Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 122 of 373
Found at i:39920792 original size:79 final size:78
Alignment explanation
Indices: 39920639--39920793 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 78
39920629 GGACTAAGAT
**
39920639 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
39920704 ATCCGGGTTAAGTC
65 ATCCGGGTTAAGTC
* *
39920718 CCGAAGGCATTTGTGCGAGTTACTGTAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTAC--TAATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
39920781 TATATCC-GGTTAA
62 TAAATCCGGGTTAA
39920794 ATTCCAAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
79 40 0.60
80 24 0.36
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAGTC
Found at i:39928792 original size:40 final size:40
Alignment explanation
Indices: 39928601--39928785 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
39928591 TCGAATGATG
* * * * *
39928601 TCCGTGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
39928641 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39928681 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39928720 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTGTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAA
*
39928761 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39928786 AACGAGTAGA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39928807 original size:79 final size:78
Alignment explanation
Indices: 39928654--39928808 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 78
39928644 GGACTAAGAT
** *
39928654 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAA-TCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAA
39928719 ATCCGGGTTAAGTC
65 ATCCGGGTTAAGTC
* * *
39928733 CCGAAGGCATTTGTGCGAGTTATTGTAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGA
1 CCGAAGGCATTTGTGCGAGTTA--CTAATCCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-A
*
39928796 TATATCC-GGTTAA
62 TAAATCCGGGTTAA
39928809 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
79 39 0.60
80 23 0.35
81 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAATCCGGGCTAAGCCCGAAGGCATTGGAACGAGTTAATAAA
TCCGGGTTAAGTC
Found at i:39930527 original size:20 final size:20
Alignment explanation
Indices: 39930502--39930552 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
39930492 TTAAGGCTCC
39930502 ACACGCCCGTGTGGCTTGCG
1 ACACGCCCGTGTGGCTTGCG
*
39930522 ACACGCCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGCG
*
39930542 ACACGCTCGTG
1 ACACGCCCGTG
39930553 CCCTTAGCCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.12, C:0.33, G:0.35, T:0.20
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGCG
Found at i:39933760 original size:40 final size:40
Alignment explanation
Indices: 39933655--39933990 Score: 484
Period size: 40 Copynumber: 8.5 Consensus size: 40
39933645 CGGATGATAA
* *
39933655 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
39933695 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39933734 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39933774 CCGAGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39933814 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * *
39933854 CCGGGCTAAGTCTTGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39933894 CCGGGCTAAGTCCCGAAGGCATTTTTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39933934 CCGGGCT-AGTCCCGAAGACATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39933973 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39933991 TCTTGGTTTG
Statistics
Matches: 269, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.02
39 71 0.26
40 193 0.72
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39943539 original size:43 final size:43
Alignment explanation
Indices: 39943491--39943601 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
39943481 TCCTAGATAT
* * * *
39943491 GGTCTTACATGTTATCACATATCGATGCCACTGTTCCACATAG
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCCCACACAG
* * * * *
39943534 GGTCTTACACGAAATCACA-ATACAATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCACACAG
39943577 GGTCTTACATGTAATCACATATCGA
1 GGTCTTACATGTAATCACATATCGA
39943602 GTCAATGCCA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.04
43 50 0.93
44 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCCCACACAG
Found at i:39943675 original size:50 final size:50
Alignment explanation
Indices: 39943606--39943739 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
39943596 TATCGAGTCA
* *
39943606 ATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCTTATAT-CGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCG-GGCCG
* * * * *
39943656 ATGCCATATCCCAGACATGGTCTTACACTGGCTCTCCTCTTTCCGTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGGGCCG
*
39943706 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
39943740 ACATGTGTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.28
Consensus pattern (50 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCCTATATCCGGGCCG
Found at i:39944686 original size:20 final size:20
Alignment explanation
Indices: 39944661--39944710 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
39944651 ATAGGGTCAG
39944661 ACGCTCGTGTGGCTCGAGAC
1 ACGCTCGTGTGGCTCGAGAC
*
39944681 ACGCTCGTGTGGCTCGGGAC
1 ACGCTCGTGTGGCTCGAGAC
*
39944701 ACGCCCGTGT
1 ACGCTCGTGT
39944711 CCTTAGCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.32, G:0.36, T:0.20
Consensus pattern (20 bp):
ACGCTCGTGTGGCTCGAGAC
Found at i:39946326 original size:28 final size:29
Alignment explanation
Indices: 39946267--39946370 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 29
39946257 CTTTGATGTC
* * ** *
39946267 TCGCACACTATGTACCATACTCGATAC-C
1 TCGCACACTAAGTGCCATTTTCGATACTT
* * *
39946295 TCGCACACTAAGTGCTATTTTGGAT-GTT
1 TCGCACACTAAGTGCCATTTTCGATACTT
* *
39946323 TCGCACACTAATTGCCATTCTCGATACTT
1 TCGCACACTAAGTGCCATTTTCGATACTT
39946352 TC-CACACTAAGTGCCATTT
1 TCGCACACTAAGTGCCATTT
39946371 ATATATATAT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
28 55 0.93
29 4 0.07
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (29 bp):
TCGCACACTAAGTGCCATTTTCGATACTT
Found at i:39946327 original size:56 final size:56
Alignment explanation
Indices: 39946261--39946370 Score: 143
Period size: 56 Copynumber: 2.0 Consensus size: 56
39946251 TTGCATCTTT
*
39946261 GATGTCTCGCACACT-ATGTACCATACTCGATAC-CTCGCACACTAAGTGCTATTTTG
1 GATGTCTCGCACACTAAT-TACCATACTCGATACTCTC-CACACTAAGTGCCATTTTG
* * * *
39946317 GATGTTTCGCACACTAATTGCCATTCTCGATACTTTCCACACTAAGTGCCATTT
1 GATGTCTCGCACACTAATTACCATACTCGATACTCTCCACACTAAGTGCCATTT
39946371 ATATATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 43 0.91
57 4 0.09
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.33
Consensus pattern (56 bp):
GATGTCTCGCACACTAATTACCATACTCGATACTCTCCACACTAAGTGCCATTTTG
Found at i:39946446 original size:40 final size:39
Alignment explanation
Indices: 39946380--39946463 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 39
39946370 TATATATATA
*
39946380 TAGCCAAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCAAAGCTATCTCAAACTGCACACCAAGTGCCA-TTT
* * * *
39946420 TAGCCAAAGCTATTTCGAACCT-CACACTAAGTGCTATTT
1 TAGCCAAAGCTATCTC-AAACTGCACACCAAGTGCCATTT
39946459 TAGCC
1 TAGCC
39946464 GATAAGTCGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
39 8 0.21
40 27 0.71
41 3 0.08
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (39 bp):
TAGCCAAAGCTATCTCAAACTGCACACCAAGTGCCATTT
Found at i:39949184 original size:46 final size:45
Alignment explanation
Indices: 39949128--39949380 Score: 203
Period size: 46 Copynumber: 5.5 Consensus size: 45
39949118 GTCAATACCG
* * *
39949128 TGTCCTAGACAGGTCTTACACTGA-TACATGTAACTATGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGACTACATCT--CTATGCCGATGCA
* **
39949174 TGTCCCAGACATATCTTACACT-AGC-ACATCTC-ATAGCCGACACA
1 TGTCCCAGACATGTCTTACACTGA-CTACATCTCTAT-GCCGATGCA
* * * *
39949218 TGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGACT-ACATCTCTATGCCGATGCA
*
39949264 TGTCCCAGACATGTCTTACACTAGCACT-CATCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACT-G-ACTACATCTCTATGCCGATG-CA
* * * * *
39949311 TGTCGCAGACATGGTCTTACACTGGCTCTCAT-TATGTGGCCGATGCA
1 TGTCCCAGACAT-GTCTTACACTGACT-ACATCTCTAT-GCCGATGCA
* *
39949358 TGTCCCAAACATGTCTAACACTG
1 TGTCCCAGACATGTCTTACACTG
39949381 GCGCACGTAT
Statistics
Matches: 169, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
43 2 0.01
44 29 0.17
45 1 0.01
46 85 0.50
47 30 0.18
48 22 0.13
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGACTACATCTCTATGCCGATGCA
Found at i:39949240 original size:90 final size:90
Alignment explanation
Indices: 39949128--39949334 Score: 233
Period size: 90 Copynumber: 2.3 Consensus size: 90
39949118 GTCAATACCG
* * * * *
39949128 TGTCCTAGACAGGTCTTACACTGAT-ACATGTAACTATGCCGATGCATGTCCCAGACATATCTTA
1 TGTCCCAGACATGTCTTACACTGATAACATCT--CGAGGCCGATGCATGTCCCAGACATATCTTA
39949192 CACTAGCA-CATCTC-ATAGCCGA-CACA
64 CACTAGCACCATCTCAAT-GCCGAGC-CA
* * *
39949218 TGTCCCAGACATGTCTGACACTGGCTAACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTAC
1 TGTCCCAGACATGTCTTACACT-GATAACATCTCGAGGCCGATGCATGTCCCAGACATATCTTAC
39949283 ACTAGCACTCATCTCAATGCCGATGCCA
65 ACTAGCAC-CATCTCAATGCCGA-GCCA
*
39949311 TGTCGCAGACATGGTCTTACACTG
1 TGTCCCAGACAT-GTCTTACACTG
39949335 GCTCTCATTA
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
90 55 0.56
91 2 0.02
92 16 0.16
93 16 0.16
94 10 0.10
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (90 bp):
TGTCCCAGACATGTCTTACACTGATAACATCTCGAGGCCGATGCATGTCCCAGACATATCTTACA
CTAGCACCATCTCAATGCCGAGCCA
Found at i:39949360 original size:47 final size:47
Alignment explanation
Indices: 39949165--39949382 Score: 218
Period size: 46 Copynumber: 4.7 Consensus size: 47
39949155 ATGTAACTAT
* * *
39949165 GCCGATGCATGTCCCAGACATATCTTACACTAGCA--CATCTC-ATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATG
** * * *
39949209 GCCGACACATGTCCCAGACATGTCTGACACTGGCTA-ACATCTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCTCAATG
*
39949255 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATG
* * *
39949301 GCCGATGCCATGTCGCAGACATGGTCTTACACTGGCTCTCAT-T-ATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCA-ATG
* *
39949349 GCCGATGCATGTCCCAAACATGTCTAACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
39949383 GCACGTATCT
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
44 29 0.20
45 2 0.01
46 63 0.43
47 28 0.19
48 24 0.16
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCAATG
Found at i:39949370 original size:94 final size:90
