Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 79 of 310
Found at i:25238593 original size:13 final size:13
Alignment explanation
Indices: 25238575--25238599 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25238565 TAAAGCTCGC
25238575 GAATTCGTAATTT
1 GAATTCGTAATTT
25238588 GAATTCGTAATT
1 GAATTCGTAATT
25238600 AGATAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
GAATTCGTAATTT
Found at i:25239153 original size:18 final size:18
Alignment explanation
Indices: 25239122--25239156 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25239112 GGCATAATTT
*
25239122 AAAATAAATTTTTTAAAG
1 AAAATAAATATTTTAAAG
*
25239140 AAAATGAATATTTTAAA
1 AAAATAAATATTTTAAA
25239157 TATGGAAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (18 bp):
AAAATAAATATTTTAAAG
Found at i:25239924 original size:28 final size:29
Alignment explanation
Indices: 25239891--25239952 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
25239881 ATCTAAAAAG
25239891 AAATTAAAAAATAAATAAAAAATC-TATA
1 AAATTAAAAAATAAATAAAAAATCATATA
* * ** *
25239919 AAATTAATATATATTTAAAAAATCATTTA
1 AAATTAAAAAATAAATAAAAAATCATATA
25239948 AAATT
1 AAATT
25239953 TTTATGCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (29 bp):
AAATTAAAAAATAAATAAAAAATCATATA
Found at i:25242099 original size:14 final size:14
Alignment explanation
Indices: 25242080--25242108 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25242070 CATCTAACTA
25242080 TGAAAAGTTACAAG
1 TGAAAAGTTACAAG
25242094 TGAAAAGTTACAAG
1 TGAAAAGTTACAAG
25242108 T
1 T
25242109 TAGATACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.21, T:0.24
Consensus pattern (14 bp):
TGAAAAGTTACAAG
Found at i:25242286 original size:56 final size:55
Alignment explanation
Indices: 25242179--25242290 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 55
25242169 AAAATCCAAG
* * *
25242179 ATGACAAAAAAAATACTGATAATTAAGTAATCATTTTGTAATTTTTCATAATTAA
1 ATGACAAAAAAAATACTAATAATTAAGTAACCATTTTATAATTTTTCATAATTAA
* * * *
25242234 ATGATAAAAAAATATATTAATAATTAAGTGACCGTTTTATAAATTTTT-ATAATTAA
1 ATGACAAAAAAA-ATACTAATAATTAAGTAACCATTTTAT-AATTTTTCATAATTAA
25242290 A
1 A
25242291 AGAAAATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
55 11 0.23
56 30 0.62
57 7 0.15
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (55 bp):
ATGACAAAAAAAATACTAATAATTAAGTAACCATTTTATAATTTTTCATAATTAA
Found at i:25250862 original size:20 final size:19
Alignment explanation
Indices: 25250837--25250874 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
25250827 TTAAAAAATC
25250837 TTATTATGTATAAA-TTATAA
1 TTATTA-GT-TAAACTTATAA
25250857 TTATTAGTTAAACTTATA
1 TTATTAGTTAAACTTATA
25250875 GTTTTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (19 bp):
TTATTAGTTAAACTTATAA
Found at i:25252193 original size:26 final size:25
Alignment explanation
Indices: 25252164--25252215 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
25252154 AAATATATCT
25252164 TTTA-ATATGTATTACTTAAAAATTAA
1 TTTAGATATGT-TTACTT-AAAATTAA
*
25252190 TTTAGTATATGTTTAGTTAAAATTAA
1 TTTAG-ATATGTTTACTTAAAATTAA
25252216 AATAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 12 0.52
27 5 0.22
28 6 0.26
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (25 bp):
TTTAGATATGTTTACTTAAAATTAA
Found at i:25254334 original size:24 final size:24
Alignment explanation
Indices: 25254307--25254354 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
25254297 TTCTTTTTAG
25254307 TTAGATTGAATTTGGCAATGAAAC
1 TTAGATTGAATTTGGCAATGAAAC
25254331 TTAGATTGAATTTGGCAATGAAAC
1 TTAGATTGAATTTGGCAATGAAAC
25254355 CATGCAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
TTAGATTGAATTTGGCAATGAAAC
Found at i:25258507 original size:14 final size:14
Alignment explanation
Indices: 25258449--25258507 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
25258439 ACCTAAACCG
*
25258449 ACCAATTCGTTCAT
1 ACCATTTCGTTCAT
*
25258463 ATCC-CTTCGTTCAT
1 A-CCATTTCGTTCAT
* *
25258477 ACCATTTCATTCCT
1 ACCATTTCGTTCAT
*
25258491 ACCATTTCGTTCGT
1 ACCATTTCGTTCAT
25258505 ACC
1 ACC
25258508 CCTCTTTCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 2 0.05
14 33 0.89
15 2 0.05
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (14 bp):
ACCATTTCGTTCAT
Found at i:25262369 original size:30 final size:32
Alignment explanation
Indices: 25262298--25262381 Score: 129
Period size: 32 Copynumber: 2.7 Consensus size: 32
25262288 ATTTAAGTTA
25262298 AAATATATATTATAA-TATAAAAGCTTAAGAATT
1 AAATATATA-TA-AATTATAAAAGCTTAAGAATT
25262331 AAATATATATAAATTATAAAAGCTTAAGAATT
1 AAATATATATAAATTATAAAAGCTTAAGAATT
25262363 AAATATATAT--ATTATAAAA
1 AAATATATATAAATTATAAAA
25262382 TTATAATAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
30 9 0.18
31 2 0.04
32 30 0.60
33 9 0.18
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (32 bp):
AAATATATATAAATTATAAAAGCTTAAGAATT
Found at i:25262451 original size:18 final size:18
Alignment explanation
Indices: 25262428--25262464 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
25262418 AAGCTAAAAC
25262428 AAAAA-GGAAAGAAAAGAA
1 AAAAAGGGAAAG-AAAGAA
25262446 AAAAAGGGAAAGAAAGAA
1 AAAAAGGGAAAGAAAGAA
25262464 A
1 A
25262465 GGAGAAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAGGGAAAGAAAGAA
Found at i:25262459 original size:14 final size:15
Alignment explanation
Indices: 25262440--25262473 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
25262430 AAAGGAAAGA
25262440 AAAGAAAAAAAGG-G
1 AAAGAAAAAAAGGAG
*
25262454 AAAGAAAGAAAGGAG
1 AAAGAAAAAAAGGAG
25262469 AAAGA
1 AAAGA
25262474 CAAGGCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAGGAG
Found at i:25272640 original size:24 final size:26
Alignment explanation
Indices: 25272583--25272649 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
25272573 AATTGTACTG
*
25272583 TCCCTTTTGCTCTCCCAACTCTCCCAA
1 TCCCTTTTGATCT-CCAACTCTCCCAA
* *
25272610 TCGCTTTTGATCTCCAA-T-TCCTAA
1 TCCCTTTTGATCTCCAACTCTCCCAA
*
25272634 TCCCTTTTGATTTCCA
1 TCCCTTTTGATCTCCA
25272650 TCATCCTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 19 0.54
25 1 0.03
26 4 0.11
27 11 0.31
ACGTcount: A:0.16, C:0.37, G:0.06, T:0.40
Consensus pattern (26 bp):
TCCCTTTTGATCTCCAACTCTCCCAA
Found at i:25281043 original size:17 final size:17
Alignment explanation
Indices: 25281021--25281054 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25281011 GAGAAAAAGA
25281021 CTCCACAAGAGGTATGG
1 CTCCACAAGAGGTATGG
25281038 CTCCACAAGAGGTATGG
1 CTCCACAAGAGGTATGG
25281055 TATGGTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.29, T:0.18
Consensus pattern (17 bp):
CTCCACAAGAGGTATGG
Found at i:25282968 original size:183 final size:183
Alignment explanation
Indices: 25282660--25283025 Score: 732
Period size: 183 Copynumber: 2.0 Consensus size: 183
25282650 TCTCTCACAG
25282660 TTTATGTCTTTACAATCGGAGGTTGTGCAATTAGTTGGAAAGTCACTTTTCAAACTACAGTTGCT
1 TTTATGTCTTTACAATCGGAGGTTGTGCAATTAGTTGGAAAGTCACTTTTCAAACTACAGTTGCT
25282725 TTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGTTTGTAGGAAGCTATTTGGTTGAAG
66 TTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGTTTGTAGGAAGCTATTTGGTTGAAG
25282790 GGGCTCTTTAGTGAACTCAATGAAGACCTTCAAATCAGCACAGTATTTTGTGA
131 GGGCTCTTTAGTGAACTCAATGAAGACCTTCAAATCAGCACAGTATTTTGTGA
25282843 TTTATGTCTTTACAATCGGAGGTTGTGCAATTAGTTGGAAAGTCACTTTTCAAACTACAGTTGCT
1 TTTATGTCTTTACAATCGGAGGTTGTGCAATTAGTTGGAAAGTCACTTTTCAAACTACAGTTGCT
25282908 TTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGTTTGTAGGAAGCTATTTGGTTGAAG
66 TTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGTTTGTAGGAAGCTATTTGGTTGAAG
25282973 GGGCTCTTTAGTGAACTCAATGAAGACCTTCAAATCAGCACAGTATTTTGTGA
131 GGGCTCTTTAGTGAACTCAATGAAGACCTTCAAATCAGCACAGTATTTTGTGA
25283026 CAGTCAGAGT
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (183 bp):
TTTATGTCTTTACAATCGGAGGTTGTGCAATTAGTTGGAAAGTCACTTTTCAAACTACAGTTGCT
TTGTCTACCACTGAAGCTGAGTACATGGCGATTACTGAGGTTTGTAGGAAGCTATTTGGTTGAAG
GGGCTCTTTAGTGAACTCAATGAAGACCTTCAAATCAGCACAGTATTTTGTGA
Found at i:25294460 original size:21 final size:21
Alignment explanation
Indices: 25294426--25294468 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
25294416 CATGTTTGAT
25294426 TTTGGTTATCTTT-GCTTATGG
1 TTTGGTTATCTTTGGC-TATGG
25294447 TTTGAGTTAT-TTTGGCTATGG
1 TTTG-GTTATCTTTGGCTATGG
25294468 T
1 T
25294469 ATTTTATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.12, C:0.07, G:0.26, T:0.56
Consensus pattern (21 bp):
TTTGGTTATCTTTGGCTATGG
Found at i:25297825 original size:47 final size:45
Alignment explanation
Indices: 25297722--25297985 Score: 171
Period size: 47 Copynumber: 5.6 Consensus size: 45
25297712 GTAAGGTGTC
*
25297722 GATGCCATGTCCCAGACATGGTCTTACACTGGCAC-AT-ATTTCAAG-T
1 GATG-CATGTCCCAGACAT-GTCTTACACT-G-ACTATCATCTCAAGCT
* *
25297768 CAAAGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAGCT
1 -GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCA-AGCT
* * * *
25297817 GACGCATGTCCCAGACATGTCTTACACT-AGCT-TACGTCTCGAGCCC
1 GATGCATGTCCCAGACATGTCTTACACTGA-CTAT-CATCTCAAG-CT
* * * *
25297863 GATGCATGTCCCAAACATGTCTTACACT-AGCTCTCGTCTCAATGTT
1 GATGCATGTCCCAGACATGTCTTACACTGA-CTATCATCTCAA-GCT
* * * * ***
25297909 GGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCAAGCT
*
25297957 GATGTATGTCCCAGACATGTCTTACACTG
1 GATGCATGTCCCAGACATGTCTTACACTG
25297986 GCTCATAAAC
Statistics
Matches: 180, Mismatches: 24, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
45 6 0.03
46 72 0.40
47 75 0.42
48 25 0.14
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCAAGCT
Found at i:25297870 original size:46 final size:46
Alignment explanation
Indices: 25297774--25297989 Score: 167
Period size: 46 Copynumber: 4.6 Consensus size: 46
25297764 AAGTCAAAGC
* * * *
25297774 CATGTCCCAGACATGGTCTTACACT-GACTATCATCTC-ATAGCTGACG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTCTCAAT-GCCGATG
*
25297821 CATGTCCCAGACATGTCTTACACTAGCT-TACGTCTCGA-GCCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATG-CCGATG
* ** *
25297867 CATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGTTGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
