Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 27 of 109
Found at i:9017631 original size:89 final size:90
Alignment explanation
Indices: 9017461--9017640 Score: 222
Period size: 89 Copynumber: 2.0 Consensus size: 90
9017451 TAAAAAAAAA
* *** *
9017461 TTGTGTTTTCTAAAAAAATTCCCGTGTTTCAAAAATTTTCATGTTTTCAAAAAATTCTCGTGTTT
1 TTGTGTTTTCGAAAAAAATTCCCGTGTTTCAAAAAACGTCATGTTTTAAAAAAATTCTCGTGTTT
*
9017526 CACAAATGTTCATGTTTTAAAATTT
66 CACAAATGTTCATGTTTCAAAATTT
* *
9017551 TTGTGTTTT-GAAAAAAATTCTCGTGTTTCAAAAAACGTCGTGTTTTAAAAAAAATT-TCGTGTT
1 TTGTGTTTTCGAAAAAAATTCCCGTGTTTCAAAAAACGTCATGTTTT-AAAAAAATTCTCGTGTT
* * *
9017614 TCTA-AAGTTTTCGTGTTTCAAAATTT
65 TC-ACAAATGTTCATGTTTCAAAATTT
9017640 T
1 T
9017641 CGTTTTTTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
89 59 0.77
90 18 0.23
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (90 bp):
TTGTGTTTTCGAAAAAAATTCCCGTGTTTCAAAAAACGTCATGTTTTAAAAAAATTCTCGTGTTT
CACAAATGTTCATGTTTCAAAATTT
Found at i:9021349 original size:31 final size:29
Alignment explanation
Indices: 9021305--9021370 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
9021295 TGAAAAATCA
* *
9021305 TTATTTAAACATTTTTATAAAAGTTAGACCT
1 TTATATAAACA-TTTTA-AAAAGTTAGACCC
* *
9021336 TTATATAAGCATTTTAAAAGGTTAGACCC
1 TTATATAAACATTTTAAAAAGTTAGACCC
9021365 TTATAT
1 TTATAT
9021371 GTGTTGTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 17 0.55
30 5 0.16
31 9 0.29
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (29 bp):
TTATATAAACATTTTAAAAAGTTAGACCC
Found at i:9021826 original size:2 final size:2
Alignment explanation
Indices: 9021819--9021856 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
9021809 AGTGTGCAGG
9021819 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9021857 GCAATATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9022520 original size:181 final size:182
Alignment explanation
Indices: 9022216--9022578 Score: 719
Period size: 181 Copynumber: 2.0 Consensus size: 182
9022206 AGGAAACAAT
9022216 ACCTATATCGCATAGCTTATAATACGTGTAACTGTTGACTATATTTAAAAAACAAATCTAGATAG
1 ACCTATATCGCATAGCTTATAATACGTGTAACTGTTGACTATATTTAAAAAACAAATCTAGATAG
9022281 TTTTCTATAAAAATATAATGATAAATTTAAAAAAAAAATTCATATATTTTGTTAATATTTTCAAC
66 TTTTCTATAAAAATATAATGATAAATTTAAAAAAAAAATTCATATATTTTGTTAATATTTTCAAC
9022346 ATCTATCCCATTCTATATAAAAAGTATTAGAGTATATTTGG-ATAAAAATTA
131 ATCTATCCCATTCTATATAAAAAGTATTAGAGTATATTTGGTATAAAAATTA
9022397 ACCTATATCGCATAGCTTATAATACGTGTAACTGTTGACTATATTTAAAAAACAAATCTAGATAG
1 ACCTATATCGCATAGCTTATAATACGTGTAACTGTTGACTATATTTAAAAAACAAATCTAGATAG
9022462 TTTTCTATAAAAATATAATGATAAATTTAAAAAAAAAATTCATATATTTTGTTAATATTTTCAAC
66 TTTTCTATAAAAATATAATGATAAATTTAAAAAAAAAATTCATATATTTTGTTAATATTTTCAAC
9022527 ATCTATCCCATTCTATATAAAAAGTATTAGAGTATATTTGGTATAAAAATTA
131 ATCTATCCCATTCTATATAAAAAGTATTAGAGTATATTTGGTATAAAAATTA
9022579 TTATGGGAAT
Statistics
Matches: 181, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
181 171 0.94
182 10 0.06
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (182 bp):
ACCTATATCGCATAGCTTATAATACGTGTAACTGTTGACTATATTTAAAAAACAAATCTAGATAG
TTTTCTATAAAAATATAATGATAAATTTAAAAAAAAAATTCATATATTTTGTTAATATTTTCAAC
ATCTATCCCATTCTATATAAAAAGTATTAGAGTATATTTGGTATAAAAATTA
Found at i:9027852 original size:45 final size:44
Alignment explanation
Indices: 9027801--9027964 Score: 125
Period size: 45 Copynumber: 3.6 Consensus size: 44
9027791 CTATACGCTA
9027801 TAAAATGAGTAAGACCATAGCTGAAAGATGATATGACATCATGAC
1 TAAAATGAGTAAGACCATAGCTGAAAGATG-TATGACATCATGAC
* * * * * *
9027846 TAAAATGAGTAAAGACTATGGTTGAAATACGTCATGGA-ATCAT-AG
1 TAAAATGAGT-AAGACCATAGCTGAAAGATGT-AT-GACATCATGAC
* * * ** * * *
9027891 TAGATAGGACTAATTCTATAGCTAAAAGATGTTATGGCATCATGAC
1 TA-AAATGAGTAAGACCATAGCTGAAAGATG-TATGACATCATGAC
*
9027937 TAAAATGAGTAAGACCATGGCTGAAAGA
1 TAAAATGAGTAAGACCATAGCTGAAAGA
9027965 AGCCATGGAG
Statistics
Matches: 86, Mismatches: 26, Indels: 14
0.68 0.21 0.11
Matches are distributed among these distances:
44 1 0.01
45 52 0.60
46 31 0.36
47 2 0.02
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGTATGACATCATGAC
Found at i:9028009 original size:90 final size:91
Alignment explanation
Indices: 9027810--9028021 Score: 257
Period size: 90 Copynumber: 2.3 Consensus size: 91
9027800 ATAAAATGAG
* * * *
9027810 TAAGACCATAGCTGAAAGATGATATGACATCATGACTAAAATGAGTAAAGACTATGGTTGAAATA
1 TAAGACCATAGCTGAAAGATGATATGGCATCATGACTAAAATGAGTAAAGACCATGGCTGAAAGA
* *
9027875 CGTCATGGAATCATAGTAGATAGGAC
66 AGCCATGGAATCATAGTAGATAGGAC
** * * *
9027901 TAATTCTATAGCTAAAAGATGTTATGGCATCATGACTAAAATGAGT-AAGACCATGGCTGAAAGA
1 TAAGACCATAGCTGAAAGATGATATGGCATCATGACTAAAATGAGTAAAGACCATGGCTGAAAGA
* *
9027965 AGCCATGGAGTCATGGTAGACT-GGAC
66 AGCCATGGAATCATAGTAGA-TAGGAC
* * *
9027991 TAAGACCATAGTTGAAAGACGCTATGGCATC
1 TAAGACCATAGCTGAAAGATGATATGGCATC
9028022 CTAGTAGTCC
Statistics
Matches: 100, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
90 59 0.59
91 41 0.41
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (91 bp):
TAAGACCATAGCTGAAAGATGATATGGCATCATGACTAAAATGAGTAAAGACCATGGCTGAAAGA
AGCCATGGAATCATAGTAGATAGGAC
Found at i:9028258 original size:174 final size:174
Alignment explanation
Indices: 9027932--9028258 Score: 440
Period size: 174 Copynumber: 1.9 Consensus size: 174
9027922 TTATGGCATC
* * *
9027932 ATGACTAAAATGAGTAAGACCATGGCTGAAAGAAGCCATGGAGTCATGGTAGACTGGACTAAGAC
1 ATGACTAAAATGAGTAAGACCATGGCTAAAAGAAGCCATGGAATCATGGTAGACAGGACTAAGAC
* ** * *
9027997 CATAGTTGAAAGACGCTATGGCATCCTAGTAGTCCGTCGAGACAGTAAACATAAGAAATATAAGG
66 CATAGCTGAAAGACGCTATGGCATCCTAGTAGTCCACCGAGACAATAAACACAAGAAATATAAGG
*
9028062 TATAAGACCATAGTTGGACTATGACAACTCAGGTGGACAGGACT
131 TATAAGACCATAGTTAGACTATGACAACTCAGGTGGACAGGACT
* * *
9028106 ATGACTAAATTGAGTAAGATCATGGCTAAAAGATGCCATGGAATCATGGTAGACAGGACTAAGAC
1 ATGACTAAAATGAGTAAGACCATGGCTAAAAGAAGCCATGGAATCATGGTAGACAGGACTAAGAC
* * * ** *
9028171 CATAGCTGAAAGATGTTATGGTATCCTAGTAGTCCACC-AGGACAATAAACACGGGGAATATAAG
66 CATAGCTGAAAGACGCTATGGCATCCTAGTAGTCCACCGA-GACAATAAACACAAGAAATATAAG
* * **
9028235 GTGTAAGGCTGTAGTTAGACTATG
130 GTATAAGACCATAGTTAGACTATG
9028259 GTAACCCATG
Statistics
Matches: 130, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
173 1 0.01
174 129 0.99
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (174 bp):
ATGACTAAAATGAGTAAGACCATGGCTAAAAGAAGCCATGGAATCATGGTAGACAGGACTAAGAC
CATAGCTGAAAGACGCTATGGCATCCTAGTAGTCCACCGAGACAATAAACACAAGAAATATAAGG
TATAAGACCATAGTTAGACTATGACAACTCAGGTGGACAGGACT
Found at i:9029668 original size:21 final size:21
Alignment explanation
Indices: 9029642--9029683 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9029632 GCACTTATTC
9029642 CAACTTAATATTTCATAACTT
1 CAACTTAATATTTCATAACTT
*
9029663 CAACTTAATCTTTCATAACTT
1 CAACTTAATATTTCATAACTT
9029684 TAACATAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (21 bp):
CAACTTAATATTTCATAACTT
Found at i:9032094 original size:25 final size:25
Alignment explanation
Indices: 9032061--9032117 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
9032051 TGAAATTTAG
9032061 ATATATTAAAAATGTATTAAATATAA
1 ATAT-TTAAAAATGTATTAAATATAA
** * *
9032087 ATATTTAAATTTTTATTAAATATTA
1 ATATTTAAAAATGTATTAAATATAA
9032112 ATATTT
1 ATATTT
9032118 TAGAATATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATATTTAAAAATGTATTAAATATAA
Found at i:9032510 original size:31 final size:33
Alignment explanation
Indices: 9032439--9032511 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
9032429 GAAAAACCCT
* *
9032439 TTTTATTTTTATATCAAAATTACAGATTGTTGA
1 TTTTATTTTTATATCAAAATAACAGATTGATGA
* * *
9032472 TTCTATTTTTATATTAAAATAATAGA-T-ATGA
1 TTTTATTTTTATATCAAAATAACAGATTGATGA
9032503 TTTTATTTT
1 TTTTATTTT
9032512 AAAATCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 11 0.32
32 1 0.03
33 22 0.65
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (33 bp):
TTTTATTTTTATATCAAAATAACAGATTGATGA
Found at i:9036846 original size:17 final size:17
Alignment explanation
Indices: 9036826--9036858 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9036816 AAAAGTACAC
*
9036826 TAATGAATACAAATAAT
1 TAATCAATACAAATAAT
9036843 TAATCAATACAAATAA
1 TAATCAATACAAATAA
9036859 GCATTACAAT
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:0.61, C:0.09, G:0.03, T:0.27
Consensus pattern (17 bp):
TAATCAATACAAATAAT
Found at i:9037274 original size:27 final size:27
Alignment explanation
Indices: 9037225--9037283 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
9037215 AGAATAATTT
*
9037225 TAAAATTAATATATAAAGCAACTAAAAA
1 TAAAATTAATATATAAAACAACT-AAAA
* *
9037253 TAAAA-TAATATATAAAATAACTTAAA
1 TAAAATTAATATATAAAACAACTAAAA
9037279 TAAAA
1 TAAAA
9037284 ATAAGTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.29
27 15 0.54
28 5 0.18
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (27 bp):
TAAAATTAATATATAAAACAACTAAAA
Found at i:9038979 original size:45 final size:45
Alignment explanation
Indices: 9038922--9039156 Score: 167
Period size: 45 Copynumber: 5.3 Consensus size: 45
9038912 GTGTCTTTGA
* *
9038922 TCTGCTTCGCTGCCAATACAGGAAAACAAGATCTGTTATCTTTAG
1 TCTGCTCCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTAG
* * * * * *
9038967 TCTGCTCCGCTGCAAACT-CAAGG-AGGCAAG-GCTGGTGTC-TTCG
1 TCTGCTCCGCTGCCAA-TAC-AGGAAGACAAGATCTGTTATCTTTAG
** * *
9039010 ATCTGCTTTGCTGCCAATACAGAAAGACAAGATATGTTATCTTTAG
1 -TCTGCTCCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTAG
* * * * * * *
9039056 TCTGCTCCGCTGCAAACT-CAGGGAGTCAAGA-CTTTTGTCTTCAA
1 TCTGCTCCGCTGCCAA-TACAGGAAGACAAGATCTGTTATCTTTAG
* * ** *
9039100 TCTGCTTCGCTGGCAATACAGGAAGACAAGATCTACTATCTTCAG
1 TCTGCTCCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTAG
*
9039145 TCTACTCCGCTG
1 TCTGCTCCGCTG
9039157 TAAATTTATG
Statistics
Matches: 140, Mismatches: 40, Indels: 20
0.70 0.20 0.10
Matches are distributed among these distances:
43 7 0.05
44 58 0.41
45 67 0.48
46 8 0.06
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGCTCCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTAG
Found at i:9039130 original size:44 final size:44
Alignment explanation
Indices: 9038921--9039130 Score: 133
Period size: 44 Copynumber: 4.7 Consensus size: 44
9038911 GGTGTCTTTG
* * *
9038921 ATCTGCTTCGCTGCCAATACAGGAAAACAAGATCTGTTATCTTTA
1 ATCTGCTTCGCTGGCAATACAGGAAGACAAGA-CTGTTATCTTCA
* * * * * * *
9038966 GTCTGCTCCGCT-GCAA-ACTCAAGG-AGGCAAGGCTGGTGTCTTCG
1 ATCTGCTTCGCTGGCAATA--C-AGGAAGACAAGACTGTTATCTTCA
* * * * *
9039010 ATCTGCTTTGCTGCCAATACAGAAAGACAAGATATGTTATCTTTA
1 ATCTGCTTCGCTGGCAATACAGGAAGACAAGA-CTGTTATCTTCA
* * * * * *
9039055 GTCTGCTCCGCT-GCAA-ACTCAGGGAGTCAAGACTTTTGTCTTCA
1 ATCTGCTTCGCTGGCAATA--CAGGAAGACAAGACTGTTATCTTCA
9039099 ATCTGCTTCGCTGGCAATACAGGAAGACAAGA
1 ATCTGCTTCGCTGGCAATACAGGAAGACAAGA
9039131 TCTACTATCT
Statistics
Matches: 117, Mismatches: 37, Indels: 23
