTTCTACAAGGTAAGGA
1 TAAGATAAGGATACCATGTAAAACCATGCCAACGCACAGCATTAATAAGTTCTACAAGGCAAGGA
9989360 AATCATGTAAGACCATGTC-AAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCCCATGTA
66 AATCATGTAAGACCATGTCAAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCCCATGTA
* * *
9989424 AGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACTATGTAAGAGCATGTTTG
131 AGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACCACGTAAGACCATGTTTG
9989489 GAACATGGCATTTGG
196 GAACATGGCATTTGG
** *
9989504 TAAGATAAGGATACCATGTAAAACCATGCCAACGCATGGCATTAATAAGTTCTATAAGGCAAGGA
1 TAAGATAAGGATACCATGTAAAACCATGCCAACGCACAGCATTAATAAGTTCTACAAGGCAAGGA
* ** *
9989569 AATCATGTAAGACCATGTCAAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTGGCATTTA
66 AATCATGTAAGACCATGTCAAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCCCATGTA
*
9989634 AGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCATGT
131 AGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACCACGTAAGACCATGT
9989696 CAAGACATGG
Statistics
Matches: 174, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
209 75 0.43
210 99 0.57
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (210 bp):
TAAGATAAGGATACCATGTAAAACCATGCCAACGCACAGCATTAATAAGTTCTACAAGGCAAGGA
AATCATGTAAGACCATGTCAAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCCCATGTA
AGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGACAAGGATACCACGTAAGACCATGTTTG
GAACATGGCATTTGG
Found at i:10004527 original size:40 final size:40
Alignment explanation
Indices: 10004497--10004679 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
10004487 GCTACTCGTT
*
10004497 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
10004537 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
10004577 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
10004617 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
10004658 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
10004680 AGCATCATTC
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 111 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:10018155 original size:11 final size:11
Alignment explanation
Indices: 10018139--10018163 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10018129 ATTTCACATA
10018139 TATGGCAAGAT
1 TATGGCAAGAT
10018150 TATGGCAAGAT
1 TATGGCAAGAT
10018161 TAT
1 TAT
10018164 CAGTCCAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (11 bp):
TATGGCAAGAT
Found at i:10036078 original size:38 final size:38
Alignment explanation
Indices: 10036022--10036101 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
10036012 GATGTGTATT
* * *
10036022 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
10036060 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
10036098 CGGG
1 CGGG
10036102 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:10036261 original size:43 final size:43
Alignment explanation
Indices: 10036073--10036248 Score: 266
Period size: 43 Copynumber: 4.1 Consensus size: 43
10036063 GATAAATCCC
* * *
10036073 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
10036114 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
10036157 GCAGGCTTCGTGCCGGTGATGTGTATTCGAGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
10036200 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
10036243 GTAGGC
1 GCAGGC
10036249 ATAATGCTGG
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 15 0.12
42 2 0.02
43 107 0.86
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:10056804 original size:15 final size:17
Alignment explanation
Indices: 10056784--10056816 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
10056774 AAATGGTTAT
10056784 AAGATGTA-ATG-TTTG
1 AAGATGTATATGATTTG
10056799 AAGATGTATATGATTTG
1 AAGATGTATATGATTTG
10056816 A
1 A
10056817 GTTACAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (17 bp):
AAGATGTATATGATTTG
Found at i:10061961 original size:17 final size:17
Alignment explanation
Indices: 10061939--10061971 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10061929 CACTAACATT
*
10061939 AAAATGCAATGACAATA