Alignment explanation
Indices: 39949165--39949379 Score: 265
Period size: 94 Copynumber: 2.3 Consensus size: 90
39949155 ATGTAACTAT
*
39949165 GCCGATGCATGTCCCAGACATATCTTACACTAGCACATCTCATAGCCGACACATGTCCCAGACAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGACACATGTCCCAGACAT
39949230 GTCTGACACTGGCTAACATCTCGAG
66 GTCTGACACTGGCTAACATCTCGAG
*
39949255 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCA-ATGCCGATGC-CATGTCGCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCA--CATCTCATA-GCCGA--CACATGTCCCA
* ** * *
39949318 GACATGGTCTTACACTGGCTCTCAT-TATGTG
61 GACAT-GTCTGACACTGGCTAACATCT-CGAG
* *
39949349 GCCGATGCATGTCCCAAACATGTCTAACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
39949380 GGCGCACGTA
Statistics
Matches: 109, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
90 34 0.31
91 1 0.01
92 12 0.11
93 14 0.13
94 48 0.44
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (90 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGACACATGTCCCAGACAT
GTCTGACACTGGCTAACATCTCGAG
Found at i:39953952 original size:46 final size:46
Alignment explanation
Indices: 39953902--39954077 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
39953892 TGATTGAGCA
39953902 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39953948 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39953993 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
39954041 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39954078 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39954058 original size:93 final size:93
Alignment explanation
Indices: 39953899--39954070 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
39953889 GGATGATTGA
*
39953899 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
39953964 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39953992 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
39954056 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
39954071 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39960971 original size:46 final size:46
Alignment explanation
Indices: 39960921--39961096 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
39960911 TGATTGAGCA
39960921 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39960967 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
39961012 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
39961060 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39961097 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39961077 original size:93 final size:93
Alignment explanation
Indices: 39960918--39961089 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
39960908 GGATGATTGA
*
39960918 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
39960983 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
39961011 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
39961075 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
39961090 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39965471 original size:40 final size:40
Alignment explanation
Indices: 39965411--39965486 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
39965401 CTATTTTGTA
* * *
39965411 TTCCACCATAATGCACTAAGATGGATTATCAAGTATAATG
1 TTCCAACATAATGCACTAAGATGAATAATCAAGTATAATG
* *
39965451 TTCCAACATAATGCATTAAGATTAATAATCAAGTAT
1 TTCCAACATAATGCACTAAGATGAATAATCAAGTAT
39965487 GAAGTTGAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (40 bp):
TTCCAACATAATGCACTAAGATGAATAATCAAGTATAATG
Found at i:39978650 original size:11 final size:11
Alignment explanation
Indices: 39978634--39978659 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
39978624 ATTTAGAATA
39978634 ATTAAATTATT
1 ATTAAATTATT
39978645 ATTAAATTATT
1 ATTAAATTATT
39978656 ATTA
1 ATTA
39978660 CATATAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATTAAATTATT
Found at i:39981767 original size:29 final size:28
Alignment explanation
Indices: 39981703--39981867 Score: 169
Period size: 29 Copynumber: 5.9 Consensus size: 28
39981693 TATATATATA
*
39981703 ATATATATACATGCATGGG-TTTGTTAT
1 ATATATATATATGCATGGGTTTTGTTAT
*
39981730 ATATAATATATATGTATGGGTTTTGTTAT
1 ATAT-ATATATATGCATGGGTTTTGTTAT
*
39981759 ATATCATATATATGCATGGATTTTGTTAT
1 ATAT-ATATATATGCATGGGTTTTGTTAT
* *
39981788 ATATA-ATATATG-AGTGAGTTTTGTCAT
1 ATATATATATATGCA-TGGGTTTTGTTAT
* * *
39981815 ATAATATATACAT--ATGGGTCTTGTTTT
1 AT-ATATATATATGCATGGGTTTTGTTAT
*
39981842 ATATAATATATATGGATGGGTTTTGT
1 ATAT-ATATATATGCATGGGTTTTGT
39981868 AATGTTTGCG
Statistics
Matches: 115, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.03
27 41 0.36
28 18 0.16
29 53 0.46
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (28 bp):
ATATATATATATGCATGGGTTTTGTTAT
Found at i:39981853 original size:56 final size:55
Alignment explanation
Indices: 39981703--39981867 Score: 176
Period size: 56 Copynumber: 2.9 Consensus size: 55
39981693 TATATATATA
* *
39981703 ATATATATACATGCATGGGTTTGTTATATATAATATATATGTATGGGTTTTGTTAT
1 ATATATATACAT-CATGGGTTTGTTATATATAATATATATGTATGAGTTTTGTCAT
* *
39981759 ATATCATATATATGCATGGATTTTGTTATATAT-A-ATATATG-AGTGAGTTTTGTCAT
1 ATAT-ATATACAT-CATGG-GTTTGTTATATATAATATATATGTA-TGAGTTTTGTCAT
* * *
39981815 ATAATATATACAT-ATGGGTCTTGTTTTATATAATATATATGGATGGGTTTTGT
1 AT-ATATATACATCATGGGT-TTGTTATATATAATATATATGTATGAGTTTTGT
39981868 AATGTTTGCG
Statistics
Matches: 93, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
53 1 0.01
54 14 0.15
55 2 0.02
56 47 0.51
57 17 0.18
58 12 0.13
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (55 bp):
ATATATATACATCATGGGTTTGTTATATATAATATATATGTATGAGTTTTGTCAT
Found at i:39982829 original size:17 final size:17
Alignment explanation
Indices: 39982807--39982916 Score: 103
Period size: 17 Copynumber: 6.5 Consensus size: 17
39982797 TTATGATGGA
39982807 GTATGAACTGTTATTTT
1 GTATGAACTGTTATTTT
* * **
39982824 GCATGAATTGTTATTCA
1 GTATGAACTGTTATTTT
* * *
39982841 ATATGAACTGATATTTC
1 GTATGAACTGTTATTTT
* *
39982858 ATATGAACTATTATTTT
1 GTATGAACTGTTATTTT
* * *
39982875 GTATGAGCTGTCATTTA
1 GTATGAACTGTTATTTT
39982892 GTATGAACTGTTATTTT
1 GTATGAACTGTTATTTT
*
39982909 ATATGAAC
1 GTATGAAC
39982917 AAATGTTTGA
Statistics
Matches: 71, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 71 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (17 bp):
GTATGAACTGTTATTTT
Found at i:39982863 original size:51 final size:51
Alignment explanation
Indices: 39982808--39982916 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
39982798 TATGATGGAG
* * *
39982808 TATGAACTGTTATTTTGCATGAATTGTTATTCAATATGAACTGATATTTCA
1 TATGAACTATTATTTTGCATGAACTGTCATTCAATATGAACTGATATTTCA
* * * * * *
39982859 TATGAACTATTATTTTGTATGAGCTGTCATTTAGTATGAACTGTTATTTTA
1 TATGAACTATTATTTTGCATGAACTGTCATTCAATATGAACTGATATTTCA
39982910 TATGAAC
1 TATGAAC
39982917 AAATGTTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.46
Consensus pattern (51 bp):
TATGAACTATTATTTTGCATGAACTGTCATTCAATATGAACTGATATTTCA
Found at i:39982974 original size:18 final size:17
Alignment explanation
Indices: 39982940--39982999 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
39982930 AAATTTATAA
*
39982940 TTTATGTGATCTTCTTAT
1 TTTATGTGAT-TACTTAT
39982958 TTTATGTGAATTACTTAT
1 TTTATGTG-ATTACTTAT
* * *
39982976 TATATGTGCACTACTAAT
1 TTTATGTG-ATTACTTAT
39982994 TTTATG
1 TTTATG
39983000 AGAACTGTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 33 0.94
19 2 0.06
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTATGTGATTACTTAT
Found at i:39983376 original size:22 final size:21
Alignment explanation
Indices: 39983348--39983401 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
39983338 GTGCAGGCTC
*
39983348 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGT-GACCAAGGG
* **
39983370 ACACGCCCTTGTGACCCCGGG
1 ACACGCCCGTGTGACCAAGGG
39983391 ACACGCCCGTG
1 ACACGCCCGTG
39983402 CTACAGGCCG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.17, C:0.39, G:0.31, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGACCAAGGG
Found at i:39985228 original size:46 final size:48
Alignment explanation
Indices: 39985087--39985307 Score: 192
Period size: 46 Copynumber: 4.7 Consensus size: 48
39985077 TCAGGTGCCA
** * * * *
39985087 ATGCCATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTG-TGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT-TA-CCTCTC-GAAGCCG
* *
39985137 ATGCCATGTCCCAGACATGGTCTTACACTGAC--ACCTCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACCTCTCGAAGCCG
* *
39985183 ATG-CATGTCCCAGACAT-GCCTTACACTGGCTTACGTCTCGAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACCTCTCGAAGCCG
* *
39985229 AAG-CATGTCCCAGACAT-GTCTTACACTAGC--ACTCTTCTC-AATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTTAC-C-TCTCGAA-GCCG
* *
39985275 ATGCCATGTCCTAAACATGGTCTTACACTGGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCT
39985308 CTCATAATGT
Statistics
Matches: 143, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
44 13 0.09
45 17 0.12
46 59 0.41
47 13 0.09
48 12 0.08
50 29 0.20
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTTACCTCTCGAAGCCG
Found at i:39988357 original size:11 final size:11
Alignment explanation
Indices: 39988341--39988368 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
39988331 GAAGCCGAAG
39988341 CATGTCCCAGA
1 CATGTCCCAGA
39988352 CATGTCCCAGA
1 CATGTCCCAGA
39988363 CATGTC
1 CATGTC
39988369 TTACGCTAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (11 bp):
CATGTCCCAGA
Found at i:39988395 original size:57 final size:58
Alignment explanation
Indices: 39988295--39988413 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 58
39988285 GTAGTCGATG
* *
39988295 CATGTCCCAGACATGCCTTACACTAGCTTACGTCTCGAAGCCGAAG-CATGTCCCAGA
1 CATGTCCCAGACATGCCTTACACTAGCCTACGTCTCGAAGCCGAAGCCATGTCCCAAA
* * * *
39988352 CATGTCCCAGACATGTCTTACGCTAGCACT-CTTCTC-AATGCCGATGCCATGTCCCAAA
1 CATGTCCCAGACATGCCTTACACTAGC-CTACGTCTCGAA-GCCGAAGCCATGTCCCAAA
39988410 CATG
1 CATG
39988414 GTCTTACACT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
56 2 0.04
57 36 0.68
58 15 0.28
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.24
Consensus pattern (58 bp):
CATGTCCCAGACATGCCTTACACTAGCCTACGTCTCGAAGCCGAAGCCATGTCCCAAA
Found at i:39996662 original size:48 final size:45
Alignment explanation
Indices: 39996591--39996859 Score: 198
Period size: 48 Copynumber: 5.8 Consensus size: 45
39996581 CACATCTCTC
* * *
39996591 TGCCGATGCCATATCCCAAACATGGTCTTACACTGACACATCTATACG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTATA-G
*