0.66 0.21 0.13
Matches are distributed among these distances:
43 4 0.03
44 59 0.50
45 49 0.42
46 5 0.04
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTGCTTCGCTGGCAATACAGGAAGACAAGACTGTTATCTTCA
Found at i:9039346 original size:267 final size:267
Alignment explanation
Indices: 9038899--9039419 Score: 769
Period size: 267 Copynumber: 2.0 Consensus size: 267
9038889 GCAAACCCAG
* * *
9038899 GGAGGCAAAGCTGGTGTCTTTGATCTGCTTCGCTGCCAATACAGGAAAACAAGATCTGTTATCTT
1 GGAGGCAAAGCTGGTGTCTTCGATCTGATTCACTGCCAATACAGGAAAACAAGATCTGTTATCTT
* * **
9038964 TAGTCTGCTCCGCTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGCCAATA
66 TAGTCTGCTCCGCTACAAACTCAAGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCACTGCCAATA
* * * * **
9039029 CAGAAAGACAAGATATGTTATCTTTAGTCTGCTCCGCTGCAAACTCAGGGA-GTCAAGACTTTTG
131 CAGAAAGACAAGATATGTTATATTCAGTCTACTCCACTGCAAACTCAGGGAGGT-AAGACTGGTG
*
9039093 TCTTCAATCTGCTTCGCTGGCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTCCGCTGT
195 TCTTCAATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTCCGCTGT
9039158 AAATTTAT
260 AAATTTAT
9039166 GGAGGCAAAGCTGGTGTCTTCGATCTGATTCACTGCCAATACAGGAAAACAAGATCTGTTAT-TT
1 GGAGGCAAAGCTGGTGTCTTCGATCTGATTCACTGCCAATACAGGAAAACAAGATCTGTTATCTT
* * * *
9039230 TCAGTCTGTTCCGTTACAAACTCAGGGAGGCAAAGCTGGTGTCTTTGATCTGCTTCACTGCCAAT
66 T-AGTCTGCTCCGCTACAAACTCAAGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCACTGCCAAT
* *
9039295 ACAGAAA-ACCAAGATATGTTATATTCAGTCTACTTCACTGCAAACTCAGGGAGGTAAGGCTGGT
130 ACAGAAAGA-CAAGATATGTTATATTCAGTCTACTCCACTGCAAACTCAGGGAGGTAAGACTGGT
* * * * *
9039359 GTCTTCGATCTGCTTTGCTGCCAATACAGGAAGACAAGATCTGCTATCTTTAGTCTGCTCC
194 GTCTTCAATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTCC
9039420 ATCGCAGCTT
Statistics
Matches: 226, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
266 4 0.02
267 220 0.97
268 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (267 bp):
GGAGGCAAAGCTGGTGTCTTCGATCTGATTCACTGCCAATACAGGAAAACAAGATCTGTTATCTT
TAGTCTGCTCCGCTACAAACTCAAGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCACTGCCAATA
CAGAAAGACAAGATATGTTATATTCAGTCTACTCCACTGCAAACTCAGGGAGGTAAGACTGGTGT
CTTCAATCTGCTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTCCGCTGTA
AATTTAT
Found at i:9039435 original size:89 final size:89
Alignment explanation
Indices: 9038871--9039419 Score: 665
Period size: 89 Copynumber: 6.2 Consensus size: 89
9038861 AAATTTGCTC
* * * * *
9038871 TCTTCAGTCTGCTCTGTTGCAAACCCAGGGAGGCAAAGCTGGTGTCTTTGATCTGCTTCGCTGCC
1 TCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGCC
9038936 AATACAGGAAAACAAGATCTGTTA
66 AATACAGGAAAACAAGATCTGTTA
* * *
9038960 TCTTTAGTCTGCTCCGCTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGCC
1 TCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGCC
*
9039025 AATACA-GAAAGACAAGATATGTTA
66 AATACAGGAAA-ACAAGATCTGTTA
* ** * *
9039049 TCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGTC-AAGACTTTTGTCTTCAATCTGCTTCGCTGG
1 TCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAG-CTGGTGTCTTCGATCTGCTTCGCTGC
* **
9039113 CAATACAGGAAGACAAGATCTACTA
65 CAATACAGGAAAACAAGATCTGTTA
* * * * * * * *
9039138 TCTTCAGTCTACTCCGCTGTAAATTTATGGAGGCAAAGCTGGTGTCTTCGATCTGATTCACTGCC
1 TCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGCC
9039203 AATACAGGAAAACAAGATCTGTTA
66 AATACAGGAAAACAAGATCTGTTA
* * * * *
9039227 T-TTTCAGTCTGTTCCGTTACAAACTCAGGGAGGCAAAGCTGGTGTCTTTGATCTGCTTCACTGC
1 TCTTT-AGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGC
*
9039291 CAATACA-GAAAACCAAGATATGTTA
65 CAATACAGGAAAA-CAAGATCTGTTA
* * * * * * * *
9039316 TATTCAGTCTACTTCACTGCAAACTCAGGGAGGTAAGGCTGGTGTCTTCGATCTGCTTTGCTGCC
1 TCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGCC
* *
9039381 AATACAGGAAGACAAGATCTGCTA
66 AATACAGGAAAACAAGATCTGTTA
9039405 TCTTTAGTCTGCTCC
1 TCTTTAGTCTGCTCC
9039420 ATCGCAGCTT
Statistics
Matches: 384, Mismatches: 68, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
88 13 0.03
89 359 0.93
90 12 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (89 bp):
TCTTTAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGCC
AATACAGGAAAACAAGATCTGTTA
Found at i:9040860 original size:47 final size:47
Alignment explanation
Indices: 9040773--9040862 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
9040763 ATTTTTTTGG
* *
9040773 ACTCAAGTGCCCTTTGCGGGTTTTCACATTGGTCTTTTTTTTTAAGA
1 ACTCAAGCGCCCTTTGCGGGTTTTCACATTGGTCTCTTTTTTTAAGA
*
9040820 ACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC-CTTTTTTT
1 ACTC-AAGCGCCCTTTGCGGGTTTTCACATTGGTCTCTTTTTTT
9040863 CTTCAAGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
47 11 0.28
48 28 0.72
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.43
Consensus pattern (47 bp):
ACTCAAGCGCCCTTTGCGGGTTTTCACATTGGTCTCTTTTTTTAAGA
Found at i:9049450 original size:19 final size:18
Alignment explanation
Indices: 9049410--9049453 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
9049400 ATTCAGACAG
9049410 TTTTTTGATAGTCTGCTA
1 TTTTTTGATAGTCTGCTA
*
9049428 TTTTTTGATAGTCTGCTG
1 TTTTTTGATAGTCTGCTA
9049446 TTTTTTGA
1 TTTTTTGA
9049454 AAGAGTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.09, G:0.18, T:0.59
Consensus pattern (18 bp):
TTTTTTGATAGTCTGCTA
Found at i:9051056 original size:25 final size:25
Alignment explanation
Indices: 9051021--9051070 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
9051011 GACACAAGGT
*
9051021 GGAAATTGTTTAAGGTATTGAACTG
1 GGAAATGGTTTAAGGTATTGAACTG
*
9051046 GGAAATGGTTTAAGGTATTGGACTG
1 GGAAATGGTTTAAGGTATTGAACTG
9051071 AGTTTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.34
Consensus pattern (25 bp):
GGAAATGGTTTAAGGTATTGAACTG
Found at i:9054023 original size:44 final size:45
Alignment explanation
Indices: 9053960--9054058 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
9053950 GCTATTACAC
*
9053960 TTCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTA
1 TTCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTA
* * *
9054004 TTCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTA
1 TTCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTA
9054049 TTCCATTACA
1 TTCCATTACA
9054059 ACGAACTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.47
45 25 0.51
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.32
Consensus pattern (45 bp):
TTCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTA
Found at i:9058546 original size:27 final size:28
Alignment explanation
Indices: 9058507--9058565 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
9058497 AGAATAATTT
*
9058507 TAAAATTAATATATAAAGCAACTAAAAA
1 TAAAATTAATATATAAAACAACTAAAAA
* *
9058535 TAAAA-TAATATATAAAATAACTTAAAA
1 TAAAATTAATATATAAAACAACTAAAAA
9058562 TAAA
1 TAAA
9058566 TCCTTTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAAATTAATATATAAAACAACTAAAAA
Found at i:9058616 original size:21 final size:20
Alignment explanation
Indices: 9058580--9058618 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9058570 TTACAAAGCA
9058580 AGTTAAAATAACATATAATG
1 AGTTAAAATAACATATAATG
*
9058600 AGTTAAATATAATATATAA
1 AGTTAAA-ATAACATATAA
9058619 AAGAGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (20 bp):
AGTTAAAATAACATATAATG
Found at i:9061720 original size:33 final size:34
Alignment explanation
Indices: 9061683--9061749 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
9061673 TATGTACAGT
*
9061683 TCTAATTA-TAAAAATATCAATTAATTTAAAAAA
1 TCTAATAACTAAAAATATCAATTAATTTAAAAAA
* * * *
9061716 TCTAATAACTCAAAATCTTAATTTATTTAAAAAA
1 TCTAATAACTAAAAATATCAATTAATTTAAAAAA
9061750 AAATTTACGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 7 0.25
34 21 0.75
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (34 bp):
TCTAATAACTAAAAATATCAATTAATTTAAAAAA
Found at i:9067040 original size:26 final size:26
Alignment explanation
Indices: 9067010--9067079 Score: 63
Period size: 28 Copynumber: 2.6 Consensus size: 26
9067000 TATTAAGAAT
9067010 TTTATGAAATTATATATCATTATTAAA
1 TTTATGAAATTATATATCATT-TTAAA
* * *
9067037 TTATATGTAATAATA-ATTATTTTAAA
1 TT-TATGAAATTATATATCATTTTAAA
9067063 -TTATGCAAATTCATATA
1 TTTATG-AAATT-ATATA
9067080 AGAAAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
24 4 0.12
25 4 0.12
26 8 0.24
27 8 0.24
28 10 0.29
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTATGAAATTATATATCATTTTAAA
Found at i:9067641 original size:45 final size:44
Alignment explanation
Indices: 9067540--9067649 Score: 133
Period size: 45 Copynumber: 2.6 Consensus size: 44
9067530 TTTTTCCATT
9067540 ATGCTATTACACCTCTATT-C----CATTCAACCAAACACATGA
1 ATGCTATTACACCTCTATTCCATTACATTCAACCAAACACATGA
* *
9067579 ATACTATTACGCCTCTATTCCATTACATTCAACCAAACA-ATTGA
1 ATGCTATTACACCTCTATTCCATTACATTCAACCAAACACA-TGA
*
9067623 TTTGCTATTACACCTCTATTCCATTAC
1 -ATGCTATTACACCTCTATTCCATTAC
9067650 GCCTCTATTC
Statistics
Matches: 59, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 17 0.29
40 1 0.02
43 1 0.02
44 17 0.29
45 23 0.39
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
ATGCTATTACACCTCTATTCCATTACATTCAACCAAACACATGA
Found at i:9067654 original size:16 final size:16
Alignment explanation
Indices: 9067629--9067666 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
9067619 TTGATTTGCT
9067629 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
9067645 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
9067661 AATACA
1 ATTACA
9067667 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:9068114 original size:30 final size:31
Alignment explanation
Indices: 9068051--9068119 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 31
9068041 TTATAGGTGA
*
9068051 TAAATTTAAATAAAGTATTTTTTTCAAATTATT
1 TAAATATAAATAAAG-ATTTTTTTC-AATTATT
9068084 TAAATATAAATAAA-ATTATTTTTC-ATTATT
1 TAAATATAAATAAAGATT-TTTTTCAATTATT
9068114 TAAATA
1 TAAATA
9068120 ATTTATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 12 0.35
31 3 0.09
32 6 0.18
33 13 0.38
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
TAAATATAAATAAAGATTTTTTTCAATTATT
Found at i:9072922 original size:33 final size:32
Alignment explanation
Indices: 9072873--9072934 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
9072863 CAATAATAGT
*
9072873 TCAGTTCAGTTAGGCCTTAGCCTATTACAATA
1 TCAGTTCAGTTAGGCCTTAGCCCATTACAATA
9072905 TCAGTATCAGTGT-GGCCTTAGCCCATTACA
1 TCAGT-TCAGT-TAGGCCTTAGCCCATTACA
9072935 GTGACAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 5 0.19
33 21 0.78
34 1 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (32 bp):
TCAGTTCAGTTAGGCCTTAGCCCATTACAATA
Found at i:9072943 original size:33 final size:33
Alignment explanation
Indices: 9072885--9072948 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
9072875 AGTTCAGTTA
* *
9072885 GGCCTTAGCCTATTACAATATCAGTATCAGTGT