1 AAAATGCAACGACAATA
10061956 AAAATGCAACGACAAT
1 AAAATGCAACGACAAT
10061972 GTTCGCTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAACGACAATA
Found at i:10071645 original size:48 final size:48
Alignment explanation
Indices: 10071574--10071804 Score: 235
Period size: 48 Copynumber: 4.9 Consensus size: 48
10071564 GGGATATGCA
*
10071574 TGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAATG
*
10071622 TGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATC-AATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAA-ATG
* * * * * *
10071670 AGA-CATCGTGTAAGACCATAG-CTGGG-C-T---ATCGGCTTCGATATG
1 TGATC-CCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGAAATG
* * *
10071713 CATGATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCTATATG
1 --TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAATG
* * *
10071763 TGATCCCATGTAAGACCATATTTGGGAAATGGCATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
10071805 CTACTATGTG
Statistics
Matches: 150, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
43 10 0.07
44 2 0.01
45 18 0.12
46 3 0.02
47 5 0.03
48 99 0.66
49 1 0.01
50 12 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAAATG
Found at i:10072872 original size:31 final size:31
Alignment explanation
Indices: 10072834--10072892 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
10072824 TGTCACTTGT
10072834 ACCCTAATTAATGCAAAACAGAATGCCCTGA
1 ACCCTAATTAATGCAAAACAGAATGCCCTGA
*
10072865 ACCCTAATTAATGCAAAATAGAATGCCC
1 ACCCTAATTAATGCAAAACAGAATGCCC
10072893 GATAGTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.20
Consensus pattern (31 bp):
ACCCTAATTAATGCAAAACAGAATGCCCTGA
Found at i:10074584 original size:93 final size:93
Alignment explanation
Indices: 10074471--10074734 Score: 474
Period size: 93 Copynumber: 2.8 Consensus size: 93
10074461 GCCCCTAAGT
* * *
10074471 GAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10074536 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
10074564 GAACTCGGACTCAACCCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
10074629 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
10074657 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10074722 CGAGTTCGGATGC
66 CGAGTTCGGATGC
10074735 TCAACCATCC
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:10074731 original size:46 final size:46
Alignment explanation
Indices: 10074466--10074731 Score: 278
Period size: 46 Copynumber: 5.7 Consensus size: 46
10074456 AACCCGCCCC
* * *
10074466 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCCTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
10074512 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * * *
10074560 TCA-CGAACTCGGACTCAACCCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
10074605 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCATCCA
* *
10074653 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
10074698 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10074732 TGCTCAACCA
Statistics
Matches: 181, Mismatches: 21, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 5 0.03
45 4 0.02
46 87 0.48
47 53 0.29
48 4 0.02
49 5 0.03
50 7 0.04
51 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:10085767 original size:38 final size:38
Alignment explanation
Indices: 10085725--10085853 Score: 188
Period size: 38 Copynumber: 3.4 Consensus size: 38
10085715 GCAAGCTATA
*
10085725 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGTTTCG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
10085763 TGCTGGTAA-TATATCCGGGTTAAATCCCACAGGCTTCG
1 TGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
10085801 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
10085839 TGCTGGTATTATATC
1 TGCTGGAATTATATC
10085854 TGAGTTTAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
37 1 0.01
38 80 0.96
39 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:10089319 original size:29 final size:29
Alignment explanation
Indices: 10089251--10089375 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
10089241 AAGTCTACAT
* *