39996639 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATA-
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCT-ATAG
* * * *
39996686 -GCTGACGCATGTCTCAGACATGTCTTACACTGGCTTACATC-ACAAG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTA-TAG
* * * *
39996732 -GCCGATGCA--TCCTAGACATGTCTTACACTAGCTC-TCGTCTTAG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACATC-T-ATAG
*
39996775 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TC-ATAATG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTAT-A-G
*
39996822 TGGCTGATGCATGT-CCAGACATGTCTTACACTGGCACA
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCACA
39996860 CAAATAACCC
Statistics
Matches: 184, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.01
42 1 0.01
43 2 0.01
44 40 0.22
45 31 0.17
46 26 0.14
47 16 0.09
48 63 0.34
49 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCACATCTATAG
Found at i:40003183 original size:48 final size:48
Alignment explanation
Indices: 40003015--40003240 Score: 189
Period size: 48 Copynumber: 4.7 Consensus size: 48
40003005 TAGGGTGTAA
* * * *
40003015 TGCCGATGCCATGTCCCAGACATGGTCTTACAGTGAC-TATCGAAATCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATA-CG
* * * * *
40003063 AGGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTCTA--
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCTATACG
* * * *
40003114 TGCCGATGTCATATCCTAGACATAGTCTTACACTGACACATCTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
40003162 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
* * *
40003207 TAGCGGACG-CATGTCCCAGACAT-GTCTTATACTG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTG
40003241 GCTTACATTA
Statistics
Matches: 144, Mismatches: 25, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.07
45 17 0.12
46 15 0.10
48 38 0.26
49 31 0.22
50 28 0.19
53 1 0.01
54 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
Found at i:40011756 original size:34 final size:34
Alignment explanation
Indices: 40011713--40011780 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
40011703 CAAATGAATA
40011713 CCACCTATTAATCCACTACTGGAACAAGAAAGAT
1 CCACCTATTAATCCACTACTGGAACAAGAAAGAT
40011747 CCACCTATTAATCCACTACTGGAACAAGAAAGAT
1 CCACCTATTAATCCACTACTGGAACAAGAAAGAT
40011781 TACATTCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (34 bp):
CCACCTATTAATCCACTACTGGAACAAGAAAGAT
Found at i:40018081 original size:17 final size:17
Alignment explanation
Indices: 40018047--40018094 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
40018037 ATTTGATTAC
*
40018047 AATCAAATCATAATAATT
1 AATCAAAT-ATTATAATT
40018065 AATCAAATATTATAATT
1 AATCAAATATTATAATT
*
40018082 -ATCATA-ATTATAA
1 AATCAAATATTATAA
40018095 AAATGTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.25
16 5 0.18
17 8 0.29
18 8 0.29
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (17 bp):
AATCAAATATTATAATT
Found at i:40019332 original size:24 final size:24
Alignment explanation
Indices: 40019300--40019354 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
40019290 ACATAAATAT
*
40019300 AGGAAGGGAAGGAAGCAACTTGAA
1 AGGATGGGAAGGAAGCAACTTGAA
40019324 AGGATGGGAAGGAAGCAACTTGAA
1 AGGATGGGAAGGAAGCAACTTGAA
40019348 AGGATGG
1 AGGATGG
40019355 CAAGTCAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.40, T:0.11
Consensus pattern (24 bp):
AGGATGGGAAGGAAGCAACTTGAA
Found at i:40020925 original size:18 final size:19
Alignment explanation
Indices: 40020888--40020925 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
40020878 TTTTTAGACT
40020888 TTTAACCCAACACTTAATAC
1 TTTAACCCAACAC-TAATAC
*
40020908 TTTAATCCAACA-TAATAC
1 TTTAACCCAACACTAATAC
40020926 ATGTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (19 bp):
TTTAACCCAACACTAATAC
Found at i:40020995 original size:17 final size:18
Alignment explanation
Indices: 40020973--40021008 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
40020963 AATTATTTTT
*
40020973 AATTAATTAATTTT-TCA
1 AATTAAATAATTTTCTCA
40020990 AATTAAATAATTTTCTCA
1 AATTAAATAATTTTCTCA
40021008 A
1 A
40021009 CCTAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTAAATAATTTTCTCA
Found at i:40029046 original size:47 final size:47
Alignment explanation
Indices: 40028992--40029121 Score: 152
Period size: 47 Copynumber: 2.8 Consensus size: 47
40028982 GTGCAAATGA
* *
40028992 TACCTTGATTTGGCTATGGGCTATGGTATAGGTATTCAAAGAGGAGT
1 TACCTTGATTTGGCTATGGGCTATGGTATAGGTACTCAAAGAGAAGT
* * * * *** *
40029039 TACCTTGATTTTGCTATGGGCCATAGTATAGGCACTCTGGGATAAGT
1 TACCTTGATTTGGCTATGGGCTATGGTATAGGTACTCAAAGAGAAGT
**
40029086 TACCTTGATTTGGCTACAGGCTATGGTATAGGTACT
1 TACCTTGATTTGGCTATGGGCTATGGTATAGGTACT
40029122 TATCGATAGA
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCTATGGTATAGGTACTCAAAGAGAAGT
Found at i:40030545 original size:42 final size:42
Alignment explanation
Indices: 40030494--40030575 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
40030484 CGATATCTCG
* *
40030494 TATCAATGCCATGTCTCAGACATGGTCTTACACAAAATCAAA
1 TATCAATGCCATATCCCAGACATGGTCTTACACAAAATCAAA
* *
40030536 TATCGATGCCATATCCCAGATATGGTCTTACACAAAATCA
1 TATCAATGCCATATCCCAGACATGGTCTTACACAAAATCA
40030576 CACATAACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (42 bp):
TATCAATGCCATATCCCAGACATGGTCTTACACAAAATCAAA
Found at i:40033979 original size:26 final size:26
Alignment explanation
Indices: 40033949--40034059 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
40033939 AGCATGGCTG
* *
40033949 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
40033975 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
40034003 CCAGAA-TGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
40034029 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
40034056 CCAG
1 CCAG
40034060 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
26 28 0.38
27 30 0.41
28 15 0.21
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:40034048 original size:27 final size:27
Alignment explanation
Indices: 40033949--40034059 Score: 106
Period size: 26 Copynumber: 4.1 Consensus size: 27
40033939 AGCATGGCTG
* * *
40033949 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
40033975 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
40034003 CCAGA--ATGAT-ATATGTGGCAGAGCCA
1 CCAGATCA-GATAAT-TGTGGCAGAGCCA
40034029 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGATCAGATAATTGTGGCAG-AGCCA
40034056 CCAG
1 CCAG
40034060 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
25 3 0.04
26 26 0.37
27 24 0.34
28 18 0.25
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:40040348 original size:93 final size:93
Alignment explanation
Indices: 40040233--40040404 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
40040223 CGCCCATAAG
* * *
40040233 CGAACTCGGACTCAAGTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
40040297 AACGAGCTCGGATGCCTAGTTACATTTCA
65 AACGAGCTCGGATGCCTAGTTACATTTCA
40040326 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
40040391 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
40040405 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:40040396 original size:46 final size:46
Alignment explanation
Indices: 40040226--40040401 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
40040216 TGTAACCCGC
* * *
40040226 CCATAAGCGAACTCGGACTCAAGTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * *
40040272 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
40040322 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
40040365 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
40040402 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 60 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:40041910 original size:19 final size:18
Alignment explanation
Indices: 40041878--40041928 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
40041868 AACATAATTC
* *
40041878 ATTC-ATTTCTCATACAT
1 ATTCAATTTCACATAAAT
40041895 GATTCAATTTCACATAAAT
1 -ATTCAATTTCACATAAAT
*
40041914 A-TCAATTTAACATAA
1 ATTCAATTTCACATAA
40041929 TCATATTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 13 0.45
18 5 0.17
19 11 0.38
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (18 bp):
ATTCAATTTCACATAAAT
Found at i:40043452 original size:43 final size:43
Alignment explanation
Indices: 40043405--40043509 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 43
40043395 GATGTCACTA
* * *
40043405 TCCCAGGCAGGGTTTTACACG-AAATCA-AATAACGATGCCAATG
1 TCCCAGACAGGGTCTTACA-GAAAATCACAAT-ACAATGCCAATG
*
40043448 TCCCAGACATGGTCTTACAGAAAATCACAATACAATGCCAATG
1 TCCCAGACAGGGTCTTACAGAAAATCACAATACAATGCCAATG
* *
40043491 TCCCAGACATGATCTTACA
1 TCCCAGACAGGGTCTTACA
40043510 TGTAATCACA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.02
43 51 0.93
44 3 0.05
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACAGAAAATCACAATACAATGCCAATG
Found at i:40051347 original size:17 final size:16
Alignment explanation
Indices: 40051296--40051354 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
40051286 TAATCACTTC
40051296 AATATTAAATT-AATT
1 AATATTAAATTAAATT
40051311 AATATATATAA--AAATT
1 AATAT-TA-AATTAAATT
*
40051327 AATATTAGATTAAATTT
1 AATATTAAATTAAA-TT
40051344 AATATTAAATT
1 AATATTAAATT
40051355 GTATTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 1 0.03
15 7 0.19
16 14 0.39
17 14 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
AATATTAAATTAAATT
Found at i:40051400 original size:27 final size:27
Alignment explanation
Indices: 40051370--40051424 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
40051360 AAAATAATAG
40051370 AATGTTTATCTACAAGATAAACATTAA
1 AATGTTTATCTACAAGATAAACATTAA
40051397 AATGTTTATCTACAAGATAAACATTAA
1 AATGTTTATCTACAAGATAAACATTAA
40051424 A
1 A
40051425 TTAAATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (27 bp):
AATGTTTATCTACAAGATAAACATTAA
Found at i:40054853 original size:49 final size:48
Alignment explanation
Indices: 40054780--40054985 Score: 186
Period size: 49 Copynumber: 4.2 Consensus size: 48
40054770 ATGTGTGTGT
40054780 CAGTGTAAGACCTGTCTAGGACATGGCATTGACACAGATAACTGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATTGACACAGATAA-TGAGAGC
* ** * * * *
40054829 CAGTGTAAGACCTATCTAAAACATGGTATCGGCCTCAAGAT-ATGCA-AGC
1 CAGTGTAAGACCTGTCTAGGACATGGCAT-TGACAC-AGATAATG-AGAGC
* * * * *
40054878 TAGTGCAAGACCTGTCTGGGACATGGCATTGACACAAATAAGTGAGAAC
1 CAGTGTAAGACCTGTCTAGGACATGGCATTGACACAGATAA-TGAGAGC
* * *
40054927 CAGTGTAAGACCTGTCTAGGACATGGCATCGACTA-AGAT-GTAAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATTGAC-ACAGATAATGAGAGC
*
40054974 TAGTGTAAGACC
1 CAGTGTAAGACC
40054986 ATGTTTGGAA
Statistics