1 GGCCTTAGCCCATTACAATATCAGTAACAGTGT
*
9072918 GGCCTTAGCCCATTACAGTGA-CAGTAACAGT
1 GGCCTTAGCCCATTACAAT-ATCAGTAACAGT
9072949 TTAGACATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (33 bp):
GGCCTTAGCCCATTACAATATCAGTAACAGTGT
Found at i:9073235 original size:25 final size:27
Alignment explanation
Indices: 9073207--9073260 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
9073197 ACAATCATAC
9073207 ATAACATA-AAGCAT-ATAGTCATTTT
1 ATAACATAGAAGCATAATAGTCATTTT
* **
9073232 ATAATATAGGGGCATAATAGTCATTTT
1 ATAACATAGAAGCATAATAGTCATTTT
9073259 AT
1 AT
9073261 CACGTGGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 4 0.17
27 13 0.54
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (27 bp):
ATAACATAGAAGCATAATAGTCATTTT
Found at i:9073270 original size:27 final size:27
Alignment explanation
Indices: 9073217--9073288 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
9073207 ATAACATAAA
*
9073217 GCAT-ATAGTCATTTTATAATATAGGG
1 GCATAATAGTCATTTTATAACATAGGG
* * *
9073243 GCATAATAGTCATTTTATCACGTGGGG
1 GCATAATAGTCATTTTATAACATAGGG
*
9073270 GCATAACT-GTCACTTTATA
1 GCATAA-TAGTCATTTTATA
9073289 TCAGTTTGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.11
27 33 0.87
28 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (27 bp):
GCATAATAGTCATTTTATAACATAGGG
Found at i:9073892 original size:17 final size:18
Alignment explanation
Indices: 9073870--9073903 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9073860 ACCCATGTGA
9073870 GGCCCACA-AGCCCATTG
1 GGCCCACACAGCCCATTG
9073887 GGCCCACACAGCCCATT
1 GGCCCACACAGCCCATT
9073904 TTGGCCCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.44, G:0.21, T:0.12
Consensus pattern (18 bp):
GGCCCACACAGCCCATTG
Found at i:9074024 original size:348 final size:352
Alignment explanation
Indices: 9073321--9074025 Score: 1051
Period size: 354 Copynumber: 2.0 Consensus size: 352
9073311 CTTATCGACC
* * * * * *
9073321 CATCAGTAGGTCCACAGTCCTCTCGGGCTATCTGTGCAACCTTAGCAGTCAAATAGTAAAATTGG
1 CATCAATAGGTCCACAGTCCTCTCGGGCAACCTATGCAACCTTAACAGTCAAACAGTAAAATTGG
* *
9073386 GCTAAATACCTATAATGCGAGCTCATGCGGGTCTACACGCCCGTATGGCCCACATAGCCCAAAAT
66 GCCAAATACCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTATGGCCCACATAGCCCAAAAT
* *
9073451 TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCTCGTCACATTCGAGTGGTTTACCC
131 TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCACGTCACATT--AGTCGTTTACCC
** * *
9073516 ATGTGATTCCCACAAGTCCATTGGGCCCACACGGCCCATTTCGGCCCAACATGGCCCAAAACGGC
194 ATGTGAGGCCCACAAGCCCATTGGGCCCACACAGCCCATTTCGGCCCAACATGGCCCAAAACGGC
* * *
9073581 CGAAGACCACGATTTGCTCATGGTGCCCTCAATAGTCTAATGCCTACGTTTTATGCGTATGAATT
259 CGAAGACCACGATTCGCTCATGGTGCCCTCAATAGTCTAACGCCTACATTTTATGCGTATGAATT
* * *
9073646 TCTACACGAGCAAGCACACGCTCGTGTAG
324 TCCACACAAGCAAGCACACGCTCATGTAG
* *
9073675 CATCAATAGGTCCACAGTCCTTTCGGGCAACCTATGCAACTTTAACAGTCAAACAGTAAAATTGG
1 CATCAATAGGTCCACAGTCCTCTCGGGCAACCTATGCAACCTTAACAGTCAAACAGTAAAATTGG
* *
9073740 GCCAAATGCCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTGTGGCCCACATAGCCCAAAAT
66 GCCAAATACCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTATGGCCCACATAGCCCAAAAT
*
9073805 TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAA-CACGT-TCA-T-GTCGTTTACCCAT
131 TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCACGTCACATTAGTCGTTTACCCAT
* **
9073866 GTGAGGCCCACAAGCCCATTGGGCCCACACAGCCCATTTTGGCCCAACATGGCGTAAAACGGCCG
196 GTGAGGCCCACAAGCCCATTGGGCCCACACAGCCCATTTCGGCCCAACATGGCCCAAAACGGCCG
* * *
9073931 AAGACCACGATTCGCTCATGGTGGCCTCAATAGTCTAACG-TTCACATTTTATGCGTTTGAATTT
261 AAGACCACGATTCGCTCATGGTGCCCTCAATAGTCTAACGCCT-ACATTTTATGCGTATGAATTT
* *
9073995 CCACACAAGCGAGCGCACGCTCATGTAG
325 CCACACAAGCAAGCACACGCTCATGTAG
9074023 CAT
1 CAT
9074026 TAATTGTCAT
Statistics
Matches: 317, Mismatches: 33, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
347 1 0.00
348 152 0.48
351 1 0.00
352 2 0.01
353 4 0.01
354 157 0.50
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (352 bp):
CATCAATAGGTCCACAGTCCTCTCGGGCAACCTATGCAACCTTAACAGTCAAACAGTAAAATTGG
GCCAAATACCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTATGGCCCACATAGCCCAAAAT
TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCACGTCACATTAGTCGTTTACCCAT
GTGAGGCCCACAAGCCCATTGGGCCCACACAGCCCATTTCGGCCCAACATGGCCCAAAACGGCCG
AAGACCACGATTCGCTCATGGTGCCCTCAATAGTCTAACGCCTACATTTTATGCGTATGAATTTC
CACACAAGCAAGCACACGCTCATGTAG
Found at i:9077394 original size:23 final size:23
Alignment explanation
Indices: 9077368--9077497 Score: 94
Period size: 24 Copynumber: 5.7 Consensus size: 23
9077358 ATTAACATCG
9077368 TTTTAAATTTATCAT-TAG-ATTTA
1 TTTTAAA-TTATCATATAGTA-TTA
9077391 TTTT-AA-TATCATATAGTATTA
1 TTTTAAATTATCATATAGTATTA
*
9077412 TTTTAAATTATCATA-AGTACTA
1 TTTTAAATTATCATATAGTATTA
*
9077434 -TTTAAATCTATCATATA-TCATAA
1 TTTTAAAT-TATCATATAGT-ATTA
* * ** *
9077457 TTTAAAATTTATCATGTACAATAA
1 TTTTAAA-TTATCATATAGTATTA
9077481 TTTTAAACTTATCATAT
1 TTTTAAA-TTATCATAT
9077498 CATTATTTAG
Statistics
Matches: 88, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
20 6 0.07
21 17 0.19
22 19 0.22
23 14 0.16
24 31 0.35
25 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.48
Consensus pattern (23 bp):
TTTTAAATTATCATATAGTATTA
Found at i:9077435 original size:22 final size:23
Alignment explanation
Indices: 9077368--9077450 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 23
9077358 ATTAACATCG
*
9077368 TTTTAAATTTATCAT-TAG-ATTTA
1 TTTTAAA-TTATCATATAGTA-CTA
*
9077391 TTTT-AA-TATCATATAGTATTA
1 TTTTAAATTATCATATAGTACTA
9077412 TTTTAAATTATCATA-AGTACTA
1 TTTTAAATTATCATATAGTACTA
9077434 -TTTAAATCTATCATATA
1 TTTTAAAT-TATCATATA
9077451 TCATAATTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
20 6 0.11
21 17 0.32
22 18 0.34
23 12 0.23
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (23 bp):
TTTTAAATTATCATATAGTACTA
Found at i:9077469 original size:24 final size:23
Alignment explanation
Indices: 9077433--9077516 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 23
9077423 CATAAGTACT
*
9077433 ATTTAAATCTATCATATATC-ATA
1 ATTTAAATTTATCATATA-CAATA
*
9077456 ATTTAAAATTTATCATGTACAATA
1 ATTT-AAATTTATCATATACAATA
* *
9077480 ATTTTAAACTTATCATAT-C-ATT
1 A-TTTAAATTTATCATATACAATA
*
9077502 ATTTAGATTTATCAT
1 ATTTAAATTTATCAT
9077517 GTACTATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 12 0.24
22 3 0.06
23 6 0.12
24 27 0.53
25 3 0.06
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTTAAATTTATCATATACAATA
Found at i:9077716 original size:27 final size:28
Alignment explanation
Indices: 9077641--9077716 Score: 93
Period size: 27 Copynumber: 2.7 Consensus size: 28
9077631 TCTAAAGAAC
* *
9077641 TATATGATAGTATTTTCATACATTATTAT
1 TATATGATAGTATTTT-ATATATAATTAT
9077670 TATAT-ATA-TATTTTATATATAAATTAT
1 TATATGATAGTATTTTATATAT-AATTAT
*
9077697 TATATGATAGTAATTTATAT
1 TATATGATAGTATTTTATAT
9077717 TTCAAAACCA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.12
27 16 0.39
28 6 0.15
29 14 0.34
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (28 bp):
TATATGATAGTATTTTATATATAATTAT
Found at i:9081506 original size:12 final size:12
Alignment explanation
Indices: 9081491--9081517 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9081481 CATGAATTTA
9081491 TACATTCTTTTG
1 TACATTCTTTTG
9081503 TACATTCTTTTG
1 TACATTCTTTTG
9081515 TAC
1 TAC
9081518 TTGCTATGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.07, T:0.56
Consensus pattern (12 bp):
TACATTCTTTTG
Found at i:9082135 original size:6 final size:6
Alignment explanation
Indices: 9082101--9082134 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9082091 AGCTCAAAAA
* *
9082101 AAAATC AAAATC AAAGTC AAAATC AAAAAC AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
9082135 AGAAGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:9082146 original size:6 final size:6
Alignment explanation
Indices: 9082137--9082204 Score: 52
Period size: 6 Copynumber: 11.2 Consensus size: 6
9082127 AAACAAAAAG
* *
9082137 AAGAAA AAGAAA AAGAAA AATCAAA AATGAAA TAA-AAA GAAGGAA AA-AAA
1 AAGAAA AAGAAA AAGAAA AA-GAAA AA-GAAA -AAGAAA -AAGAAA AAGAAA
*
9082187 AAGAGA AA-AAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA A
9082205 GGAGAGGTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
5 8 0.16
6 29 0.58
7 11 0.22
8 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:9082152 original size:12 final size:11
Alignment explanation
Indices: 9082131--9082204 Score: 67
Period size: 11 Copynumber: 6.2 Consensus size: 11
9082121 AATCAAAAAC
*
9082131 AAAAAGAAGAA
1 AAAAAAAAGAA
9082142 AAAGAAAAAGAA
1 AAA-AAAAAGAA
9082154 AAATCAAAAATGAA
1 AAA--AAAAA-GAA
*
9082168 ATAAAAAGAAGGA
1 A-AAAAA-AAGAA
*
9082181 AAAAAAAAGAG
1 AAAAAAAAGAA
9082192 AAAAAAAAGAA
1 AAAAAAAAGAA
9082203 AA
1 AA
9082205 GGAGAGGTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
11 18 0.35
12 15 0.29
13 11 0.21
14 6 0.12
15 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.15, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:9082957 original size:8 final size:7
Alignment explanation
Indices: 9082939--9082981 Score: 52
Period size: 8 Copynumber: 6.0 Consensus size: 7
9082929 TTTAAGTCAA
9082939 AAAAATG
1 AAAAATG
*
9082946 AAAAGTG
1 AAAAATG
9082953 AAAAATG
1 AAAAATG
9082960 AAAAAATG
1 -AAAAATG
9082968 AAAAAAT-
1 -AAAAATG
9082975 AAAAATG
1 AAAAATG
9082982 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 12 0.38
8 14 0.44
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:9082978 original size:22 final size:22
Alignment explanation
Indices: 9082938--9082981 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9082928 CTTTAAGTCA
*
9082938 AAAAAATGAAAAGTGAAAAATG
1 AAAAAATGAAAAATGAAAAATG
9082960 AAAAAATGAAAAAAT-AAAAATG
1 AAAAAATG-AAAAATGAAAAATG
9082982 GAGAGGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAAATGAAAAATGAAAAATG
Found at i:9084315 original size:87 final size:87
Alignment explanation
Indices: 9084168--9084366 Score: 301
Period size: 87 Copynumber: 2.3 Consensus size: 87
9084158 TAGATCAGTG
** *
9084168 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGTTTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCATTGCCTCCA
* *
9084233 TCGGTTGCAGTGGAGCTGGTTA
66 TCGGTTCCAGTGGAGCGGGTTA
* * *
9084255 AAGATAGCAGATCTTGTTTTCCTGCATTGACAGCGAAGTAGATTGAAAATAAAGCATTGCCTCCA
1 AAGATAGCAGATCTTGTTTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCATTGCCTCCA
9084320 TCGGTTCCAGTGGAGCGGGTTA
66 TCGGTTCCAGTGGAGCGGGTTA
*
9084342 AAGATGGCAGATCTT-TCTTTCCTGC
1 AAGATAGCAGATCTTGT-TTTCCTGC
9084367 CTTGCCTCCA
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 1 0.01
87 101 0.99
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (87 bp):
AAGATAGCAGATCTTGTTTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCATTGCCTCCA
TCGGTTCCAGTGGAGCGGGTTA
Found at i:9084399 original size:57 final size:57
Alignment explanation
Indices: 9084311--9084423 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
9084301 AAATAAAGCA
* * * *
9084311 TTGCCTCCATCGGTTCCAGTGGAGCGGGTTAAAGATGGCAGATCTTTCTTTCCTGCC
1 TTGCCTCCATCGGTTCCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCC
*
9084368 TTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGC
1 TTGCCTCCATCGGTTCCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGC
9084424 ACTGGCAGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.30
Consensus pattern (57 bp):
TTGCCTCCATCGGTTCCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCC
Found at i:9084463 original size:88 final size:88
Alignment explanation
Indices: 9084365--9084536 Score: 283
Period size: 88 Copynumber: 2.0 Consensus size: 88
9084355 TTTCTTTCCT
*
9084365 GCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCA-CTGG
1 GCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATC-GA
*
9084429 CAGTAAAGCAGATCGAAGATACCA
65 CAGTAAAGCAGATCAAAGATACCA
* *
9084453 GCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGAC
1 GCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGAC
*
9084518 AGTGAAGCAGATCAAAGAT
66 AGTAAAGCAGATCAAAGAT
9084537 TACAAGTCCT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 77 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (88 bp):
GCCTTGCCTCCATCGGTTGCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCATCGAC
AGTAAAGCAGATCAAAGATACCA
Found at i:9084527 original size:45 final size:44
Alignment explanation
Indices: 9084383--9084527 Score: 141
Period size: 45 Copynumber: 3.3 Consensus size: 44
9084373 TCCATCGGTT
* * *
9084383 GCAGTGGAGCAGGTTAAAGATAGCAGATCTTGCCTTCCTGCACTG
1 GCAGTGAAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA-TC
* * * * * * * *
9084428 GCAGTAAAGCAGATCGAAGATACCAG-CCTTGCCTCCCT-CGGTT
1 GCAGTGAAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGC-ATC
*
9084471 GCAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC
1 GCAGTGAAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC
9084515 GACAGTGAAGCAG
1 G-CAGTGAAGCAG
9084528 ATCAAAGATT
Statistics
Matches: 76, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
43 23 0.30
44 22 0.29
45 31 0.41
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (44 bp):
GCAGTGAAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC
Found at i:9084626 original size:44 final size:43
Alignment explanation
Indices: 9084576--9085126 Score: 270
Period size: 44 Copynumber: 11.8 Consensus size: 43
9084566 GAATAGGCTG
* *
9084576 GAAGCCAGAAATCTTATCTCCTTGATGTTACAGTGGAGCAGATT
1 GAAGCTAGAAATCTTATCTCCCTGA-GTTACAGTGGAGCAGATT
* * **
9084620 GAAGCCAGAAATCTTATCTCCCTGTGATTACAGCAGAGCAGATT
1 GAAGCTAGAAATCTTATCTCCCTGAG-TTACAGTGGAGCAGATT
* *
9084664 GAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATT
1 GAAGCTAGAAATCTTATCTCCCTGAG-TTACAGTGGAGCAGATT
** * * * *
9084708 -AAAATA-AAGGGTCTTACCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGATT
1 GAAGCTAGAA--ATCTTATCTCCCTG-AGTTAC-----AGT-G---G-AGCAGATT
* *
9084762 GAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
1 GAAGCTAGAAATCTTATCTCCCTGAG-TTACAGTGGAGCAGATT
* * * *
9084806 GAAGCTAGTAATCATATCTCCCTGAGGTTACAGTGCAGCGGATT
1 GAAGCTAGAAATCTTATCTCCCTGA-GTTACAGTGGAGCAGATT
* *
9084850 AAAG-TA-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGATT
1 GAAGCTAGAA--ATCTTATCTCCCTG-AGTTACAGT---G--GA--G---CAGATT
* * *
9084904 AAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
1 GAAGCTAGAAATCTTATCTCCCTGAG-TTACAGTGGAGCAGATT
* * * *
9084948 GAAGCTAGTAATCATATCTCCCTGAGGTTACAGTGCAGCGGATT
1 GAAGCTAGAAATCTTATCTCCCTGA-GTTACAGTGGAGCAGATT
* *
9084992 AAAG-TA-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGATT
1 GAAGCTAGAA--ATCTTATCTCCCTG-AGTTACAGT---G--GA--G---CAGATT
* * * *
9085046 AAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGAAGCAGATT
1 GAAGCTAGAAATCTTATCTCCCTGAG-TTACAGTGGAGCAGATT
* * *
9085090 GAAGCCA-ATAATCCTATTTCCCTGAGATTACAGTGGA
1 GAAGCTAGA-AATCTTATCTCCCTGAG-TTACAGTGGA
9085127 ATAGACCGAA
Statistics
Matches: 392, Mismatches: 63, Indels: 104
0.70 0.11 0.19
Matches are distributed among these distances:
42 3 0.01
43 10 0.03
44 256 0.65
45 7 0.02
47 4 0.01
48 1 0.00
49 10 0.03
50 1 0.00
51 4 0.01
53 7 0.02
54 78 0.20
55 5 0.01
56 6 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (43 bp):
GAAGCTAGAAATCTTATCTCCCTGAGTTACAGTGGAGCAGATT
Found at i:9084871 original size:142 final size:142
Alignment explanation
Indices: 9084614--9085124 Score: 851
Period size: 142 Copynumber: 3.6 Consensus size: 142
9084604 TACAGTGGAG
* * * *
9084614 CAGATTGAAGCCAGAAATCTTATCTCCCTGTGATTACAGCAGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAT
* * * * * *
9084679 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGGTCTTACCTCTCTGAAGTTACAATAG
66 ATCTCCCTGAGATTACAGTGCAGCGGATTAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAG
*
9084744 AGTAGATCGCAT
131 AGCAGATCGCAT
*
9084756 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAT
1 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAT
*
9084821 ATCTCCCTGAGGTTACAGTGCAGCGGATTAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGCAGCGGATTAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAG
9084886 AGCAGATCGCAT
131 AGCAGATCGCAT
9084898 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAT
1 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAT
*
9084963 ATCTCCCTGAGGTTACAGTGCAGCGGATTAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGCAGCGGATTAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAG
9085028 AGCAGATCGCAT
131 AGCAGATCGCAT
* * * *
9085040 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGAAGCAGATTGAAGCCAATAATCCT
1 CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAT
*
9085105 ATTTCCCTGAGATTACAGTG
66 ATCTCCCTGAGATTACAGTG
9085125 GAATAGACCG
Statistics
Matches: 351, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 351 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (142 bp):
CAGATTAAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCAT
ATCTCCCTGAGATTACAGTGCAGCGGATTAAAGTAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGCAGATCGCAT
Found at i:9085281 original size:50 final size:50
Alignment explanation
Indices: 9085219--9085451 Score: 182
Period size: 50 Copynumber: 4.7 Consensus size: 50
9085209 ATTGTTGTTC
* * *
9085219 AAAAGATTAAAGCTACAACAGTGAATCTTACCTCCCAGG-TGATGCAGTGG
1 AAAAGATTAAAGCCACAACAGTGAATCTTACTTCCCAGGCAG-TGCAGTGG
* ** * * * * * * **
9085269 AACAGATTAAAGCCACTTCGGTGAATCTTGCTTCCCCGACATTGCATTTC
1 AAAAGATTAAAGCCACAACAGTGAATCTTACTTCCCAGGCAGTGCAGTGG
* *
9085319 AAAAGATTAAAGCTACAACAGTGAATCTTACTTCCTAGGCAGTGCAGTGG
1 AAAAGATTAAAGCCACAACAGTGAATCTTACTTCCCAGGCAGTGCAGTGG
* * ** * * * **
9085369 AATAGATTAAAGCCACAACAGCGAATAATGCTTCCCCA-ACATTGCAGTTA
1 AAAAGATTAAAGCCACAACAGTGAATCTTACTT-CCCAGGCAGTGCAGTGG
** *
9085419 AAAAGATTAAAGCCACAATGGCGAATCTTACTT
1 AAAAGATTAAAGCCACAACAGTGAATCTTACTT
9085452 TCCAAAAGTT
Statistics
Matches: 137, Mismatches: 44, Indels: 4
0.74 0.24 0.02
Matches are distributed among these distances:
50 134 0.98
51 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (50 bp):
AAAAGATTAAAGCCACAACAGTGAATCTTACTTCCCAGGCAGTGCAGTGG
Found at i:9085445 original size:100 final size:100
Alignment explanation
Indices: 9085199--9085451 Score: 319
Period size: 100 Copynumber: 2.5 Consensus size: 100
9085189 AAAGACCTTA
** * *
9085199 CTTCCCCGACATTGTTGTTCAAAAGATTAAAGCTACAACAGTGAATCTTACCTCCCAGGTGATGC
1 CTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGTGAATCTTACTTCCCAGGAGATGC
** * * **
9085264 AGTGGAACAGATTAAAGCCACTTCGGTGAATCTTG
66 AGTGGAACAGATTAAAGCCACAACAGCGAATAATG
* *
9085299 CTTCCCCGACATTGCATTTCAAAAGATTAAAGCTACAACAGTGAATCTTACTTCCTAGGCAG-TG
1 CTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGTGAATCTTACTTCCCAGG-AGATG
*
9085363 CAGTGGAATAGATTAAAGCCACAACAGCGAATAATG
65 CAGTGGAACAGATTAAAGCCACAACAGCGAATAATG
* * * ** *
9085399 CTTCCCCAACATTGCAGTTAAAAAGATTAAAGCCACAATGGCGAATCTTACTT
1 CTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGTGAATCTTACTT
9085452 TCCAAAAGTT
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 131 0.99
101 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (100 bp):
CTTCCCCGACATTGCAGTTCAAAAGATTAAAGCTACAACAGTGAATCTTACTTCCCAGGAGATGC
AGTGGAACAGATTAAAGCCACAACAGCGAATAATG
Found at i:9086933 original size:21 final size:25
Alignment explanation
Indices: 9086887--9086954 Score: 69
Period size: 23 Copynumber: 3.0 Consensus size: 25
9086877 CTTAACATTG
*
9086887 TTTTAAATTTATCATTAGT--T-TTA
1 TTTTAAA-TTATCATAAGTACTATTA
9086910 TTTT-AA-TATCAT-A-TACTATTA
1 TTTTAAATTATCATAAGTACTATTA
9086931 TTTTAAATTATCATAAGTACTATT
1 TTTTAAATTATCATAAGTACTATT
9086955 TAAATCTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 7 0.18
21 7 0.18
22 4 0.11
23 10 0.26
24 1 0.03
25 7 0.18
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.54
Consensus pattern (25 bp):
TTTTAAATTATCATAAGTACTATTA
Found at i:9086988 original size:24 final size:23
Alignment explanation
Indices: 9086916--9087042 Score: 95
Period size: 24 Copynumber: 5.6 Consensus size: 23
9086906 TTTATTTTAA
*
9086916 TATCATATACTATTATTTTAAA-T
1 TATCATATACTA-TAATTTAAATT
* *
9086939 TATCATA-AGTACT-ATTTAAATC
1 TATCATATACTA-TAATTTAAATT
9086961 TATCATATA-TCATAATTTAAAATT
1 TATCATATACT-ATAATTT-AAATT
* *
9086985 TATCATGTACTATAATTTTAAACT
1 TATCATATACTATAA-TTTAAATT
* *
9087009 TATCATAT-C-ATTATTTAGATT
1 TATCATATACTATAATTTAAATT
*
9087030 TATCATGTACTAT
1 TATCATATACTAT
9087043 TTTTTTTGTG
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
21 19 0.23
22 17 0.20
23 16 0.19
24 27 0.33
25 4 0.05
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (23 bp):
TATCATATACTATAATTTAAATT
Found at i:9087280 original size:21 final size:20
Alignment explanation
Indices: 9087254--9087299 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
9087244 TATATGGTTA
**
9087254 TTTTTATATTATTTTAACTAT
1 TTTTTATACCATTTTAA-TAT
*
9087275 TTTTTATACCCTTTTAATAT
1 TTTTTATACCATTTTAATAT
9087295 TTTTT
1 TTTTT
9087300 GAGCTACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATACCATTTTAATAT
Found at i:9090292 original size:22 final size:21
Alignment explanation
Indices: 9090262--9090306 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
9090252 ATACCAAAAC
*
9090262 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCG-TTTTTT
9090284 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGTTTTTT
9090305 AG
1 AG
9090307 TGCCGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.11, C:0.18, G:0.29, T:0.42
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGTTTTTT
Found at i:9090447 original size:43 final size:43