10089251 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
10089279 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
10089308 ACATTCGCATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
10089337 ACATTCATACGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
10089366 ACATTCATAT
1 ACATTCATAT
10089376 ACATGCTTTC
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 21 0.24
29 65 0.76
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:10096400 original size:13 final size:13
Alignment explanation
Indices: 10096382--10096407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10096372 TATTGTGCTA
10096382 GAAAGAAGACTAG
1 GAAAGAAGACTAG
10096395 GAAAGAAGACTAG
1 GAAAGAAGACTAG
10096408 AAGTGCTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (13 bp):
GAAAGAAGACTAG
Found at i:10097815 original size:51 final size:49
Alignment explanation
Indices: 10097692--10097924 Score: 259
Period size: 49 Copynumber: 4.7 Consensus size: 49
10097682 TCTATTGTGA
* *
10097692 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * * *
10097741 GGTCGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * **
10097791 CGATCACGTGTGTAGAACTAAGTGCAGACTACTATGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
10097841 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
** * *
10097891 GGTTGCATGTGTAGTACTAAGTACAGGCTACTAT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTAT
10097925 ACCTACCAGA
Statistics
Matches: 150, Mismatches: 32, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 69 0.46
50 45 0.30
51 36 0.24
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:10101200 original size:40 final size:39
Alignment explanation
Indices: 10101102--10101364 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
10101092 TCCTCGTTCA
* * * *
10101102 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
10101141 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10101180 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10101220 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
10101260 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
10101300 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
10101341 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10101365 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:10101324 original size:120 final size:119
Alignment explanation
Indices: 10101102--10101364 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
10101092 TCCTCGTTCA
* * *
10101102 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
10101167 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
10101220 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
10101285 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
10101341 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
10101365 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:10101373 original size:41 final size:41
Alignment explanation
Indices: 10101296--10101373 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10101286 TTTGTATCTC
* * *
10101296 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10101337 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10101374 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10109150 original size:40 final size:39
Alignment explanation
Indices: 10109052--10109314 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
10109042 TCCTCGTTCA
* * * *
10109052 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
10109091 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10109130 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
10109170 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
10109210 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
10109250 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
10109291 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
10109315 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:10109274 original size:120 final size:119
Alignment explanation
Indices: 10109052--10109314 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