Matches: 122, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
47 19 0.16
48 5 0.04
49 88 0.72
50 6 0.05
51 4 0.03
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.21
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATTGACACAGATAATGAGAGC
Found at i:40068377 original size:46 final size:46
Alignment explanation
Indices: 40068321--40068490 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 46
40068311 TGGTTGAGCA
*
40068321 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATG
* * *
40068367 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCAA--ATG
** *
40068412 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATG
* *
40068460 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
40068491 TTAGGGGCGG
Statistics
Matches: 104, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
45 2 0.02
46 56 0.54
47 28 0.27
48 2 0.02
50 6 0.06
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATG
Found at i:40068477 original size:93 final size:93
Alignment explanation
Indices: 40068318--40068488 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
40068308 GGATGGTTGA
* * *
40068318 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
40068383 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
** *
40068411 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
40068476 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
40068489 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:40068755 original size:19 final size:20
Alignment explanation
Indices: 40068718--40068755 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
40068708 ATAAGGTGGT
40068718 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
40068738 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
40068756 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:40080413 original size:42 final size:42
Alignment explanation
Indices: 40080354--40080475 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
40080344 TAGGGTTAGT
* *
40080354 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATCGAAA
1 TGAGATTACATGTAAGACCATATATGGGATATGGCATCGAAA
* * * *
40080396 TGAGATTTCATGTAAGACCATAGATGGGCTACTGGCATCGATA
1 TGAGATTACATGTAAGACCATATATGGGATA-TGGCATCGAAA
** * *
40080439 TGAGATCCCATGTAAGACCATATCTGGGATGTGGCAT
1 TGAGATTACATGTAAGACCATATATGGGATATGGCAT
40080476 TAGTATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.48
43 35 0.52
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (42 bp):
TGAGATTACATGTAAGACCATATATGGGATATGGCATCGAAA
Found at i:40080606 original size:20 final size:20
Alignment explanation
Indices: 40080560--40080606 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
40080550 CGTCAATGTT
40080560 TAAGTTGTGAAAGACTATAG
1 TAAGTTGTGAAAGACTATAG
* *
40080580 TATGTTGTGAAAGATTAT-G
1 TAAGTTGTGAAAGACTATAG
40080599 ATAAGTTG
1 -TAAGTTG
40080607 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATAG
Found at i:40093266 original size:40 final size:40
Alignment explanation
Indices: 40093134--40093304 Score: 224
Period size: 39 Copynumber: 4.3 Consensus size: 40
40093124 NNNNTAAGAT
* *
40093134 CCGAAGGCATTTGTGCGAGATACTAATTCCGAGCTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTC
* * *
40093173 CCGAAGGCATTTCTGCGAGATACTAATTCCGGGCTAA-AC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTC
* *
40093212 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTC
*
40093252 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGGCTAAGTC
40093292 CCGAAGGCATTTG
1 CCGAAGGCATTTG
40093305 AACGAGGAGC
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
39 69 0.58
40 47 0.40
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTC
Found at i:40093326 original size:79 final size:79
Alignment explanation
Indices: 40093134--40093337 Score: 186
Period size: 79 Copynumber: 2.6 Consensus size: 79
40093124 NNNNTAAGAT
** * * *
40093134 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGAGCTAAG-CCCGAAGGCATTTCTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTCTGCGAGATACT
*
40093197 AATTCCGGGCTAAAC
65 AATACCGGGCTAAAC
** * *
40093212 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTCTGCGAGA-TACT
**
40093276 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTA-AAC
* * *
40093292 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
40093338 TACGTGATTT
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
77 1 0.01
78 36 0.34
79 45 0.42
80 25 0.23
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTCTGCGAGATACTA
ATACCGGGCTAAAC
Found at i:40098966 original size:38 final size:38
Alignment explanation
Indices: 40098915--40099152 Score: 334
Period size: 38 Copynumber: 6.3 Consensus size: 38
40098905 ATATTTGATG
* *
40098915 TATATTCGGGTTAAATCCCGCAGGCTTCATGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
** *
40098953 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCCAGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
40098991 TATGTCCGGGTTAAATCCCAG-AGGCTTCGTCCTGGTAT
1 TATATCCGGGTTAAATCCC-GCAGGCTTCGTGCTGGTAT
** **
40099029 TATATCCGGGTTAAATCCTACAGGCTTTTTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
40099067 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
40099105 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
40099143 TATATTCGGG
1 TATATCCGGG
40099153 CCTTTGAGCC
Statistics
Matches: 175, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
38 174 0.99
39 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:40104773 original size:38 final size:38
Alignment explanation
Indices: 40104722--40104996 Score: 426
Period size: 38 Copynumber: 7.3 Consensus size: 38
40104712 ATATTTGATG
40104722 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
40104760 TATATCCGGGTTAAATCCTGTAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
40104798 TAT-TCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
40104835 TATATCCGAGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
40104873 TATATCCAGGTTAAATCCCGCAGGCTTCATGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
40104911 TATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
40104949 TATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
40104987 TATATTCGGG
1 TATATCCGGG
40104997 CCTTTGAGCC
Statistics
Matches: 213, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
37 32 0.15
38 181 0.85
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:40107492 original size:20 final size:20
Alignment explanation
Indices: 40107467--40107511 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40107457 AGGGACTAAA
* *
40107467 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
40107487 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
40107507 ATGAA
1 ATGAA
40107512 TACATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:40111299 original size:18 final size:19
Alignment explanation
Indices: 40111287--40111328 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
40111277 GTTTTTTATA
40111287 TTTTCAGAATTTTCAGAA-
1 TTTTCAGAATTTTCAGAAT
*
40111305 TTTTCAGAATTTTCTTGAAT
1 TTTTCAGAATTTTC-AGAAT
40111325 TTTT
1 TTTT
40111329 AGGTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 3 0.14
20 4 0.19
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (19 bp):
TTTTCAGAATTTTCAGAAT
Found at i:40111327 original size:10 final size:9
Alignment explanation
Indices: 40111286--40111318 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
40111276 AGTTTTTTAT
40111286 ATTTTCAGA
1 ATTTTCAGA
40111295 ATTTTCAGA
1 ATTTTCAGA
40111304 ATTTTCAGA
1 ATTTTCAGA
40111313 ATTTTC
1 ATTTTC
40111319 TTGAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (9 bp):
ATTTTCAGA
Found at i:40116408 original size:27 final size:27
Alignment explanation
Indices: 40116339--40116422 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
40116329 CTACCAGAAA
*
40116339 CAGTGAATGTGACAAAGCCACCAGTAT
1 CAGTGAATGTGACATAGCCACCAGTAT
*
40116366 CAGT-AATTGTGGCATAGCCACCAGTAT
1 CAGTGAA-TGTGACATAGCCACCAGTAT
* *
40116393 CAGTGAATGTGACATAGTCACTAGTA-
1 CAGTGAATGTGACATAGCCACCAGTAT
40116419 CAGT
1 CAGT
40116423 ACTTCCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 6 0.12
27 42 0.84
28 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
CAGTGAATGTGACATAGCCACCAGTAT
Found at i:40116592 original size:27 final size:27
Alignment explanation
Indices: 40116562--40116674 Score: 163
Period size: 27 Copynumber: 4.2 Consensus size: 27
40116552 GCATACTTGC
* *
40116562 CATTTTACCCTATAGGGGCATTATGGT
1 CATTTTACCCTACAGGGGCATTACGGT
* *
40116589 CATTTTATCCTACAGGGGCATTACGAT
1 CATTTTACCCTACAGGGGCATTACGGT
*
40116616 CATTTTACCCTACGGGGGCATTACGGT
1 CATTTTACCCTACAGGGGCATTACGGT
* *
40116643 CATTTTACCTTACGGGGGCATTACGGT
1 CATTTTACCCTACAGGGGCATTACGGT
40116670 CATTT
1 CATTT
40116675 CTATCCATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (27 bp):
CATTTTACCCTACAGGGGCATTACGGT
Found at i:40119372 original size:39 final size:39
Alignment explanation
Indices: 40119329--40119522 Score: 194
Period size: 39 Copynumber: 5.0 Consensus size: 39
40119319 TTAAATTATG
* * *
40119329 AATGTTATGTAATTATACGAGTATTGTAATATATGCATA
1 AATGTTATGTAATTATATGAGTATTGTGATATATGCTTA
** * ** *
40119368 AATGTTATGCGATTATATGAGTATTGTTATATATTTTTG
1 AATGTTATGTAATTATATGAGTATTGTGATATATGCTTA
*
40119407 AATGTTATG-ATATTATATGAGAATTGTGATATATGCTTA
1 AATGTTATGTA-ATTATATGAGTATTGTGATATATGCTTA
* * *
40119446 AATGTTATGTGATTAT-TGAGTATTGTGATATATTCTTG
1 AATGTTATGTAATTATATGAGTATTGTGATATATGCTTA
* * * * * *
40119484 TATGTTAGGTGATTATATGTGTAATATGATATATGCTTA
1 AATGTTATGTAATTATATGAGTATTGTGATATATGCTTA
40119523 GAAGTGAGTG
Statistics
Matches: 127, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
38 33 0.26
39 94 0.74
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (39 bp):
AATGTTATGTAATTATATGAGTATTGTGATATATGCTTA
Found at i:40119460 original size:78 final size:77
Alignment explanation
Indices: 40119327--40119522 Score: 243
Period size: 78 Copynumber: 2.5 Consensus size: 77
40119317 TCTTAAATTA
* * * *
40119327 TGAATGTTATGTAATTATACGAGTATTGTAATATATGCATAAATGTTATGCGATTATATGAGTAT
1 TGAATGTTATGTAATTATATGAGAATTGTGATATATGCTTAAATGTTATGCGATTAT-TGAGTAT
* *
40119392 TGTTATATATTTT
65 TGTGATATATTCT
*
40119405 TGAATGTTATG-ATATTATATGAGAATTGTGATATATGCTTAAATGTTATGTGATTATTGAGTAT
1 TGAATGTTATGTA-ATTATATGAGAATTGTGATATATGCTTAAATGTTATGCGATTATTGAGTAT
40119469 TGTGATATATTCT
65 TGTGATATATTCT
* * * * *
40119482 TGTATGTTAGGTGATTATATGTGTAA-TATGATATATGCTTA
1 TGAATGTTATGTAATTATATGAG-AATTGTGATATATGCTTA
40119523 GAAGTGAGTG
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
77 51 0.50
78 52 0.50