* * *
25297913 CCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAA--T-GCCGATG
* *
25297961 TATGTCCCAGACATGTCTTACACTGGCTC
1 CATGTCCCAGACATGTCTTACACTAGCTC
25297990 ATAAACAAAT
Statistics
Matches: 144, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
45 4 0.03
46 74 0.51
47 45 0.31
48 21 0.15
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATG
Found at i:25305432 original size:47 final size:48
Alignment explanation
Indices: 25305361--25305484 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 48
25305351 GCAAGGTGCT
* * **
25305361 GATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-AT-TTCA-AGTA
1 GATGCCATGTCCTAGACATTGTCTTACACTGACT-ATCATCTT-ATAACA
*
25305408 GATGCCATGTCCTAGACATTGTCTTACACTGACTATCATCTTATAACC
1 GATGCCATGTCCTAGACATTGTCTTACACTGACTATCATCTTATAACA
25305456 GATG-CATGTCCTAGACA-TGTCTTACACTG
1 GATGCCATGTCCTAGACATTGTCTTACACTG
25305485 GCTTATGTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
46 14 0.20
47 48 0.70
48 7 0.10
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATTGTCTTACACTGACTATCATCTTATAACA
Found at i:25305628 original size:46 final size:47
Alignment explanation
Indices: 25305408--25305628 Score: 159
Period size: 46 Copynumber: 4.7 Consensus size: 47
25305398 ATTTCAAGTA
* * * * * **
25305408 GATGCCATGTCCTAGACATTGTCTTACACTGACTATCATC-TTATAACC
1 GATG-CATGTCCCAGACA-TGTCTTACACTGGCTCTCATCAATGTGGCC
* *** *
25305456 GATGCATGTCCTAGACATGTCTTACACTGGCT-T-ATGTTTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAAT-GTGGCC
* * * *
25305502 GATGAATGTCCCAAACATGTCTGACACTAGCTCTCATCTCAA--T-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--TCAATGTGGCC
* *
25305548 GGTGCCATGTCCCAGACACGGTCTTACACTGGCTCTCAT-AATGTGGCC
1 GATG-CATGTCCCAGACA-TGTCTTACACTGGCTCTCATCAATGTGGCC
*
25305596 GATGCATGTCCCAGACATGTCTTACATTGGCTC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTC
25305629 ACAAACAAAT
Statistics
Matches: 138, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
44 2 0.01
45 5 0.04
46 64 0.46
47 39 0.28
48 27 0.20
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCAATGTGGCC
Found at i:25308559 original size:66 final size:66
Alignment explanation
Indices: 25308450--25308710 Score: 391
Period size: 66 Copynumber: 4.0 Consensus size: 66
25308440 TGAAATGTGA
* *
25308450 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTATGATTGACAGGAATTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTGTGATTGACAGGAACTG
25308515 T
66 T
* * * *
25308516 GAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTT-TGATTGATAGGAACT
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTG-AGTTGTGATTGACAGGAACT
25308580 GT
65 GT
* * * *
25308582 GAAATTTATTTGTACTATTGTTTGAGC-TTACTCACCTGTTGTGAGCTGTGGTTGATAGGAACTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTGTGATTGACAGGAACTG
25308646 T
66 T
* *
25308647 GAAATTGATTTGTATTATTGTTTGAGCATTACTCACCTGTTGTGAGTTGTGATTGACATGAACT
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTGTGATTGACAGGAACT
25308711 CTATTAGTAA
Statistics
Matches: 175, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
64 2 0.01
65 56 0.32
66 114 0.65
67 3 0.02
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.41
Consensus pattern (66 bp):
GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTGTGATTGACAGGAACTG
T
Found at i:25308702 original size:131 final size:132
Alignment explanation
Indices: 25308450--25308691 Score: 396
Period size: 131 Copynumber: 1.8 Consensus size: 132
25308440 TGAAATGTGA
* *
25308450 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTATGATTGACAGGAATTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGCTATGATTGACAGGAACTG
25308515 TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTTTGATTGATAGGAACT
66 TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTTTGATTGATAGGAACT
25308580 GT
131 GT
* * * *
25308582 GAAATTTATTTGTACTATTGTTTGAGC-TTACTCACCTGTTGTGAGCTGTGGTTGATAGGAACTG
1 GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGCTATGATTGACAGGAACTG
* * *
25308646 TGAAATTGATTTGTATTATTGTTTGAGCATTACTCACCTGTTGTGA
66 TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGA
25308692 GTTGTGATTG
Statistics
Matches: 101, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
131 75 0.74
132 26 0.26
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (132 bp):
GAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGCTATGATTGACAGGAACTG
TGAAATTGATTTGTACTATTATTTGAGCATTACTCACCTATTGTGAACTTTGATTGATAGGAACT
GT
Found at i:25310381 original size:17 final size:17
Alignment explanation
Indices: 25310344--25310383 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
25310334 ATCTTCGACT
*
25310344 AGCTTCCAACCCGATTA
1 AGCTTCCAACCCGATCA
* *
25310361 AGCTTCCAACTCGATCG
1 AGCTTCCAACCCGATCA
25310378 AGCTTC
1 AGCTTC
25310384 TGATAATCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.25
Consensus pattern (17 bp):
AGCTTCCAACCCGATCA
Found at i:25316701 original size:179 final size:179
Alignment explanation
Indices: 25316401--25316758 Score: 716
Period size: 179 Copynumber: 2.0 Consensus size: 179
25316391 TTACAAGCCA
25316401 ATAACCATTTAAGCCACATCTCGTGGCCATATACAACAAATCAATATAAGTCGATACATTTGGCT
1 ATAACCATTTAAGCCACATCTCGTGGCCATATACAACAAATCAATATAAGTCGATACATTTGGCT
25316466 AATCATAACAACATCTAACATAAAAACTAGTCCTTATACTTGCCACTCACTTGAAAGTATTTAAT
66 AATCATAACAACATCTAACATAAAAACTAGTCCTTATACTTGCCACTCACTTGAAAGTATTTAAT
25316531 ACACATATGACAATACTTCGGAGTTGTTGGCTTGATAGTGTGATGCTGC
131 ACACATATGACAATACTTCGGAGTTGTTGGCTTGATAGTGTGATGCTGC
25316580 ATAACCATTTAAGCCACATCTCGTGGCCATATACAACAAATCAATATAAGTCGATACATTTGGCT
1 ATAACCATTTAAGCCACATCTCGTGGCCATATACAACAAATCAATATAAGTCGATACATTTGGCT
25316645 AATCATAACAACATCTAACATAAAAACTAGTCCTTATACTTGCCACTCACTTGAAAGTATTTAAT
66 AATCATAACAACATCTAACATAAAAACTAGTCCTTATACTTGCCACTCACTTGAAAGTATTTAAT
25316710 ACACATATGACAATACTTCGGAGTTGTTGGCTTGATAGTGTGATGCTGC
131 ACACATATGACAATACTTCGGAGTTGTTGGCTTGATAGTGTGATGCTGC
25316759 CTCCGACGGT
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
179 179 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (179 bp):
ATAACCATTTAAGCCACATCTCGTGGCCATATACAACAAATCAATATAAGTCGATACATTTGGCT
AATCATAACAACATCTAACATAAAAACTAGTCCTTATACTTGCCACTCACTTGAAAGTATTTAAT
ACACATATGACAATACTTCGGAGTTGTTGGCTTGATAGTGTGATGCTGC
Found at i:25317496 original size:16 final size:16
Alignment explanation
Indices: 25317477--25317509 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25317467 AATTGTTTTA
25317477 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
25317493 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
25317509 T
1 T
25317510 CTCCATTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:25317767 original size:50 final size:50
Alignment explanation
Indices: 25317708--25322593 Score: 9324
Period size: 50 Copynumber: 97.7 Consensus size: 50
25317698 ACCGAAACTC
* * * * * * *
25317708 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
* * * * * * * *
25317758 TCTGGTACACGTAGTAGCCTGCATTTAGGACTACACACGTGACTTATCCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25317808 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25317858 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25317908 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25317958 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318008 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318058 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318108 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318158 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318208 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318258 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318308 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318358 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318408 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318458 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318508 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318558 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318608 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318658 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318708 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318758 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318808 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318858 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318908 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25318958 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319008 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319058 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319108 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319158 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319208 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319258 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319308 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319358 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319408 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319458 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319508 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319558 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319608 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319658 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319708 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319758 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319808 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319858 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319908 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25319958 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320008 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320058 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320108 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320158 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320208 