10109042 TCCTCGTTCA
* * *
10109052 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
10109117 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
10109170 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
10109235 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
10109291 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
10109315 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:10109323 original size:41 final size:41
Alignment explanation
Indices: 10109246--10109323 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
10109236 TTTGTATCTC
* * *
10109246 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
10109287 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
10109324 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:10111846 original size:38 final size:38
Alignment explanation
Indices: 10111801--10111878 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
10111791 ATGAATTTTA
*
10111801 AAGTATGTTTCAATATTTTTACTTAAGTGTGCTTAAAT
1 AAGTATGTTTCAATATTTTTACTTAAGTATGCTTAAAT
10111839 AAGTATGTTTCAATATTTTTACTTAAGTATGCTTAAAT
1 AAGTATGTTTCAATATTTTTACTTAAGTATGCTTAAAT
10111877 AA
1 AA
10111879 ATTATTGTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.46
Consensus pattern (38 bp):
AAGTATGTTTCAATATTTTTACTTAAGTATGCTTAAAT
Found at i:10115938 original size:21 final size:20
Alignment explanation
Indices: 10115898--10115937 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10115888 TTGTCGCATA
10115898 AATTGTAAAAGTGACCTTTT
1 AATTGTAAAAGTGACCTTTT
* *
10115918 AATTGTTAAAGTGGCCTTTT
1 AATTGTAAAAGTGACCTTTT
10115938 TGTTATGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (20 bp):
AATTGTAAAAGTGACCTTTT
Found at i:10117066 original size:86 final size:85
Alignment explanation
Indices: 10116961--10117120 Score: 241
Period size: 86 Copynumber: 1.9 Consensus size: 85
10116951 ACATGTGTTA
* * * *
10116961 TCATGTAAGACCATGTCTGGGACATTGGGATCGACT-TATGATTTACATGTAAGACCGCGTCTGG
1 TCATGTAAGACCATGTCTGGGACAGTGGCATCGA-TATATGA-TTACATGTAAGACCACGTCGGG
10117025 GACATTGGCATCGTACTTGATT
64 GACATTGGCATCGTACTTGATT
* *
10117047 TCATGTAAGACCATGTCTGGGACAGTGGCATTGATATTTGATTACATGTAAGACCACGTCGGGGA
1 TCATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTACATGTAAGACCACGTCGGGGA
10117112 CATTGGCAT
66 CATTGGCAT
10117121 TGTAGAGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 32 0.48
86 35 0.52
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (85 bp):
TCATGTAAGACCATGTCTGGGACAGTGGCATCGATATATGATTACATGTAAGACCACGTCGGGGA
CATTGGCATCGTACTTGATT
Found at i:10117088 original size:43 final size:43
Alignment explanation
Indices: 10116961--10117120 Score: 198
Period size: 43 Copynumber: 3.7 Consensus size: 43
10116951 ACATGTGTTA
* * *
10116961 TCATGTAAGACCATGTCTGGGACATTGGGATCGACT-TATGATT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATT
* *
10117004 TACATGTAAGACCGCGTCTGGGACATTGGCATCG-TACTTGATT
1 T-CATGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
* * *
10117047 TCATGTAAGACCATGTCTGGGACAGTGGCATTGATATTTGATT
1 TCATGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
* *
10117090 ACATGTAAGACCACGTCGGGGACATTGGCAT
1 TCATGTAAGACCACGTCTGGGACATTGGCAT
10117121 TGTAGAGCTT
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 29 0.29
43 42 0.42
44 29 0.29
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
TCATGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATT
Found at i:10124655 original size:42 final size:43
Alignment explanation
Indices: 10124596--10124708 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
10124586 TGTGTTATCG
*
10124596 TGTAAGACCAC-GTCTGGGATGTTGGCATC-AAACTTGATTTCA
1 TGTAAGACC-CTGTCTGGGATGTTGGCATCGAAACTTGATTACA
* *
10124638 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGAT-GTTGGCATCGAAACTTGATTACA
* * * *
10124681 TGTAAAACCATGTCGGGGACGTTGGCAT
1 TGTAAGACCCTGTCTGGGATGTTGGCAT
10124709 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 33 0.55
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGATGTTGGCATCGAAACTTGATTACA
Found at i:10126151 original size:42 final size:43