ACGTcount: A:0.32, C:0.03, G:0.19, T:0.46
Consensus pattern (77 bp):
TGAATGTTATGTAATTATATGAGAATTGTGATATATGCTTAAATGTTATGCGATTATTGAGTATT
GTGATATATTCT
Found at i:40124202 original size:47 final size:47
Alignment explanation
Indices: 40124144--40124518 Score: 561
Period size: 47 Copynumber: 8.0 Consensus size: 47
40124134 TTTAGGATTT
* * *
40124144 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGTCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
40124191 AATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
40124238 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
40124285 AATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
40124332 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
40124379 AATGTGATGAATGTGAGCATGCATATATGTGATAAAGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
40124426 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * *
40124473 AATGTGGTGAATATGAACATGCATATATGTGGTAAAGTCGAATGGC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
40124519 TAGTGTGAAA
Statistics
Matches: 296, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 296 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:40124294 original size:25 final size:25
Alignment explanation
Indices: 40124219--40124294 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
40124209 ATGTATATAT
40124219 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
40124244 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
40124266 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
40124291 GTGA
1 GTGA
40124295 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:40124366 original size:25 final size:25
Alignment explanation
Indices: 40124332--40124411 Score: 71
Period size: 25 Copynumber: 3.3 Consensus size: 25
40124322 CCGAATGGCC
40124332 TATGTGATGAATGTGAACATGCATA
1 TATGTGATGAATGTGAACATGCATA
* * *
40124357 TATGTGATG-AGGCCG-A-ATGGC-CA
1 TATGTGATGAATG-TGAACAT-GCATA
*
40124380 -ATGTGATGAATGTGAGCATGCATA
1 TATGTGATGAATGTGAACATGCATA
40124404 TATGTGAT
1 TATGTGAT
40124412 AAAGCCGAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 9 0.22
23 7 0.17
24 8 0.20
25 17 0.41
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (25 bp):
TATGTGATGAATGTGAACATGCATA
Found at i:40124526 original size:94 final size:94
Alignment explanation
Indices: 40124144--40124518 Score: 633
Period size: 94 Copynumber: 4.0 Consensus size: 94
40124134 TTTAGGATTT
*
40124144 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGTCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* *
40124209 ATGTATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAAGCCGAATGGCC
40124238 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
*
40124303 ATGCATATATGTGATAAGGCCGAATGGCC
66 ATGCATATATGTGATAAAGCCGAATGGCC
* * * * * * *
40124332 TATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
40124397 ATGCATATATGTGATAAAGCCGAATGGCC
66 ATGCATATATGTGATAAAGCCGAATGGCC
40124426 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
1 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
* *
40124491 ATGCATATATGTGGTAAAGTCGAATGGC
66 ATGCATATATGTGATAAAGCCGAATGGC
40124519 TAGTGTGAAA
Statistics
Matches: 262, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 262 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (94 bp):
AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAC
ATGCATATATGTGATAAAGCCGAATGGCC
Found at i:40124733 original size:37 final size:37
Alignment explanation
Indices: 40124683--40124832 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
40124673 AAATATATTT
* * *
40124683 CGGGTGAGACCCGATGACTACGTGTGGAGAGTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
40124720 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
40124757 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* * *
40124794 CGGGTAAGACCCGATAACTTCGTGTGGAGATTTCGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
40124831 CG
1 CG
40124833 AGCTAAAGGT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:40126416 original size:40 final size:40
Alignment explanation
Indices: 40126093--40126404 Score: 401
Period size: 40 Copynumber: 7.8 Consensus size: 40
40126083 GAGAATTGAG
* * *
40126093 AGTGATATGTCCGGGCTAAATCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40126133 AGTGATATATCTGGGCTAAATCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
40126173 GGTGATATATCTGGGCTAAATCCCGAAGAGCATCCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
40126213 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
40126253 AGTGATGTATCC-GGATGAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCT-AAGTCCCGAAGAGCATTCGTGCT
* * *
40126293 AGTGATGTATCCGGACTAAGTACCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
40126333 AGTGATATATCCGTGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
40126373 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
40126405 ATCATGCTGG
Statistics
Matches: 243, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
39 3 0.01
40 238 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:40130281 original size:47 final size:47
Alignment explanation
Indices: 40130207--40130577 Score: 562
Period size: 47 Copynumber: 7.9 Consensus size: 47
40130197 GGAATTAATA
* *
40130207 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* * *
40130254 TGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* *
40130301 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* * * *
40130348 TGGTGAATATGAACATGCATATATGTGATAAGGCTGAATGGCCTATG
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
*
40130395 TGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATG
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
*
40130442 TGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* * *
40130489 TGATGAATGTGAGCACGCATATGTGTGATAAGGCCGAATGGCCAATG
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
* * * *
40130536 TGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
40130578 TAGTGTGAAA
Statistics
Matches: 292, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 292 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
TGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
Found at i:40130353 original size:25 final size:25
Alignment explanation
Indices: 40130278--40130353 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
40130268 ATGTATATAT
40130278 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
40130303 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
40130325 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
40130350 GTGA
1 GTGA
40130354 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:40130585 original size:94 final size:94
Alignment explanation
Indices: 40130207--40130577 Score: 634
Period size: 94 Copynumber: 3.9 Consensus size: 94
40130197 GGAATTAATA
*
40130207 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGT
1 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
40130272 ATATATGTGATAAGGCCGAATGGCCAATG
66 ATATATGTGATAAGGCCGAATGGCCAATG
40130301 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
1 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
* *
40130366 ATATATGTGATAAGGCTGAATGGCCTATG
66 ATATATGTGATAAGGCCGAATGGCCAATG
* * * * * *
40130395 TGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGCATGC
1 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
40130460 ATATATGTGATAAGGCCGAATGGCCAATG
66 ATATATGTGATAAGGCCGAATGGCCAATG
*
40130489 TGATGAATGTGAGCACGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
1 TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
* *
40130554 ATATATGTGGTAAAGCCGAATGGC
66 ATATATGTGATAAGGCCGAATGGC
40130578 TAGTGTGAAA
Statistics
Matches: 257, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 257 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.26
Consensus pattern (94 bp):
TGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGC
ATATATGTGATAAGGCCGAATGGCCAATG
Found at i:40130792 original size:37 final size:37
Alignment explanation
Indices: 40130742--40130891 Score: 223
Period size: 37 Copynumber: 4.1 Consensus size: 37
40130732 AAATATATTT
* *
40130742 CGGGTGAGACCCGATGACTACGTGTGGAGAGTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGAGTTTGTC
40130779 CGGGTAAGACCCGATGACTACGTGTGGAG-GTTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGAG-TTTGTC
*
40130816 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGAGTTTGTC
* *
40130853 CGGGTAAGACCCGATAACTTCGTGTGGAGA-TTTCGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGAGTTT-GTC
40130890 CG
1 CG
40130892 AGCTAAAGGT
Statistics
Matches: 105, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
36 4 0.04
37 101 0.96
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGAGTTTGTC
Found at i:40133902 original size:23 final size:23
Alignment explanation
Indices: 40133866--40133941 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
40133856 TACCGATATA
* * *
40133866 TCAGCTCGTAAGAGTTTACTGTT
1 TCAGCTCATTAGAGCTTACTGTT
*
40133889 TCAGCTCATTAGAGCTTACCGTT
1 TCAGCTCATTAGAGCTTACTGTT
*
40133912 TTAGCTCA-TATGAGCTTACTGTT
1 TCAGCTCATTA-GAGCTTACTGTT
40133935 ATCAGCT
1 -TCAGCT
40133942 TAAGAGGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.05
23 37 0.84
24 5 0.11
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
TCAGCTCATTAGAGCTTACTGTT
Found at i:40141259 original size:23 final size:23
Alignment explanation
Indices: 40141229--40141300 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
40141219 CCAATATATC
40141229 AGCTCGTAAGAGCTTACTATTTT
1 AGCTCGTAAGAGCTTACTATTTT
* * *
40141252 AGCTCGTATGAGCTTACTGTTTC
1 AGCTCGTAAGAGCTTACTATTTT
40141275 AGCTCGTATA-AGCTTACTATTATT
1 AGCTCGTA-AGAGCTTACTATT-TT
40141299 AG
1 AG
40141301 TTGAAAAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
23 38 0.93
24 3 0.07
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACTATTTT
Found at i:40141291 original size:46 final size:49
Alignment explanation
Indices: 40141203--40141300 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 49
40141193 GACTCACCAC
40141203 AGCTCGTATGAGCTTACCAATATATCAGCTCGTAAGAGCTTACTATT-TT
1 AGCTCGTATGAGCTTACC-ATATATCAGCTCGTAAGAGCTTACTATTATT
* *
40141252 AGCTCGTATGAGCTTA-C-TGTTTCAGCTCGTATA-AGCTTACTATTATT
1 AGCTCGTATGAGCTTACCATATATCAGCTCGTA-AGAGCTTACTATTATT
40141299 AG
1 AG
40141301 TTGAAAAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
46 23 0.51
47 5 0.11
48 1 0.02
49 16 0.36
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (49 bp):
AGCTCGTATGAGCTTACCATATATCAGCTCGTAAGAGCTTACTATTATT