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320258 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320308 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320358 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320408 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320458 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320508 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320558 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320608 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320658 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320708 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320758 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320808 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320858 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320908 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25320958 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321008 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321058 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321108 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321158 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321208 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321258 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321308 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321358 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321408 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321458 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321508 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321558 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321608 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321658 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321708 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321758 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321808 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321858 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321908 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25321958 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25322008 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25322058 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25322108 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25322158 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25322208 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
25322258 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
* * * * *
25322308 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
* *
25322358 TCCGGTACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
* * * ** *
25322408 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGT-AACCTAACCA
* ** * * * * *
25322459 T-TAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
1 TCT-GATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
* * * * *
25322509 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACTA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCT--AACCA
* * * *
25322561 TCTTAAACACATAGTAGCCTGCACATAGTACTA
1 TCTGATACACGTAGTAGCCTGCACTTAGTACTA
25322594 CATGTGTTCT
Statistics
Matches: 4777, Mismatches: 54, Indels: 8
0.99 0.01 0.00
Matches are distributed among these distances:
50 4705 0.98
51 40 0.01
52 32 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
TCTGATACACGTAGTAGCCTGCACTTAGTACTATACAAGTAACCTAACCA
Found at i:25325646 original size:9 final size:9
Alignment explanation
Indices: 25325632--25325660 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
25325622 ACATGTCATT
25325632 TATATCCTA
1 TATATCCTA
25325641 TATATCCTA
1 TATATCCTA
25325650 TATATCCTA
1 TATATCCTA
25325659 TA
1 TA
25325661 AATTTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (9 bp):
TATATCCTA
Found at i:25327253 original size:32 final size:30
Alignment explanation
Indices: 25327193--25327260 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
25327183 GCACGACCTA
*
25327193 GACACACGAGCATGTCTACTAGCCGTGTGT
1 GACACACAAGCATGTCTACTAGCCGTGTGT
25327223 GACACACAAGCATGTCTACTAGCCGTGTGT
1 GACACACAAGCATGTCTACTAGCCGTGTGT
25327253 GACACACA
1 GACACACA
25327261 GGCTGGCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (30 bp):
GACACACAAGCATGTCTACTAGCCGTGTGT
Found at i:25330763 original size:42 final size:42
Alignment explanation
Indices: 25330705--25330793 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
25330695 CCTATTTATA
* * * * *
25330705 GGAGT-TCTCATGTCTCTTTATAGGGATATAACTATCCAATT
1 GGAGTCTCTCATCTCTCTTCATAGGAATACAACTACCCAATT
25330746 GGAGTCTCTCATCTCTCTTCATAGGAATACAACTACCCAATT
1 GGAGTCTCTCATCTCTCTTCATAGGAATACAACTACCCAATT
25330788 GGAGTC
1 GGAGTC
25330794 ATATCTTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 5 0.12
42 37 0.88
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (42 bp):
GGAGTCTCTCATCTCTCTTCATAGGAATACAACTACCCAATT
Found at i:25332932 original size:106 final size:106
Alignment explanation
Indices: 25332747--25332952 Score: 324
Period size: 106 Copynumber: 1.9 Consensus size: 106
25332737 TCAATATAAC
* * *
25332747 CCAATACATTTGGCTAATCATAACAACATCTATCAAAAAAACTAAGTCCCTATACATGCCACTCA
1 CCAATACATTTCGCAAATCACAACAACATCTATCAAAAAAACTAAGTCCCTATACATGCCACTCA
25332812 CTTGAAGGTGCTTAATACAAATATGTCAATACTCCGAAGAG
66 CTTGAAGGTGCTTAATACAAATATGTCAATACTCCGAAGAG
* * *
25332853 CCAATACATTTCGCAAATCACAACAACATCTATCCTAAAAAA-TAAGTCGCTATACATGTCACTC
1 CCAATACATTTCGCAAATCACAACAACATCTAT-CAAAAAAACTAAGTCCCTATACATGCCACTC
* *
25332917 ACTTGAAGGTGCTTAATACACATATGTTAATACTCC
65 ACTTGAAGGTGCTTAATACAAATATGTCAATACTCC
25332953 AAAGGTGATG
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 84 0.92
107 7 0.08
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (106 bp):
CCAATACATTTCGCAAATCACAACAACATCTATCAAAAAAACTAAGTCCCTATACATGCCACTCA
CTTGAAGGTGCTTAATACAAATATGTCAATACTCCGAAGAG
Found at i:25334233 original size:49 final size:49
Alignment explanation
Indices: 25334180--25334349 Score: 261
Period size: 49 Copynumber: 3.5 Consensus size: 49
25334170 GTCGATGTCA
25334180 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCG
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCG
** * * * *
25334229 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATC-AGTGTCGATGCCA
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAG-GCCGATGCCG
25334278 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCG
1 TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCG
*
25334327 TGTCCCAGACACGTCTTACACTA
1 TGTCCCAGACAGGTCTTACACTA
25334350 GCTCTCGTCT
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
48 2 0.02
49 102 0.96
50 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
TGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGCCGATGCCG
Found at i:25334293 original size:98 final size:96
Alignment explanation
Indices: 25334132--25334390 Score: 369
Period size: 98 Copynumber: 2.7 Consensus size: 96
25334122 GCCAACGCCA
* ** *
25334132 TGTCCTAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGATGTCATGTCCCAGACAGGTCT
1 TGTCCCAGACA-GGTCTTACACTGGCTCTCATCATCAATGTCGATG-CATGTCCCAGACAGGTCT
25334196 TACACTAACTTTCATATATCAAGGCCGATGCCG
64 TACACTAACTTTCATATATCAAGGCCGATGCCG
*
25334229 TGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGACAGGTCT
1 TGTCCCAGACAGGTCTTACACTGGCTCTCATC-ATCAATGTCGATG-CATGTCCCAGACAGGTCT
25334294 TACACTAACTTTCATATATCAAGGCCGATGCCG
64 TACACTAACTTTCATATATCAAGGCCGATGCCG
* * * * * *
25334327 TGTCCCAGACACGTCTTACACTAGCTCTCGTC-TCAATGCCGATGCATGTCCCAAACATGTCTTA
1 TGTCCCAGACAGGTCTTACACTGGCTCTCATCATCAATGTCGATGCATGTCCCAGACAGGTCTTA
25334391 TACTGGCTCT
Statistics
Matches: 147, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
95 18 0.12
96 27 0.18
97 11 0.07
98 91 0.62
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (96 bp):
TGTCCCAGACAGGTCTTACACTGGCTCTCATCATCAATGTCGATGCATGTCCCAGACAGGTCTTA
CACTAACTTTCATATATCAAGGCCGATGCCG
Found at i:25335260 original size:43 final size:43
Alignment explanation
Indices: 25335213--25335307 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
25335203 ATGTATTGGC
*
25335213 AGTGTGCGATACAATTATAGCCTCGGCTAATTAATTGGCACTA
1 AGTGTGCGATACAATTATAGCCTCAGCTAATTAATTGGCACTA
* ** *
25335256 AGTGTGTGATACAATTATAGTTTCAGTTAATTAATTGGCACTA
1 AGTGTGCGATACAATTATAGCCTCAGCTAATTAATTGGCACTA
25335299 AGTGTGCGA
1 AGTGTGCGA
25335308 GTTCGTTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (43 bp):
AGTGTGCGATACAATTATAGCCTCAGCTAATTAATTGGCACTA
Found at i:25336594 original size:43 final size:43
Alignment explanation
Indices: 25336547--25336641 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
25336537 ATGTATTGGC
*
25336547 AGTGTGCGATACAATTATAGCCTCGGCTAATTAATTGGCACTA
1 AGTGTGCGATACAATTATAGCCTCAGCTAATTAATTGGCACTA
* ** *
25336590 AGTGTGTGATACAATTATAGTTTCAGTTAATTAATTGGCACTA
1 AGTGTGCGATACAATTATAGCCTCAGCTAATTAATTGGCACTA
25336633 AGTGTGCGA
1 AGTGTGCGA
25336642 GTTCGTTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.34
Consensus pattern (43 bp):
AGTGTGCGATACAATTATAGCCTCAGCTAATTAATTGGCACTA
Found at i:25339110 original size:20 final size:20
Alignment explanation
Indices: 25339085--25339123 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25339075 AAAATTTCAA
25339085 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
25339105 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
25339124 AATAGCCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:25340406 original size:15 final size:15
Alignment explanation
Indices: 25340388--25340430 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
25340378 AATAGTTAAT
25340388 AATAAAATGATATAA
1 AATAAAATGATATAA
25340403 AATAAAAT-A-AT-A
1 AATAAAATGATATAA
25340415 AATAAAGATGATATAA
1 AATAAA-ATGATATAA
25340431 TATATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 7 0.29
13 4 0.17
14 2 0.08
15 10 0.42
16 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AATAAAATGATATAA
Found at i:25340439 original size:28 final size:26
Alignment explanation
