Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 121 of 425
Found at i:35906279 original size:25 final size:25
Alignment explanation
Indices: 35906245--35906306 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
35906235 GATTTTGGTT
* *
35906245 CTGATTCTGATTCTGTTACGTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
35906270 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
35906295 CTGATTCTGATT
1 CTGATTCTGATT
35906307 TTGATTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:35906312 original size:37 final size:37
Alignment explanation
Indices: 35906265--35906351 Score: 129
Period size: 37 Copynumber: 2.4 Consensus size: 37
35906255 TTCTGTTACG
* *
35906265 TGATACTGATTCTGATTCTGTTACCTAATTCTGATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
* * *
35906302 TGATTTTGATTTTGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
35906339 TGATTCTGATTCT
1 TGATTCTGATTCT
35906352 CATTTTGATT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (37 bp):
TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTC
Found at i:35908037 original size:43 final size:42
Alignment explanation
Indices: 35907947--35908064 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
35907937 TAGGGTTAGT
35907947 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * * *
35907989 TGAGATTTCGTGTGAGACCATAGT-TGGGCTATTGGCATCTATA
1 TGAGATTACGTGTAAGACCATA-TCTAGGATA-TGGCATCGATA
** *
35908032 TGAGATCCCATGTAAGACCATATCTAGGATATG
1 TGAGATTACGTGTAAGACCATATCTAGGATATG
35908065 ACATTGGTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:35913122 original size:40 final size:40
Alignment explanation
Indices: 35913064--35913457 Score: 662
Period size: 40 Copynumber: 9.8 Consensus size: 40
35913054 TTGAGAGTTA
35913064 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
35913104 TACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
35913144 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTACTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
35913184 TACATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
35913224 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
35913264 TATATCCGGGCTAAGTCTCGAAGAGCATTCCTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
35913304 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
35913344 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
35913384 TATATCTGGGCTAAGTCTCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * * *
35913424 TACATCCAGGCTAAGTCCTGAAGGGCATTCGTGC
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
35913458 CGGTGATGTG
Statistics
Matches: 331, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Found at i:35913665 original size:25 final size:25
Alignment explanation
Indices: 35913627--35913705 Score: 133
Period size: 25 Copynumber: 3.2 Consensus size: 25
35913617 GTGTAATAAT
35913627 GAATGAATAT-AGGCACTATGTGTGC
1 GAATGAAT-TGAGGCACTATGTGTGC
35913652 GAATGAATTGAGGCACTATGTGTGC
1 GAATGAATTGAGGCACTATGTGTGC
*
35913677 GAATGAATTGAGGCACTGTGTGTGC
1 GAATGAATTGAGGCACTATGTGTGC
35913702 GAAT
1 GAAT
35913706 TCTTTAACCG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
24 1 0.02
25 51 0.98
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (25 bp):
GAATGAATTGAGGCACTATGTGTGC
Found at i:35915659 original size:24 final size:24
Alignment explanation
Indices: 35915627--35915689 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
35915617 AATCTCAATT
35915627 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
35915651 GCACTATGTGTGCGATTTATTATG
1 GCACTATGTGTGCGATTTACTATG
35915675 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
35915690 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:35923658 original size:24 final size:24
Alignment explanation
Indices: 35923626--35923688 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
35923616 AATCTCAATT
35923626 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
35923650 GCACTATGTGTGCGATTTATTATG
1 GCACTATGTGTGCGATTTACTATG
35923674 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
35923689 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:35925138 original size:36 final size:38
Alignment explanation
Indices: 35925062--35925139 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 38
35925052 TGTAACCCGC
35925062 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTTCGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGA-----GGTTCGTT
35925105 CCATAAGTG-ACTCGGACTCAACTCAACGA-GTTCGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGGTTCGT
35925140 GATCCTAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
36 6 0.17
42 20 0.57
43 9 0.26
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (38 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGGTTCGTT
Found at i:35925230 original size:48 final size:47
Alignment explanation
Indices: 35925067--35925235 Score: 192
Period size: 47 Copynumber: 3.7 Consensus size: 47
35925057 CCCGCCCATA
* *
35925067 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GTTCGTTCCA-TA-
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTTCCATTAT
* *
35925110 AGTG-ACTCGGACTCAACTCAACGAGTTCGTGATC-CTAGTTACATCTAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCG-GA-CGCTCGTTCCAT-TAT
* *
35925158 --CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATTAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCG-TTCCATTAT
35925204 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGA
35925236 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 24 0.23
43 5 0.05
45 7 0.07
46 9 0.09
47 31 0.30
48 29 0.28
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (47 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGTTCCATTAT
Found at i:35927583 original size:30 final size:30
Alignment explanation
Indices: 35927539--35927627 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
35927529 CAAAGATAAC
35927539 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
35927568 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
35927598 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
35927628 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:35927587 original size:15 final size:15
Alignment explanation
Indices: 35927539--35927618 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
35927529 CAAAGATAAC
*
35927539 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35927553 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35927568 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
