Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 27 of 297
Found at i:9324938 original size:20 final size:21
Alignment explanation
Indices: 9324913--9324951 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9324903 TCCTTAAAAC
9324913 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
9324933 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
9324952 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:9326137 original size:47 final size:47
Alignment explanation
Indices: 9326066--9326328 Score: 225
Period size: 47 Copynumber: 5.6 Consensus size: 47
9326056 GTAAGGTGCT
*
9326066 GATGCCATGTCCCAGACATAGTCTTACACTGGCTCAT-ATCTC-AAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCT-ATCATCTCGAAGCC
* * *
9326113 GATGCCATGTCCTAGACATGGTCTTACACTGACTATCATCTCGTAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
* * *
9326161 GGTG-CATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTCGAAGCC
* * * * * **
9326207 GATG-CATGTCCTAGACATGTCTTACACTAGCTTTCGTCT-TAATGTT
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAA-GCC
* * * ** ** *
9326253 GATGCCTTGTCCCAGACATGGTCTTACATTGGCTCTCATAACGTGGCT
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCGAAGCC
9326301 GATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
9326329 AGCCAAATAA
Statistics
Matches: 176, Mismatches: 32, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 72 0.41
47 75 0.43
48 27 0.15
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAAGCC
Found at i:9342952 original size:15 final size:15
Alignment explanation
Indices: 9342932--9342962 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9342922 ATAAGCTCAA
9342932 AAAATTTACTATCAT
1 AAAATTTACTATCAT
9342947 AAAATTTACTATCAT
1 AAAATTTACTATCAT
9342962 A
1 A
9342963 TCCAAAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAATTTACTATCAT
Found at i:9345297 original size:18 final size:21
Alignment explanation
Indices: 9345274--9345314 Score: 61
Period size: 18 Copynumber: 2.1 Consensus size: 21
9345264 AACAACATAC
9345274 AATAAT-GTTG-ACAAAT-AT
1 AATAATAGTTGAACAAATCAT
9345292 AATAATAGTTGAACAAATCAT
1 AATAATAGTTGAACAAATCAT
9345313 AA
1 AA
9345315 ACCATAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 4 0.20
20 6 0.30
21 4 0.20
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (21 bp):
AATAATAGTTGAACAAATCAT
Found at i:9345309 original size:20 final size:19
Alignment explanation
Indices: 9345264--9345314 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
9345254 TTTATCCCAA
*
9345264 AACAACATACAATAATGTTG
1 AACAA-ATATAATAATGTTG
9345284 -ACAAATATAATAATAGTTG
1 AACAAATATAATAAT-GTTG
9345303 AACAAATCATAA
1 AACAAAT-ATAA
9345315 ACCATAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.33
19 8 0.30
20 6 0.22
21 4 0.15
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (19 bp):
AACAAATATAATAATGTTG
Found at i:9346777 original size:19 final size:19
Alignment explanation
Indices: 9346753--9346792 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9346743 ACTTACATAA
*
9346753 AATAATTATAAAAGAAGCC
1 AATAATTATAAAAGAAACC
9346772 AATAATTATAAAAGAAACC
1 AATAATTATAAAAGAAACC
9346791 AA
1 AA
9346793 AAGTAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (19 bp):
AATAATTATAAAAGAAACC
Found at i:9347337 original size:27 final size:24
Alignment explanation
Indices: 9347271--9347338 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 24
9347261 CATAATATAT
*
9347271 AATT-AAAAT-ATCAAATCCATAA
1 AATTAAAAATAATCAAATCAATAA
* *
9347293 AATTAAAAA-AAACGAATCAATCCAA
1 AATTAAAAATAATCAAATCAAT--AA
9347318 AATTAATAAATAATCAAATCA
1 AATTAA-AAATAATCAAATCA
9347339 TTCTCAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 4 0.11
23 12 0.34
25 8 0.23
26 3 0.09
27 8 0.23
ACGTcount: A:0.62, C:0.13, G:0.01, T:0.24
Consensus pattern (24 bp):
AATTAAAAATAATCAAATCAATAA
Found at i:9349550 original size:46 final size:46
Alignment explanation
Indices: 9349483--9349574 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
9349473 CTGTTATTTT
9349483 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
* *
9349529 CTTATTCGTTATTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
1 CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
9349575 GAATATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (46 bp):
CTTATTCATTACTTAATCGAGTCGAAATCCTAACAATGGGGTTCAA
Found at i:9352761 original size:2 final size:2
Alignment explanation
Indices: 9352754--9352792 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
9352744 ATATGACAAT
*
9352754 GA GA GA GA GA GA GA GA GA GA GA GA GA GT GA GA G- GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9352793 AGAACAGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.51, T:0.03
Consensus pattern (2 bp):
GA
Found at i:9354788 original size:21 final size:22
Alignment explanation
Indices: 9354762--9354808 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9354752 CTCTGCTCAA
*
9354762 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
9354783 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
9354805 ACTC
1 ACTC
9354809 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:9359337 original size:31 final size:31
Alignment explanation
Indices: 9359299--9359364 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
9359289 GAACTCTTTG
9359299 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
9359330 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
1 GAAAAGTTATTATGGAAGTAAAAGAATGGGT
9359361 GAAA
1 GAAA
9359365 TGGAAGTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (31 bp):
GAAAAGTTATTATGGAAGTAAAAGAATGGGT
Found at i:9366811 original size:62 final size:63
Alignment explanation
Indices: 9366734--9366861 Score: 204
Period size: 63 Copynumber: 2.0 Consensus size: 63
9366724 ATCACCAGCG
* * * *
9366734 TTTAGAAGAGAAAAATAAAAGAAACAAGT-GACAAATACTATTCCTAGACAACTTGGCTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACAACTCGACTTGAA
*
9366796 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACATCTCGACTTGAA
1 TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACAACTCGACTTGAA
9366859 TTT
1 TTT
9366862 GTCTATTCCT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
62 28 0.47
63 32 0.53
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (63 bp):
TTTAGAAAAGAAAAATAAAAGAAACAAGTGGAAAAATACTATTCCTAGACAACTCGACTTGAA
Found at i:9370262 original size:22 final size:22
Alignment explanation
Indices: 9370236--9370280 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9370226 ATTATGTGTA
9370236 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
9370258 TTAATTTTCATATAATTTAATT
1 TTAATTATAATATAATTTAATT
9370280 T
1 T
9370281 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:9372064 original size:21 final size:21
Alignment explanation
Indices: 9372040--9372084 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
9372030 CGAAGATATG
9372040 AATTTTGAAAATCCAAACCAA
1 AATTTTGAAAATCCAAACCAA
*
9372061 AATTTTGAAAATCTAAACCAA
1 AATTTTGAAAATCCAAACCAA
9372082 AAT
1 AAT
9372085 CTAGAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (21 bp):
AATTTTGAAAATCCAAACCAA
Found at i:9373899 original size:30 final size:30
Alignment explanation
Indices: 9373863--9373920 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9373853 CTTTACGAGC
* *
9373863 TTAGGGGCAAAAGTGTAATTTTGACAAAGT
1 TTAGGGGCAAAAATATAATTTTGACAAAGT
* *
9373893 TTAGGGGTAAAAATATAATTTTGCCAAA
1 TTAGGGGCAAAAATATAATTTTGACAAA
9373921 ATGTGATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (30 bp):
TTAGGGGCAAAAATATAATTTTGACAAAGT
Found at i:9375641 original size:93 final size:93
Alignment explanation
Indices: 9375534--9375704 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
9375524 GCCCCTAAGT
* *
9375534 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9375599 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
9375627 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
9375692 CGAGTTCGGATGC
66 CGAGTTCGGATGC
9375705 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:9375701 original size:46 final size:46
Alignment explanation
Indices: 9375529--9375701 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
9375519 AACCCGCCCC
* * * *
9375529 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
9375575 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
9375623 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
9375668 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
9375702 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 61 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:9376158 original size:30 final size:30
Alignment explanation