Alignment explanation
Indices: 10126092--10126204 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
10126082 TGTGTTATCG
*
10126092 TGTAAGACCAC-GTCTGGGATGTTGGCATC-AAACTTGATTTCA
1 TGTAAGACC-CTGTCTGGGATGTTGGCATCGAAACTTGATTACA
* *
10126134 TGTAAGACCCTGTCTGGGATAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGAT-GTTGGCATCGAAACTTGATTACA
* * *
10126177 TGTAAGACCATGTCGGGGACGTTGGCAT
1 TGTAAGACCCTGTCTGGGATGTTGGCAT
10126205 TGTACGAGCT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
41 1 0.02
42 26 0.43
43 34 0.56
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGATGTTGGCATCGAAACTTGATTACA
Found at i:10128578 original size:21 final size:22
Alignment explanation
Indices: 10128530--10128583 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
10128520 TACAGGGCTC
10128530 ACACGCCCGTGTGATCCAAGGG
1 ACACGCCCGTGTGATCCAAGGG
* * *
10128552 ACACGCCTGTGTGA-CCCAGGT
1 ACACGCCCGTGTGATCCAAGGG
10128573 ACACGCCCGTG
1 ACACGCCCGTG
10128584 CTATAGGTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTGATCCAAGGG
Found at i:10134257 original size:27 final size:27
Alignment explanation
Indices: 10134182--10134260 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
10134172 CCTCGCTGCA
10134182 ATCTGGTGGCCTCGCCACATATATCTAT
1 ATCTGGTGGCCTCGCCACA-ATATCTAT
* *
10134210 -TCTGGTGGCCTAGCCAGAATATCTAT
1 ATCTGGTGGCCTCGCCACAATATCTAT
* * *
10134236 ATCTGGTGACTTCGTCACAATATCT
1 ATCTGGTGGCCTCGCCACAATATCT
10134261 GGCAGCTTCG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.19
27 35 0.81
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (27 bp):
ATCTGGTGGCCTCGCCACAATATCTAT
Found at i:10141686 original size:27 final size:26
Alignment explanation
Indices: 10141625--10141707 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 26
10141615 CTCGCTGTAA
*
10141625 TCTGGTGGCTTCGCCACATATATATACCTGT
1 TCTGGTGACTTCGCCAC--A-ATAT--CTGT
*
10141656 TCTGGTGGCCTT-GCCACAATATCTGT
1 TCTGGT-GACTTCGCCACAATATCTGT
*
10141682 ATCTGGTGACTTCGTCACAATATCTG
1 -TCTGGTGACTTCGCCACAATATCTG
10141708 GCAGCTTCAC
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 8 0.17
27 18 0.39
28 4 0.09
29 1 0.02
31 11 0.24
32 4 0.09
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:10143980 original size:30 final size:30
Alignment explanation
Indices: 10143946--10144002 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
10143936 ATGGCTGTGG
* *
10143946 GGCTAAGCTGTGTGACTCACACGGCCATGT
1 GGCTAAGCTATGTGACTCACACAGCCATGT
*
10143976 GGCTAGGCTATGTGACTCACACAGCCA
1 GGCTAAGCTATGTGACTCACACAGCCA
10144003 AGAAACACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (30 bp):
GGCTAAGCTATGTGACTCACACAGCCATGT
Found at i:10146394 original size:23 final size:23
Alignment explanation
Indices: 10146362--10146405 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
10146352 AGCTTACTAT
10146362 TTTCAACTC-ATCAGAGCTTACCG
1 TTTCAACTCAAT-AGAGCTTACCG
*
10146385 TTTCAGCTCAATAGAGCTTAC
1 TTTCAACTCAATAGAGCTTAC
10146406 TGTCCATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (23 bp):
TTTCAACTCAATAGAGCTTACCG
Found at i:10146574 original size:20 final size:20
Alignment explanation
Indices: 10146551--10146593 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10146541 ATAAATACTA
10146551 TTTATATAGATGAAATATTG
1 TTTATATAGATGAAATATTG
* **
10146571 TTTATATGGATGAGCTATTG
1 TTTATATAGATGAAATATTG
10146591 TTT
1 TTT
10146594 GCAAATGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (20 bp):
TTTATATAGATGAAATATTG
Found at i:10148355 original size:12 final size:12
Alignment explanation
Indices: 10148338--10148362 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10148328 TCAACACTTA
10148338 TCTCTCATTCAT
1 TCTCTCATTCAT
10148350 TCTCTCATTCAT
1 TCTCTCATTCAT
10148362 T
1 T
10148363 ATTCTCTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (12 bp):
TCTCTCATTCAT
Found at i:10149470 original size:19 final size:18
Alignment explanation
Indices: 10149446--10149513 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
10149436 AAAAAAAACT
10149446 TTTTAATATTTTTAAATAA
1 TTTTAATATTTTT-AATAA