Indices: 25340384--25340441 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 26
25340374 AATAAATAGT
25340384 TAATAATAAAATGATATAAAATAAAA
1 TAATAATAAAATGATATAAAATAAAA
* *
25340410 TAATAAATAAAGATGATATAATATATAA
1 TAAT-AATAAA-ATGATATAAAATAAAA
25340438 TAAT
1 TAAT
25340442 TTACATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 18 0.64
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (26 bp):
TAATAATAAAATGATATAAAATAAAA
Found at i:25342943 original size:9 final size:8
Alignment explanation
Indices: 25342927--25342952 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25342917 GATAATAATC
25342927 TCTTTTTT
1 TCTTTTTT
25342935 TCTTTTTT
1 TCTTTTTT
25342943 TCTTTTTT
1 TCTTTTTT
25342951 TC
1 TC
25342953 ATGATTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TCTTTTTT
Found at i:25343824 original size:25 final size:25
Alignment explanation
Indices: 25343795--25343844 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
25343785 TAAATTGGTC
25343795 ATGACTCGAATTCCTAAACTACATT
1 ATGACTCGAATTCCTAAACTACATT
25343820 ATGACTCGAATTCCTAAACTACATT
1 ATGACTCGAATTCCTAAACTACATT
25343845 GTTAAGTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (25 bp):
ATGACTCGAATTCCTAAACTACATT
Found at i:25351885 original size:14 final size:14
Alignment explanation
Indices: 25351866--25351893 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25351856 AAATAAATAC
25351866 TTCAATCCTATAGT
1 TTCAATCCTATAGT
25351880 TTCAATCCTATAGT
1 TTCAATCCTATAGT
25351894 ATAGTGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
TTCAATCCTATAGT
Found at i:25354994 original size:21 final size:22
Alignment explanation
Indices: 25354956--25354999 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
25354946 TACTTTTGTA
* *
25354956 ATATCTTATTGTATTTTATATT
1 ATATATTATTGTAATTTATATT
25354978 ATATATTA-TGTAATTTATATT
1 ATATATTATTGTAATTTATATT
25354999 A
1 A
25355000 AATAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (22 bp):
ATATATTATTGTAATTTATATT
Found at i:25356359 original size:152 final size:153
Alignment explanation
Indices: 25356077--25356376 Score: 575
Period size: 152 Copynumber: 2.0 Consensus size: 153
25356067 AACAATCCCG
25356077 TGATATTGAAAAGATGTTGAATCAATTCAAGCAATATGATATGAAAATGGATGAAATGATTGTTG
1 TGATATTGAAAAGATGTTGAATCAATTCAAGCAATATGATATGAAAATGGATGAAATGATTGTTG
25356142 TATCCTCCATAATAGACAAACTTCCTCCATCTTAAAAAGACTTTAAAAGAAGTCTAAAACATAAG
66 TATCCTCCATAATAGACAAACTTCCTCCATCTTAAAAAGACTTTAAAAGAAGTCTAAAACATAAG
25356207 AAAGAGGAAATATCTCTTTCTTA
131 AAAGAGGAAATATCTCTTTCTTA
25356230 TGATA-TGAAAAGATGTTGAATCAATTCAAGCAATATGATATGAAAATGGATGAAATGATTGTTG
1 TGATATTGAAAAGATGTTGAATCAATTCAAGCAATATGATATGAAAATGGATGAAATGATTGTTG
* *
25356294 TATCCTCTATAATAGACAAACTTCCTCCATCTTGAAAAGACTTTAAAAGAAGTCTAAAACATAAG
66 TATCCTCCATAATAGACAAACTTCCTCCATCTTAAAAAGACTTTAAAAGAAGTCTAAAACATAAG
25356359 AAAGAGGAAATATCTCTT
131 AAAGAGGAAATATCTCTT
25356377 CAGGCTTTGG
Statistics
Matches: 145, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
152 140 0.97
153 5 0.03
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (153 bp):
TGATATTGAAAAGATGTTGAATCAATTCAAGCAATATGATATGAAAATGGATGAAATGATTGTTG
TATCCTCCATAATAGACAAACTTCCTCCATCTTAAAAAGACTTTAAAAGAAGTCTAAAACATAAG
AAAGAGGAAATATCTCTTTCTTA
Found at i:25362774 original size:43 final size:43
Alignment explanation
Indices: 25362726--25362888 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
25362716 ATCGAGATGT
*
25362726 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * *
25362769 GATTACATGTAAGACCATGTTTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * * * * *
25362812 GATTTCGTCTAAGACCTTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * *
25362855 GATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
25362889 TGTACAAGCT
Statistics
Matches: 98, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 87 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:25368151 original size:21 final size:19
Alignment explanation
Indices: 25368127--25368190 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
25368117 AACTGTTCAA
25368127 CTCACACTGAGCTTTCATAAG
1 CTCACACT-AGCTTTCA-AAG
25368148 CTCACACTA-CTATTC-AA-
1 CTCACACTAGCT-TTCAAAG
25368165 CTCACACTAAGCTTTCACAAG
1 CTCACACT-AGCTTTCA-AAG
25368186 CTCAC
1 CTCAC
25368191 CCCCATAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.22
18 6 0.16
19 4 0.11
20 6 0.16
21 13 0.35
ACGTcount: A:0.31, C:0.34, G:0.08, T:0.27
Consensus pattern (19 bp):
CTCACACTAGCTTTCAAAG
Found at i:25370013 original size:21 final size:21
Alignment explanation
Indices: 25369989--25370064 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
25369979 TGTCCTTGAT
* *
25369989 TCACACGGGCTTGTGCCTCTG
1 TCACACGGGCGTGTGCCTCTA
*
25370010 TCACACGAGCGTGTGCCTCTA
1 TCACACGGGCGTGTGCCTCTA
*
25370031 TCACAC-GGCAGTGTG-CTACTCG
1 TCACACGGGC-GTGTGCCT-CT-A
25370053 TCACACGGGCGT
1 TCACACGGGCGT
25370065 TTGGACCCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.09
21 31 0.67
22 8 0.17
23 3 0.07
ACGTcount: A:0.16, C:0.33, G:0.28, T:0.24
Consensus pattern (21 bp):
TCACACGGGCGTGTGCCTCTA
Found at i:25377454 original size:14 final size:14
Alignment explanation
Indices: 25377435--25377462 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25377425 TAATCTCAAT
25377435 TTGCAACTATGTGA
1 TTGCAACTATGTGA
25377449 TTGCAACTATGTGA
1 TTGCAACTATGTGA
25377463 GAAAAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (14 bp):
TTGCAACTATGTGA
Found at i:25380528 original size:46 final size:46
Alignment explanation
Indices: 25380462--25380655 Score: 155
Period size: 46 Copynumber: 4.2 Consensus size: 46
25380452 CCCAAATAGG
* * *
25380462 GTCTTACACTGAC-ACATCTCGTA-GCCGATGCATGTCCCAAACAT
1 GTCTTACACTGGCTTCATCTCGTAGGCCGATGCATGTCCCAGACAT
* * *
25380506 GTCTTACACTGGCTTACGTCTCG-AGGCCTATGCATGTCTCAGACAT
1 GTCTTACACTGGCTT-CATCTCGTAGGCCGATGCATGTCCCAGACAT
* * * * * * *
25380552 GTCTTACACTAGCACTCGTCTC-AATGCCGATGCCATCTCCTAGACAT
1 GTCTTACACTGGC-TTCATCTCGTAGGCCGATG-CATGTCCCAGACAT
***
25380599 GGTCTTACACTGGCTCTCATAAGGT-GGCCGATGCATGTCCCAGACAT
1 -GTCTTACACTGGCT-TCATCTCGTAGGCCGATGCATGTCCCAGACAT
*
25380646 GTTTTACACT
1 GTCTTACACT
25380656 AGCTCACACA
Statistics
Matches: 117, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
44 12 0.10
45 1 0.01
46 58 0.50
47 24 0.21
48 22 0.19
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GTCTTACACTGGCTTCATCTCGTAGGCCGATGCATGTCCCAGACAT
Found at i:25380604 original size:94 final size:92
Alignment explanation
Indices: 25380485--25380658 Score: 215
Period size: 94 Copynumber: 1.9 Consensus size: 92
25380475 ACATCTCGTA
* * ** * *
25380485 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACGTCTCGAGGCCTATGCATGTCTCAGA
1 GCCGATGCATCTCCCAAACATGTCTTACACTGGCTCT-CATAACGAGGCCGATGCATGTCCCAGA
25380549 CATGTCTTACACTAGCACTCGTCTCAAT
65 CATGTCTTACACTAGCACTCGTCTCAAT
* * * *
25380577 GCCGATGCCATCTCCTAGACATGGTCTTACACTGGCTCTCATAAGGTGGCCGATGCATGTCCCAG
1 GCCGATG-CATCTCCCAAACAT-GTCTTACACTGGCTCTCATAACGAGGCCGATGCATGTCCCAG
*
25380642 ACATGTTTTACACTAGC
64 ACATGTCTTACACTAGC
25380659 TCACACAAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 7 0.10
93 11 0.16
94 49 0.72
95 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATCTCCCAAACATGTCTTACACTGGCTCTCATAACGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCGTCTCAAT
Found at i:25383560 original size:36 final size:36
Alignment explanation
Indices: 25383520--25383592 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
25383510 AAGTTAGTGG
25383520 ATTTTAAATTCATCTACCACCATTTGAAGCAATTAA
1 ATTTTAAATTCATCTACCACCATTTGAAGCAATTAA
25383556 ATTTTAAATTCATCTACCACCATTTGAAGCAATTAA
1 ATTTTAAATTCATCTACCACCATTTGAAGCAATTAA
25383592 A
1 A
25383593 ATGGTCTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (36 bp):
ATTTTAAATTCATCTACCACCATTTGAAGCAATTAA
Found at i:25386981 original size:26 final size:27
Alignment explanation
Indices: 25386901--25386990 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 27
25386891 TTTTAGTTTT
* * *
25386901 TAATTTTTTCA-TTTTTATTTTAGAAA
1 TAATTTTTTAATTTTTTAATTTAAAAA
* *
25386927 TAA-TATATAATAATTTTTAATTTAAAAA
1 TAATTTTTTAAT--TTTTTAATTTAAAAA
* *
25386955 TATTTTTTTAATTTTTTAATTT-TAAA
1 TAATTTTTTAATTTTTTAATTTAAAAA
25386981 TAATTTTTTA
1 TAATTTTTTA
25386991 GAATTAAGGT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
25 4 0.08
26 15 0.30
27 10 0.20
28 15 0.30
29 6 0.12
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
TAATTTTTTAATTTTTTAATTTAAAAA
Found at i:25393309 original size:13 final size:13
Alignment explanation
Indices: 25393291--25393330 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
25393281 AGTTTGGCAA
25393291 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
25393304 TGCTTTTAAGAAG
1 TGCTTTTGAGAAG
*
25393317 TGCTTTTGAAAAG
1 TGCTTTTGAGAAG
25393330 T
1 T
25393331 TTAGTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:25404499 original size:24 final size:23
Alignment explanation
Indices: 25404472--25404546 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 23
25404462 ACAAAAAAGA
25404472 TTTGTCTAAGTCATTTCATTTCTT
1 TTTGTCTAAGTCATTTC-TTTCTT
* *
25404496 TTTGTCCAAG---TTGCTTCTCTT
1 TTTGTCTAAGTCATTTCTT-TCTT
*
25404517 TTTGTCTAACTCATTTCTTTTCTT
1 TTTGTCTAAGTCATTTC-TTTCTT
25404541 CTTTGT
1 -TTTGT
25404547 AAGTTTCAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
20 2 0.05
21 15 0.38
24 16 0.40
25 7 0.17
ACGTcount: A:0.12, C:0.20, G:0.09, T:0.59
Consensus pattern (23 bp):
TTTGTCTAAGTCATTTCTTTCTT
Found at i:25406949 original size:17 final size:18
Alignment explanation
Indices: 25406906--25406968 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
25406896 TTGATGATAC
25406906 CGATATTGATGATAGTGA
1 CGATATTGATGATAGTGA
*
25406924 CGATATTGATGCTAGT-A
1 CGATATTGATGATAGTGA
* *
25406941 CGTTATTGAAGATAGTGA
1 CGATATTGATGATAGTGA
25406959 C-ACTATTGAT
1 CGA-TATTGAT
25406969 CGTGACCTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
17 14 0.38
18 23 0.62
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.35
Consensus pattern (18 bp):
CGATATTGATGATAGTGA
Found at i:25408714 original size:9 final size:9