Found at i:40147120 original size:21 final size:21
Alignment explanation
Indices: 40147096--40147162 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
40147086 ACATGCTTAC
*
40147096 CATAATACAGGTCATACTTTA
1 CATAATACAGATCATACTTTA
*
40147117 CATAATACTGATCATA-TTTAA
1 CATAATACAGATCATACTTT-A
* * *
40147138 CATAACACAAATCATACTTAA
1 CATAATACAGATCATACTTTA
40147159 CATA
1 CATA
40147163 TAACTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 3 0.08
21 33 0.87
22 2 0.05
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.31
Consensus pattern (21 bp):
CATAATACAGATCATACTTTA
Found at i:40150634 original size:57 final size:58
Alignment explanation
Indices: 40150573--40150681 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
40150563 TCATGTTTCC
* *
40150573 AACATATGCTCATA-AGAGCTTA-ATCAAGATTACCCGTCCGGGCTAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
* *
40150630 AACATATGCTCAAGAGGGCTTATATCAGGATTACCAGTCCAGGCTAAATCCT
1 AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCT
40150682 TTCTGTAATG
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
56 1 0.02
57 19 0.41
58 26 0.57
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
Found at i:40153210 original size:13 final size:13
Alignment explanation
Indices: 40153192--40153218 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
40153182 TTAAATTATA
40153192 TGTGTGAAAATTT
1 TGTGTGAAAATTT
40153205 TGTGTGAAAATTT
1 TGTGTGAAAATTT
40153218 T
1 T
40153219 AGCATTTATG
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:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:40154480 original size:43 final size:43
Alignment explanation
Indices: 40154355--40154483 Score: 145
Period size: 44 Copynumber: 3.0 Consensus size: 43
40154345 TCTGGGAAGT
* * *
40154355 TGGCAACGATTTGAGATTTTCTTGTAAGACCACGTCTGAGACAA
1 TGGCAACGATTTGAGATTTAC-TGTAAGACCATGTCTGGGACAA
*
40154399 TGGCAACGATTTGAGATTTACGTGTAAGACCCTGTCTGGGACAA
1 TGGCAACGATTTGAGATTTAC-TGTAAGACCATGTCTGGGACAA
* * *
40154443 TGGCATCGATATT-CGATTATA-TTTAAGACCATGTCTGGGAC
1 TGGCAACGAT-TTGAGATT-TACTGTAAGACCATGTCTGGGAC
40154484 GTTGGCATTG
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 18 0.24
44 52 0.70
45 4 0.05
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
TGGCAACGATTTGAGATTTACTGTAAGACCATGTCTGGGACAA
Found at i:40157269 original size:27 final size:27
Alignment explanation
Indices: 40157231--40157376 Score: 211
Period size: 27 Copynumber: 5.4 Consensus size: 27
40157221 TGGATAAGTT
40157231 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
40157258 GTAGAATTACCGAAATACCCCAGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
40157285 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
40157312 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
40157339 GTTGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
40157366 GTAAAATTACC
1 GTAGAATTACC
40157377 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:40159419 original size:50 final size:46
Alignment explanation
Indices: 40159348--40159515 Score: 203
Period size: 46 Copynumber: 3.6 Consensus size: 46
40159338 TGTCTTCGAC
** * * *
40159348 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAATGCC----ATATATCTGAT
*
40159398 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAT-CCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCC-AATGCCATATATCTGAT
* *
40159444 ATGGACTTACATGGCTCGTTCCTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAATGCCATATATCTGAT
*
40159490 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
40159516 CTGTCCTGTC
Statistics
Matches: 105, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 2 0.02
46 74 0.70
50 26 0.25
51 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAATGCCATATATCTGAT
Found at i:40159454 original size:46 final size:46
Alignment explanation
Indices: 40159387--40159515 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
40159377 AATGCCATAT
* * *
40159387 ATATATCTAATATGGGCTTACATGGCTCATTCCTGTCTCCAAATCC
1 ATATATCTGATATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC
*
40159433 ATATATCTGATATGGACTTACATGGCTCGTTCCTGTCTCCAAAGCC
1 ATATATCTGATATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC
*
40159479 ATATATCTGATATGGACTTACATGGCTCATTTCTGTC
1 ATATATCTGATATGGACTTACATGGCTCATTCCTGTC
40159516 CTGTCCTGTC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.36
Consensus pattern (46 bp):
ATATATCTGATATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC
Found at i:40159885 original size:30 final size:30
Alignment explanation
Indices: 40159851--40159911 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
40159841 TCCTTTACTC
*
40159851 AAAC-TTTGCAAAAATTACATTTTTGCCCCT
1 AAACTTTTGCAAAAA-TACACTTTTGCCCCT
* *
40159881 AAACTTTTGCATATATACACTTTTGCCCCT
1 AAACTTTTGCAAAAATACACTTTTGCCCCT
40159911 A
1 A
40159912 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTTGCAAAAATACACTTTTGCCCCT
Found at i:40165210 original size:32 final size:32
Alignment explanation
Indices: 40165161--40165223 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
40165151 CATATGGGTC
* *
40165161 TGATTCTGATATGGGCTAGGCCCAACTAATAT
1 TGATTCTGAGATAGGCTAGGCCCAACTAATAT
*
40165193 TGATTCTGAGATAGGCTAGGCCCAATTAATA
1 TGATTCTGAGATAGGCTAGGCCCAACTAATA
40165224 CTGTGATGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (32 bp):
TGATTCTGAGATAGGCTAGGCCCAACTAATAT
Found at i:40177240 original size:39 final size:40
Alignment explanation
Indices: 40177149--40177309 Score: 281
Period size: 40 Copynumber: 4.0 Consensus size: 40
40177139 CAGATGATAA
40177149 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
40177189 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
40177228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40177268 CCGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
40177308 CC
1 CC
40177310 AACTAAAACC
Statistics
Matches: 117, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
39 41 0.35
40 76 0.65
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40177280 original size:79 final size:79
Alignment explanation
Indices: 40177149--40177299 Score: 284
Period size: 79 Copynumber: 1.9 Consensus size: 79
40177139 CAGATGATAA
*
40177149 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
*
40177214 TGCGAGTTACTTAT
66 AGCGAGTTACTTAT
40177228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
40177293 AGCGAGT
66 AGCGAGT
40177300 AGCTATATCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 70 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
AGCGAGTTACTTAT
Found at i:40190694 original size:39 final size:40
Alignment explanation
Indices: 40190640--40190843 Score: 229
Period size: 39 Copynumber: 5.1 Consensus size: 40
40190630 NNNNNACTAA
*
40190640 CCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAAC
1 CCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAAC
40190680 CC-GATTTAATAACTCGCACGAATGCCTTCGGGACCTTAAC
1 CCGGATTTAATAACTCGCACGAATGCCTTCGGGA-CTTAAC
40190720 CCGGATTTTAATAACTCGCACGAATG-CTTCGGGAC-TAAC
1 CCGGA-TTTAATAACTCGCACGAATGCCTTCGGGACTTAAC
* * * * *
40190759 CCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAAT
1 CCGGATTTAATAACTCGCACGAATGCCTTCGGGA-CTTAAC
* * * * * *
40190799 CCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGC
1 CCGGATTTAATAAC-TCGCACGAATGCCTTCGGGACTTAAC
40190839 CCGGA
1 CCGGA
40190844 CAGCATTCAA
Statistics
Matches: 142, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
38 19 0.13
39 44 0.31
40 41 0.29
41 18 0.13
42 20 0.14
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAAC
Found at i:40190776 original size:80 final size:80
Alignment explanation
Indices: 40190640--40190804 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 80
40190630 NNNNNACTAA
* *
40190640 CCGGA-TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGATTTAATAACTCGCACGAATG
1 CCGGATTTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGATTTAATAACTCGCACAAAGG
40190704 CCTTCGGGACCTTAAC
66 CCTTC-GGACCTTAAC
* * *
40190720 CCGGATTTTAATAACTCGCACGAATG-CTTCGGGAC-TAACCCGGATTTAGTATCTCGCACAAAG
1 CCGGATTTTAACAACTCGCACGAATGCCTTCGGGACTTAACCC-GATTTAATAACTCGCACAAAG
* *
40190783 GCCTTCGGATCTTAAT
65 GCCTTCGGACCTTAAC
40190799 CCGGAT
1 CCGGAT
40190805 ATATTCACTT
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 20 0.26
80 37 0.49
81 19 0.25
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (80 bp):
CCGGATTTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGATTTAATAACTCGCACAAAGG
CCTTCGGACCTTAAC
Found at i:40190842 original size:80 final size:82
Alignment explanation
Indices: 40190640--40190843 Score: 215
Period size: 80 Copynumber: 2.6 Consensus size: 82
40190630 NNNNNACTAA
* * * * *
40190640 CCGGATT-TAACAACTCGCACGAATGCCTTCGGGACTTAACCC-GATTTAATAACTCGCACGAAT
1 CCGGATTATAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAG
40190703 GCCTTCGGGACCTTAAC
66 GCCTTCGGGACCTTAAC
* * * * *
40190720 CCGGATTTTAATAACTCGCACGAATG-CTTCGGGAC-TAACCCGGATTTAGTATCTCGCACAAAG
1 CCGGATTATAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAG
* *
40190783 GCCTTC-GGATCTTAAT
66 GCCTTCGGGACCTTAAC
* * *
40190799 CCGGA-TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 CCGGATTATAATAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
40190844 CAGCATTCAA
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
78 9 0.08
79 33 0.31
80 47 0.44
81 17 0.16
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (82 bp):
CCGGATTATAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAG
GCCTTCGGGACCTTAAC
Found at i:40197812 original size:40 final size:40
Alignment explanation
Indices: 40197721--40197892 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
40197711 GCTCCTCGTT
* * * *
40197721 CAAATGCCTTCGGGGCATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
40197761 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
40197800 CGAATGCCTTCGGGACTTAACCCGGTTTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
40197840 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
40197880 CAAATGCCTTCGG
1 CAAATGCCTTCGG
40197893 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:40197954 original size:41 final size:41
Alignment explanation
Indices: 40197877--40197954 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
40197867 TTTGTATCTC
* * *
40197877 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
40197918 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
40197955 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:40200843 original size:20 final size:21
Alignment explanation