Alignment explanation
Indices: 9090396--9090540 Score: 263
Period size: 43 Copynumber: 3.4 Consensus size: 43
9090386 GTTTTTCGAA
* *
9090396 ACAAACGCCGCTAAAGACCAAGGCCTTTAGCGGTGCTTTTACC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
9090439 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
*
9090482 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
9090525 ACAAACGCCGCTAAAG
1 ACAAACGCCGCTAAAG
9090541 GGCACTTATC
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACC
Found at i:9090612 original size:43 final size:42
Alignment explanation
Indices: 9090551--9090675 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 42
9090541 GGCACTTATC
*
9090551 CCACAAACGCCGCTATAGACCACGACCTTTAACGGCGCTTTTA
1 CCACAAACGCCGCTATAGACCA-GACCTTTAGCGGCGCTTTTA
* *
9090594 CCACAAACGCCGCTATAGACCATGACCTTTAGCAGCGCTTTTC
1 CCACAAACGCCGCTATAGACCA-GACCTTTAGCGGCGCTTTTA
* *
9090637 CCACAAACGCCGCTATAGAACAAACCTTTAGCGGCGCTT
1 CCACAAACGCCGCTATAGACCAGACCTTTAGCGGCGCTT
9090676 CTAAAAATAT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 15 0.20
43 60 0.80
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (42 bp):
CCACAAACGCCGCTATAGACCAGACCTTTAGCGGCGCTTTTA
Found at i:9090641 original size:114 final size:114
Alignment explanation
Indices: 9090437--9090651 Score: 367
Period size: 114 Copynumber: 1.9 Consensus size: 114
9090427 GGTGCTTTTA
*
9090437 CCACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCA
1 CCACAAACGCCGCTAAAGACCAAGACCTTTAACGGCGCTTTTACCACAAACGCCGCTAAAGACCA
* *
9090502 AGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGGGCACTTATC
66 AGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGGGCACTTATC
* * *
9090551 CCACAAACGCCGCTATAGACCACGACCTTTAACGGCGCTTTTACCACAAACGCCGCTATAGACCA
1 CCACAAACGCCGCTAAAGACCAAGACCTTTAACGGCGCTTTTACCACAAACGCCGCTAAAGACCA
*
9090616 TGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTA
66 AGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTA
9090652 TAGAACAAAC
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.19
Consensus pattern (114 bp):
CCACAAACGCCGCTAAAGACCAAGACCTTTAACGGCGCTTTTACCACAAACGCCGCTAAAGACCA
AGACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTAAAGGGCACTTATC
Found at i:9091035 original size:19 final size:19
Alignment explanation
Indices: 9091013--9091078 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
9091003 ACAGTAATGA
9091013 AAAATTAAACACCACACAT
1 AAAATTAAACACCACACAT
* * *
9091032 AAAATTACACAAACAGTAACGA-
1 AAAATTAAAC-ACCA--CAC-AT
9091054 AAAATTAAACACCACACAT
1 AAAATTAAACACCACACAT
9091073 AAAATT
1 AAAATT
9091079 TATCAAACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
18 1 0.03
19 17 0.47
20 3 0.08
21 3 0.08
22 11 0.31
23 1 0.03
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATTAAACACCACACAT
Found at i:9091086 original size:41 final size:41
Alignment explanation
Indices: 9090997--9091078 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
9090987 AAAAATTAAA
* *
9090997 ACACAGACAGTAATGAAAAATTAAACACCACACATAAAATT
1 ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
9091038 ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
1 ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
9091079 TATCAAACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.57, C:0.21, G:0.06, T:0.16
Consensus pattern (41 bp):
ACACAAACAGTAACGAAAAATTAAACACCACACATAAAATT
Found at i:9093806 original size:40 final size:41
Alignment explanation
Indices: 9093723--9093799 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 41
9093713 TCAATGCGTA
* *
9093723 TTTGCGGCGTTTTTCATAAAAAACGCCGCTATTGCTTACCT
1 TTTGCGGCGTTTTTCATAAAAAACGCCGCTAATGATTACCT
* *
9093764 TTTGCGGCGTTTTTC-TCATAAACGCCGCTAATGATT
1 TTTGCGGCGTTTTTCATAAAAAACGCCGCTAATGATT
9093800 GACTTTTTCT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (41 bp):
TTTGCGGCGTTTTTCATAAAAAACGCCGCTAATGATTACCT
Found at i:9094350 original size:7 final size:7
Alignment explanation
Indices: 9094340--9094377 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
9094330 CACTAACTCT
9094340 TAACCCC
1 TAACCCC
9094347 TAACCCC
1 TAACCCC
9094354 TAACCCC
1 TAACCCC
**
9094361 TAACTAC
1 TAACCCC
9094368 TAACCCC
1 TAACCCC
9094375 TAA
1 TAA
9094378 ATCTTATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:9094356 original size:21 final size:21
Alignment explanation
Indices: 9094332--9094383 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
9094322 TCCCAAATCA
*
9094332 CTAACTCTTAACCCCTAACCC
1 CTAACTCTTAACCACTAACCC
* * *
9094353 CTAACCCCTAACTACTAACCC
1 CTAACTCTTAACCACTAACCC
*
9094374 CTAAATCTTA
1 CTAACTCTTA
9094384 TTTAATATAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAACTCTTAACCACTAACCC
Found at i:9094465 original size:20 final size:19
Alignment explanation
Indices: 9094432--9094470 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
9094422 CCTAAATCCT
9094432 AAATCCTAAACCCTAACCC
1 AAATCCTAAACCCTAACCC
*
9094451 AAATCCCTAACCCCTAACCC
1 AAAT-CCTAAACCCTAACCC
9094471 CTACACCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATCCTAAACCCTAACCC
Found at i:9094984 original size:41 final size:41
Alignment explanation
Indices: 9094927--9095250 Score: 454
Period size: 41 Copynumber: 7.9 Consensus size: 41
9094917 TCAAAAATGG
* *
9094927 GCATTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGTTCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTCGA
* * *
9094968 GCATTAGCGGCGCTTCTTTAAAATCGCCGCTAAAGGTTCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTCGA
* *
9095009 GCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGGCTAGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTCGA
* * *
9095050 GCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTCGA
** *
9095091 GCATTAGCGATGCTTCTTCAGAAACGCCGCTAAAGG-TCTGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTC-GA
* *
9095132 GCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTCGA
***
9095173 GCATTAGCGGCGCTTCTTCAAAAAAATCGCTAAAGGC-CAGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTC-GA
9095214 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGC
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGC
9095251 CCCAATAACT
Statistics
Matches: 252, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
40 2 0.01
41 249 0.99
42 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTCGA
Found at i:9095358 original size:39 final size:38
Alignment explanation
Indices: 9095300--9095422 Score: 138
Period size: 40 Copynumber: 3.1 Consensus size: 38
9095290 TTTGCAGCGC
*
9095300 TTTTCAAAAAACGCCGCTAATGCTTATTTTTAGCGGCG
1 TTTTCAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
* * *
9095338 TTTTCCAAAAAGCGCCGCTAATGCTCAACTTTTAGCGGCA
1 TTTT-CAAAAAGCGCCGCTAATGCT-TATTTTTAGCGGCG
* * *
9095378 TTTTTATAAAAGCCCCGCTAATGCTTGATTTTTAGTGGCGG
1 TTTTCA-AAAAGCGCCGCTAATGCTT-ATTTTTAGCGGC-G
9095419 TTTT
1 TTTT
9095423 TTGTCCAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
38 4 0.06
39 20 0.29
40 42 0.60
41 4 0.06
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (38 bp):
TTTTCAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
Found at i:9097464 original size:19 final size:19
Alignment explanation
Indices: 9097436--9097476 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9097426 ATAATTCAAT
*
9097436 TAATTCAATTTTGGAACCA
1 TAATTCAATTCTGGAACCA
*
9097455 TAATTGAATTCTGGAACCA
1 TAATTCAATTCTGGAACCA
9097474 TAA
1 TAA
9097477 ACCAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (19 bp):
TAATTCAATTCTGGAACCA
Found at i:9107457 original size:15 final size:14
Alignment explanation
Indices: 9107436--9107475 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
9107426 GAAGTGAATG
9107436 ATTGAATATGTTGA
1 ATTGAATATGTTGA
*
9107450 ATTTGAATAAGTTGA
1 A-TTGAATATGTTGA
9107465 ATTG-ATATGTT
1 ATTGAATATGTT
9107476 TTGATACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 4 0.17
15 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (14 bp):
ATTGAATATGTTGA
Found at i:9108176 original size:30 final size:31
Alignment explanation
Indices: 9108124--9108182 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
9108114 TATAAAAATT
* *
9108124 GTCACCCAACTATGTGTTTCTTTCTATTTTG
1 GTCACCCAACTATGTATTTCTTTCAATTTTG
9108155 GTCACCCAACTAT-TATTTCTTTCAATTT
1 GTCACCCAACTATGTATTTCTTTCAATTT
9108183 AATCACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.47
Consensus pattern (31 bp):
GTCACCCAACTATGTATTTCTTTCAATTTTG
Found at i:9108446 original size:10 final size:10
Alignment explanation
Indices: 9108426--9108455 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9108416 GTTTTAACTC
9108426 TAAAAAT-TT
1 TAAAAATATT
9108435 TAAAAATATT
1 TAAAAATATT
9108445 TAAAAATATT
1 TAAAAATATT
9108455 T
1 T
9108456 TTAGCCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAAATATT
Found at i:9110965 original size:13 final size:13
Alignment explanation
Indices: 9110947--9110972 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9110937 TATTTCACTC
9110947 AAATTTGATATTT
1 AAATTTGATATTT
9110960 AAATTTGATATTT
1 AAATTTGATATTT
9110973 TAACTCTTAT
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAATTTGATATTT
Found at i:9133771 original size:23 final size:24
Alignment explanation
Indices: 9133745--9133794 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
9133735 TGATTTTTAA
9133745 ATTTTA-AATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
* *
9133768 A-TTTAGGATTATTTGGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
9133791 ATTT
1 ATTT
9133795 AGGAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAGTGATAAT
Found at i:9133772 original size:13 final size:13
Alignment explanation
Indices: 9133754--9133796 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
9133744 AATTTTAAAT
9133754 TATTTAGTGATAA
1 TATTTAGTGATAA
9133767 TATTTAG-GAT--
1 TATTTAGTGATAA
*
9133777 TATTTGGTGATAA
1 TATTTAGTGATAA
9133790 TATTTAG
1 TATTTAG
9133797 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:9133795 original size:23 final size:23
Alignment explanation
Indices: 9133752--9133798 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
9133742 TAAATTTTAA
9133752 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
*
9133775 ATTATTTGGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
9133798 A
1 A
9133799 AAAATCTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:9135829 original size:51 final size:52
Alignment explanation
Indices: 9135768--9135868 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 52
9135758 AATTATTTAA
9135768 AAATAGGGATTTAAGAG-AAATTTAAGAGAAAATTGAGAGCAAA-TTGAGATT
1 AAATAGGGATTTAAGAGCAAA-TTAAGAGAAAATTGAGAGCAAATTTGAGATT
* * * * *
9135819 AAATATGGATTTGAGAGCAAATTGAGAGGAAATTGAGAGGAAATTTGAGA
1 AAATAGGGATTTAAGAGCAAATTAAGAGAAAATTGAGAGCAAATTTGAGA