Alignment explanation
Indices: 25408700--25408743 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
25408690 CGTTCCATCA
25408700 TCCTTCTTT
1 TCCTTCTTT
25408709 TCCTTCTTT
1 TCCTTCTTT
*
25408718 TCTTTCTTT
1 TCCTTCTTT
*
25408727 TCTTTCTTT
1 TCCTTCTTT
*
25408736 CCCTTCTT
1 TCCTTCTT
25408744 CTTTGACTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (9 bp):
TCCTTCTTT
Found at i:25422098 original size:3 final size:3
Alignment explanation
Indices: 25422090--25422114 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
25422080 ATCGTTCTAC
25422090 TAG TAG TAG TAG TAG TAG TAG TAG T
1 TAG TAG TAG TAG TAG TAG TAG TAG T
25422115 TATTGAGGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TAG
Found at i:25426762 original size:13 final size:13
Alignment explanation
Indices: 25426746--25426772 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25426736 GCGACAACTT
25426746 TTAACTTCTTATA
1 TTAACTTCTTATA
25426759 TTAACTTCTTATA
1 TTAACTTCTTATA
25426772 T
1 T
25426773 GGTTGACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAACTTCTTATA
Found at i:25426846 original size:22 final size:22
Alignment explanation
Indices: 25426821--25426870 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
25426811 TTTACAACAT
*
25426821 TATGA-TTTTTGGTAACTATTAA
1 TATGACTTTTTGATAACT-TTAA
*
25426843 TATGACTTTTTTTATAACTTTAA
1 TATGAC-TTTTTGATAACTTTAA
25426866 TATGA
1 TATGA
25426871 AATATAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (22 bp):
TATGACTTTTTGATAACTTTAA
Found at i:25429383 original size:27 final size:27
Alignment explanation
Indices: 25429353--25429434 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
25429343 AAAACCAGTA
*
25429353 TAGTTTGTAAGGACAGTAAACACGGGG
1 TAGTTTGTAAGGACATTAAACACGGGG
* ** * * *
25429380 TAGTCTGTTGGGACATTAAATACGAGA
1 TAGTTTGTAAGGACATTAAACACGGGG
** *
25429407 TAGTTTGCCAGGACATTAAACATGGGG
1 TAGTTTGTAAGGACATTAAACACGGGG
25429434 T
1 T
25429435 TAAATCGCGA
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (27 bp):
TAGTTTGTAAGGACATTAAACACGGGG
Found at i:25448761 original size:6 final size:6
Alignment explanation
Indices: 25448750--25448798 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
25448740 GTTTCCAAAC
* * *
25448750 ATGGAA ATGGAA ATGAAA ATGAAA ATGAAA ATGGAA ATGGAA ATGGAA
1 ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA
25448798 A
1 A
25448799 ACTGCAATAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (6 bp):
ATGGAA
Found at i:25448996 original size:26 final size:26
Alignment explanation
Indices: 25448942--25449014 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
25448932 AATTTTCTCG
*
25448942 AAATTTTACTGAGGGTAAAATCATCA
1 AAATTTTACTGAGGGTAAAATCATAA
* * **
25448968 AAATTTTGCTGGGGGTAAAATTGTAAA
1 AAATTTTACTGAGGGTAAAATCAT-AA
**
25448995 AAAAATTACT-AGGGTAAAAT
1 AAATTTTACTGAGGGTAAAAT
25449015 TGAGATGAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 29 0.78
27 8 0.22
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (26 bp):
AAATTTTACTGAGGGTAAAATCATAA
Found at i:25451018 original size:43 final size:43
Alignment explanation
Indices: 25450942--25451126 Score: 210
Period size: 43 Copynumber: 4.3 Consensus size: 43
25450932 TTATCTAAAA
* * * *
25450942 AAACACCGCTAAAGGTCATGACCTTTAATGGCGCTTTCCCCAC
1 AAACGCCGCTAAAAGTCATGACCTTTAACGACGCTTTCCCCAC
* * * * *
25450985 AAACGCCGTTAAAAGTCATAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGTCATGACCTTTAACGACGCTTTCCCCAC
* *
25451028 AAATGCCGCTAAAAGTCATGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTAAAAGTCATGACCTTTAACGACGCTTTCCCCAC
* * *
25451071 AAACGCAGCT-AAAGATCATGACCTTTAGCGACACTTTCCCCAC
1 AAACGCCGCTAAAAG-TCATGACCTTTAACGACGCTTTCCCCAC
* *
25451114 AAATGTCGCTAAA
1 AAACGCCGCTAAA
25451127 GACCGTGACC
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 4 0.03
43 114 0.95
44 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAAGTCATGACCTTTAACGACGCTTTCCCCAC
Found at i:25451071 original size:86 final size:86
Alignment explanation
Indices: 25450947--25451126 Score: 245
Period size: 86 Copynumber: 2.1 Consensus size: 86
25450937 TAAAAAAACA
* * * * *
25450947 CCGCTAAAGGTCATGACCTTTAATGGCGCTTTCCCCACAAACGCCGTTAAA-AGTCATAACCTTT
1 CCGCTAAAAGTCATGACCTTTAACGACGCTTTCCCCACAAACGCAGCTAAAGA-TCATAACCTTT
* * *
25451011 AGCGGCGCTTTTCCCACAAATG
65 AGCGACACTTTCCCCACAAATG
* *
25451033 CCGCTAAAAGTCATGACCTTTAACGACGCTTTTCCCACAAACGCAGCTAAAGATCATGACCTTTA
1 CCGCTAAAAGTCATGACCTTTAACGACGCTTTCCCCACAAACGCAGCTAAAGATCATAACCTTTA
25451098 GCGACACTTTCCCCACAAATG
66 GCGACACTTTCCCCACAAATG
*
25451119 TCGCTAAA
1 CCGCTAAA
25451127 GACCGTGACC
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 81 0.99
87 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (86 bp):
CCGCTAAAAGTCATGACCTTTAACGACGCTTTCCCCACAAACGCAGCTAAAGATCATAACCTTTA
GCGACACTTTCCCCACAAATG
Found at i:25451220 original size:74 final size:74
Alignment explanation
Indices: 25451079--25451221 Score: 160
Period size: 74 Copynumber: 1.9 Consensus size: 74
25451069 ACAAACGCAG
* * * * * ** *
25451079 CTAAAGATCATGACCTTTAGCGACACTTTCCCCACAAATGTCGCTAAAGACCGTGACCTTTGGAA
1 CTAAAGATCATGACCTTTAGCGACACTTTCCCCAAAAACGCCGCTAAAGACCATAAAATTTGAAA
25451144 AAAACACCA
66 AAAACACCA
* * * ** *
25451153 CTAAAGATCATGACCTTTAGTGACACTTTTCTCAAAAACGCCGCTAAAGGTCATAAAATTTTAAA
1 CTAAAGATCATGACCTTTAGCGACACTTTCCCCAAAAACGCCGCTAAAGACCATAAAATTTGAAA
25451218 AAAA
66 AAAA
25451222 TAAAATATTA
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
74 55 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (74 bp):
CTAAAGATCATGACCTTTAGCGACACTTTCCCCAAAAACGCCGCTAAAGACCATAAAATTTGAAA
AAAACACCA
Found at i:25451234 original size:10 final size:10
Alignment explanation
Indices: 25451221--25451246 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
25451211 TTTTAAAAAA
25451221 ATAAAATATT
1 ATAAAATATT
25451231 ATAAAATATT
1 ATAAAATATT
25451241 ATAAAA
1 ATAAAA
25451247 GTCATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAAATATT
Found at i:25451273 original size:47 final size:48
Alignment explanation
Indices: 25451197--25451290 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 48
25451187 AAAACGCCGC
* * *
25451197 TAAAGGTCATAAAATTTTAAAAAAATAAAA-T-ATTAT-AAAATATTA
1 TAAAAGTCATAAAAATATAAAAAAATAAAATTCATTATCAAAATATTA
25451242 TAAAAGTCATGAAAAATATAAAAAAATTAAAATTCATTATCAAAATATT
1 TAAAAGTCAT-AAAAATATAAAAAAA-TAAAATTCATTATCAAAATATT
25451291 GAGAAGAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 9 0.22
46 13 0.32
47 5 0.12
48 1 0.02
49 5 0.12
50 8 0.20
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (48 bp):
TAAAAGTCATAAAAATATAAAAAAATAAAATTCATTATCAAAATATTA
Found at i:25455200 original size:3 final size:3
Alignment explanation
Indices: 25455194--25455222 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
25455184 TTTTTCTCTT
25455194 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
25455223 TACTAAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25455736 original size:14 final size:15
Alignment explanation
Indices: 25455697--25455727 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25455687 ACTATTTAAT
25455697 ATATAAATTAAAAAC
1 ATATAAATTAAAAAC
25455712 ATATAAATTAAAAAC
1 ATATAAATTAAAAAC
25455727 A
1 A
25455728 ATCACTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
ATATAAATTAAAAAC
Found at i:25456020 original size:8 final size:7
Alignment explanation
Indices: 25455999--25456152 Score: 67
Period size: 7 Copynumber: 21.3 Consensus size: 7
25455989 TACACTAATT
25455999 ACCCTAA
1 ACCCTAA
25456006 ACCCTAA
1 ACCCTAA
25456013 ACCCCT-A
1 A-CCCTAA
* *
25456020 ACACTTA
1 ACCCTAA
* *
25456027 ACCTTTA
1 ACCCTAA
*
25456034 ACCCTTA
1 ACCCTAA
25456041 ACCCTAA
1 ACCCTAA
*
25456048 ACCCATAC
1 ACCC-TAA
**
25456056 ACATTTAA
1 AC-CCTAA
* *
25456064 ATCTTAA
1 ACCCTAA
*
25456071 ACCATAA
1 ACCCTAA
25456078 ACCCTAA
1 ACCCTAA
*
25456085 ACCCCATA
1 ACCCTA-A
*
25456093 ACTCGTAA
1 AC-CCTAA
*
25456101 ACCCTTA
1 ACCCTAA
*
25456108 ACTCTTAA
1 AC-CCTAA
*
25456116 CCCCTAA
1 ACCCTAA
25456123 ACCCTAA
1 ACCCTAA
* *
25456130 GCCATAA
1 ACCCTAA
* *
25456137 AACATAA
1 ACCCTAA
25456144 ACCCTAA
1 ACCCTAA
25456151 AC
1 AC
25456153 TTCTTCCCCT
Statistics
Matches: 110, Mismatches: 30, Indels: 14
0.71 0.19 0.09
Matches are distributed among these distances:
6 3 0.03
7 84 0.76
8 21 0.19
9 2 0.02
ACGTcount: A:0.41, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:25456118 original size:37 final size:35
Alignment explanation
Indices: 25456005--25456126 Score: 97
Period size: 37 Copynumber: 3.3 Consensus size: 35
25455995 AATTACCCTA
* * *
25456005 AACCCTAAACCCC-TAACACTTAACCTTTAACCCTT
1 AACCCTAAACCCCATAACTCTAAACCCTTAA-CCTT
* * *
25456040 AACCCTAAA-CCCATACACATTTAAA-TCTTAAACCATA
1 AACCCTAAACCCCATA-AC-TCTAAACCCTT-AACC-TT
25456077 AACCCTAAACCCCATAACTCGTAAACCCTTAACTCTT
1 AACCCTAAACCCCATAACTC-TAAACCCTTAAC-CTT
25456114 AACCCCTAAACCC
1 AA-CCCTAAACCC
25456127 TAAGCCATAA
Statistics
Matches: 68, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
34 3 0.04
35 11 0.16
36 7 0.10
37 27 0.40
38 20 0.29
ACGTcount: A:0.39, C:0.38, G:0.01, T:0.23
Consensus pattern (35 bp):
AACCCTAAACCCCATAACTCTAAACCCTTAACCTT
Found at i:25456485 original size:15 final size:15
Alignment explanation
Indices: 25456462--25456512 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
25456452 ATACCCATGG
*
25456462 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
25456477 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
25456492 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
25456506 CCTTAAA
1 CCATAAA
25456513 TATTAAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.22
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:25456529 original size:7 final size:7
Alignment explanation
Indices: 25456465--25456528 Score: 56
Period size: 7 Copynumber: 9.0 Consensus size: 7
25456455 CCCATGGCCA
25456465 TTAAACC
1 TTAAACC
25456472 TTAAACC
1 TTAAACC
*
25456479 ATAAAACC
1 -TTAAACC
*
25456487 CTAAACC
1 TTAAACC
* *
25456494 ATAGACC
1 TTAAACC
25456501 TTAAACC
1 TTAAACC