Indices: 9376124--9376183 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9376114 ATTTAATACG
9376124 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
9376154 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
9376184 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:9388151 original size:40 final size:40
Alignment explanation
Indices: 9388096--9388231 Score: 177
Period size: 40 Copynumber: 3.4 Consensus size: 40
9388086 NNNNNNNNNN
*
9388096 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTC
* * *
9388136 GGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTC
* *
9388176 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA-TC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATTC
* *
9388215 CGGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
9388232 TACTTGGGTT
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 15 0.18
40 66 0.80
41 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATTC
Found at i:9397986 original size:16 final size:16
Alignment explanation
Indices: 9397965--9397996 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9397955 TTAATGTTTA
*
9397965 AATTAACAATTTTAAT
1 AATTAAAAATTTTAAT
9397981 AATTAAAAATTTTAAT
1 AATTAAAAATTTTAAT
9397997 TAATGTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTAAAAATTTTAAT
Found at i:9414140 original size:77 final size:77
Alignment explanation
Indices: 9413944--9414131 Score: 360
Period size: 77 Copynumber: 2.5 Consensus size: 77
9413934 AATGTTTTAA
*
9413944 AAATT-AAAGCTTTTTTATATTTTCAATAAAAAATTGTGAAAAAATTACAAATGCAACCAAGGAT
1 AAATTAAAAGCTTTTTCATATTTTCAATAAAAAATTGTGAAAAAATTACAAATGCAACCAAGGAT
9414008 CTTCTTTTGAAT
66 CTTCTTTTGAAT
9414020 AAATTAAAAGCTTTTTCATATTTTCAATAAAAAATTGTGAAAAAATTACAAATGCAACCAAGGAT
1 AAATTAAAAGCTTTTTCATATTTTCAATAAAAAATTGTGAAAAAATTACAAATGCAACCAAGGAT
9414085 CTTCTTTTGAAT
66 CTTCTTTTGAAT
9414097 AAATTAAAAGCTTTTTCATATTTTCAATAAAAAAT
1 AAATTAAAAGCTTTTTCATATTTTCAATAAAAAAT
9414132 ATAAAAAAAT
Statistics
Matches: 110, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
76 5 0.05
77 105 0.95
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (77 bp):
AAATTAAAAGCTTTTTCATATTTTCAATAAAAAATTGTGAAAAAATTACAAATGCAACCAAGGAT
CTTCTTTTGAAT
Found at i:9415171 original size:17 final size:17
Alignment explanation
Indices: 9415149--9415181 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9415139 AATGAGAATG
9415149 TATAATAATCACATCTC
1 TATAATAATCACATCTC
9415166 TATAATAATCACATCT
1 TATAATAATCACATCT
9415182 TTCAATAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (17 bp):
TATAATAATCACATCTC
Found at i:9416740 original size:21 final size:21
Alignment explanation
Indices: 9416715--9416769 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
9416705 ACCATTGTTT
9416715 TTAATCTCACCGCTACAGT-A
1 TTAATCTCACCGCTACAGTAA
* * *
9416735 TCTAATCTCACTGTTATAGTAA
1 T-TAATCTCACCGCTACAGTAA
9416757 TTAATCTCACCGC
1 TTAATCTCACCGC
9416770 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 1 0.04
21 25 0.89
22 2 0.07
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (21 bp):
TTAATCTCACCGCTACAGTAA
Found at i:9417258 original size:16 final size:17
Alignment explanation
Indices: 9417237--9417269 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9417227 GAGTAATTAG
*
9417237 GTAT-AAGGATTAAATT
1 GTATAAAGGATGAAATT
9417253 GTATAAAGGATGAAATT
1 GTATAAAGGATGAAATT
9417270 TGAATTATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (17 bp):
GTATAAAGGATGAAATT
Found at i:9418656 original size:30 final size:28
Alignment explanation
Indices: 9418583--9418657 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
9418573 ATAATTATAA
*
9418583 ATAAAA-ATACATGTATATATATAGATT
1 ATAAAATATATATGTATATATATAGATT
*
9418610 ATAAAATATATGTATGTATATATATATGTGTT
1 ATAAAATATA--TATGTATATATATA-G-ATT
*
9418642 TTAAAATATATATGTA
1 ATAAAATATATATGTA
9418658 AAAAAAATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 6 0.15
28 3 0.08
30 19 0.47
31 1 0.03
32 11 0.28
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.43
Consensus pattern (28 bp):
ATAAAATATATATGTATATATATAGATT
Found at i:9420883 original size:41 final size:39
Alignment explanation
Indices: 9420838--9420973 Score: 109
Period size: 40 Copynumber: 3.5 Consensus size: 39
9420828 CGACTTCGAG
*
9420838 TCGATGAGAAACTAGGTGTCAATTTACTACTTCGGATTAA
1 TCGATGAGACACTAGGTGTCAATTTA-TACTTCGGATTAA
* *
9420878 TTCGATGAGGCACT-GTGTGTCAA-TT-TACTTCGGTTTAA
1 -TCGATGAGACACTAG-GTGTCAATTTATACTTCGGATTAA
* * * * *
9420916 CCGATGAGACACAAGGTGTGAATTTATTACTTTGAATT-A
1 TCGATGAGACACTAGGTGTCAATTTA-TACTTCGGATTAA
* *
9420955 TCCGATGAGGCACTGGGTG
1 T-CGATGAGACACTAGGTG
9420974 CCAAACTAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
37 16 0.21
38 15 0.20
39 1 0.01
40 25 0.33
41 18 0.24
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (39 bp):
TCGATGAGACACTAGGTGTCAATTTATACTTCGGATTAA
Found at i:9424769 original size:43 final size:44
Alignment explanation
Indices: 9424722--9424806 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
9424712 TAATTACATA
*
9424722 TCGATGCC-ACTGTCCCAGACAG-GGTCTTACACG-TAAACACAAG
1 TCGATGCCAAC-GTCCCAGA-AGTGGTCTTACACGAAAAACACAAG
*
9424765 TCGATGCCAACGTCCCAGATGTGGTCTTACACGAAAAACACA
1 TCGATGCCAACGTCCCAGAAGTGGTCTTACACGAAAAACACA
9424807 TATCAGAGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
42 1 0.03
43 27 0.73
44 9 0.24
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (44 bp):
TCGATGCCAACGTCCCAGAAGTGGTCTTACACGAAAAACACAAG
Found at i:9425724 original size:25 final size:25
Alignment explanation
Indices: 9425696--9425743 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
9425686 TTATTTGTTT
9425696 TATTATAA-CATTATAATATAATATA
1 TATTATAACCATTATAA-ATAATATA
*
9425721 TATTATAACCTTTATAAATAATA
1 TATTATAACCATTATAAATAATA
9425744 AAAAACTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTATAACCATTATAAATAATATA
Found at i:9428559 original size:19 final size:21
Alignment explanation
Indices: 9428525--9428572 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
9428515 TACATAATTT
9428525 TTTTAAATTATTATCAATATG
1 TTTTAAATTATTATCAATATG
*
9428546 TTTTAAA-T-TTATCAATATTA
1 TTTTAAATTATTATCAATA-TG
9428566 TTTTAAA
1 TTTTAAA
9428573 AATATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTAAATTATTATCAATATG
Found at i:9430357 original size:33 final size:33
Alignment explanation
Indices: 9430320--9430462 Score: 106
Period size: 33 Copynumber: 4.3 Consensus size: 33
9430310 TGGTCTAACC
*
9430320 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
** * * *
9430353 ATGGTCTTACCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
* * * * *** * *
9430386 ATGGTCTAACATATAAATATTGCCATGGTCCAACC
1 ATGGTCTTACGT-T-CATAGTGCCATAACCCAGCT
* * *
9430421 ATTGTCTTACGTTCATAGTGCCATAACCCGGTT
1 ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
9430454 ATGGTCTTA
1 ATGGTCTTA
9430463 TCCGTCAATT
Statistics
Matches: 79, Mismatches: 29, Indels: 4
0.71 0.26 0.04
Matches are distributed among these distances:
33 55 0.70
34 2 0.03
35 22 0.28
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (33 bp):
ATGGTCTTACGTTCATAGTGCCATAACCCAGCT
Found at i:9430442 original size:101 final size:100
Alignment explanation
Indices: 9430236--9430462 Score: 364
Period size: 101 Copynumber: 2.3 Consensus size: 100
9430226 TTACATTAGA
* * *
9430236 AGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCAGATATGTTCTTACATATAA
1 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCAGATATGGTCTAACATATAA
*
9430301 ACACTGCCATGGTCTAACCATGGTCTTACGTTCAT
66 ACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
*
9430336 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCCAGCTATGGTCTAACATATA
1 AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAG-CCAGATATGGTCTAACATATA
* * *
9430401 AATATTGCCATGGTCCAACCATTGTCTTACGTTCAT
65 AACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
*
9430437 AGTGCCATAACCCGGTTATGGTCTTA
1 AGTGCCATAACCCAGTTATGGTCTTA
9430463 TCCGTCAATT
Statistics
Matches: 117, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 42 0.36
101 75 0.64
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (100 bp):
AGTGCCATAACCCAGTTATGGTCTTACCATCAGAATGCCATAGCCAGATATGGTCTAACATATAA
ACACTGCCATGGTCCAACCATGGTCTTACGTTCAT
Found at i:9433981 original size:17 final size:17
Alignment explanation
Indices: 9433961--9433993 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9433951 AATATATATC
9433961 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
9433978 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
9433994 AAAAACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:9448417 original size:45 final size:45
Alignment explanation