9135869 GCACTAGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 34 0.79
52 9 0.21
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.25
Consensus pattern (52 bp):
AAATAGGGATTTAAGAGCAAATTAAGAGAAAATTGAGAGCAAATTTGAGATT
Found at i:9135843 original size:11 final size:11
Alignment explanation
Indices: 9135829--9135871 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
9135819 AAATATGGAT
9135829 TTGAGAGCAAA
1 TTGAGAGCAAA
*
9135840 TTGAGAGGAAA
1 TTGAGAGCAAA
*
9135851 TTGAGAGGAAA
1 TTGAGAGCAAA
9135862 TTTGAGAGCA
1 -TTGAGAGCA
9135872 CTAGTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.42, C:0.05, G:0.33, T:0.21
Consensus pattern (11 bp):
TTGAGAGCAAA
Found at i:9139383 original size:9 final size:9
Alignment explanation
Indices: 9139365--9139816 Score: 282
Period size: 9 Copynumber: 51.8 Consensus size: 9
9139355 TATGTATTAC
*
9139365 GTAAATTAT
1 GTAAGTTAT
*
9139374 GTAAGCTAT
1 GTAAGTTAT
9139383 GT-A-TTAT
1 GTAAGTTAT
*
9139390 ATAAGTTAT
1 GTAAGTTAT
9139399 GTAAGTTAT
1 GTAAGTTAT
9139408 GT-A-TTAT
1 GTAAGTTAT
*
9139415 GTAAGCTAT
1 GTAAGTTAT
*
9139424 GTAAGTTGT
1 GTAAGTTAT
9139433 GT-A-TTAT
1 GTAAGTTAT
9139440 GTAAGTTAT
1 GTAAGTTAT
9139449 GT-A-TTAT
1 GTAAGTTAT
* *
9139456 GTATGTTAC
1 GTAAGTTAT
*
9139465 GTAAGTTGT
1 GTAAGTTAT
*
9139474 GT-AG-AAT
1 GTAAGTTAT
9139481 GTAAGTTAT
1 GTAAGTTAT
9139490 GTAAGTTAT
1 GTAAGTTAT
9139499 GTAAG-TAGT
1 GTAAGTTA-T
*
9139508 GTATAATGTAAT
1 G--TAA-GTTAT
9139520 -TAAGTTAT
1 GTAAGTTAT
*
9139528 GTAAGTTGT
1 GTAAGTTAT
*
9139537 GT-A-TAAT
1 GTAAGTTAT
9139544 GTAAGTTAT
1 GTAAGTTAT
9139553 GTAAGTTAT
1 GTAAGTTAT
9139562 GT-A-TTAT
1 GTAAGTTAT
*
9139569 GTAAGTTGT
1 GTAAGTTAT
**
9139578 GTATAATGCAAT
1 G--TAA-GTTAT
9139590 -TAAGTTAT
1 GTAAGTTAT
*
9139598 GTAAGTTGT
1 GTAAGTTAT
*
9139607 GT-A-TAAT
1 GTAAGTTAT
9139614 GTAAGTTAT
1 GTAAGTTAT
9139623 GTAAGTTAT
1 GTAAGTTAT
9139632 GT-A-TTAT
1 GTAAGTTAT
*
9139639 GTAAGTTGT
1 GTAAGTTAT
**
9139648 GTATAATGCAAT
1 G--TAA-GTTAT
9139660 -TAAGTTAT
1 GTAAGTTAT
*
9139668 GTAAGTTGT
1 GTAAGTTAT
*
9139677 GT-A-TAAT
1 GTAAGTTAT
9139684 GTAAGTTAT
1 GTAAGTTAT
9139693 GTATGAAAGTTAT
1 G--T--AAGTTAT
9139706 GT-A-TTAT
1 GTAAGTTAT
9139713 GTAAGTTAT
1 GTAAGTTAT
*
9139722 TTAAGTTAT
1 GTAAGTTAT
*
9139731 GTAAGTTGT
1 GTAAGTTAT
9139740 GT-A-TTAT
1 GTAAGTTAT
9139747 GTAAGTTAT
1 GTAAGTTAT
9139756 GTAAGTTAT
1 GTAAGTTAT
* *
9139765 GTAGGCTAT
1 GTAAGTTAT
9139774 GT-A-TTAT
1 GTAAGTTAT
9139781 GTAAGTTAT
1 GTAAGTTAT
*
9139790 -TATGTTATTAT
1 GTAAG---TTAT
9139801 GTAAGTTAT
1 GTAAGTTAT
*
9139810 GCAAGTT
1 GTAAGTT
9139817 TATATTTAAG
Statistics
Matches: 341, Mismatches: 54, Indels: 96
0.69 0.11 0.20
Matches are distributed among these distances:
7 64 0.19
8 41 0.12
9 203 0.60
11 15 0.04
12 9 0.03
13 9 0.03
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9139388 original size:16 final size:16
Alignment explanation
Indices: 9139369--9139810 Score: 238
Period size: 16 Copynumber: 26.9 Consensus size: 16
9139359 TATTACGTAA
*
9139369 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
*
9139385 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
9139401 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* *
9139417 AAGCTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
9139435 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* *
9139451 ATTATGTATGTTACGT
1 ATTATGTAAGTTATGT
* *
9139467 AAGTTGTGT-AG-AATGT
1 -A-TTATGTAAGTTATGT
9139483 AAGTTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGT
* *
9139501 AAGTAGTGT-A-TAATGT
1 -ATTA-TGTAAGTTATGT
9139517 A--AT-TAAGTTATGT
1 ATTATGTAAGTTATGT
* *
9139530 AAGTTGTGT-A-TAATGT
1 -A-TTATGTAAGTTATGT
9139546 AAGTTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGT
*
9139564 ATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
9139580 ATAATGCAATTAAGTTATGT
1 ATTATG----TAAGTTATGT
* *
9139600 AAGTTGTGT-A-TAATGT
1 -A-TTATGTAAGTTATGT
9139616 AAGTTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGT
*
9139634 ATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
* * *
9139650 ATAATGCAA-TTAAG-
1 ATTATGTAAGTTATGT
*
9139664 -TTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
9139679 ATAATGTAAGTTATG-
1 ATTATGTAAGTTATGT
*
9139694 --TATGAAAGTTATGT
1 ATTATGTAAGTTATGT
*
9139708 ATTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
*
9139724 AAGTTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
9139742 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* *
9139758 AAGTTATGTAGGCTATGT
1 -A-TTATGTAAGTTATGT
9139776 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
9139796 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
9139811 CAAGTTTATA
Statistics
Matches: 334, Mismatches: 52, Indels: 79
0.72 0.11 0.17
Matches are distributed among these distances:
11 1 0.00
12 2 0.01
13 23 0.07
14 4 0.01
15 4 0.01
16 183 0.55
17 27 0.08
18 62 0.19
19 4 0.01
20 20 0.06
21 1 0.00
22 3 0.01
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.45
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:9139398 original size:25 final size:25
Alignment explanation
Indices: 9139354--9139810 Score: 340
Period size: 25 Copynumber: 18.2 Consensus size: 25
9139344 TGATATATAT
* *
9139354 TTATGTATTACGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
9139379 CTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
9139404 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
9139429 TTGTGTATTATGTAAGTTATGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
* *
9139452 TTATGTATGTTACGTAAGTTGTGT-AG
1 TTATGTA--TTATGTAAGTTATGTAAG
*
9139478 -AATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
9139504 -TAGTGTATAATGTAATTAAGTTATGTAAG
1 TTA-TGTATTATG----TAAGTTATGTAAG
* *
9139533 TTGTGTATAATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
9139558 TTATGTATTATGTAAGTTGTGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
* *
9139581 TAATGCA--AT-TAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
9139603 TTGTGTATAATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
9139628 TTATGTATTATGTAAGTTGTGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
* *
9139651 TAATGCA--AT-TAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
9139673 TTGTGTATAATGTAAGTTATGTATGAAAG
1 TTATGTATTATGTAAGTTATG--T--AAG
*
9139702 TTATGTATTATGTAAGTTATTTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
9139727 TTATGTAAGTTGTGT-A-TTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
9139752 TTATGTAAGTTATGTAGGCTATGTATTA-
1 TTATGT-A-TTATGTAAGTTATGTA--AG
* *
9139780 TGTAAGTTATTATGTTA-TTATGTAAG
1 T-TATG-TATTATGTAAGTTATGTAAG
9139806 TTATG
1 TTATG
9139811 CAAGTTTATA
Statistics
Matches: 349, Mismatches: 49, Indels: 68
0.75 0.11 0.15
Matches are distributed among these distances:
20 18 0.05
21 6 0.02
22 8 0.02
23 16 0.05
24 7 0.02
25 207 0.59
26 8 0.02
27 22 0.06
28 7 0.02
29 48 0.14
30 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:9139523 original size:29 final size:29
Alignment explanation
Indices: 9139491--9139547 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
9139481 GTAAGTTATG
9139491 TAAGTTATGTAAGTAGTGTATAATGTAAT
1 TAAGTTATGTAAGTAGTGTATAATGTAAT
*
9139520 TAAGTTATGTAAGTTGTGTATAATGTAA
1 TAAGTTATGTAAGTAGTGTATAATGTAA
9139548 GTTATGTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (29 bp):
TAAGTTATGTAAGTAGTGTATAATGTAAT
Found at i:9139591 original size:70 final size:70
Alignment explanation
Indices: 9139479--9139767 Score: 421
Period size: 70 Copynumber: 4.2 Consensus size: 70
9139469 GTTGTGTAGA
* *
9139479 ATGTAAGTTATGTAAGTTATGTAAGTAGTGTATAATGTAATTAAGTTATGTAAGTTGTGTATAAT
1 ATGTAAGTTATGT-A-TTATGTAAGTTGTGTATAATGCAATTAAGTTATGTAAGTTGTGTATAAT
9139544 GTAAGTT
64 GTAAGTT
9139551 ATGTAAGTTATGTATTATGTAAGTTGTGTATAATGCAATTAAGTTATGTAAGTTGTGTATAATGT
1 ATGTAAGTTATGTATTATGTAAGTTGTGTATAATGCAATTAAGTTATGTAAGTTGTGTATAATGT
9139616 AAGTT
66 AAGTT
9139621 ATGTAAGTTATGTATTATGTAAGTTGTGTATAATGCAATTAAGTTATGTAAGTTGTGTATAATGT
1 ATGTAAGTTATGTATTATGTAAGTTGTGTATAATGCAATTAAGTTATGTAAGTTGTGTATAATGT
9139686 AAGTT
66 AAGTT
* * * * * * * *
9139691 ATGTATG-AAAG--TTATGT-A-TTATGTA-AGT-TATTTAAGTTATGTAAGTTGTGTATTATGT
1 ATGTAAGTTATGTATTATGTAAGTTGTGTATAATGCAATTAAGTTATGTAAGTTGTGTATAATGT
9139749 AAGTT
66 AAGTT
9139754 ATGTAAGTTATGTA
1 ATGTAAGTTATGTA
9139768 GGCTATGTAT
Statistics
Matches: 201, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
63 38 0.19
64 4 0.02
65 6 0.03
66 1 0.00
67 6 0.03
69 2 0.01
70 130 0.65
71 1 0.00
72 13 0.06
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (70 bp):
ATGTAAGTTATGTATTATGTAAGTTGTGTATAATGCAATTAAGTTATGTAAGTTGTGTATAATGT
AAGTT
Found at i:9141114 original size:22 final size:21
Alignment explanation
Indices: 9141089--9141156 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
9141079 TTATCAATGA
9141089 AGGTGTAAAACAATTTATGTGC
1 AGGTGTAAAACAATTTATGT-C
*** *
9141111 AGGTGTAAAACACACGGAAGT-
1 AGGTGTAAAACA-ATTTATGTC
9141132 AGGTGTAAAACAATTTATGTAC
1 AGGTGTAAAACAATTTATGT-C
9141154 AGG
1 AGG
9141157 AGAATATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
22 15 0.43
23 4 0.11
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (21 bp):
AGGTGTAAAACAATTTATGTC
Found at i:9141763 original size:124 final size:123
Alignment explanation
Indices: 9141460--9141915 Score: 565
Period size: 124 Copynumber: 3.7 Consensus size: 123
9141450 AAGCGTCTTA
* * * * *
9141460 TTTAAACTACTATGAAGCTTTGCCGCGTTTTTAAAATAGCGCCTCTAATTCTCACATTTCGCGGC
1 TTTAAACTACAATGAAGCTTTGCGGCGTTTCTAAAATAGCGCCTCTAATTCTCACCTTTTGCGGC
* * *
9141525 GTTTTTAGCCTAGCGCCGCTAATGCCGCTAATTTTTCCAGAC-AAA-ACGCCGTTTTG
66 GTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTGCCAGACAAAAGACACCGTTTTG
* * *
9141581 TTTAAACTACAATGAAGCTTTGTGGAGTTTCTAAAATAGCGCCTCTAATTCTCGCCTTTTGCGGC
1 TTTAAACTACAATGAAGCTTTGCGGCGTTTCTAAAATAGCGCCTCTAATTCTCACCTTTTGCGGC
* *
9141646 GTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTGCCAGACAAAATGACACCGTTATC
66 GTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTGCCAGACAAAA-GACACCGTTTTG
* * *
9141705 TATAAACTACAATGAAGCTTTGCGGCGTTTTTAAAATAGCGCCTCTAATTCTCACCTTTTGCAGC
1 TTTAAACTACAATGAAGCTTTGCGGCGTTTCTAAAATAGCGCCTCTAATTCTCACCTTTTGCGGC
* * * **
9141770 GTTTTTAGCGTAGCGCCGCTAATGCCGCTAATTTCGACAGACAAAACGACATAGTTTTG
66 GTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTGCCAGACAAAA-GACACCGTTTTG
* * * * ** * * * * *
9141829 TTTAAATTAAAATGAAGTTTTGCGGCATTTCCCAAGTAGCGCCTCTAATGCTCATCTTTAGAGGC
1 TTTAAACTACAATGAAGCTTTGCGGCGTTTCTAAAATAGCGCCTCTAATTCTCACCTTTTGCGGC
* * *
9141894 GTTTTTATCTTAGCGCCACTAA
66 GTTTTTAGCATAGCGCCGCTAA
9141916 ATCCATTAAA
Statistics
Matches: 288, Mismatches: 44, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
121 97 0.34
122 3 0.01
124 188 0.65
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (123 bp):