**
25456508 TTAAATA
1 TTAAACC
25456515 TTAAACC
1 TTAAACC
*
25456522 CTAAACC
1 TTAAACC
25456529 CCAAAATAAA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:25456692 original size:37 final size:39
Alignment explanation
Indices: 25456651--25456733 Score: 125
Period size: 37 Copynumber: 2.2 Consensus size: 39
25456641 TGTTTAAGGT
* * *
25456651 TTTAGGGGTTATAGTTTAGTGTTTATGGTT-TTT-AGGG
1 TTTAGGGGTTATAGATTAGTATTTATGATTCTTTGAGGG
25456688 TTTAGGGGTTATAGATTAGTATTTATGATTCTTTGAGGG
1 TTTAGGGGTTATAGATTAGTATTTATGATTCTTTGAGGG
25456727 TTTAGGG
1 TTTAGGG
25456734 TTTTAGGGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 27 0.66
38 3 0.07
39 11 0.27
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.48
Consensus pattern (39 bp):
TTTAGGGGTTATAGATTAGTATTTATGATTCTTTGAGGG
Found at i:25456842 original size:40 final size:42
Alignment explanation
Indices: 25456752--25456842 Score: 125
Period size: 41 Copynumber: 2.2 Consensus size: 42
25456742 GTTATATAAC
* *
25456752 TTTTAGCGGCGTTTTGACCACAAACGTCACTATTACTCTAGT
1 TTTTAGCGGCATTTTGACCAAAAACGTCACTATTACTCTAGT
*
25456794 TTTTAGCGGCATTTT-ACCAAAAACG-CTACTATTGCTCT-GT
1 TTTTAGCGGCATTTTGACCAAAAACGTC-ACTATTACTCTAGT
25456834 TTTTAGCGG
1 TTTTAGCGG
25456843 TGTTTTTGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
40 12 0.27
41 19 0.42
42 14 0.31
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (42 bp):
TTTTAGCGGCATTTTGACCAAAAACGTCACTATTACTCTAGT
Found at i:25460759 original size:6 final size:6
Alignment explanation
Indices: 25460743--25460788 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
25460733 ATTTTAAATT
25460743 TTTAGTA TTTATA TTTATA TTTATA TTTATA TTTATA TTTA-A TTTA
1 TTTA-TA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
25460789 GTCTTTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.13
6 30 0.77
7 4 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (6 bp):
TTTATA
Found at i:25461974 original size:298 final size:293
Alignment explanation
Indices: 25461388--25461984 Score: 1113
Period size: 298 Copynumber: 2.0 Consensus size: 293
25461378 AATATATCTC
25461388 ATATTTTATTCAATAACTTTAAAAAACTTGGGAATTAAATTTTGGGTAAACTACAAATGGTCATC
1 ATATTTTATTCAATAACTTTAAAAAACTTGGGAATTAAATTTTGGGTAAACTACAAATGGTCATC
*
25461453 CAACTATACTCATGTTTTTGTTTTGGTCACTTAACTTTAAAAGTTTTCAATTTAGGTACTAACAT
66 CAACTATACTCATGTTTTTGTTTTGGTCACCTAACTTTAAAAGTTTTCAATTTAGGTACTAACAT
*
25461518 TTGAATTCATTTCTATTTTGATCATCTGCCGATTGATAATGAAAAGTCTTTTTGTTTATATTTTT
131 TTGAATTCATTTCTATTTTGATCATCCGCCGATTGATAATGAAAAGTCTTTTTGTTTATATTTTT
*
25461583 AAGAAGTTAGTGTTAAAAATTAACTGAGCACCATTAAAAATAATAGAATATACAAATTTTAAAAA
196 AAGAAGTTAGTGTTAAAAATTAACTGAACACCATTAAAAATAATAGAATATACAAATTTTAAAAA
25461648 TATAATGTATAATAAAATTATATAAATAATTTA
261 TATAATGTATAATAAAATTATATAAATAATTTA
25461681 ATATTTTATTCAATAACTTTAAAAAACTTGGGAAATTAAATTTTGGGTAAACTACAAATGGTCAT
1 ATATTTTATTCAATAACTTTAAAAAACTTGGG-AATTAAATTTTGGGTAAACTACAAATGGTCAT
25461746 CCAACTATACTCATGTTTTTGTTTTGGTCACCTAACTTTAAAAGTTTTCAATTTAGGTACTAACA
65 CCAACTATACTCATGTTTTTGTTTTGGTCACCTAACTTTAAAAGTTTTCAATTTAGGTACTAACA
25461811 TTTGAATTCATTTCTATTTTGATCATCCGCCGTTAAATTGATAATGAAAAGTCTTTTTGTTTATA
130 TTTGAATTCATTTCTATTTTGATCATCCGCCG----ATTGATAATGAAAAGTCTTTTTGTTTATA
*
25461876 TTTTTAAGAAGTTAGTGTTAAAAATTAACTGAACACTATTAAAAATAATAGAATATACAAATTTT
191 TTTTTAAGAAGTTAGTGTTAAAAATTAACTGAACACCATTAAAAATAATAGAATATACAAATTTT
25461941 AAAAATATAATGTATAATAAAATTATATAAATAATTTA
256 AAAAATATAATGTATAATAAAATTATATAAATAATTTA
25461979 ATATTT
1 ATATTT
25461985 GTAAAAGTAA
Statistics
Matches: 295, Mismatches: 4, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
293 32 0.11
294 127 0.43
298 136 0.46
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (293 bp):
ATATTTTATTCAATAACTTTAAAAAACTTGGGAATTAAATTTTGGGTAAACTACAAATGGTCATC
CAACTATACTCATGTTTTTGTTTTGGTCACCTAACTTTAAAAGTTTTCAATTTAGGTACTAACAT
TTGAATTCATTTCTATTTTGATCATCCGCCGATTGATAATGAAAAGTCTTTTTGTTTATATTTTT
AAGAAGTTAGTGTTAAAAATTAACTGAACACCATTAAAAATAATAGAATATACAAATTTTAAAAA
TATAATGTATAATAAAATTATATAAATAATTTA
Found at i:25462735 original size:19 final size:17
Alignment explanation
Indices: 25462699--25462737 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
25462689 ATATAGAAAA
*
25462699 AAATTATAAAATTTTAT
1 AAATTATAAAAATTTAT
25462716 AAATTCATAAGAAATTTAT
1 AAATT-ATAA-AAATTTAT
25462735 AAA
1 AAA
25462738 AATGTAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATTATAAAAATTTAT
Found at i:25462755 original size:18 final size:19
Alignment explanation
Indices: 25462731--25462774 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25462721 CATAAGAAAT
25462731 TTATAAAA-ATGTAAAGAAA
1 TTATAAAATATGTAAA-AAA
*
25462750 -TATAAAATTTGTAAAAAA
1 TTATAAAATATGTAAAAAA
25462768 TTATAAA
1 TTATAAA
25462775 TTATCGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TTATAAAATATGTAAAAAA
Found at i:25462979 original size:10 final size:9
Alignment explanation
Indices: 25462958--25463026 Score: 75
Period size: 9 Copynumber: 7.4 Consensus size: 9
25462948 TTTTGATGCA
*
25462958 TTTTATAGT
1 TTTTATAAT
*
25462967 TTTTATGAT
1 TTTTATAAT
*
25462976 TTTTATAAAA
1 TTTTAT-AAT
25462986 TTTTATAAT
1 TTTTATAAT
**
25462995 TTTTACGAT
1 TTTTATAAT
25463004 TTTTATAAT
1 TTTTATAAT
25463013 TTTTAATAAT
1 TTTT-ATAAT
25463023 TTTT
1 TTTT
25463027 TATTAAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
9 33 0.67
10 16 0.33
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:25462988 original size:28 final size:28
Alignment explanation
Indices: 25462957--25463026 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
25462947 TTTTTGATGC
* *
25462957 ATTTTATAGTTTTTATGATTTTTATAAA
1 ATTTTATAATTTTTACGATTTTTATAAA
25462985 ATTTTATAATTTTTACGATTTTTAT-AA
1 ATTTTATAATTTTTACGATTTTTATAAA
*
25463012 TTTTTAATAATTTTT
1 ATTTT-ATAATTTTT
25463027 TATTAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 6 0.16
28 32 0.84
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (28 bp):
ATTTTATAATTTTTACGATTTTTATAAA
Found at i:25463038 original size:21 final size:21
Alignment explanation
Indices: 25463014--25463058 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25463004 TTTTATAATT
25463014 TTTAATAATTTTTTATTAAAA
1 TTTAATAATTTTTTATTAAAA
* *
25463035 TTTAATAATTTTTTTTTATAA
1 TTTAATAATTTTTTATTAAAA
25463056 TTT
1 TTT
25463059 TAATTGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTAATAATTTTTTATTAAAA
Found at i:25463069 original size:21 final size:20
Alignment explanation
Indices: 25463003--25463070 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 20
25462993 ATTTTTACGA
*
25463003 TTTTTATAATTTTTAATAATTT
1 TTTTTATAA-TTTTAATTA-TT
*
25463025 TTTATTAAAATTTAATAATT-TT
1 TTT-TTATAATTT--TAATTATT
25463047 TTTTTATAATTTTAATTGATT
1 TTTTTATAATTTTAATT-ATT
25463068 TTT
1 TTT
25463071 ATTTTTTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
19 5 0.13
21 13 0.34
22 11 0.29
23 5 0.13
24 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTTTATAATTTTAATTATT
Found at i:25463900 original size:29 final size:29
Alignment explanation
Indices: 25463868--25463925 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
25463858 CTGGTTTTTC
* *
25463868 AAGTTAGTTAGTCTGTTAG-TAGTTAGCTA
1 AAGTCAGTTAGT-TGTTAGCTAGGTAGCTA
*
25463897 AAGTCAGTTTGTTGTTAGCTAGGTAGCTA
1 AAGTCAGTTAGTTGTTAGCTAGGTAGCTA
25463926 TTACTCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (29 bp):
AAGTCAGTTAGTTGTTAGCTAGGTAGCTA
Found at i:25465910 original size:68 final size:68
Alignment explanation
Indices: 25465760--25465917 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
25465750 CTAGCCAATT
* * *
25465760 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
25465825 TTTA
65 CATA
* * *
25465829 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
25465891 CTACATA
63 C-ACATA
*
25465898 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
25465918 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 35 0.47
69 7 0.09
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:25472036 original size:30 final size:30
Alignment explanation
Indices: 25472000--25472068 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
25471990 GTCACAATTA
*
25472000 ACCA-TTTCTCGTTATAGACGTAAC-GAGGCT
1 ACCATTTTCT-GTTAGAGACGTAACAGA-GCT
* *
25472030 ACCATTTTCTGTTAGATACTTAACAGAGCT
1 ACCATTTTCTGTTAGAGACGTAACAGAGCT
25472060 ACCATTTTC
1 ACCATTTTC
25472069 CATCCCCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
ACCATTTTCTGTTAGAGACGTAACAGAGCT
Found at i:25473407 original size:30 final size:30
Alignment explanation
Indices: 25473336--25473407 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
25473326 GTGATAGGGG
* *
25473336 ATGGAAAATGGCAGCTTCGTTAAGTATCTA
1 ATGGAAAATGGTAGCTCCGTTAAGTATCTA
* * *
25473366 ATGGAAAATGGTAGCTCCGTTACGTTTGTA
1 ATGGAAAATGGTAGCTCCGTTAAGTATCTA
25473396 ATGGAAAATGGT
1 ATGGAAAATGGT
25473408 TAGTGGTGAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (30 bp):
ATGGAAAATGGTAGCTCCGTTAAGTATCTA
Found at i:25489238 original size:27 final size:26
Alignment explanation
Indices: 25489198--25489302 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 26
25489188 AGGAAGCGTC
*
25489198 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
25489225 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
* *
25489252 CTGCTGGCTCTGCTACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* * *
25489279 CTGGTGACTCCGTCACAATATCTG
1 CTGGTGGCTCTGCCACAATATCTG
25489303 GCAGCCTCAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 58 0.88
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:25492960 original size:31 final size:31
Alignment explanation
Indices: 25492925--25492986 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
25492915 CTGTTGATCT
*
25492925 GATGCTTTTGCCTTTCGACGAATTTGATATA
1 GATGCTTTTACCTTTCGACGAATTTGATATA
* *
25492956 GATGCTTTTACCTTTTGATGAATTTGATATA
1 GATGCTTTTACCTTTCGACGAATTTGATATA
25492987 ATTCTAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (31 bp):
GATGCTTTTACCTTTCGACGAATTTGATATA
Found at i:25496787 original size:27 final size:27
Alignment explanation