Indices: 9448315--9448602 Score: 259
Period size: 45 Copynumber: 6.5 Consensus size: 45
9448305 AGCAGGTTGA
***
9448315 AAGATAACAGATCTTGTCTT--CATGAACTGG-CATGAAGTAGATC-
1 AAGATAACAGATCTTGTCTTCCCAT--ACTGGTGGCGAAGTAGATCG
** * *
9448358 AGAGATTCCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCG
1 A-AGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
* *** * * *
9448404 AAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCA
1 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
* *
9448448 AAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCA-AGTCG
1 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA-TCG
*** * * *
9448493 AAGATAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCA
1 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
*
9448537 AAGATACCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
*
9448582 AAGA-AAGCAGATATTGTCTTC
1 AAGATAA-CAGATCTTGTCTTC
9448603 ATGTATTGGC
Statistics
Matches: 191, Mismatches: 44, Indels: 18
0.75 0.17 0.07
Matches are distributed among these distances:
43 1 0.01
44 92 0.48
45 94 0.49
46 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (45 bp):
AAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
Found at i:9448424 original size:89 final size:89
Alignment explanation
Indices: 9448315--9448639 Score: 490
Period size: 89 Copynumber: 3.7 Consensus size: 89
9448305 AGCAGGTTGA
* * * *
9448315 AAGATAACAGATCTTGTCTTCATGAACTGGCATGAAGTAGATCAGAGATTCCAGATCTTGCCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATACCAGATCTTGCCTTC
9448380 CCATACTGGTGGCGAAGCAGATCG
66 CCATACTGGTGGCGAAGCAGATCG
* *
9448404 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATACCAGATCTTGCCTTC
9448469 CCATACTGGTGGCGAAGCA-AGTCG
66 CCATACTGGTGGCGAAGCAGA-TCG
* * *
9448493 AAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATACCAGATCTTGCCTTC
*
9448558 CCATACTGGTGGCGAAGTAGATCG
66 CCATACTGGTGGCGAAGCAGATCG
* * * * * *
9448582 AAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAAAGCAGATCT
1 AAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATACCAGATCT
9448640 ATCTCCCTAG
Statistics
Matches: 216, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
88 1 0.00
89 214 0.99
90 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (89 bp):
AAGAAAACAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAAGATACCAGATCTTGCCTTC
CCATACTGGTGGCGAAGCAGATCG
Found at i:9448634 original size:44 final size:42
Alignment explanation
Indices: 9448315--9448639 Score: 219
Period size: 44 Copynumber: 7.3 Consensus size: 42
9448305 AGCAGGTTGA
*
9448315 AAGATAACAGATCTTGTCTTCATGAACTGGCATGAAGTAGATC-
1 AAGA-AACAGATCTTGTCTTCATGTACTGGC-TGAAGTAGATCG
** * *** *
9448358 AGAGATTCCAGATCTTGCCTTCCCATACTGG-TGGCGAAGCAGATCG
1 A-AGA-AACAGATCTTGTCTTCATGTACTGGCT---GAAGTAGATCG
*
9448404 AAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAG-AAACAGATCTTGTCTTCATGTACTGGC-TGAAGTAGATCG
* *** *
9448448 AAGATAACAGATCTTGCCTTCCCATACTGG-TGGCGAAGCA-AGTCG
1 AAGA-AACAGATCTTGTCTTCATGTACTGGCT---GAAGTAGA-TCG
*
9448493 AAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
1 AAGA-AACAGATCTTGTCTTCATGTACTGGC-TGAAGTAGATCG
* ***
9448537 AAGATACCAGATCTTGTCTTCCCATACTGG-TGGCGAAGTAGATCG
1 AAGA-AACAGATCTTGTCTTCATGTACTGGCT---GAAGTAGATCG
* *
9448582 AAGAAAGCAGATATTGTCTTCATGTATTGGCATGAAGTAGATCG
1 AAGAAA-CAGATCTTGTCTTCATGTACTGGC-TGAAGTAGATCG
9448626 AAGAAAGCAGATCT
1 AAGAAA-CAGATCT
9448640 ATCTCCCTAG
Statistics
Matches: 220, Mismatches: 40, Indels: 43
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.01
43 2 0.01
44 114 0.52
45 96 0.44
46 2 0.01
47 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
AAGAAACAGATCTTGTCTTCATGTACTGGCTGAAGTAGATCG
Found at i:9452403 original size:15 final size:15
Alignment explanation
Indices: 9452385--9452418 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9452375 ATAAATGTTG
9452385 CAATAACAAATACAA
1 CAATAACAAATACAA
*
9452400 CAATAATAAATACAA
1 CAATAACAAATACAA
9452415 CAAT
1 CAAT
9452419 GACATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:9452838 original size:29 final size:27
Alignment explanation
Indices: 9452801--9452854 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
9452791 GTATATATAT
9452801 AAAATATTCATTAAAAATATAAATATAGA
1 AAAATATTCATTAAAAA-A-AAATATAGA
* *
9452830 AAAATATTCGTTAGAAAAAAATATA
1 AAAATATTCATTAAAAAAAAATATA
9452855 AATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 1 0.04
29 15 0.65
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATATTCATTAAAAAAAAATATAGA
Found at i:9452883 original size:22 final size:20
Alignment explanation
Indices: 9452845--9452901 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
9452835 ATTCGTTAGA
* * *
9452845 AAAAAATATAAATATATATAC
1 AAAAAA-ATAATTACATATAT
9452866 AAAAAAATAATTACATATAT
1 AAAAAAATAATTACATATAT
9452886 AAAAAAATAATTACAT
1 AAAAAAATAATTACAT
9452902 TATTAATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 27 0.82
21 6 0.18
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATAATTACATATAT
Found at i:9454754 original size:30 final size:30
Alignment explanation
Indices: 9454698--9454755 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9454688 CGCATAAGTG
*
9454698 TATAGATTATAAAATTTTAAAGTTAAAAAA
1 TATAGATTATAAAATTATAAAGTTAAAAAA
* *
9454728 TATATATTATAATATTATAATA-TTAAAA
1 TATAGATTATAAAATTATAA-AGTTAAAA
9454756 CTTAAATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
TATAGATTATAAAATTATAAAGTTAAAAAA
Found at i:9454868 original size:19 final size:19
Alignment explanation
Indices: 9454812--9454868 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
9454802 CAAAGAAAAA
*
9454812 AGAAATAGAAAGAAAGAAAC
1 AGAAAAAGAAA-AAAGAAAC
* ** *
9454832 AGAGAAAGCCAAACGAAAC
1 AGAAAAAGAAAAAAGAAAC
*
9454851 AGAAAAAGAAAAAGGAAA
1 AGAAAAAGAAAAAAGAAA
9454869 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.68, C:0.09, G:0.21, T:0.02
Consensus pattern (19 bp):
AGAAAAAGAAAAAAGAAAC
Found at i:9459578 original size:3 final size:3
Alignment explanation
Indices: 9459570--9459674 Score: 129
Period size: 3 Copynumber: 33.0 Consensus size: 3
9459560 GTAGCTTTGC
9459570 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** *
9459618 ATT ATT ACC ATT ATT ATT GCATTT ATT ATT ATTT ACCTT ATT ATG ATT
1 ATT ATT ATT ATT ATT ATT --A-TT ATT ATT A-TT A--TT ATT ATT ATT
9459666 ATT ATT ATT
1 ATT ATT ATT
9459675 TACGCATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
3 80 0.89
4 4 0.04
5 4 0.04
6 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:9459685 original size:24 final size:24
Alignment explanation
Indices: 9459581--9459685 Score: 83
Period size: 24 Copynumber: 4.2 Consensus size: 24
9459571 TTATTATTAT
* *
9459581 TATTATTATTATTATTA-TTA--T
1 TATTATGATTATTATTATTTACCA
*
9459602 TATTATTATTATTATTATTATTACCA
1 TATTATGATTATTATTA-T-TTACCA
*
9459628 TTATTATTGCATTTATTATTATTTACCT
1 -TATTA-TG-A-TTATTATTATTTACCA
9459656 TATTATGATTATTATTATTTACGCA
1 TATTATGATTATTATTATTTAC-CA
9459681 T-TTAT
1 TATTAT
9459686 ACCGTTTTTA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
21 17 0.24
24 21 0.30
25 3 0.04
26 2 0.03
27 10 0.14
28 6 0.09
29 2 0.03
30 9 0.13
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (24 bp):
TATTATGATTATTATTATTTACCA
Found at i:9459733 original size:20 final size:20
Alignment explanation
Indices: 9459708--9459746 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
9459698 TTTTGTTATA
9459708 TATATACATACTTACATATG
1 TATATACATACTTACATATG
9459728 TATATACATACTTACATAT
1 TATATACATACTTACATAT
9459747 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (20 bp):
TATATACATACTTACATATG
Found at i:9460161 original size:20 final size:20
Alignment explanation
Indices: 9460129--9460166 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9460119 TTTTTACTTA
9460129 CATTATCATAATTGTTATTC
1 CATTATCATAATTGTTATTC
*
9460149 CATTA-CATCAATTTTTAT
1 CATTATCAT-AATTGTTAT
9460167 CCAGATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (20 bp):
CATTATCATAATTGTTATTC
Found at i:9472692 original size:24 final size:24
Alignment explanation
Indices: 9472663--9472709 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
9472653 TAAATTAATT
9472663 TAAAATTAGAAATTTAT-AAATTTA
1 TAAAATTAGAAA-TTATGAAATTTA
9472687 TAAAATTAGAAATTATGAAATTT
1 TAAAATTAGAAATTATGAAATTT
9472710 TTTAAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAAATTAGAAATTATGAAATTTA
Found at i:9473145 original size:285 final size:287
Alignment explanation
Indices: 9472411--9473617 Score: 1783
Period size: 285 Copynumber: 4.3 Consensus size: 287
9472401 AAAGTAAAAA
* * * *
9472411 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGTGAAGAAAAAAATACAAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* * * * *