TTTAAACTACAATGAAGCTTTGCGGCGTTTCTAAAATAGCGCCTCTAATTCTCACCTTTTGCGGC
GTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTGCCAGACAAAAGACACCGTTTTG
Found at i:9142240 original size:14 final size:14
Alignment explanation
Indices: 9142170--9142240 Score: 65
Period size: 14 Copynumber: 4.9 Consensus size: 14
9142160 ACCCTTGAAT
* *
9142170 CCCTAAGCCTTAAAT
1 CCCTAAACCTT-AAC
9142185 CCCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
9142199 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
9142213 CCCTAAACCCTTAAC
1 CCCTAAA-CCTTAAC
9142228 CCCTAAACCTTAA
1 CCCTAAACCTTAA
9142241 ATCCAAACAC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
13 1 0.02
14 25 0.52
15 20 0.42
16 2 0.04
ACGTcount: A:0.34, C:0.41, G:0.01, T:0.24
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:9142267 original size:14 final size:14
Alignment explanation
Indices: 9142250--9142300 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
9142240 AATCCAAACA
9142250 CTTAAACCATAATC
1 CTTAAACCATAATC
**
9142264 CTTAATTCATAATC
1 CTTAAACCATAATC
* *
9142278 CCTAAATCCATACTC
1 CTTAAA-CCATAATC
9142293 CTTAAACC
1 CTTAAACC
9142301 TTAAAATATG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 18 0.62
15 11 0.38
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.31
Consensus pattern (14 bp):
CTTAAACCATAATC
Found at i:9142553 original size:21 final size:22
Alignment explanation
Indices: 9142498--9142566 Score: 97
Period size: 21 Copynumber: 3.2 Consensus size: 22
9142488 CCTCACTCAT
9142498 CTAACCCCTAAACCCATAAATCC
1 CTAACCCCTAAA-CCATAAATCC
*
9142521 CTAACCCCTAAACCTTAAATCC
1 CTAACCCCTAAACCATAAATCC
*
9142543 C-AACCCTTAAACCAT-AATCC
1 CTAACCCCTAAACCATAAATCC
9142563 CTAA
1 CTAA
9142567 TCCATACTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 6 0.14
21 14 0.33
22 10 0.24
23 12 0.29
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAACCCCTAAACCATAAATCC
Found at i:9143084 original size:40 final size:41
Alignment explanation
Indices: 9142940--9143081 Score: 223
Period size: 41 Copynumber: 3.5 Consensus size: 41
9142930 TAGCTGTGCT
9142940 TTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCA
1 TTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCA
*
9142981 TTTTCAAAAACACCGCTAAAACCCCGAGCATTAGCGGCGCA
1 TTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCA
* * * * *
9143022 TTTTAAAAAATGCCGCT-AAAGCCCGAGCATTAGCGACGCT
1 TTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCA
9143062 TTTTCAAAAACGCCGCTAAA
1 TTTTCAAAAACGCCGCTAAA
9143082 GCCTCGAAAG
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 35 0.38
41 56 0.62
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.20
Consensus pattern (41 bp):
TTTTCAAAAACGCCGCTAAAACCCCGAGCATTAGCGGCGCA
Found at i:9145500 original size:75 final size:75
Alignment explanation
Indices: 9145371--9145522 Score: 243
Period size: 75 Copynumber: 2.0 Consensus size: 75
9145361 GTTAAACGAG
*
9145371 AAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTG-TATTTTG
1 AAATCGAAAACCAGCACATTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCTATTTTG
9145435 AAATTTTTTT
66 AAATTTTTTT
*
9145445 AAATCGAAAACCAGCACATTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGAAAACCAGCACATTAGGGCACG-TTCCTCGAATTTCCAAACGCAAAACATTG-C-TATT
*
9145510 TTGAATTTTTTTT
63 TTGAAATTTTTTT
9145523 TAAAAGATAT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
74 27 0.38
75 28 0.39
78 16 0.23
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (75 bp):
AAATCGAAAACCAGCACATTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCTATTTTG
AAATTTTTTT
Found at i:9146278 original size:26 final size:25
Alignment explanation
Indices: 9146238--9146289 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
9146228 ATATTTATGA
*
9146238 AAGTTAAAAATAAGTACATGTATAT
1 AAGTTAAAAATAAGTACATATATAT
*
9146263 AAGTTAAAAAATAAGTATATATATAT
1 AAGTT-AAAAATAAGTACATATATAT
9146289 A
1 A
9146290 TATATATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (25 bp):
AAGTTAAAAATAAGTACATATATAT
Found at i:9146634 original size:12 final size:12
Alignment explanation
Indices: 9146599--9146634 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9146589 GAAATATATA
*
9146599 AATAATAGCAAT
1 AATAATAGTAAT
9146611 AATAATAGTAAT
1 AATAATAGTAAT
*
9146623 AATAATATTAAT
1 AATAATAGTAAT
9146635 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (12 bp):
AATAATAGTAAT
Found at i:9152327 original size:22 final size:22
Alignment explanation
Indices: 9152289--9152341 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
9152279 TATATTTAAT
*
9152289 TTAA-ATTTTACATTAATAATTA
1 TTAATATTTTACAGTAAT-ATTA
*
9152311 TTAATATTTTA-AGTAATATTT
1 TTAATATTTTACAGTAATATTA
9152332 TTAAGTATTT
1 TTAA-TATTT
9152342 AATATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 14 0.52
23 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
TTAATATTTTACAGTAATATTA
Found at i:9152443 original size:39 final size:40
Alignment explanation
Indices: 9152372--9152452 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
9152362 TCTAACCCAT
*
9152372 AACCCCTAAATCCCCCTTAACCCTTAAAGCATAAACCCTA
1 AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
* *
9152412 AACCCCTAAATCTCCC-TAACCCCTAAAGCATAACCCCTA
1 AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
9152451 AA
1 AA
9152453 AAATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 23 0.61
40 15 0.39
ACGTcount: A:0.38, C:0.41, G:0.02, T:0.19
Consensus pattern (40 bp):
AACCCCTAAATCCCCCTTAACCCCTAAAGCATAAACCCTA
Found at i:9153084 original size:22 final size:22
Alignment explanation
Indices: 9153046--9153098 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
9153036 TATATTTAAT
*
9153046 TTAA-ATTTTACATTAATAATTA
1 TTAATATTTTACAGTAAT-ATTA
*
9153068 TTAATATTTTA-AGTAATATTT
1 TTAATATTTTACAGTAATATTA
9153089 TTAAGTATTT
1 TTAA-TATTT
9153099 AATATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 14 0.52
23 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
TTAATATTTTACAGTAATATTA
Found at i:9153221 original size:39 final size:40
Alignment explanation
Indices: 9153143--9153223 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 40
9153133 TCTAACCCAT
9153143 AACTCCTAAATCTCCCTTAACCCTTAAAGCATAAACCCTA
1 AACTCCTAAATCTCCCTTAACCCTTAAAGCATAAACCCTA
9153183 AACTCCTAAATCTCCC-TAATCCC-TAAAGCA-AAACCCCTA
1 AACTCCTAAATCTCCCTTAA-CCCTTAAAGCATAAA-CCCTA
9153222 AA
1 AA
9153224 AAATTTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
38 3 0.08
39 17 0.44
40 19 0.49
ACGTcount: A:0.40, C:0.36, G:0.02, T:0.22
Consensus pattern (40 bp):
AACTCCTAAATCTCCCTTAACCCTTAAAGCATAAACCCTA
Found at i:9153515 original size:15 final size:15
Alignment explanation
Indices: 9153495--9153544 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
9153485 CGTTCAAACT
*
9153495 CTAAACCCCAAATCC
1 CTAAACCCCAAACCC
*
9153510 CTAAACCCCTAACCC
1 CTAAACCCCAAACCC
*
9153525 CT-AACTCCTAAACCC
1 CTAAAC-CCCAAACCC
9153540 CTAAA
1 CTAAA
9153545 TCCTAGCTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 3 0.10
15 24 0.83
16 2 0.07
ACGTcount: A:0.38, C:0.46, G:0.00, T:0.16
Consensus pattern (15 bp):
CTAAACCCCAAACCC
Found at i:9153523 original size:22 final size:22
Alignment explanation
Indices: 9153498--9153543 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
9153488 TCAAACTCTA
9153498 AACCCCAAA-TCCCTAAACCCCT
1 AACCCCAAACT-CCTAAACCCCT
*
9153520 AACCCCTAACTCCTAAACCCCT
1 AACCCCAAACTCCTAAACCCCT
9153542 AA
1 AA
9153544 ATCCTAGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (22 bp):
AACCCCAAACTCCTAAACCCCT
Found at i:9153548 original size:15 final size:15
Alignment explanation
Indices: 9153520--9153549 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9153510 CTAAACCCCT
*
9153520 AACCCCTAACTCCTA
1 AACCCCTAAATCCTA
9153535 AACCCCTAAATCCTA
1 AACCCCTAAATCCTA
9153550 GCTCTTAAAT
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:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (15 bp):
AACCCCTAAATCCTA
Found at i:9154038 original size:114 final size:116
Alignment explanation
Indices: 9153897--9154176 Score: 290
Period size: 113 Copynumber: 2.5 Consensus size: 116
9153887 TAAGGAGACA
* * * *
9153897 ACGTCGTTGGGCTTAG-GTTTTTAGCGGCGCTTTTACAAAAAACGCCGCTAAAAG-CCTGATAAT
1 ACGTCGTTGCGCTTAGATTTTTTTGCGGCGCTTTTACAAAAAACGCCGCTAAAAGACCTGAGAAT
* *
9153960 TAGCGGCGCTTCCTATA-AAGTGCCACTAAATCCCTGAA-AGCT-GGCGAGACG
66 TAGCGGCGCTT--TATAGAAGCGCCACTAAATCCCTGAATAGCTCGG-GAAACG
* * * * * *
9154011 ATGTCGTTGCGC-TAGATTTTTTTGCGGCGC-TTTCCCAGAAACACCGCT-AAAGACCTGAGCAT
1 ACGTCGTTGCGCTTAGATTTTTTTGCGGCGCTTTTACAAAAAACGCCGCTAAAAGACCTGAGAAT
* * *
9154073 TAGCGGCGCTTTATAGGAAGCGCCGCTAATTCCGTGAATAGCTCGGGAAACG
66 TAGCGGCGCTTTATA-GAAGCGCCACTAAATCCCTGAATAGCTCGGGAAACG
* * * *
9154125 GCGTCGTTGCGCTTAGTTTTTTTTGCGGCGCTTTTA-TACAAACGCCGCTAAA
1 ACGTCGTTGCGCTTAGATTTTTTTGCGGCGCTTTTACAAAAAACGCCGCTAAA
9154177 TCCCCAAAAT
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
111 4 0.03
112 4 0.03
113 52 0.39
114 41 0.30
115 29 0.21
116 5 0.04
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (116 bp):
ACGTCGTTGCGCTTAGATTTTTTTGCGGCGCTTTTACAAAAAACGCCGCTAAAAGACCTGAGAAT
TAGCGGCGCTTTATAGAAGCGCCACTAAATCCCTGAATAGCTCGGGAAACG
Found at i:9154211 original size:72 final size:71
Alignment explanation
Indices: 9154119--9154299 Score: 217
Period size: 72 Copynumber: 2.5 Consensus size: 71
9154109 AATAGCTCGG
* *
9154119 GAAACGGCGTCGTTGCGCTTAGTTTTTTTTGCGGCGCTT-TTATACAAACGCCGCTAAATCCCCA
1 GAAACGGCGTCGTTGCGCTTAG-GTTTTTTGCGGCGCTTATTA-A-AAACGCCGCTAAATCACC-
9154183 AAAT-CTC-A
62 AAATGCTCTA
* * * *
9154191 GAAACGGTGTCGTTGGGCTTAGGGTTTCTAGCGGCGCTTACTTAAAAACGCCGCTAAATCACCAA
1 GAAACGGCGTCGTTGCGCTTA-GGTTTTTTGCGGCGCTTA-TTAAAAACGCCGCTAAATCACCAA
*
9154256 ATGCTCTT
64 ATGCTCTA
9154264 GAAACGGCGTCGTTGCGC-TAGGTTTTTTGCGGCGCT
1 GAAACGGCGTCGTTGCGCTTAGGTTTTTTGCGGCGCT
9154300 GTACCTAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
71 18 0.19
72 54 0.58
73 18 0.19
74 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (71 bp):
GAAACGGCGTCGTTGCGCTTAGGTTTTTTGCGGCGCTTATTAAAAACGCCGCTAAATCACCAAAT
GCTCTA
Found at i:9154873 original size:12 final size:12
Alignment explanation
Indices: 9154838--9154873 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
9154828 GAAATATATA
*
9154838 AATAATAGCAAT
1 AATAATAGTAAT
9154850 AATAATAGTAAT
1 AATAATAGTAAT
*
9154862 AATAATATTAAT
1 AATAATAGTAAT
9154874 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (12 bp):
AATAATAGTAAT
Found at i:9155465 original size:11 final size:11
Alignment explanation
Indices: 9155449--9155476 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9155439 GGCGAAAGGT
9155449 CCGCCGAGTCG
1 CCGCCGAGTCG
9155460 CCGCCGAGTCG
1 CCGCCGAGTCG
9155471 CCGCCG
1 CCGCCG