*
10149465 TTTTAA-AATTTTAATAA
1 TTTTAATATTTTTAATAA
* *
10149482 CTTATTACT-TTTTT-ACAA
1 -TT-TTAATATTTTTAATAA
10149500 TTTTAATATTTTTA
1 TTTTAATATTTTTA
10149514 TAAGTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 4 0.10
17 12 0.31
18 10 0.26
19 13 0.33
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAATATTTTTAATAA
Found at i:10149892 original size:19 final size:19
Alignment explanation
Indices: 10149868--10149912 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
10149858 TTCTAACATT
10149868 CCATCTTTAGAAAAGAGAG
1 CCATCTTTAGAAAAGAGAG
10149887 CCATCTTTAGAAAAGAGAG
1 CCATCTTTAGAAAAGAGAG
*
10149906 TCATCTT
1 CCATCTT
10149913 CTTTAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (19 bp):
CCATCTTTAGAAAAGAGAG
Found at i:10153405 original size:20 final size:20
Alignment explanation
Indices: 10153377--10153526 Score: 210
Period size: 20 Copynumber: 7.5 Consensus size: 20
10153367 ATGAGTGGCA
*
10153377 GCACGAAGCCATCAATAGCG
1 GCACAAAGCCATCAATAGCG
* **
10153397 GTACAAAGCCATCAATAATG
1 GCACAAAGCCATCAATAGCG
*
10153417 GCAAAAAGCCATCAATAGCG
1 GCACAAAGCCATCAATAGCG
*
10153437 GCACAAAGCCATCAGTAGCG
1 GCACAAAGCCATCAATAGCG
*
10153457 GCACAAAGCCATCAATAGGG
1 GCACAAAGCCATCAATAGCG
* *
10153477 GCACAAAGCCATCGATAGTG
1 GCACAAAGCCATCAATAGCG
*
10153497 GCACAAAGCCATCGATAGCG
1 GCACAAAGCCATCAATAGCG
10153517 GCACAAAGCC
1 GCACAAAGCC
10153527 TTAAATATCA
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 115 1.00
ACGTcount: A:0.39, C:0.27, G:0.23, T:0.11
Consensus pattern (20 bp):
GCACAAAGCCATCAATAGCG
Found at i:10157790 original size:40 final size:40
Alignment explanation
Indices: 10157740--10157834 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
10157730 ATCTTGGTAT
*
10157740 CGCACACTTAGTGCC-TCATATAGCCGAAGCTATTCC-AAC
1 CGCACACTTAGTGCCAT-ATATAGCCAAAGCTATTCCAAAC
* * *
10157779 ACGCACACTTAGTGCCATTTGTAGCCAAAGCTATTTCAAAC
1 -CGCACACTTAGTGCCATATATAGCCAAAGCTATTCCAAAC
10157820 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
10157835 GAACATAGTC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.92
41 4 0.08
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (40 bp):
CGCACACTTAGTGCCATATATAGCCAAAGCTATTCCAAAC
Found at i:10160019 original size:25 final size:25
Alignment explanation
Indices: 10159985--10160036 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
10159975 ACTGACTGCT
*
10159985 ATGAGTTTCATTGAAAATTATATGA
1 ATGAGTTTCATTGAAAATCATATGA
* *
10160010 ATGAGTTTCATTTAAAATCATCTGA
1 ATGAGTTTCATTGAAAATCATATGA
10160035 AT
1 AT
10160037 CAACTCTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (25 bp):
ATGAGTTTCATTGAAAATCATATGA
Found at i:10164014 original size:40 final size:40
Alignment explanation
Indices: 10163970--10164231 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
10163960 GCTCCTCGTT
* *
10163970 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
10164010 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
10164050 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
10164089 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
10164128 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
10164167 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
10164208 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
10164232 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:10167185 original size:43 final size:42
Alignment explanation
Indices: 10167138--10167224 Score: 97
Period size: 43 Copynumber: 2.0 Consensus size: 42
10167128 TGTGTCTAGC
*
10167138 CTGTGTACCCTTCGAAATGGCCA-CA-CACGCCCATATATCAAGG
1 CTGTGT-CCC-TC-AAATGGCCACCAGCACGCCAATATATCAAGG
* *
10167181 CTGTGTGCCTCACATGGCCACCAGGCACGCCAATATATCAAGG
1 CTGTGTCCCTCAAATGGCCACCA-GCACGCCAATATATCAAGG
10167224 C
1 C
10167225 CATGTGCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
40 8 0.21
41 4 0.11
42 2 0.05
43 24 0.63
ACGTcount: A:0.26, C:0.33, G:0.21, T:0.20
Consensus pattern (42 bp):
CTGTGTCCCTCAAATGGCCACCAGCACGCCAATATATCAAGG
Found at i:10167426 original size:250 final size:249
Alignment explanation
Indices: 10166972--10167461 Score: 838