9472476 GGCCGAGGTAAGAGT-TTTT-ACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAGTATTTG
66 GACCGAGGTAAGAGTGTTTTAAAAAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTG
9472539 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
131 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
* *
9472604 AATAAAATTCGGGAAAATAATACGAGCAACTGGCGGGAATAA-------TTTACACTAAATTAAT
196 AATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAAT
** * *
9472662 TT--AAAA-TTA-GAAATTTATAAATT
261 TTAAAAAACACACTAAATTAATAAATT
* * *
9472685 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAACGCGAAG-AAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
**
9472749 -AGCCGAGGTAAGAGTGTTTT--GCAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTT
66 GA-CCGAGGTAAGAGTGTTTTAAAAAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTT
9472811 GAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAG
130 GAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAG
*
9472876 TAATAAAATTCAGGAAAATAATACAAGCAAATGGCGGGAATAAGGGTTTTTTTTACACTAAATTA
195 TAATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAAGGG-TTTTTTTACACTAAATTA
9472941 ATTT-AAAAACACACTAAATTAATAAATT
259 ATTTAAAAAACACACTAAATTAATAAATT
* *
9472969 TATAAAATTATAAATTATGATATTTTTTAAAGTAATAAAATGCAGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* *
9473034 GACCGAGGTAAGAGT-TTTTAAAAAAAAATTT-AAAATTTCAGAAATAATTAATACAAATATTTG
66 GACCGAGGTAAGAGTGTTTTAAAAAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTG
* *
9473097 AAATAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAACTATTTTATTGAAAGT
131 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
* *
9473162 AATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAAGGATTTTTTTTATACTAAATTAA
196 AATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAAGG-GTTTTTTTACACTAAATTAA
9473227 TTTAAAAAACACACTAAATTAATAAATT
260 TTTAAAAAACACACTAAATTAATAAATT
9473255 TATAAAATTAGAAATTATGATA-TTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* * * **
9473319 GGCCGAGGTAAGAGTGTTTT-ACAAAATTTTTAAAAAATTTTGAAATAATTAATACAAATATTTG
66 GACCGAGGTAAGAGTGTTTTAAAAAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTG
* *
9473383 AAACAAAATGTACT---A-AA-AT--AAT-ATAAAATAAGAAAATAAAATTATTTTATTCAAAGT
131 AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
** * *
9473440 AATAAAATTCGAAAAAATAATACGAGCAAATAGCGGGAATAAGGGTTTTTTTACACTAAATTAAT
196 AATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAA-
9473505 TTTAAAAAACACACTAAATTAATAAATT
260 TTTAAAAAACACACTAAATTAATAAATT
*
9473533 TATAAAATTAGAAATTATCATATTTTTT-AAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
*
9473597 GATCGAGGTAAGAGTGTTTTA
66 GACCGAGGTAAGAGTGTTTTA
9473618 CTAACTTTTT
Statistics
Matches: 857, Mismatches: 52, Indels: 43
0.90 0.05 0.05
Matches are distributed among these distances:
273 171 0.20
274 49 0.06
277 18 0.02
278 175 0.20
279 8 0.01
281 20 0.02
282 6 0.01
283 2 0.00
284 58 0.07
285 251 0.29
286 99 0.12
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (287 bp):
TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
GACCGAGGTAAGAGTGTTTTAAAAAAAATTTTAAAAAATTCAGAAATAATTAATACAAATATTTG
AAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGT
AATAAAATTCGGGAAAATAATACAAGCAAATGGCGGGAATAAGGGTTTTTTTACACTAAATTAAT
TTAAAAAACACACTAAATTAATAAATT
Found at i:9473358 original size:129 final size:125
Alignment explanation
Indices: 9473225--9473627 Score: 264
Period size: 152 Copynumber: 3.0 Consensus size: 125
9473215 ATACTAAATT
*
9473225 AATTTAAAAAACACACTAAATTAATAAATTTATAAAATTAGAAATTATGATATTTTTAAAGTAAT
1 AATTTAAAAAACACACTAAATTAATAAATTTATAAAATTAGAAATTATAATATTTTTAAAGTAAT
9473290 AAAATGCGGAGAAAAAAATACGAAGAAATGGCCGAGGTAAGAGTGTTTTACAAAATTTTTAAAA
66 AAAATGCGGAGAAAAAAATACGAAGAAATGG-CGAGGTAAGAGTGTTTTACAAAATTTTT---A
* * * *
9473354 AATTTTGAAATAATTA-ATACAAATATTTGAAACAAAATGTACTAAAATAATATAAAATAAGAAA
1 AA-TTT-AAA-AA--ACACACTAA-A-TT--AA-TAAAT-T--T-ATA-AA-AT----T-AGAAA
* * * *
9473418 ATAAAATTATTTTATTCAAAGTAATAAAATTC-GA-AAAAATAATACG-AGCAAATAGCG-GGAA
45 TTATAA-TA-TTT-TT-AAAGTAATAAAATGCGGAGAAAAA-AATACGAAG-AAATGGCGAGG--
* *
9473479 TAAGGGTTTTTTTACACTAAA---TTA
102 TAAGAG-TGTTTTACA--AAATTTTTA
* * *
9473503 ATTTTAAAAAACACACTAAATTAATAAATTTATAAAATTAGAAATTATCATATTTTTTAAGTAAT
1 AATTTAAAAAACACACTAAATTAATAAATTTATAAAATTAGAAATTATAATATTTTTAAAGTAAT
* * *
9473568 AAAATGCGGAGAAAAAAATACGAAGAAATGATCGAGGTAAGAGTGTTTTACTAACTTTTT
66 AAAATGCGGAGAAAAAAATACGAAGAAATG-GCGAGGTAAGAGTGTTTTACAAAATTTTT
9473628 TTTCAACATG
Statistics
Matches: 206, Mismatches: 27, Indels: 85
0.65 0.08 0.27
Matches are distributed among these distances:
123 2 0.01
125 20 0.10
126 21 0.10
127 12 0.06
128 4 0.02
129 10 0.05
130 4 0.02
131 3 0.01
132 2 0.01
133 5 0.02
134 4 0.02
135 4 0.02
136 2 0.01
137 3 0.01
138 4 0.02
139 2 0.01
140 4 0.02
141 3 0.01
142 2 0.01
143 4 0.02
144 4 0.02
145 5 0.02
146 2 0.01
147 3 0.01
148 4 0.02
149 10 0.05
150 4 0.02
151 12 0.06
152 22 0.11
153 22 0.11
155 3 0.01
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (125 bp):
AATTTAAAAAACACACTAAATTAATAAATTTATAAAATTAGAAATTATAATATTTTTAAAGTAAT
AAAATGCGGAGAAAAAAATACGAAGAAATGGCGAGGTAAGAGTGTTTTACAAAATTTTTA
Found at i:9475820 original size:11 final size:11
Alignment explanation
Indices: 9475804--9475830 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9475794 TTTATAACTT
9475804 AATTTGGATAC
1 AATTTGGATAC
9475815 AATTTGGATAC
1 AATTTGGATAC
9475826 AATTT
1 AATTT
9475831 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:9478125 original size:15 final size:18
Alignment explanation
Indices: 9478093--9478137 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
9478083 ATCCCAATGG
9478093 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
9478111 TCGCCACCACTTTCTTCT
1 TCGCCACCACCTTCTTCT
*
9478129 TCACCACCA
1 TCGCCACCA
9478138 ACCATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.49, G:0.04, T:0.31
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:9478836 original size:61 final size:63
Alignment explanation
Indices: 9478782--9478904 Score: 176
Period size: 64 Copynumber: 2.0 Consensus size: 63
9478772 TTTATATTCA
*
9478782 AAATTATACTAACTAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAACTAG
1 AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAACTAG
** * **
9478845 TTTATTTTGGTAAATAAAAATAATAACTAACCATAATAATAATACTAG-TTTTTTACTAAC
1 -AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAAC
9478905 AATAATACTA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
63 12 0.23
64 41 0.77
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.37
Consensus pattern (63 bp):
AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTTACTAACTAG
Found at i:9479227 original size:27 final size:27
Alignment explanation
Indices: 9479188--9479273 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 27
9479178 AACACGACTA
* *
9479188 GTGCCGCCAATGGGAATGGCACCGTCG
1 GTGCCGCCCATGGGAATGGCACCATCG
* *
9479215 GTGCCGCCCATGGGAATGACACCATCA
1 GTGCCGCCCATGGGAATGGCACCATCG
* * *
9479242 GTGCTGCCCATGGGAATGGCACCTTTG
1 GTGCCGCCCATGGGAATGGCACCATCG
9479269 GTGCC
1 GTGCC
9479274 ACCAATCAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.19
Consensus pattern (27 bp):
GTGCCGCCCATGGGAATGGCACCATCG
Found at i:9480111 original size:21 final size:18
Alignment explanation
Indices: 9480071--9480113 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
9480061 TTTTTATAAT
*
9480071 ATTTAATATTTTTTCATA
1 ATTTAATATTTCTTCATA
9480089 ATTTATATAATTTCTTCTATA
1 ATTTA-AT-ATTTCTTC-ATA
9480110 ATTT
1 ATTT
9480114 TCTAAAAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 7 0.33
21 7 0.33
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATATTTCTTCATA
Found at i:9481571 original size:8 final size:8
Alignment explanation
Indices: 9481558--9481582 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9481548 TTATCCACTA
9481558 TTAAAATT
1 TTAAAATT
9481566 TTAAAATT
1 TTAAAATT
9481574 TTAAAATT
1 TTAAAATT
9481582 T
1 T
9481583 ATTATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAAAATT
Found at i:9483945 original size:21 final size:24
Alignment explanation
Indices: 9483921--9483974 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 24
9483911 AATATATATA
9483921 TAAAATAATACAT-TAT-G-AAA-T
1 TAAAATAATA-ATATATGGAAAACT
9483942 T-AAATAATAATATATGGAAAACT
1 TAAAATAATAATATATGGAAAACT
9483965 TAAAATAATA
1 TAAAATAATA
9483975 TTACATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 2 0.07
22 3 0.11
23 2 0.07
24 8 0.29
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
TAAAATAATAATATATGGAAAACT
Found at i:9483957 original size:20 final size:20