9155477 CGCCGGCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.07, C:0.50, G:0.36, T:0.07
Consensus pattern (11 bp):
CCGCCGAGTCG
Found at i:9155650 original size:11 final size:12
Alignment explanation
Indices: 9155634--9155670 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9155624 AGAAAACTCA
9155634 AAAAAT-AAAGT
1 AAAAATAAAAGT
*
9155645 AAAAATAAAAAT
1 AAAAATAAAAGT
9155657 AAAAATAAAAGT
1 AAAAATAAAAGT
9155669 AA
1 AA
9155671 GTAAATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAATAAAAGT
Found at i:9155655 original size:6 final size:6
Alignment explanation
Indices: 9155634--9155666 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9155624 AGAAAACTCA
*
9155634 AAAAAT -AAAGT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
9155667 GTAAGTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:9155688 original size:28 final size:23
Alignment explanation
Indices: 9155633--9155688 Score: 58
Period size: 27 Copynumber: 2.3 Consensus size: 23
9155623 AAGAAAACTC
9155633 AAAAAATAAAGTAAAAATAAAAA
1 AAAAAATAAAGTAAAAATAAAAA
*
9155656 TAAAAATAAAAGTAAGTAAATGAAAAA
1 AAAAAAT-AAAGTAA--AAAT-AAAAA
*
9155683 GAAAAA
1 AAAAAA
9155689 GAACTCAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.22
24 7 0.26
26 4 0.15
27 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (23 bp):
AAAAAATAAAGTAAAAATAAAAA
Found at i:9158994 original size:15 final size:15
Alignment explanation
Indices: 9158974--9159011 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
9158964 ACATAATTTG
9158974 GTACCTCAATTTTAA
1 GTACCTCAATTTTAA
9158989 GTACCTCAATTTTAA
1 GTACCTCAATTTTAA
*
9159004 ATACCTCA
1 GTACCTCA
9159012 TTCTGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (15 bp):
GTACCTCAATTTTAA
Found at i:9161342 original size:35 final size:35
Alignment explanation
Indices: 9161286--9161380 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
9161276 CTATATTTTT
** *
9161286 GTGTGTTTCGGTTGGACTAGCTCTTATGAACATTA
1 GTGTGTTTCGGAGGGATTAGCTCTTATGAACATTA
* * * *
9161321 GTGTGTTTTGGAGGGATTAGCTTTTATGAGCGTTA
1 GTGTGTTTCGGAGGGATTAGCTCTTATGAACATTA
* *
9161356 GTGTGTTTCGGATGGATTGGCTCTT
1 GTGTGTTTCGGAGGGATTAGCTCTT
9161381 GCGAGCATCT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.42
Consensus pattern (35 bp):
GTGTGTTTCGGAGGGATTAGCTCTTATGAACATTA
Found at i:9163045 original size:16 final size:16
Alignment explanation
Indices: 9163024--9163057 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9163014 GGTTAGTTCA
9163024 ATTGTATAACAAGACT
1 ATTGTATAACAAGACT
9163040 ATTGTATAACAAGACT
1 ATTGTATAACAAGACT
9163056 AT
1 AT
9163058 GGTGCTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (16 bp):
ATTGTATAACAAGACT
Found at i:9171485 original size:35 final size:35
Alignment explanation
Indices: 9171429--9171523 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 35
9171419 CTATATTTTT
** *
9171429 GTGTGTTTCGGTTGGACTAGCTCTTATGAACATTA
1 GTGTGTTTCGGAGGGATTAGCTCTTATGAACATTA
* * * *
9171464 GTGTGTTTTGGAGGGATTAGCTTTTATGAGCGTTA
1 GTGTGTTTCGGAGGGATTAGCTCTTATGAACATTA
* *
9171499 GTGTGTTTCGGATGGATTGGCTCTT
1 GTGTGTTTCGGAGGGATTAGCTCTT
9171524 GCGAGCATCT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.16, C:0.11, G:0.32, T:0.42
Consensus pattern (35 bp):
GTGTGTTTCGGAGGGATTAGCTCTTATGAACATTA
Found at i:9173188 original size:16 final size:16
Alignment explanation
Indices: 9173167--9173200 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
9173157 GGTTAGTTCA
9173167 ATTGTATAACAAGACT
1 ATTGTATAACAAGACT
9173183 ATTGTATAACAAGACT
1 ATTGTATAACAAGACT
9173199 AT
1 AT
9173201 GGTGCTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (16 bp):
ATTGTATAACAAGACT
Found at i:9188187 original size:118 final size:118
Alignment explanation
Indices: 9188023--9188257 Score: 461
Period size: 118 Copynumber: 2.0 Consensus size: 118
9188013 ACTATTGTTA
9188023 AGACGAGAAGACTGAATTCACAAGTCCGAGCCTCCTCATATACCCAAACCATAGACAAAAAACAT
1 AGACGAGAAGACTGAATTCACAAGTCCGAGCCTCCTCATATACCCAAACCATAGACAAAAAACAT
9188088 TACCACTTCAGTCGCTAAGAGATTTATGATAGAAATGAAGAGAAACACTTACC
66 TACCACTTCAGTCGCTAAGAGATTTATGATAGAAATGAAGAGAAACACTTACC
*
9188141 AGACGAGAAGACTGAATTCACAAGTCCGAGCCTCCTCATATGCCCAAACCATAGACAAAAAACAT
1 AGACGAGAAGACTGAATTCACAAGTCCGAGCCTCCTCATATACCCAAACCATAGACAAAAAACAT
9188206 TACCACTTCAGTCGCTAAGAGATTTATGATAGAAATGAAGAGAAACACTTAC
66 TACCACTTCAGTCGCTAAGAGATTTATGATAGAAATGAAGAGAAACACTTAC
9188258 TGAAACTAAG
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (118 bp):
AGACGAGAAGACTGAATTCACAAGTCCGAGCCTCCTCATATACCCAAACCATAGACAAAAAACAT
TACCACTTCAGTCGCTAAGAGATTTATGATAGAAATGAAGAGAAACACTTACC
Found at i:9192031 original size:36 final size:38
Alignment explanation
Indices: 9191941--9192032 Score: 107
Period size: 38 Copynumber: 2.5 Consensus size: 38
9191931 CACCACTTCG
* * *
9191941 TCCACCCTGCACACCACATTAAGGCTACAGTAGGCCAA
1 TCCACCCTGCACACCACATTAAGACCACAATAGGCCAA
* *
9191979 TCCACCCTGCAAACCACA-TAAGACCATAATAGGCC-A
1 TCCACCCTGCACACCACATTAAGACCACAATAGGCCAA
* *
9192015 TTCACCCTACACACCACA
1 TCCACCCTGCACACCACA
9192033 AATGTGGAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 16 0.35
37 13 0.28
38 17 0.37
ACGTcount: A:0.35, C:0.39, G:0.11, T:0.15
Consensus pattern (38 bp):
TCCACCCTGCACACCACATTAAGACCACAATAGGCCAA
Found at i:9194162 original size:21 final size:24
Alignment explanation
Indices: 9194120--9194162 Score: 56
Period size: 21 Copynumber: 1.9 Consensus size: 24
9194110 CTTAAAAAGT
*
9194120 AAAATAAATATTTACTACTTAATA
1 AAAATAAATATTTACTAATTAATA
9194144 AAAAT-AAT-TTTA-TAATTAA
1 AAAATAAATATTTACTAATTAA
9194163 AATTTTGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 3 0.17
24 5 0.28
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATAAATATTTACTAATTAATA
Found at i:9196666 original size:27 final size:26
Alignment explanation
Indices: 9196634--9196687 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
9196624 CAATAAAGCA
9196634 TGTTCTCTATTGCT-TTCATATTTTCTT
1 TGTTCTCTATT-CTCTTCAT-TTTTCTT
*
9196661 TGTTCTTTATTCTCTTCATTTTTCTT
1 TGTTCTCTATTCTCTTCATTTTTCTT
9196687 T
1 T
9196688 ATTTTATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.09, C:0.19, G:0.06, T:0.67
Consensus pattern (26 bp):
TGTTCTCTATTCTCTTCATTTTTCTT
Found at i:9209225 original size:30 final size:30
Alignment explanation
Indices: 9209191--9209253 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
9209181 ACTTAACAAG
9209191 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
9209221 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
9209251 CAA
1 CAA
9209254 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:9215860 original size:15 final size:15
Alignment explanation
Indices: 9215840--9215869 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9215830 ACAAATAGTC
9215840 ATAATTATTCAAGTA
1 ATAATTATTCAAGTA
9215855 ATAATTATTCAAGTA
1 ATAATTATTCAAGTA
9215870 GATATCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
ATAATTATTCAAGTA
Found at i:9219830 original size:16 final size:16
Alignment explanation
Indices: 9219812--9219841 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9219802 AATAACGATA
9219812 AAAAAT-AAAATAAAT
1 AAAAATAAAAATAAAT
9219827 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
9219842 AGAGTATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:9221625 original size:16 final size:16
Alignment explanation
Indices: 9221607--9221636 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9221597 AATAACGATA
9221607 AAAAAT-AAAATAAAT
1 AAAAATAAAAATAAAT
9221622 AAAAATAAAAATAAA
1 AAAAATAAAAATAAA
9221637 AGAGTATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAATAAAT
Found at i:9223515 original size:88 final size:88
Alignment explanation
Indices: 9223395--9223593 Score: 245
Period size: 88 Copynumber: 2.2 Consensus size: 88
9223385 CCACTTCGCT
* * * * * * *
9223395 ACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAGACACGAT
1 ACCAATATGGGAAGACAAGATCT-GTTTCTTTGATCTACTTCACGCCAGTACATCAAGACAAGAT
**
9223460 CTGTTTTCTTCGACCTACTCCACC
65 CTGCCTTCTTCGACCTACTCCACC
* *
9223484 ACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATCAAGACAAGATC
1 ACCAATATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATCAAGACAAGATC
* * * *
9223549 TGCCTTCTTTGATCTACTTCGCC
66 TGCCTTCTTCGACCTACTCCACC
*
9223572 ACCAATATGGGAAGGCAAGATC
1 ACCAATATGGGAAGACAAGATC
9223594 AGCTTTTTTC
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
88 74 0.80
89 18 0.20
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (88 bp):
ACCAATATGGGAAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATCAAGACAAGATC
TGCCTTCTTCGACCTACTCCACC
Found at i:9223545 original size:43 final size:44
Alignment explanation
Indices: 9223422--9223568 Score: 170
Period size: 44 Copynumber: 3.3 Consensus size: 44
9223412 GGACCTACTA
* *
9223422 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
* * * * *** *
9223466 TCTTCGACCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
* *
9223510 TCTTTGATCTACTTCACGCCAGTACATCAAGACAAGATCTGCCT
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
9223554 TCTTTGATCTACTTC
1 TCTTTGATCTACTTC
9223569 GCCACCAATA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
43 19 0.23
44 44 0.54
45 19 0.23
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT
Found at i:9241159 original size:189 final size:190
Alignment explanation
Indices: 9240834--9241217 Score: 727
Period size: 189 Copynumber: 2.0 Consensus size: 190
9240824 TAAATAAGAA
9240834 AAAAACTTAGAAAGGAAAAAAAAACTTCTAGCGCTCTGCTAGGGTTTAATACCCAAGCTTCCTTG
1 AAAAACTTAGAAAGGAAAAAAAAACTTCTAGCGCTCTGCTAGGGTTTAATACCCAAGCTTCCTTG
9240899 CGCCGCCGTTTAGCCAGTGCCGACGCTCCGATTGCAACGGAGACGACCACCGCTCGGCGTCTTCG
66 CGCCGCCGTTTAGCCAGTGCCGACGCTCCGATTGCAACGGAGACGACCACCGCTCGGCGTCTTCG
*
9240964 ACGAAAGAGGTAAGTTCTCTTTTTGTTATTTCTTTTTTTTTTAAAACGCAAAA-CAAAGG
131 ACGAAAGAGGTAAGTTCTCTTTTTGTTATTTCTTTTTTTTTTAAAACGCAAAAGAAAAGG
*
9241023 AAAAA-TTAGAAAGGAAAAAAAAAACTTTTAGCGCTCTGCTAGGGTTTAATACCCAAGCTTCCTT
1 AAAAACTTAGAAAGG-AAAAAAAAACTTCTAGCGCTCTGCTAGGGTTTAATACCCAAGCTTCCTT
9241087 GCGCCGCCGTTTAGCCAGTGCCGACGCTCCGATTGCAACGGAGACGACCACCGCTCGGCGTCTTC
65 GCGCCGCCGTTTAGCCAGTGCCGACGCTCCGATTGCAACGGAGACGACCACCGCTCGGCGTCTTC
9241152 GACGAAAGAGGTAAGTTCTCTTTTTGTTATTTCTTTTTTTTTTAAAACGCAAAAGAAAAGG
130 GACGAAAGAGGTAAGTTCTCTTTTTGTTATTTCTTTTTTTTTTAAAACGCAAAAGAAAAGG
9241213 AAAAA
1 AAAAA
9241218 AGATATATAT
Statistics
Matches: 191, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
188 9 0.05
189 172 0.90
190 10 0.05
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (190 bp):
AAAAACTTAGAAAGGAAAAAAAAACTTCTAGCGCTCTGCTAGGGTTTAATACCCAAGCTTCCTTG
CGCCGCCGTTTAGCCAGTGCCGACGCTCCGATTGCAACGGAGACGACCACCGCTCGGCGTCTTCG
ACGAAAGAGGTAAGTTCTCTTTTTGTTATTTCTTTTTTTTTTAAAACGCAAAAGAAAAGG
Done.