Indices: 25496751--25496814 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
25496741 GTCTTTGAAT
25496751 TTTGATGAAATGAGCTATTTG-GGG-CTAA
1 TTTG-TGAAATGAG-T-TTTGAGGGACTAA
25496779 TTTGTGAAAATGAGTTTTGAGGGACTAA
1 TTTGTG-AAATGAGTTTTGAGGGACTAA
*
25496807 ATTGTGAA
1 TTTGTGAA
25496815 TTAAATATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
26 4 0.12
27 8 0.25
28 20 0.62
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (27 bp):
TTTGTGAAATGAGTTTTGAGGGACTAA
Found at i:25496789 original size:28 final size:28
Alignment explanation
Indices: 25496758--25496814 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
25496748 AATTTTGATG
*
25496758 AAATGAGCTATTTG-GGG-CTAATTTGTGA
1 AAATGAG-T-TTTGAGGGACTAAATTGTGA
25496786 AAATGAGTTTTGAGGGACTAAATTGTGA
1 AAATGAGTTTTGAGGGACTAAATTGTGA
25496814 A
1 A
25496815 TTAAATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 18 0.69
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
AAATGAGTTTTGAGGGACTAAATTGTGA
Found at i:25501096 original size:40 final size:40
Alignment explanation
Indices: 25501013--25501233 Score: 223
Period size: 40 Copynumber: 5.5 Consensus size: 40
25501003 ACCCAAGTAT
** * *
25501013 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
25501051 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
25501091 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * **
25501131 CTTCGGGTTTTGGCCCGGATATAGTAACTCTCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * **
25501171 CTTCGGATCTTAGTCCGGATATACTCACTTAGCACAAAACC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
25501212 CTTCGGGACTTACCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
25501234 CATTCGAATA
Statistics
Matches: 148, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 95 0.64
41 26 0.18
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:25513599 original size:26 final size:25
Alignment explanation
Indices: 25513570--25513719 Score: 87
Period size: 26 Copynumber: 6.0 Consensus size: 25
25513560 CTTATTAGTG
*
25513570 TCCCGATATATGGCTCTTCGTAAGCT
1 TCCCGATATATGGCTCTTCG-GAGCT
* *
25513596 TCCCGTTGAT-TGGCTCTTTGTGAGCT
1 TCCCGAT-ATATGGCTCTTCG-GAGCT
** *
25513622 TCTTGAT-TAATGGCTCTCCGGAGCT
1 TCCCGATAT-ATGGCTCTTCGGAGCT
* *
25513647 TCCCAATAT-TGGCTTGCTT--GAACT
1 TCCCGATATATGGC-T-CTTCGGAGCT
* * *
25513671 TCCCAATATATGGCTATCCGGAGCT
1 TCCCGATATATGGCTCTTCGGAGCT
* *
25513696 TCCCGTTA-ATGGCTCTACGGAGCT
1 TCCCGATATATGGCTCTTCGGAGCT
25513720 ACTTGTTTTT
Statistics
Matches: 95, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
23 1 0.01
24 33 0.35
25 24 0.25
26 35 0.37
27 2 0.02
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (25 bp):
TCCCGATATATGGCTCTTCGGAGCT
Found at i:25513697 original size:25 final size:24
Alignment explanation
Indices: 25513631--25513699 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
25513621 TTCTTGATTA
25513631 ATGGCTCTCCGGAGCTTCCCAATAT
1 ATGGCT-TCCGGAGCTTCCCAATAT
** *
25513656 -TGGCTTGCTTGAACTTCCCAATAT
1 ATGGCTT-CCGGAGCTTCCCAATAT
25513680 ATGGCTATCCGGAGCTTCCC
1 ATGGCT-TCCGGAGCTTCCC
25513700 GTTAATGGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
23 1 0.03
24 19 0.54
25 14 0.40
26 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.20, T:0.30
Consensus pattern (24 bp):
ATGGCTTCCGGAGCTTCCCAATAT
Found at i:25514175 original size:17 final size:17
Alignment explanation
Indices: 25514131--25514176 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
25514121 GAAATACATG
*
25514131 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
25514146 GAAAT-ATTGATATAAT
1 GAAATGAATGATATAAT
25514162 GAAATGAATGATATA
1 GAAATGAATGATATA
25514177 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:25520357 original size:48 final size:48
Alignment explanation
Indices: 25520305--25520405 Score: 139
Period size: 48 Copynumber: 2.1 Consensus size: 48
25520295 TATGGTGTCA
**
25520305 GCATCGATATATGATCCCATGTAAGACCATGTCTAGGACATGGCATTG
1 GCATCGATATATGATCCCAAATAAGACCATGTCTAGGACATGGCATTG
* * * *
25520353 GCATCGTTATGTGATCCCAAATAAGACCATGTTTGGGACATGGCATTG
1 GCATCGATATATGATCCCAAATAAGACCATGTCTAGGACATGGCATTG
*
25520401 ACATC
1 GCATC
25520406 AATGTGAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (48 bp):
GCATCGATATATGATCCCAAATAAGACCATGTCTAGGACATGGCATTG
Found at i:25523299 original size:25 final size:25
Alignment explanation
Indices: 25523223--25523310 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 25
25523213 ACCAAACCAC
* * *
25523223 GCCTTTGTAGTAAGTCACCTATAAA
1 GCCTTTGTGGTGAGTTACCTATAAA
* * * ***
25523248 GCCTTTGTGATGATTTACATGGGAA
1 GCCTTTGTGGTGAGTTACCTATAAA
*
25523273 GCTTTTGTGGTGAGTTACCTATAAA
1 GCCTTTGTGGTGAGTTACCTATAAA
*
25523298 GCCTTTCTGGTGA
1 GCCTTTGTGGTGA
25523311 TTTGCTTGGG
Statistics
Matches: 45, Mismatches: 18, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (25 bp):
GCCTTTGTGGTGAGTTACCTATAAA
Found at i:25523378 original size:25 final size:25
Alignment explanation
Indices: 25523350--25523397 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25523340 TTTGGTAAGC
* *
25523350 CTTTGTGGCAGGTTATCTGTAAATT
1 CTTTGTGGCAAGTTACCTGTAAATT
*
25523375 CTTTGTGGTAAGTTACCTGTAAA
1 CTTTGTGGCAAGTTACCTGTAAA
25523398 GACTATGTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (25 bp):
CTTTGTGGCAAGTTACCTGTAAATT
Found at i:25529520 original size:20 final size:20
Alignment explanation
Indices: 25529495--25529546 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
25529485 TTCGCTTCTC
25529495 CCACGCCCGTGTATGAAGGG
1 CCACGCCCGTGTATGAAGGG
25529515 CCACGCCCGTGTATGAAGGG
1 CCACGCCCGTGTATGAAGGG
*
25529535 CCACGCCTGTGT
1 CCACGCCCGTGT
25529547 TGTTTCGACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.17
Consensus pattern (20 bp):
CCACGCCCGTGTATGAAGGG
Found at i:25531563 original size:36 final size:36
Alignment explanation
Indices: 25531516--25531586 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
25531506 GGTTGAAGGG
25531516 TTAATACTCTGTGCATGCTCCTCCTCCATTCGAATT
1 TTAATACTCTGTGCATGCTCCTCCTCCATTCGAATT
25531552 TTAATACTCTGTGCATGCTCCTCCTCCATTCGAAT
1 TTAATACTCTGTGCATGCTCCTCCTCCATTCGAAT
25531587 CGCACCTCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.20, C:0.31, G:0.11, T:0.38
Consensus pattern (36 bp):
TTAATACTCTGTGCATGCTCCTCCTCCATTCGAATT
Found at i:25535799 original size:39 final size:40
Alignment explanation
Indices: 25535702--25535885 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
25535692 TCGAATGATG
*
25535702 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
25535740 ATCCGGACTAAGAT-CAGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25535781 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
25535820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
25535859 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25535886 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
39 52 0.42
40 59 0.48
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25535907 original size:79 final size:79
Alignment explanation
Indices: 25535756--25535918 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 79
25535746 ACTAAGATCA
* **
25535756 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
*
25535821 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
*
25535835 GAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 GAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
25535897 ATATCC-GGTTAAATTCC
62 AAATCCGGGTTAAATCCC
25535914 GAAGG
1 GAAGG
25535919 TACGTGATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:25538673 original size:30 final size:30
Alignment explanation
Indices: 25538639--25538707 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
25538629 ATGGGGCGGA
25538639 CCGTGTGTCACACACGGCCTAGACACTTGC
1 CCGTGTGTCACACACGGCCTAGACACTTGC
*
25538669 CCGTGTGTCACACACGGCCTAGTCACTTGC
1 CCGTGTGTCACACACGGCCTAGACACTTGC
25538699 CCGTGTGTC
1 CCGTGTGTC
25538708 TAACCGTGTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.16, C:0.36, G:0.25, T:0.23
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCTAGACACTTGC
Found at i:25543519 original size:3 final size:3
Alignment explanation
Indices: 25543511--25543549 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
25543501 AGTTCGTGTG
25543511 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25543550 CAATGTCATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25544047 original size:48 final size:48
Alignment explanation
Indices: 25543976--25544102 Score: 175
Period size: 48 Copynumber: 2.6 Consensus size: 48
25543966 ATGAGATCCC
* * *
25543976 GTGTAAGACCATGTCTGGGACATGGCGTCGGTGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGAACATGGCATCGGTGATGATATGTGTGCCA
* * **
25544024 GTGTAAGATCATGTCTGGAACATGGCATCAGTGATGATATGTGTGTTA
1 GTGTAAGACCATGTCTGGAACATGGCATCGGTGATGATATGTGTGCCA
25544072 GTGTAAGACCATGTCT-GAGACATGGCATCGG
1 GTGTAAGACCATGTCTGGA-ACATGGCATCGG
25544103 CATCGATTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 2 0.03
48 67 0.97
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGAACATGGCATCGGTGATGATATGTGTGCCA
Found at i:25549994 original size:4 final size:4
Alignment explanation
Indices: 25549975--25550017 Score: 68
Period size: 4 Copynumber: 10.2 Consensus size: 4
25549965 TTTTTGTCTA
25549975 AGTT AAGTT AAGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT A
1 AGTT -AGTT -AGTT AGTT AGTT AGTT AGTT AGTT AGTT AGTT A
25550018 AATTTACTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 29 0.76
5 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (4 bp):
AGTT
Found at i:25570493 original size:37 final size:38
Alignment explanation
Indices: 25570443--25570520 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
25570433 TACCTTGAAC
25570443 AAGGTGGTTATTATTGTTT-AAAAAAATAGAAAAGTTA
1 AAGGTGGTTATTATTGTTTAAAAAAAATAGAAAAGTTA
25570480 AAGGTGGTTATTATTGTTTAAAAAAAATAGAAAAGTTA
1 AAGGTGGTTATTATTGTTTAAAAAAAATAGAAAAGTTA
25570518 AAG
1 AAG
25570521 TTTTAAACTG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 19 0.47
38 21 0.52
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.33
Consensus pattern (38 bp):