Indices: 40200805--40200844 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
40200795 AATAGCGAGG
40200805 GAATTCTGTGTTTCCAAGGAA
1 GAATTCTGTGTTTCCAAGGAA
40200826 GAATT-TGTG-TTCCGAAGGA
1 GAATTCTGTGTTTCC-AAGGA
40200845 CTCTGACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (21 bp):
GAATTCTGTGTTTCCAAGGAA
Found at i:40204091 original size:27 final size:27
Alignment explanation
Indices: 40204033--40204143 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
40204023 AGGAAGCGTC
* * * *
40204033 CTGGTGGCTATGCCACATTTATTTGAT
1 CTGGTGGCTCTGCCACATATATCTGTT
* * *
40204060 ATGGTGGCTCTACCACATATACCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
40204087 CTGGTGGCTCTGCCACA-ATTATCTGTT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
* *
40204114 CTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
40204140 CTGG
1 CTGG
40204144 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 13 0.19
27 57 0.81
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:40204119 original size:54 final size:53
Alignment explanation
Indices: 40204033--40204143 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 53
40204023 AGGAAGCGTC
* * *
40204033 CTGGTGGCTATGCCACATTTATTTGATATGGTGGCTCTACCACATATACCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATATGGTGACTCTACCACAT-TACCTGTT
* * * ** *
40204087 CTGGTGGCTCTGCCACAATTATCTGTTCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATATGGTGACTCTACCACATTACCTGTT
40204140 CTGG
1 CTGG
40204144 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
53 11 0.23
54 37 0.77
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATATGGTGACTCTACCACATTACCTGTT
Found at i:40209569 original size:43 final size:42
Alignment explanation
Indices: 40209473--40209588 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
40209463 CGCACAGTAC
* **
40209473 CATACCGATGCCATATCCCAGATATGGTCTTACATGTAATCT
1 CATATCGATGCCATATCCCAGATATGGTCTTACATCAAATCT
* * * *
40209515 CGTATCAATGCCAATAGCCCAGCTATGGTCTTACA-CAAAGTCT
1 CATATCGATGCC-ATATCCCAGATATGGTCTTACATCAAA-TCT
*
40209558 CATATTGATGCCATATCCCAGATATGGTCTT
1 CATATCGATGCCATATCCCAGATATGGTCTT
40209589 TCACGTAGTC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
CATATCGATGCCATATCCCAGATATGGTCTTACATCAAATCT
Found at i:40209599 original size:42 final size:42
Alignment explanation
Indices: 40209473--40209599 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
40209463 CGCACAGTAC
* * *
40209473 CATACCGATGCCATATCCCAGATATGGTCTTACATGTAATCT
1 CATATCGATGCCATATCCCAGATATGGTCTTACACGTAGTCT
* * * * **
40209515 CGTATCAATGCCAATAGCCCAGCTATGGTCTTACACAAAGTCT
1 CATATCGATGCC-ATATCCCAGATATGGTCTTACACGTAGTCT
* *
40209558 CATATTGATGCCATATCCCAGATATGGTCTTTCACGTAGTCT
1 CATATCGATGCCATATCCCAGATATGGTCTTACACGTAGTCT
40209600 TAGTAACCCT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 34 0.51
43 33 0.49
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (42 bp):
CATATCGATGCCATATCCCAGATATGGTCTTACACGTAGTCT
Found at i:40211649 original size:10 final size:11
Alignment explanation
Indices: 40211624--40211661 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
40211614 TATACGAGTA
40211624 AATTTAATATC
1 AATTTAATATC
40211635 AATTTAATA-C
1 AATTTAATATC
40211645 AATTTAA-ACTC
1 AATTTAATA-TC
40211656 AATTTA
1 AATTTA
40211662 GTCCAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 8 0.32
11 16 0.64
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAATATC
Found at i:40213818 original size:27 final size:27
Alignment explanation
Indices: 40213772--40214036 Score: 314
Period size: 27 Copynumber: 9.8 Consensus size: 27
40213762 AATTACTAAA
* * * ***
40213772 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
* **
40213799 TACCATCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
**
40213826 TACCCTCGATTTATAGAATTACCGCTT
1 TACCCTCGATTTATAGAATTACCATTT
*
40213853 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
40213880 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
40213907 TACCCTCGAATTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* ** *
40213934 TATCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTTATAGAATTACCATTT
* *
40213961 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* **
40213988 TACCCTCAATTTATAGAATTACGGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
40214015 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTATAGAATTAC
40214037 TGAAATACCC
Statistics
Matches: 201, Mismatches: 37, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 201 1.00
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:40214054 original size:27 final size:27
Alignment explanation
Indices: 40213761--40214155 Score: 175
Period size: 27 Copynumber: 14.7 Consensus size: 27
40213751 TTAGTTTACC
* * *
40213761 AAATTA-CTAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* *
40213787 AAATTACCAAAGTACCATCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *****
40213814 GAATTACTGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ****
40213841 GAATTACCGCTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *** *
40213868 GAATTATCATTTTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
40213895 GAATTACCATTTTACCCTCGAATTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
40213922 GAATTACCATTTTATCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* ***** * *
40213949 GAATTACTGTCTTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* *** *
40213976 GAATTACCATTTTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *****
40214003 GAATTACGGTTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
** * * *
40214030 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTATA
**
40214057 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
40214084 AAACTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTATA
* * *
40214111 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTATA
40214138 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
40214156 TGTAGGGTAG
Statistics
Matches: 304, Mismatches: 62, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 7 0.02
27 297 0.98
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:40214075 original size:81 final size:81
Alignment explanation
Indices: 40213806--40214065 Score: 317
Period size: 81 Copynumber: 3.2 Consensus size: 81
40213796 AAGTACCATC
* ** * *
40213806 GATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGCTTTACCCTCGATTTATAGAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAA
* * *
40213871 TTA-TCATTTTACCCTC
66 TTACTGA-ATTACCCTT
* * * *
40213887 AATTTATAGAATTACCATTTTACCCTCGAA-TTATAGAATTACCATTTTATCCTCGATTTATAGA
1 GATTTACAGAATTACCATTTTACCCTC-AATTTATAGAATTACCGTTTTACCCTCGATTTATAGA
**
40213951 ATTACTGTCTTACCCTT
65 ATTACTGAATTACCCTT
* *
40213968 GATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACGGTTTTACCCTCGATTTATAAAA
1 GATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAA
*
40214033 TTACTGAAATACCCTT
66 TTACTGAATTACCCTT
* *
40214049 GGTTTACAAAATTACCA
1 GATTTACAGAATTACCA
40214066 AAATACCCTC
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 150 0.97
82 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (81 bp):
GATTTACAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAA
TTACTGAATTACCCTT
Found at i:40214146 original size:54 final size:55
Alignment explanation
Indices: 40214027--40214181 Score: 145
Period size: 54 Copynumber: 2.9 Consensus size: 55
40214017 CCCTCGATTT
** * ** *
40214027 ATAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCA
1 ATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCAATCA
* **
40214081 ATAAAACTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCT-AATTT
1 ATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCAATCA
* * * ** *
40214135 GTGAAATTACCAAAATA-CCCTTGTAGGGTAGAATTACCAAAATACCC
1 ATAAAATTACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCC
40214182 TTGTAGGGTA
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
53 6 0.07
54 73 0.88
55 4 0.05
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (55 bp):
ATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTCAATCA
Found at i:40214169 original size:27 final size:27
Alignment explanation
Indices: 40214139--40214305 Score: 201
Period size: 27 Copynumber: 6.2 Consensus size: 27
40214129 TAATTTGTGA
40214139 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
40214166 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
** * *
40214193 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*
40214220 AATTACCAAAAT-CCCTTGTATGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * * *
40214246 AAATACCGAAATACCCCTGTAGAGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * * * *
40214273 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCAAAATACCCTTGTAGGGTAG
40214300 AATTAC
1 AATTAC
40214306 TAGTTTGCCC
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.18
27 96 0.82
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAG
Found at i:40214173 original size:81 final size:81
Alignment explanation
Indices: 40214088--40214277 Score: 192
Period size: 81 Copynumber: 2.4 Consensus size: 81
40214078 TCAATAAAAC
** **
40214088 TACCAAAATACCCCTGGT-TTGTAAAATTACCAAAATACCCCTAATTTG-T-GAAATTACCAAAA
1 TACCAAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCT-ATAGGATAG-AATTACCAAAA
*
40214150 TACCCTTGTAGGGTAGAAT
64 T-CCCTTGTAGGGTAGAAA
* * ** *
40214169 TACCAAAATA-CCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATC
1 TACCAAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATC
*
40214233 CCTTGTATGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * *
40214249 TACCGAAATACCCCT-GTAGAGTAGAATTA
1 TACCAAAATACCCCTGGTAGGGTAAAATTA
40214278 TCGAGATACC
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
80 45 0.49
81 46 0.50
82 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (81 bp):
TACCAAAATACCCCTGGTAGGGTAAAATTACCAAAATACCCCTATAGGATAGAATTACCAAAATC
CCTTGTAGGGTAGAAA
Found at i:40214259 original size:53 final size:54
Alignment explanation
Indices: 40214137--40214302 Score: 203
Period size: 53 Copynumber: 3.1 Consensus size: 54
40214127 CCTAATTTGT
* * *
40214137 GAAATTACCAAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTA
1 GAAA-TACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGGGTA
* * *
40214192 GAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAAT-CCCTTGTATGGTA
1 GAAATACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGGGTA
* * * *
40214245 GAAATACCGAAATACCCCTGTA-GAGTAGAATTATCGAGATACCCTTGTGGGGTA
1 GAAATACCGAAATACCCCTGTAGGA-TAGAATTACCAAAATACCCTTGTAGGGTA
40214299 -AAAT
1 GAAAT