Alignment explanation
Indices: 9483900--9483957 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
9483890 ATTATACTAG
* *
9483900 ATTAACATAAAAATATAT-AT
1 ATTAA-ATAATAATATATGAA
*
9483920 ATAAAATAATACAT-TATGAA
1 ATTAAATAATA-ATATATGAA
9483940 ATTAAATAATAATATATG
1 ATTAAATAATAATATATG
9483958 GAAAACTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 10 0.32
20 21 0.68
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
ATTAAATAATAATATATGAA
Found at i:9484744 original size:17 final size:17
Alignment explanation
Indices: 9484724--9484756 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9484714 TTTTTTCTCT
9484724 TTTTATTTATTTTAGAA
1 TTTTATTTATTTTAGAA
*
9484741 TTTTATTTTTTTTAGA
1 TTTTATTTATTTTAGA
9484757 GATATAAAAT
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:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTATTTATTTTAGAA
Found at i:9487298 original size:3 final size:3
Alignment explanation
Indices: 9487290--9487358 Score: 86
Period size: 3 Copynumber: 22.7 Consensus size: 3
9487280 TTTTAGGTTT
* * *
9487290 TTA TTA TTA TT- TTA ATA GTA TTA TAA TTA TTTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA
9487336 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
9487359 TTTGTACATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
2 2 0.03
3 50 0.86
4 6 0.10
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:9487518 original size:28 final size:28
Alignment explanation
Indices: 9487487--9487543 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
9487477 ATGCGTATAC
*
9487487 ATTTTATA-ATACATATACATTTTTCTAT
1 ATTTTATATATACACATACA-TTTTCTAT
*
9487515 ATTTTATATATATACATACATTTTCTAT
1 ATTTTATATATACACATACATTTTCTAT
9487543 A
1 A
9487544 ATATATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTTTATATATACACATACATTTTCTAT
Found at i:9487554 original size:26 final size:28
Alignment explanation
Indices: 9487501--9487555 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 28
9487491 TATAATACAT
*
9487501 ATACATTTTTCTATATTTTATATATATAC
1 ATACATTTTTCTATA-TATATATATATAC
*
9487530 ATACA-TTTTCTATA-ATATATGTATAC
1 ATACATTTTTCTATATATATATATATAC
9487556 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
28 9 0.38
29 5 0.21
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (28 bp):
ATACATTTTTCTATATATATATATATAC
Found at i:9487642 original size:16 final size:16
Alignment explanation
Indices: 9487623--9487669 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
9487613 CATTATATAT
9487623 ATATTTATATACATAC
1 ATATTTATATACATAC
* *
9487639 ATATTTTTACACATAC
1 ATATTTATATACATAC
*
9487655 ATATATATATACATA
1 ATATTTATATACATA
9487670 TTTTCATAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATTTATATACATAC
Found at i:9487697 original size:13 final size:12
Alignment explanation
Indices: 9487679--9487717 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
9487669 ATTTTCATAG
9487679 TTTATTTATATA
1 TTTATTTATATA
*
9487691 TTATATTTATACA
1 TT-TATTTATATA
9487704 TTT-TTTATATA
1 TTTATTTATATA
9487715 TTT
1 TTT
9487718 TGTGAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 3 0.12
13 11 0.46
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTATTTATATA
Found at i:9489647 original size:87 final size:87
Alignment explanation
Indices: 9489501--9489675 Score: 296
Period size: 87 Copynumber: 2.0 Consensus size: 87
9489491 TGTTAGGATT
* * *
9489501 ACGACTTTTGTAGTATGTAACATCATTCACAATAGTGTAATTCATAGCTAAACTAATGGGTAAAT
1 ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
*
9489566 GATATCTTCTCATCGACATTAC
66 GATATATTCTCATCGACATTAC
* *
9489588 ACGACTTCTGTAATATGTAGCATCATTCACAATAGTGAAATTCATAGCTAAATTAATGGGTAAAT
1 ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
9489653 GATATATTCTCATCGACATTAC
66 GATATATTCTCATCGACATTAC
9489675 A
1 A
9489676 TGATAGATGG
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (87 bp):
ACGACTTCTGTAATATGTAACATCATTCACAATAGTGAAATTCATAGCTAAACTAATGGGTAAAT
GATATATTCTCATCGACATTAC
Found at i:9492158 original size:11 final size:10
Alignment explanation
Indices: 9492106--9492170 Score: 53
Period size: 10 Copynumber: 6.3 Consensus size: 10
9492096 TAAATAAATT
*
9492106 ATTTTTTATA
1 ATTTTTAATA
*
9492116 ATTTATATATA
1 ATTTTTA-ATA
9492127 TATATTTTAA-A
1 -AT-TTTTAATA
*
9492138 ATTTTGAATA
1 ATTTTTAATA
9492148 ACTTTTTAATA
1 A-TTTTTAATA
9492159 ATTTTTAA-A
1 ATTTTTAATA
9492168 ATT
1 ATT
9492171 ATATTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
9 9 0.20
10 16 0.36
11 13 0.29
12 3 0.07
13 4 0.09
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:9492335 original size:16 final size:16
Alignment explanation
Indices: 9492314--9492345 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9492304 TCAAGGACTA
9492314 AATTTGTATTATGGTT
1 AATTTGTATTATGGTT
9492330 AATTTGTATTATGGTT
1 AATTTGTATTATGGTT
9492346 TATGCAGAAT
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:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (16 bp):
AATTTGTATTATGGTT
Found at i:9493716 original size:23 final size:26
Alignment explanation
Indices: 9493683--9493733 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
9493673 ATCGTAATAA
*
9493683 GACAACA-TTTTAAAAA-TAATATAT
1 GACAACATTTTTAAAAACAAATATAT
9493707 GACAA-ATTTTTAAAAACAAATATAT
1 GACAACATTTTTAAAAACAAATATAT
9493732 GA
1 GA
9493734 TAATAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 1 0.04
24 14 0.58
25 9 0.38
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.31
Consensus pattern (26 bp):
GACAACATTTTTAAAAACAAATATAT
Found at i:9493853 original size:4 final size:4
Alignment explanation
Indices: 9493831--9493870 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
9493821 TAAAATCATA
9493831 AAAT ATAAT -AAT AAAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT A-AAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAA
9493871 AGGTATAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 3 0.09
4 24 0.73
5 6 0.18
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:9498711 original size:7 final size:7
Alignment explanation
Indices: 9498701--9498727 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9498691 TTATTTCTTT
9498701 ATTTCAA
1 ATTTCAA
9498708 ATTTCAA
1 ATTTCAA
9498715 ATTTCAA
1 ATTTCAA
9498722 ATTTCA
1 ATTTCA
9498728 CCTTTCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTCAA
Found at i:9498899 original size:45 final size:45
Alignment explanation
Indices: 9498841--9498993 Score: 252
Period size: 45 Copynumber: 3.4 Consensus size: 45
9498831 CACCAGTATA
* * *
9498841 CAGTAATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAAC
1 CAGTAA-CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
* *
9498887 CTGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
9498932 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
9498977 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
9498994 GTCGGCACAT
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 95 0.95
46 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.19
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
Found at i:9499017 original size:38 final size:39
Alignment explanation
Indices: 9498845--9499020 Score: 158
Period size: 45 Copynumber: 4.2 Consensus size: 39
9498835 AGTATACAGT
* * *
9498845 AATCAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
*
9498884 AACCTGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AA----T--CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
*
9498929 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 A---A-T--CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
* *
9498974 AATCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG
1 AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCC-G
9499013 -ATCAGTAA
1 AATCAGTAA
9499021 GCCGACAAAT
Statistics
Matches: 122, Mismatches: 5, Indels: 21
0.82 0.03 0.14
Matches are distributed among these distances:
38 15 0.12
39 27 0.22
41 1 0.01
42 1 0.01
43 1 0.01
45 76 0.62
48 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (39 bp):
AATCAGTAACAGTAACAGTAGTCGACACACAAAGTGCCG
Found at i:9500391 original size:9 final size:9
Alignment explanation
Indices: 9500377--9500421 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 9
9500367 CATTTAAATA
9500377 AATAATTAT
1 AATAATTAT
9500386 AATAATTAT
1 AATAATTAT
9500395 AATAATTAT
1 AATAATTAT
9500404 -ATACA-TAT
1 AATA-ATTAT
9500412 AATAATTAT
1 AATAATTAT
9500421 A
1 A
9500422 TATATAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (9 bp):
AATAATTAT
Found at i:9503286 original size:15 final size:15
Alignment explanation
Indices: 9503266--9503317 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9503256 ACTACAAAAC