Period size: 250 Copynumber: 2.0 Consensus size: 249
10166962 CCGTGTGAAC
* * *
10166972 AGGCCGTGTGCCTCACACGGCTTTAGACACGCCCGCGTGTCTAAACCATGACAAAATAGAGCATT
1 AGGCCATGTGCCTAACACGGCTTTAGACACGCCCGCGTGTCTAAACCATGACAAAACAGAGCATT
* *
10167037 CATACTAACTTAACCACACGGCCACAAGACACGCCGTGTGCCTTGGCCATGGTAAAAACTAACTT
66 CATACTAAATTAACCACACGGCCACAAGACACGCCGTGTACCTTGGCCATGGTAAAAACTAACTT
* * * *
10167102 GGGTTACACGACTGACTACACGCCCGTGTGTCTAGCCTGTGTACCCTTCGAAATGGCCACACACG
131 GGGTCACACGACTAACTACACGCCCGTGTGTCTAGCCCGTGTACCCTTCAAAATGGCCACACACG
*
10167167 CCCATATATCAAGGCTGTGTGCCTCACATGG-CCACCAGGCACGCCAATATATCA
196 CCCATATATCAAGGCTGTGTGCCTCACA-GGACCACCAGACACGCCAATATATCA
10167221 AGGCCATGTGCCTAACACGGCTTTAGACACGCCCGCGTGTCTAAACCATGACAAAACAGAGCATT
1 AGGCCATGTGCCTAACACGGCTTTAGACACGCCCGCGTGTCTAAACCATGACAAAACAGAGCATT
* * *
10167286 CATACTAAATTAACCACACGGCCATAAGACACGCCTGTGTACCTTGGCCGTGGTCAAAACTAACT
66 CATACTAAATTAACCACACGGCCACAAGACACGCC-GTGTACCTTGGCCATGGTAAAAACTAACT
10167351 TGGGTCACACGACTAACTACACGCCCGTGTGTCTAGCCCGTGTACCCTTCAAAATGGCCACACAC
130 TGGGTCACACGACTAACTACACGCCCGTGTGTCTAGCCCGTGTACCCTTCAAAATGGCCACACAC
10167416 GCCCATATATCAAGGCTGTGTGCCTCACAGGACCACCAGACACGCC
195 GCCCATATATCAAGGCTGTGTGCCTCACAGGACCACCAGACACGCC
10167462 CAGGTGTCTA
Statistics
Matches: 226, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
249 97 0.43
250 129 0.57
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (249 bp):
AGGCCATGTGCCTAACACGGCTTTAGACACGCCCGCGTGTCTAAACCATGACAAAACAGAGCATT
CATACTAAATTAACCACACGGCCACAAGACACGCCGTGTACCTTGGCCATGGTAAAAACTAACTT
GGGTCACACGACTAACTACACGCCCGTGTGTCTAGCCCGTGTACCCTTCAAAATGGCCACACACG
CCCATATATCAAGGCTGTGTGCCTCACAGGACCACCAGACACGCCAATATATCA
Found at i:10168455 original size:62 final size:62
Alignment explanation
Indices: 10168358--10168540 Score: 366
Period size: 62 Copynumber: 3.0 Consensus size: 62
10168348 TTGGGAGTCT
10168358 TTCCATGCTTTAAGAATTCGCACACTTAGTGATCAGTGAATTGCCGAATCCGTAACAATCTC
1 TTCCATGCTTTAAGAATTCGCACACTTAGTGATCAGTGAATTGCCGAATCCGTAACAATCTC
10168420 TTCCATGCTTTAAGAATTCGCACACTTAGTGATCAGTGAATTGCCGAATCCGTAACAATCTC
1 TTCCATGCTTTAAGAATTCGCACACTTAGTGATCAGTGAATTGCCGAATCCGTAACAATCTC
10168482 TTCCATGCTTTAAGAATTCGCACACTTAGTGATCAGTGAATTGCCGAATCCGTAACAAT
1 TTCCATGCTTTAAGAATTCGCACACTTAGTGATCAGTGAATTGCCGAATCCGTAACAAT
10168541 GTCACACACT
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 121 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (62 bp):
TTCCATGCTTTAAGAATTCGCACACTTAGTGATCAGTGAATTGCCGAATCCGTAACAATCTC
Found at i:10170967 original size:22 final size:22
Alignment explanation
Indices: 10170939--10170980 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10170929 ACTCCTCCCT
10170939 CCTTAAT-TTCCTCACCAAAATC
1 CCTTAATCTTCCTC-CCAAAATC
*
10170961 CCTTAATCTTCTTCCCAAAA
1 CCTTAATCTTCCTCCCAAAA
10170981 CCGTCCACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (22 bp):
CCTTAATCTTCCTCCCAAAATC
Found at i:10185119 original size:27 final size:27
Alignment explanation
Indices: 10185088--10185265 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10185078 TAAATTGTAC
10185088 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
10185115 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10185141 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
10185169 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
10185197 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
10185224 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
10185251 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
10185266 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:10185202 original size:82 final size:81
Alignment explanation
Indices: 10185089--10185244 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10185079 AAATTGTACA
* *
10185089 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
10185153 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
10185170 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
10185235 TGCGAGTTGA
65 TGCGAATTGA
10185245 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Done.