AAGGTGGTTATTATTGTTTAAAAAAAATAGAAAAGTTA
Found at i:25570622 original size:20 final size:20
Alignment explanation
Indices: 25570599--25570636 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25570589 ATATTCATTT
25570599 ATTTATACATATTTTTATAA
1 ATTTATACATATTTTTATAA
**
25570619 ATTTATATGTATTTTTAT
1 ATTTATACATATTTTTAT
25570637 CAAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTATACATATTTTTATAA
Found at i:25575381 original size:7 final size:6
Alignment explanation
Indices: 25575341--25575401 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
25575331 TTAAAATAAT
* * * *
25575341 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAA TTTTAA GTTTTAA GTTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA -TTTTAA -TTTTAA
25575391 TTTTAA TTTTA
1 TTTTAA TTTTA
25575402 GGAATAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
6 40 0.75
7 13 0.25
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:25575388 original size:20 final size:19
Alignment explanation
Indices: 25575337--25575401 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
25575327 AAGTTTAAAA
* *
25575337 TAATTTTTA-TTTTTATTT
1 TAATTTTAAGTTTTAATTT
* * *
25575355 TTATTTTTATTTTTAATTT
1 TAATTTTAAGTTTTAATTT
25575374 TAAGTTTTAAGTTTTAATTT
1 TAA-TTTTAAGTTTTAATTT
25575394 TAATTTTA
1 TAATTTTA
25575402 GGAATAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
18 8 0.20
19 15 0.38
20 17 0.43
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (19 bp):
TAATTTTAAGTTTTAATTT
Found at i:25575576 original size:9 final size:9
Alignment explanation
Indices: 25575550--25575583 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
25575540 TATCTAACAC
25575550 TTTTTAATT
1 TTTTTAATT
* *
25575559 TTATAAATT
1 TTTTTAATT
25575568 TTTTTAATT
1 TTTTTAATT
25575577 TTTTTAA
1 TTTTTAA
25575584 ATATTGAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTAATT
Found at i:25579178 original size:34 final size:34
Alignment explanation
Indices: 25579130--25579201 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
25579120 GCATTTCTGT
*
25579130 TACTGTTACTATAATGCGCTAAGGCCC-ACACTGA
1 TACTATTACTATAATGCGCTAAGGCCCTA-ACTGA
* *
25579164 TACTATTACTATAATGGGCTATGGCCCTAACTGA
1 TACTATTACTATAATGCGCTAAGGCCCTAACTGA
25579198 TACT
1 TACT
25579202 GGACTATCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (34 bp):
TACTATTACTATAATGCGCTAAGGCCCTAACTGA
Found at i:25581107 original size:47 final size:45
Alignment explanation
Indices: 25580961--25581230 Score: 154
Period size: 47 Copynumber: 5.8 Consensus size: 45
25580951 ATACGTGCTA
* * **
25580961 ATGCATGTCCCAGAAAATGTCTTACACTAGCACGAAACT-TA-GCCG
1 ATGCATGTCCCAG-ACATGTCTTACACTGGCAC-TCACTCTACGCCG
* * * * * *
25581006 ATGCATGTCCTAGACACGTCTTACACTCGCTAACATCA-TCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGC--AC-TCACTCTACGCCG
25581053 ATGCATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTCA-CTCTACGCCG
* * * * * *
25581099 ATGCCATGTCTCATACATGGTCTTACACGGGCTA-TCA-TGATGCGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGC-ACTCACT-CTAC-GCCG
* * * * * * *
25581147 ATGCATGTCCTAGACATGTCTTACAATAGCCCTCGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCACTC-ACTCTACGCCG
* *
25581193 ATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCAC
1 ATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCAC
25581231 ATAACCCCAT
Statistics
Matches: 169, Mismatches: 40, Indels: 30
0.71 0.17 0.13
Matches are distributed among these distances:
44 17 0.10
45 15 0.09
46 32 0.19
47 69 0.41
48 35 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCACTCACTCTACGCCG
Found at i:25581107 original size:94 final size:93
Alignment explanation
Indices: 25580960--25581217 Score: 245
Period size: 94 Copynumber: 2.8 Consensus size: 93
25580950 TATACGTGCT
* **
25580960 AATGCATGTCCCAGAAAATGTCTTACACTAGCACGAAACT-TAGCCGATG-CATGTCCTAGACA-
1 AATGCATGTCCCAG-ACATGTCTTACACTAGCACTCAACTCTAGCCGATGCCATGTCCTAGACAT
*
25581022 CGTCTTACACTCGCTAACATCATCGAGGCC
65 CGTCTTACACGCGCTAACATCAT-GAGGCC
* * *
25581052 AATGCATGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCCGATGCCATGT-CTCATACA
1 AATGCATGTCCCAGACATGTCTTACACTAGCACTCAACTCTA-GCCGATGCCATGTCCT-AGACA
* * * * * *
25581116 TGGTCTTACACGGGCTATCATGATGCGGCT
64 TCGTCTTACACGCGCTAACATCATGAGGCC
* * * * ** * *
25581146 GATGCATGTCCTAGACATGTCTTACAATAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACAT
1 AATGCATGTCCCAGACATGTCTTACACTAGCACTCAACTCTA-GCCGATGCCATGTCCTAGACAT
*
25581211 GGTCTTA
65 CGTCTTA
25581218 TACTGGCTCT
Statistics
Matches: 136, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
91 20 0.15
92 16 0.12
93 9 0.07
94 72 0.53
95 19 0.14
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (93 bp):
AATGCATGTCCCAGACATGTCTTACACTAGCACTCAACTCTAGCCGATGCCATGTCCTAGACATC
GTCTTACACGCGCTAACATCATGAGGCC
Found at i:25585528 original size:13 final size:13
Alignment explanation
Indices: 25585509--25585547 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
25585499 CAATACAAAA
25585509 TGGTTATATGAAT
1 TGGTTATATGAAT
*
25585522 TGTTTATATGGAA-
1 TGGTTATAT-GAAT
25585535 TGGTTATATGAAT
1 TGGTTATATGAAT
25585548 CAATTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 3 0.14
13 16 0.73
14 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (13 bp):
TGGTTATATGAAT
Found at i:25588123 original size:15 final size:17
Alignment explanation
Indices: 25588103--25588135 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
25588093 CGAACCCTAG
25588103 CTTTCTT-TTTAT-TTT
1 CTTTCTTGTTTATGTTT
25588118 CTTTCTTGTTTATGTTT
1 CTTTCTTGTTTATGTTT
25588135 C
1 C
25588136 GGAAATAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (17 bp):
CTTTCTTGTTTATGTTT
Found at i:25594990 original size:35 final size:35
Alignment explanation
Indices: 25594944--25595014 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
25594934 GTTTATCAAC
*
25594944 ATTTCCTCAGATGGCATCTAGAGTTGGTGATGCAT
1 ATTTCCCCAGATGGCATCTAGAGTTGGTGATGCAT
25594979 ATTTCCCCAGATGGCATCTAGAGTTGGTGATGCAT
1 ATTTCCCCAGATGGCATCTAGAGTTGGTGATGCAT
25595014 A
1 A
25595015 GTCACTTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (35 bp):
ATTTCCCCAGATGGCATCTAGAGTTGGTGATGCAT
Found at i:25596492 original size:41 final size:41
Alignment explanation
Indices: 25596410--25596492 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
25596400 AGCGGCTTGA
* *
25596410 GAAGTTTGTTTGATACTCGTCCCTTGATCTTACATCTATTG
1 GAAGTTTGTTTGATACTCGTCCCTTGATCCTACATCCATTG
*
25596451 GAAGTTTGTTTGATACTCGTCCCTTGATCCTACGTCCATTG
1 GAAGTTTGTTTGATACTCGTCCCTTGATCCTACATCCATTG
25596492 G
1 G
25596493 GCCTGAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (41 bp):
GAAGTTTGTTTGATACTCGTCCCTTGATCCTACATCCATTG
Found at i:25599478 original size:207 final size:207
Alignment explanation
Indices: 25599123--25599537 Score: 830
Period size: 207 Copynumber: 2.0 Consensus size: 207
25599113 TCAATTTTTG
25599123 GTCAAAAAATATGAACAAATGAATATCATTTGTTTTGTTTTAATTTTATTAACTTAAATACCAAA
1 GTCAAAAAATATGAACAAATGAATATCATTTGTTTTGTTTTAATTTTATTAACTTAAATACCAAA
25599188 TTACCTATATCACCTTAACTATAAAACATGAAATCCATTTAATTCATGCCCATAATAGTCCACTC
66 TTACCTATATCACCTTAACTATAAAACATGAAATCCATTTAATTCATGCCCATAATAGTCCACTC
25599253 AAGTTAATAATGGTATAATAAAAATATAAGGACCTTTACTTTAATATCACATAGCATTTAAACAC
131 AAGTTAATAATGGTATAATAAAAATATAAGGACCTTTACTTTAATATCACATAGCATTTAAACAC
25599318 TTTAAACATGTA
196 TTTAAACATGTA
25599330 GTCAAAAAATATGAACAAATGAATATCATTTGTTTTGTTTTAATTTTATTAACTTAAATACCAAA
1 GTCAAAAAATATGAACAAATGAATATCATTTGTTTTGTTTTAATTTTATTAACTTAAATACCAAA
25599395 TTACCTATATCACCTTAACTATAAAACATGAAATCCATTTAATTCATGCCCATAATAGTCCACTC
66 TTACCTATATCACCTTAACTATAAAACATGAAATCCATTTAATTCATGCCCATAATAGTCCACTC
25599460 AAGTTAATAATGGTATAATAAAAATATAAGGACCTTTACTTTAATATCACATAGCATTTAAACAC
131 AAGTTAATAATGGTATAATAAAAATATAAGGACCTTTACTTTAATATCACATAGCATTTAAACAC
25599525 TTTAAACATGTA
196 TTTAAACATGTA
25599537 G
1 G
25599538 AATGCAACTT
Statistics
Matches: 208, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
207 208 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (207 bp):
GTCAAAAAATATGAACAAATGAATATCATTTGTTTTGTTTTAATTTTATTAACTTAAATACCAAA
TTACCTATATCACCTTAACTATAAAACATGAAATCCATTTAATTCATGCCCATAATAGTCCACTC
AAGTTAATAATGGTATAATAAAAATATAAGGACCTTTACTTTAATATCACATAGCATTTAAACAC
TTTAAACATGTA
Found at i:25601932 original size:28 final size:28
Alignment explanation
Indices: 25601899--25601954 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
25601889 CAATCAAATG
25601899 TGCAAAATGGCCAAGATGAAAAATGTTT
1 TGCAAAATGGCCAAGATGAAAAATGTTT
25601927 TGCAAAATGGCCAAGATGAAAAATGTTT
1 TGCAAAATGGCCAAGATGAAAAATGTTT
25601955 ACTTATTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (28 bp):
TGCAAAATGGCCAAGATGAAAAATGTTT
Found at i:25603492 original size:71 final size:63
Alignment explanation
Indices: 25603339--25603493 Score: 166
Period size: 71 Copynumber: 2.3 Consensus size: 63
25603329 TACATACTTC
* ** *
25603339 AATAATTCATGCAAATATAATATAGAAAATGATAAATAACGACATAAATTACATAATATACAT
1 AATATTTCATGCAAATATAATATAGAAAACAATAAATAACAACATAAATTACATAATATACAT
* * *
25603402 TATCATTTCATGCAGATATAATCATAGAAAACAATGAATATAACAATATAAATTACATAATATAT
1 AAT-ATTTCATGCAAATATAAT-ATAGAAAACAAT-AA-ATAACAACATAAATTAC---ATA-AT
25603467 ATACAAT
58 ATAC-AT
25603474 AATATTTCATGCAAATATAA
1 AATATTTCATGCAAATATAA
25603494 CTTAAAATAA
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
63 2 0.03
64 16 0.22
65 10 0.14
66 2 0.03
67 15 0.20
70 3 0.04
71 22 0.30
72 4 0.05
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (63 bp):
AATATTTCATGCAAATATAATATAGAAAACAATAAATAACAACATAAATTACATAATATACAT
Found at i:25603809 original size:20 final size:19
Alignment explanation
Indices: 25603769--25603819 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
25603759 GAAACGATTA
*
25603769 ATATATAT-AAAACATACT
1 ATATATATAAAAACATAAT
*
25603787 ATATGATATAAAAACTTAAT
1 ATAT-ATATAAAAACATAAT
*
25603807 ATATTTATAAAAA
1 ATATATATAAAAA
25603820 TAATAATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 12 0.43
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (19 bp):
ATATATATAAAAACATAAT
Done.