9503266 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
9503281 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
9503300 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
9503315 ATT
1 ATT
9503318 AAGATTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:9503380 original size:16 final size:16
Alignment explanation
Indices: 9503349--9503385 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
9503339 ATGTGAATAA
9503349 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
9503365 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
9503381 TATTA
1 TATTA
9503386 AAATAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:9506043 original size:23 final size:23
Alignment explanation
Indices: 9506017--9506087 Score: 133
Period size: 23 Copynumber: 3.1 Consensus size: 23
9506007 AAAAAAAAGG
9506017 TTTAAGTGCCAACTTGCTTCCAA
1 TTTAAGTGCCAACTTGCTTCCAA
9506040 TTTAAGTGCCAACTTGCTTCCAA
1 TTTAAGTGCCAACTTGCTTCCAA
*
9506063 TTTAAGTGCCAACTTGTTTCCAA
1 TTTAAGTGCCAACTTGCTTCCAA
9506086 TT
1 TT
9506088 AAAAAGTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (23 bp):
TTTAAGTGCCAACTTGCTTCCAA
Found at i:9506145 original size:29 final size:29
Alignment explanation
Indices: 9506113--9506172 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
9506103 TATTGCTCAT
* *
9506113 GACAAAAAAAAATT-TAGATATTAAAGTGA
1 GACAAAAAAAAATTGAAG-TACTAAAGTGA
9506142 GACAAAAAAAAATTGAAGTACTAAAGTGA
1 GACAAAAAAAAATTGAAGTACTAAAGTGA
9506171 GA
1 GA
9506173 AAATAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.17, T:0.20
Consensus pattern (29 bp):
GACAAAAAAAAATTGAAGTACTAAAGTGA
Found at i:9508781 original size:6 final size:6
Alignment explanation
Indices: 9508773--9508803 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9508763 GTTGAAGTCT
*
9508773 ACCTCT ACCTCG ACCTCG ACCTCG ACCTCG A
1 ACCTCG ACCTCG ACCTCG ACCTCG ACCTCG A
9508804 ACTCCTCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.48, G:0.13, T:0.19
Consensus pattern (6 bp):
ACCTCG
Found at i:9513002 original size:21 final size:22
Alignment explanation
Indices: 9512973--9513019 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9512963 CAGAAGGAGT
*
9512973 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
9512995 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
9513016 GAGT
1 GAGT
9513020 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:9524724 original size:29 final size:29
Alignment explanation
Indices: 9524655--9524728 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
9524645 ATATACATAT
*
9524655 AATAATTTTAATAATTTTATATTTCAAAA
1 AATAATTTTAATAATTATATATTTCAAAA
* *
9524684 AA-ATAGTATAATAATTATATATATT-AAAA
1 AATA-ATTTTAATAATTATATAT-TTCAAAA
9524713 AATAATTTTAATAATT
1 AATAATTTTAATAATT
9524729 TTAAAATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 33 0.89
30 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (29 bp):
AATAATTTTAATAATTATATATTTCAAAA
Found at i:9527383 original size:10 final size:10
Alignment explanation
Indices: 9527368--9527412 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
9527358 ATATTTTTTT
9527368 AAAAATTATA
1 AAAAATTATA
9527378 AAAAATT-TA
1 AAAAATTATA
*
9527387 AAAAATTCTA
1 AAAAATTATA
*
9527397 AAGAATATATA
1 AAAAAT-TATA
9527408 AAAAA
1 AAAAA
9527413 GTTAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 9 0.30
10 14 0.47
11 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:9527390 original size:19 final size:21
Alignment explanation
Indices: 9527368--9527412 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
9527358 ATATTTTTTT
*
9527368 AAAAATTATAAA-AA-ATTTA
1 AAAAATTATAAAGAATATATA
*
9527387 AAAAATTCTAAAGAATATATA
1 AAAAATTATAAAGAATATATA
9527408 AAAAA
1 AAAAA
9527413 GTTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 2 0.09
21 9 0.41
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAATTATAAAGAATATATA
Found at i:9527420 original size:28 final size:27
Alignment explanation
Indices: 9527367--9527427 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
9527357 TATATTTTTT
*
9527367 TAAAAATTATAAAAAATTTAAAAAATTC
1 TAAAAATTATAAAAAAGTT-AAAAATTC
*
9527395 TAAAGAATATATAAAAAAGTT-AAAATTT
1 TAAA-AAT-TATAAAAAAGTTAAAAATTC
9527423 TAAAA
1 TAAAA
9527428 TTTTGCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 1 0.03
28 14 0.48
29 3 0.10
30 11 0.38
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (27 bp):
TAAAAATTATAAAAAAGTTAAAAATTC
Found at i:9529219 original size:48 final size:48
Alignment explanation
Indices: 9529131--9529223 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 48
9529121 TTCTTGGCTC
* * * *
9529131 AAAAATGCCTAAGTCAGCCTAACTTCCACCGATAATGGATTCAACCGT
1 AAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCGT
9529179 AAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 AAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
9529224 AGAATTCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 4 0.10
48 35 0.90
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCGT
Found at i:9532933 original size:5 final size:5
Alignment explanation
Indices: 9532925--9532964 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
9532915 AGTTATACAT
9532925 ATATA ATATA ATATA ATAT- A-ATA ATATA AT-TA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA
9532965 CTTATTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.06
4 6 0.19
5 24 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:9532940 original size:10 final size:10
Alignment explanation
Indices: 9532925--9532964 Score: 59
Period size: 9 Copynumber: 4.3 Consensus size: 10
9532915 AGTTATACAT
9532925 ATATAATATA
1 ATATAATATA
9532935 ATATAATAT-
1 ATATAATATA
9532944 A-ATAATATA
1 ATATAATATA
9532953 AT-TAATATA
1 ATATAATATA
9532962 ATA
1 ATA
9532965 CTTATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.26
9 11 0.41
10 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATAATATA
Found at i:9532958 original size:17 final size:18
Alignment explanation
Indices: 9532918--9532964 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
9532908 TAATTTAAGT
9532918 TATACATAT-ATAATATAA
1 TATA-ATATAATAATATAA
9532936 TATAATATAATAATATAA
1 TATAATATAATAATATAA
9532954 T-TAATATAATA
1 TATAATATAATA
9532965 CTTATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAATATAATAATATAA
Found at i:9532998 original size:28 final size:28
Alignment explanation
Indices: 9532929--9532998 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
9532919 ATACATATAT
* *
9532929 AATATAATATA-ATATAATAATATAATT
1 AATATAATATATATTTAATAATATAATA
*
9532956 AATATAATACT-TATTTATTAAGTA-AATA
1 AATATAATA-TATATTTAATAA-TATAATA
9532984 AATATAATATATATT
1 AATATAATATATATT
9532999 AACTAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 10 0.28
28 24 0.67
29 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
AATATAATATATATTTAATAATATAATA
Found at i:9538067 original size:108 final size:107
Alignment explanation
Indices: 9537754--9538231 Score: 657
Period size: 108 Copynumber: 4.5 Consensus size: 107
9537744 TTTTGACATA
* * *
9537754 AAATTTTTTTTAAATTGTACTGGGTGCCGGCTATTGACAGGTCAGCACCCCAAAATTTTTTTA-T
1 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTTTTTTTATT
* *
9537818 TTTTTCGTATACTGATATCTGATTTTGGCACGAAAAAAATAA-
66 TTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAA-AAG
*** * * * *
9537860 AAA---AAATTCAATTGTACTGGGTGCCGGCCATTGACAGTCAAGCA-TCCAAATTTTTTTTATT
1 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTTTTTTTATT
*
9537921 TTTTTTGTATACTGATATCTGATTCTGACACGAAAAAAAAAG
66 TTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG
9537963 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTTTTTTTTAT
1 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA-TTTTTTTTAT
9538028 TTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG
65 TTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG
* * * * * * *
9538071 AAAATTTTTTTAAATAGTACTAGGTGCCGGCCATTAATAGGCCAGCACTCAAAATTTTTTTTTAT
1 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA-TTTTTTTTAT
* * *
9538136 TTTTTTCATATATTGATA--TGACTCTGACACGAAAAAAAAAAG
65 TTTTTTCGTATACTGATATCTGATTCTGACACG-AAAAAAAAAG
9538178 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA
1 AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAA
9538232 AAAATTTTTT
Statistics
Matches: 326, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
102 15 0.05
103 73 0.22
106 50 0.15
107 62 0.19
108 126 0.39
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (107 bp):
AAATTTTTTTTAAATTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCCAAATTTTTTTTATT
TTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAG
Found at i:9550454 original size:18 final size:16
Alignment explanation
Indices: 9550411--9550458 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
9550401 TTTGATTATA
*
9550411 ATATTAATATTAATTT
1 ATATAAATATTAATTT
9550427 ATATAAATATTAATTT
1 ATATAAATATTAATTT
9550443 ATAATCAAATATTAAT
1 AT-AT-AAATATTAAT
9550459 ATAAACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 17 0.59
17 2 0.07
18 10 0.34
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAAATATTAATTT
Found at i:9550718 original size:23 final size:23
Alignment explanation
Indices: 9550688--9550740 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
9550678 AATACCCTAG
* *
9550688 CCAATTTTATTGGTCGATATGGT
1 CCAATTTTATTGGCCGAAATGGT
*
9550711 CCAATTTTATTGGCCGAAATTGT
1 CCAATTTTATTGGCCGAAATGGT
9550734 CCAATTT
1 CCAATTT
9550741 AGAGAGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (23 bp):
CCAATTTTATTGGCCGAAATGGT
Found at i:9550839 original size:13 final size:14
Alignment explanation
Indices: 9550812--9550838 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9550802 AAGTTTAGAA
9550812 ATTTTTAAAATTTT
1 ATTTTTAAAATTTT
9550826 ATTTTTAAAATTT
1 ATTTTTAAAATTT
9550839 AAAATTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTTTAAAATTTT
Found at i:9553898 original size:20 final size:20
Alignment explanation
Indices: 9553882--9553971 Score: 66
Period size: 20 Copynumber: 4.6 Consensus size: 20
9553872 ACCAAAAATT
9553882 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATTAAAAAAA
***
9553902 TATTTTAAAAA-TATTTTAAA
1 TATTTTAAAAATTA-AAAAAA
*
9553922 -A-TTAAAAAATAATAAAAAAA
1 TATTTTAAAAAT--TAAAAAAA
9553942 GTATTTT-AAAATT-AAAAAA
1 -TATTTTAAAAATTAAAAAAA
9553961 T-TTTTAAAAAT
1 TATTTTAAAAAT
9553972 AAATATATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
17 4 0.07
18 13 0.24
19 9 0.17
20 18 0.33
21 2 0.04
22 6 0.11
23 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAA
Found at i:9553923 original size:10 final size:11
Alignment explanation
Indices: 9553897--9553922 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9553887 TAAAAATTAA
9553897 AAAAATATTTT
1 AAAAATATTTT
9553908 AAAAATATTTT
1 AAAAATATTTT
9553919 AAAA
1 AAAA
9553923 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:9553925 original size:30 final size:29
Alignment explanation
Indices: 9553882--9553972 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 29
9553872 ACCAAAAATT
9553882 TATTTTAAAAATTAAAAAAATATTTTAAAAA
1 TATTTT-AAAATT-AAAAAATATTTTAAAAA
* **
9553913 TATTTTAAAATTAAAAAATAATAAAAAAA
1 TATTTTAAAATTAAAAAATATTTTAAAAA
9553942 GTATTTTAAAATTAAAAAAT-TTTTAAAAA
1 -TATTTTAAAATTAAAAAATATTTTAAAAA
9553971 TA
1 TA
9553973 AATATATTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 2 0.04
29 20 0.38
30 25 0.47
31 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (29 bp):
TATTTTAAAATTAAAAAATATTTTAAAAA
Found at i:9553928 original size:17 final size:17
Alignment explanation
Indices: 9553906--9553981 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 17
9553896 AAAAAATATT
9553906 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
**
9553923 TTAAAAA-ATAAT-AAA
1 TTAAAAATATTTTAAAA
*
9553938 --AAAAGTATTTTAAAA
1 TTAAAAATATTTTAAAA
9553953 TTAAAAA-ATTTTTAAAA
1 TTAAAAATA-TTTTAAAA
* *
9553970 ATAAATATATTT
1 TTAAAAATATTT
9553982 ATTATATCGG
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
13 4 0.09
14 3 0.07
15 6 0.13
16 4 0.09
17 27 0.60
18 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:9559776 original size:18 final size:20
Alignment explanation
Indices: 9559753--9559791 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
9559743 CCTTTTTTAC
9559753 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
9559771 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
9559791 A
1 A
9559792 CTTCATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 5 0.26
20 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:9582106 original size:28 final size:29
Alignment explanation
Indices: 9582040--9582139 Score: 77
Period size: 29 Copynumber: 3.6 Consensus size: 29
9582030 ACCTTTTAAA
* *
9582040 TAAT-TAATATAA-ATTATTT-ATAAAAT
1 TAATATAATAAAATATTATTTAATAAATT
*
9582066 TGATGATATATAAAATATTA-TTAA-AAATT
1 TAAT-ATA-ATAAAATATTATTTAATAAATT
* *
9582095 TAAATATAAT-AAATAATATTTAATTAATT
1 T-AATATAATAAAATATTATTTAATAAATT
*
9582124 TAATATAATAATATAT
1 TAATATAATAAAATAT
9582140 AAAATATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
26 3 0.05
27 7 0.12
28 16 0.28
29 24 0.42
30 7 0.12
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
TAATATAATAAAATATTATTTAATAAATT
Found at i:9600026 original size:16 final size:16
Alignment explanation
Indices: 9599993--9600026 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9599983 CGTATCTGTT
* *
9599993 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9600009 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9600025 AA
1 AA
9600027 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9602853 original size:21 final size:21
Alignment explanation
Indices: 9602827--9602867 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9602817 AGACGAGCAA
* *
9602827 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9602848 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9602868 TTGAGTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9604806 original size:16 final size:16
Alignment explanation
Indices: 9604773--9604806 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9604763 GGAGATTGTT
* *
9604773 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
9604789 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
9604805 AA
1 AA
9604807 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:9606995 original size:36 final size:36
Alignment explanation
Indices: 9606948--9607019 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
9606938 TTTGACCTTT
9606948 TTCCATTAACTTCATTCATAGGGAACTCTTTCCGTC
1 TTCCATTAACTTCATTCATAGGGAACTCTTTCCGTC
*
9606984 TTCCATTAACTTCATTCATAGGGCACTCTTTCCGTC
1 TTCCATTAACTTCATTCATAGGGAACTCTTTCCGTC
9607020 GGCTACTCGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (36 bp):
TTCCATTAACTTCATTCATAGGGAACTCTTTCCGTC
Found at i:9607609 original size:2 final size:2
Alignment explanation
Indices: 9607600--9607634 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9607590 TTATATATAT
*
9607600 TC TC -C TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9607635 ACCAGGGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9610343 original size:3 final size:3
Alignment explanation
Indices: 9610335--9610377 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
9610325 TTCATCTTCA
9610335 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
9610378 CAAGAGTCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9621124 original size:18 final size:19
Alignment explanation
Indices: 9621088--9621125 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9621078 TTTTAATTTC
*
9621088 TATTCCTGAATACTTTGTT
1 TATTCATGAATACTTTGTT
9621107 TATTCATGAATA-TTTGTT
1 TATTCATGAATACTTTGTT
9621125 T
1 T
9621126 CCTTGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (19 bp):
TATTCATGAATACTTTGTT
Found at i:9622578 original size:30 final size:30
Alignment explanation
Indices: 9622544--9622603 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
9622534 ATTTAACAAG
9622544 CAAATGCCTCTAAAATAACAACAAAATTAA
1 CAAATGCCTCTAAAATAACAACAAAATTAA
* *
9622574 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAACAACAAAATTAA
9622604 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAACAACAAAATTAA
Found at i:9645214 original size:9 final size:9
Alignment explanation
Indices: 9645200--9645232 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
9645190 TAAATGGACC
9645200 TTTTTTTTA
1 TTTTTTTTA
9645209 TTTTTTTTA
1 TTTTTTTTA
9645218 TTTGTTTTTA
1 TTT-TTTTTA
9645228 TTTTT
1 TTTTT
9645233 GTTGTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:9645215 original size:10 final size:10
Alignment explanation
Indices: 9645200--9645232 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
9645190 TAAATGGACC
9645200 TTTTTTTTA-
1 TTTTTTTTAT
9645209 TTTTTTTTAT
1 TTTTTTTTAT
*
9645219 TTGTTTTTAT
1 TTTTTTTTAT
9645229 TTTT
1 TTTT
9645233 GTTGTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:9645237 original size:15 final size:15
Alignment explanation
Indices: 9645218--9645255 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
9645208 ATTTTTTTTA
*
9645218 TTTGTTTTT-ATTTT
1 TTTGTTTTTGATTTG
9645232 TGTTGTTTTTGATTTG
1 T-TTGTTTTTGATTTG
9645248 TTTGTTTT
1 TTTGTTTT
9645256 GTTGGGCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.71