40214303 TACTAGTTTG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 48 0.50
54 43 0.45
55 3 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
GAAATACCGAAATACCCCTGTAGGATAGAATTACCAAAATACCCTTGTAGGGTA
Found at i:40214304 original size:80 final size:81
Alignment explanation
Indices: 40214138--40214305 Score: 223
Period size: 80 Copynumber: 2.1 Consensus size: 81
40214128 CTAATTTGTG
* * *
40214138 AAATTACCAAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAA
1 AAATTACCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGAGTAGAATTACTGAA
40214203 ATACCCCTGTAGGATA
66 ATACCCCTGTAGGATA
* * *
40214219 GAATTACCAAAAT-CCCTTGTATGGTAGAAATACCGAAATACCCCTGTAGAGTAGAATTA-TCGA
1 AAATTACCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGAGTAGAATTACT-GA
* * * *
40214282 GATACCCTTGTGGGGTA
65 AATACCCCTGTAGGATA
40214299 AAATTAC
1 AAATTAC
40214306 TAGTTTGCCC
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 62 0.83
81 12 0.16
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGAGTAGAATTACTGAA
ATACCCCTGTAGGATA
Found at i:40214752 original size:6 final size:6
Alignment explanation
Indices: 40214736--40214801 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
40214726 ATTCTGTTAC
* * *
40214736 CTGATA CTGATT TTGATT CTGATT CTG-TCAC CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
40214785 CTGATT CT-AGTT CTGAT
1 CTGATT CTGA-TT CTGAT
40214802 AATGTTTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 2 0.04
6 43 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:40214759 original size:31 final size:31
Alignment explanation
Indices: 40214714--40214792 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
40214704 TTGCATTCAC
* *
40214714 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
40214745 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
40214776 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
40214793 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:40214770 original size:25 final size:24
Alignment explanation
Indices: 40214717--40214789 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
40214707 CATTCACATT
40214717 CTGATTTTGATTCTG-TTACCTGATA
1 CTGATTTTGATTCTGATT--CTGATA
40214742 CTGATTTTGATTCTGATTCTG-TCA
1 CTGATTTTGATTCTGATTCTGAT-A
*
40214766 CCTGATTCTGATTCTGATTCTGAT
1 -CTGATTTTGATTCTGATTCTGAT
40214790 TCTAGTTCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
23 1 0.02
24 4 0.09
25 35 0.81
26 3 0.07
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (24 bp):
CTGATTTTGATTCTGATTCTGATA
Found at i:40214798 original size:12 final size:12
Alignment explanation
Indices: 40214714--40214801 Score: 74
Period size: 12 Copynumber: 7.2 Consensus size: 12
40214704 TTGCATTCAC
*
40214714 ATTCTGATTTTG
1 ATTCTGATTCTG
40214726 ATTCTG-TTACCTG
1 ATTCTGATT--CTG
* *
40214739 ATACTGATTTTG
1 ATTCTGATTCTG
40214751 ATTCTGATTCTG
1 ATTCTGATTCTG
*
40214763 -TCACCTGATTCTG
1 AT--TCTGATTCTG
40214776 ATTCTGATTCTG
1 ATTCTGATTCTG
40214788 ATTCT-AGTTCTG
1 ATTCTGA-TTCTG
40214800 AT
1 AT
40214802 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.06
12 39 0.63
13 16 0.26
14 3 0.05
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (12 bp):
ATTCTGATTCTG
Found at i:40220575 original size:46 final size:46
Alignment explanation
Indices: 40220525--40220695 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 46
40220515 ACAACATTTA
*
40220525 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTAT-CATCTCGAG
* * * *
40220571 GCCGATACATGTCCCAGACATGTCTTACACTAG-TATTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTCGAG
* * * * * *
40220617 GTCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTCGAG
*
40220665 GCCGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
40220696 AGCTCACACA
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 51 0.51
47 26 0.26
48 20 0.20
49 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTCGAG
Found at i:40220635 original size:138 final size:145
Alignment explanation
Indices: 40220380--40220645 Score: 359
Period size: 138 Copynumber: 1.9 Consensus size: 145
40220370 GGGATAATAT
* * * *
40220380 GCCGATGCCATGTCCCATATATGGTCTTACACTGGCTACCATCATCGAGGCTGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACCATCATCGAGGCCGATGACATGTCCC
* * **
40220445 AGACATGGTCTTATACTAGCTCTCGCATATCTGTGTCGATGCCATATCCTAGACATGGTCTTATA
66 AGACATGGTCTTACACTAGCTATCGCATATCAATGTCGATGCCATATCCTAGACATGGTCTTATA
40220510 CAAACACAACATTTA
131 CAAACACAACATTTA
*
40220525 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CGTC-TCGAGGCCGAT-ACATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACCATCATCGAGGCCGATGACATGTCC
* * *
40220585 CAGACAT-GTCTTACACTAG-TAT-TCATCTCAATGTCGATGCCATGTCCTAGACATGGTCTTA
65 CAGACATGGTCTTACACTAGCTATCGCATATCAATGTCGATGCCATATCCTAGACATGGTCTTA
40220646 CATTGGCTCT
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 34 0.31
139 2 0.02
140 11 0.10
141 14 0.13
142 10 0.09
143 16 0.15
144 14 0.13
145 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (145 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACCATCATCGAGGCCGATGACATGTCCC
AGACATGGTCTTACACTAGCTATCGCATATCAATGTCGATGCCATATCCTAGACATGGTCTTATA
CAAACACAACATTTA
Found at i:40220686 original size:140 final size:143
Alignment explanation
Indices: 40220380--40220695 Score: 340
Period size: 140 Copynumber: 2.2 Consensus size: 143
40220370 GGGATAATAT
* * * *
40220380 GCCGATGCCATGTCCCATATATGGTCTTACACTGGCTACCATCATCGAGGCTGATGCCATGTCCC
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTACCATCATCGAGGCCGATGACATGTCCC
* * **
40220445 AGACATGGTCTTATACTAGCTCTCGCATATCTGTGTCGATGCCATATCCTAGACATGGTCTTATA
64 AGACATGGTCTTACACTAGCTATCGCATATCAATGTCGATGCCATATCCTAGACATGGTCTTATA
*
40220510 CAAACACAACATTTA
129 CAAACACAACATGTA
* *
40220525 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA-CGTC-TCGAGGCCGAT-ACATGTCCCA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGC-TACCATCATCGAGGCCGATGACATGTCCCA
* * *
40220587 GACAT-GTCTTACACTAG-TAT-TCATCTCAATGTCGATGCCATGTCCTAGACATGGTCTTACAT
65 GACATGGTCTTACACTAGCTATCGCATATCAATGTCGATGCCATATCCTAGACATGGTCTT--AT
***** * *
40220649 TGGCTCTCATA-ATGTG
128 ACAAACACA-ACATGTA
40220665 GCCGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
40220696 AGCTCACACA
Statistics
Matches: 146, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
138 33 0.23
139 2 0.01
140 49 0.34
141 15 0.10
142 10 0.07
143 16 0.11
144 14 0.10
145 7 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (143 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTACCATCATCGAGGCCGATGACATGTCCCAG
ACATGGTCTTACACTAGCTATCGCATATCAATGTCGATGCCATATCCTAGACATGGTCTTATACA
AACACAACATGTA
Found at i:40225419 original size:47 final size:47
Alignment explanation
Indices: 40225274--40225885 Score: 933
Period size: 47 Copynumber: 13.1 Consensus size: 47
40225264 CCCTTCGGGA
* * * * * * *
40225274 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
40225321 CCTGTCACATATATACAGTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40225367 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40225414 CTTATCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40225461 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
40225508 CTTATCACACATATACACTTTCACATTCATCATATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
40225555 C-T-TCACCTATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40225600 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
40225647 CTTATCACACGTATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
40225694 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
40225741 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
40225788 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40225835 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
40225882 CTTA
1 CTTA
40225886 CTATCATTTC
Statistics
Matches: 523, Mismatches: 39, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
45 39 0.07
46 41 0.08
47 443 0.85
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:40234012 original size:30 final size:30
Alignment explanation
Indices: 40233978--40234038 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40233968 TCCTTTACTC
*
40233978 AAACTTTGCAAAAATTACATTTTTGCCCCT
1 AAACTTTGCAAAAATTACACTTTTGCCCCT
* * * *
40234008 AAACTTTTCCATATTTACACTTTTGCCCCT
1 AAACTTTGCAAAAATTACACTTTTGCCCCT
40234038 A
1 A
40234039 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTGCAAAAATTACACTTTTGCCCCT
Found at i:40245312 original size:93 final size:93
Alignment explanation
Indices: 40245199--40245370 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
40245189 CGCCCATAAG
* *
40245199 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40245264 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
40245292 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
40245357 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
40245371 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:40245367 original size:46 final size:46
Alignment explanation
Indices: 40245192--40245367 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
40245182 TGTAACCCGC
* * *
40245192 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
40245238 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
40245288 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
40245331 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
40245368 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:40247297 original size:27 final size:28
Alignment explanation
Indices: 40247229--40247330 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 28
40247219 ACACACTAGA
* **
40247229 TAAATGGAAGCCTTTGTGGCAAATATAT
1 TAAATAGAAGCCTTTGTGGCAAACCTAT
**
40247257 GGAATAGAAGCCTTTGTGG-AAACCTAT
1 TAAATAGAAGCCTTTGTGGCAAACCTAT
**
40247284 TAAATAGAAGCCTTTGTGGCAGTCCT-T
1 TAAATAGAAGCCTTTGTGGCAAACCTAT
*
40247311 AAAATAGAAGCCTTTGTGGC
1 TAAATAGAAGCCTTTGTGGC
40247331 GATCTATGGA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 43 0.68
28 20 0.32
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (28 bp):
TAAATAGAAGCCTTTGTGGCAAACCTAT
Found at i:40247463 original size:27 final size:27
Alignment explanation
Indices: 40247429--40247486 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
40247419 AGAAATAGAA
*
40247429 GAATGGTAAATATGACAAACTCTGAAG
1 GAATGGTAAATATGACAAACGCTGAAG
40247456 GAATGGTAAATATGACAAACGCTGAAG
1 GAATGGTAAATATGACAAACGCTGAAG
40247483 GAAT
1 GAAT
40247487 AGTACATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.24, T:0.21
Consensus pattern (27 bp):
GAATGGTAAATATGACAAACGCTGAAG
Done.