16 5 0.24
ACGTcount: A:0.05, C:0.00, G:0.16, T:0.79
Consensus pattern (15 bp):
TTTGTTTTTGATTTG
Found at i:9663871 original size:25 final size:25
Alignment explanation
Indices: 9663818--9663871 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
9663808 TTTATTTATT
* * ***
9663818 TATTTAATATTAATATAATTATTTT
1 TATTTAACATTAATATAAATATAAA
9663843 TATTTAACATTAATATAAATATAAA
1 TATTTAACATTAATATAAATATAAA
9663868 TATT
1 TATT
9663872 AATATAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTAACATTAATATAAATATAAA
Found at i:9664513 original size:16 final size:15
Alignment explanation
Indices: 9664488--9664517 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9664478 CATAATATGT
9664488 AATTAATTTAAATAG
1 AATTAATTTAAATAG
9664503 AATTAAATTTAAATA
1 AATT-AATTTAAATA
9664518 TGTGAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AATTAATTTAAATAG
Found at i:9665915 original size:16 final size:16
Alignment explanation
Indices: 9665890--9665920 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9665880 AATTCAAGGT
9665890 AATTTAAATGTAATAA
1 AATTTAAATGTAATAA
*
9665906 AATTTGAATGTAATA
1 AATTTAAATGTAATA
9665921 TATCCCATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
AATTTAAATGTAATAA
Found at i:9666919 original size:16 final size:17
Alignment explanation
Indices: 9666879--9666922 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
9666869 TTCGAAACAT
9666879 GAGTTGTTCTCAATGTA
1 GAGTTGTTCTCAATGTA
9666896 GAAGTTGTTCT-AA-GTAA
1 G-AGTTGTTCTCAATGT-A
9666913 GAGTTGTTCT
1 GAGTTGTTCT
9666923 TGGTGATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 11 0.44
17 5 0.20
18 9 0.36
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (17 bp):
GAGTTGTTCTCAATGTA
Found at i:9668232 original size:3 final size:3
Alignment explanation
Indices: 9668214--9668270 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
9668204 TTGTGTGAAA
9668214 AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9668260 AAT AAT AAT AA
1 AAT AAT AAT AA
9668271 AGAACACACA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9672723 original size:3 final size:3
Alignment explanation
Indices: 9672695--9672734 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
9672685 TTTGTCAAAA
9672695 AAT AA- AAT AA- AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9672735 AGAACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.24
3 25 0.76
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:9672734 original size:6 final size:5
Alignment explanation
Indices: 9672693--9672731 Score: 60
Period size: 5 Copynumber: 7.4 Consensus size: 5
9672683 AATTTGTCAA
9672693 AAAAT AAAAT AAAAT AAAAT AAAAT AATAAT AATAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AA
9672732 TAAAGAACAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 22 0.67
6 11 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:9673563 original size:22 final size:23
Alignment explanation
Indices: 9673533--9673628 Score: 133
Period size: 22 Copynumber: 4.3 Consensus size: 23
9673523 ATATAGTGGA
9673533 TGTGTTTGGAGGGTATATTTGGT
1 TGTGTTTGGAGGGTATATTTGGT
9673556 TGTG-TTGGAGGGTATATTTGGT
1 TGTGTTTGGAGGGTATATTTGGT
* * * *
9673578 TATGCTTGGAGGTTATACTTGGT
1 TGTGTTTGGAGGGTATATTTGGT
*
9673601 TGTGTTTGGAGGGTA-AATTGGT
1 TGTGTTTGGAGGGTATATTTGGT
9673623 TGTGTT
1 TGTGTT
9673629 CGGTGGGTGA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
22 33 0.51
23 32 0.49
ACGTcount: A:0.15, C:0.02, G:0.38, T:0.46
Consensus pattern (23 bp):
TGTGTTTGGAGGGTATATTTGGT
Found at i:9673602 original size:45 final size:45
Alignment explanation
Indices: 9673538--9673623 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
9673528 GTGGATGTGT
* *
9673538 TTGGAGGGTATATTTGGTTGTG-TTGGAGGGTATATTTGGTTATGC
1 TTGGAGGGTATACTTGGTTGTGTTTGGAGGGTA-AATTGGTTATGC
*
9673583 TTGGAGGTTATACTTGGTTGTGTTTGGAGGGTAAATTGGTT
1 TTGGAGGGTATACTTGGTTGTGTTTGGAGGGTAAATTGGTT
9673624 GTGTTCGGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
45 27 0.73
46 10 0.27
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.44
Consensus pattern (45 bp):
TTGGAGGGTATACTTGGTTGTGTTTGGAGGGTAAATTGGTTATGC
Found at i:9676224 original size:16 final size:18
Alignment explanation
Indices: 9676203--9676242 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
9676193 TAACTTTGAC
9676203 TTGTTCCAAATGT-GA-G
1 TTGTTCCAAATGTAGAGG
*
9676219 TTGTTCCCAATGTAGAGG
1 TTGTTCCAAATGTAGAGG
9676237 TTGTTC
1 TTGTTC
9676243 TGAATAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 2 0.10
18 7 0.33
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (18 bp):
TTGTTCCAAATGTAGAGG
Found at i:9679661 original size:55 final size:54
Alignment explanation
Indices: 9679546--9679790 Score: 300
Period size: 55 Copynumber: 4.5 Consensus size: 54
9679536 AACTTACCAT
* * * * *
9679546 TGCCATGTCTTGACATGGTCTTACGTG-GTATCCTTGTCTTAT-G-AACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGAG-A-CCTTGCCTTATAGTAACTCATCAA
*
9679599 TGCCATGCCTTGGCATGGTCTTACATGAGACCTTTGCCTTATAGTAACTCATGAA
1 TGCCATGCCTTGGCATGGTCTTACATGAGACC-TTGCCTTATAGTAACTCATCAA
*
9679654 TGCCATGCCTTGGCATGGTCTTATATGAGACCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGAGACC-TTGCCTTATAGTAACTCATCAA
* * ** * *
9679709 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA-CAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGA-GACCTTGCCTTATAGTAACTCATCAA
9679763 TGCCATGCCTTGGCATGGTCTTACATGA
1 TGCCATGCCTTGGCATGGTCTTACATGA
9679791 TATCATTATC
Statistics
Matches: 170, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
52 2 0.01
53 33 0.19
54 37 0.22
55 96 0.56
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGAGACCTTGCCTTATAGTAACTCATCAA
Found at i:9679831 original size:47 final size:47
Alignment explanation
Indices: 9679776--9680602 Score: 1618
Period size: 47 Copynumber: 17.6 Consensus size: 47
9679766 CATGCCTTGG
* * *
9679776 CATGGTCTTACATGATATCATTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9679823 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9679870 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9679917 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9679964 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680011 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680058 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680105 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680152 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680199 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680246 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680293 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680340 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680387 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680434 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680481 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
9680528 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
9680575 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGCTATCCTTGTCTTA
9680603 ATGCCAATGC
Statistics
Matches: 776, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 776 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGCTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:9688523 original size:84 final size:84
Alignment explanation
Indices: 9688382--9688543 Score: 324
Period size: 84 Copynumber: 1.9 Consensus size: 84
9688372 AATCGGCATC
9688382 AAACCACAAGCTAAATAGTTAGCAATATCAGCAAACCAAGGGGTATTATGGACATGATTTACCTG
1 AAACCACAAGCTAAATAGTTAGCAATATCAGCAAACCAAGGGGTATTATGGACATGATTTACCTG
9688447 CAGTATGTGTTCATCTAGA
66 CAGTATGTGTTCATCTAGA
9688466 AAACCACAAGCTAAATAGTTAGCAATATCAGCAAACCAAGGGGTATTATGGACATGATTTACCTG
1 AAACCACAAGCTAAATAGTTAGCAATATCAGCAAACCAAGGGGTATTATGGACATGATTTACCTG
9688531 CAGTATGTGTTCA
66 CAGTATGTGTTCA
9688544 GAGGAGAATG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (84 bp):
AAACCACAAGCTAAATAGTTAGCAATATCAGCAAACCAAGGGGTATTATGGACATGATTTACCTG
CAGTATGTGTTCATCTAGA
Found at i:9695282 original size:21 final size:21
Alignment explanation
Indices: 9695258--9695351 Score: 66
Period size: 21 Copynumber: 4.4 Consensus size: 21
9695248 GTGTAAAAAA
9695258 AGGCACACGGCCATGTGACAG
1 AGGCACACGGCCATGTGACAG
** *
9695279 AGGCACACACCCATGTGATAG
1 AGGCACACGGCCATGTGACAG
* ** *
9695300 AGGCTCAC-GCTTGTGTGAAGAG
1 AGGCACACGGC-CATGTG-ACAG
* *
9695322 AGGAACATGGCCATGTGACTAG
1 AGGCACACGGCCATGTGAC-AG
9695344 -GGCACACG
1 AGGCACACG
9695352 TCTGTATGGA
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
20 1 0.02
21 36 0.68
22 14 0.26
23 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.32, T:0.15
Consensus pattern (21 bp):
AGGCACACGGCCATGTGACAG
Done.