35927583 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35927598 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35927613 AAGAAA
1 AAGAAA
35927619 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35927627 original size:15 final size:15
Alignment explanation
Indices: 35927550--35927627 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
35927540 AGAAAACCGA
35927550 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
35927565 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
35927579 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35927594 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35927610 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35927625 ATA
1 ATA
35927628 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35930687 original size:93 final size:93
Alignment explanation
Indices: 35930575--35930746 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35930565 GCCCATAAGT
* *
35930575 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35930640 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35930668 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35930733 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35930747 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35930742 original size:46 final size:46
Alignment explanation
Indices: 35930567--35930742 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35930557 TGTAACCCGC
* * *
35930567 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35930613 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35930663 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35930706 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35930743 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35933084 original size:30 final size:30
Alignment explanation
Indices: 35933040--35933128 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
35933030 CAAAGATAAC
35933040 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
35933069 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
35933099 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
35933129 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:35933088 original size:15 final size:15
Alignment explanation
Indices: 35933040--35933119 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
35933030 CAAAGATAAC
*
35933040 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35933054 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35933069 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
35933084 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35933099 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35933114 AAGAAA
1 AAGAAA
35933120 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35933128 original size:15 final size:15
Alignment explanation
Indices: 35933051--35933128 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
35933041 AGAAAACCGA
35933051 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
35933066 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
35933080 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35933095 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35933111 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35933126 ATA
1 ATA
35933129 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35936184 original size:93 final size:93
Alignment explanation
Indices: 35936072--35936243 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35936062 GCCCATAAGT
* *
35936072 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35936137 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
35936165 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35936230 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
35936244 CAAATATCCA
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:35936239 original size:46 final size:46
Alignment explanation
Indices: 35936064--35936239 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35936054 TGTAACCCGC
* * *
35936064 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
35936110 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
35936160 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
35936203 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
35936240 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:35941189 original size:29 final size:27
Alignment explanation
Indices: 35941155--35941257 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
35941145 TACTCGATCA
*
35941155 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* * *
35941184 CGCACACATAGTGCCATATAGTTCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
* * *
35941213 CACACACTTAGTACCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
35941242 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
35941258 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:35948602 original size:29 final size:28
Alignment explanation
Indices: 35948568--35948667 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 28
35948558 GTGACAAGAT
35948568 TGGCACTAAGTGTGCAAGCTTGAAATATA
1 TGGCACTAAGTGTGCAAGCTT-AAATATA
*
35948597 TGGCACTAAGTGTGCGAA-CTTAAATTGTA
1 TGGCACTAAGTGTGC-AAGCTTAAA-TATA
* * ** *
35948626 TGGCATTATGTGTGTGAGC-TAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAAT-ATA
35948654 TGGCACTAAGTGTG
1 TGGCACTAAGTGTG
35948668 GAAATCGATT
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
27 1 0.02
28 21 0.36
29 34 0.59
30 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
TGGCACTAAGTGTGCAAGCTTAAATATA
Found at i:35953086 original size:25 final size:25
Alignment explanation
Indices: 35953058--35953116 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
35953048 TACCTAGAAT
*
35953058 AACATCAAACTTATCAAACGGCAAC
1 AACATCAAACTTATCAAACGACAAC
35953083 AACATCAAACTTATCAAACGACAAC
1 AACATCAAACTTATCAAACGACAAC
*
35953108 AATATCAAA
1 AACATCAAA
35953117 TTAGCCATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (25 bp):
AACATCAAACTTATCAAACGACAAC
Found at i:35960372 original size:29 final size:29
Alignment explanation
Indices: 35960339--35960398 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
35960329 TGCTTGTCAC
*
35960339 ACATAAATAATTTTTTAAACATGAAGCCT
1 ACATAAATAAATTTTTAAACATGAAGCCT
*
35960368 ACATAAGTAAATTTTTAAACATGAAGCCT
1 ACATAAATAAATTTTTAAACATGAAGCCT
35960397 AC
1 AC
35960399 TTCAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (29 bp):
ACATAAATAAATTTTTAAACATGAAGCCT
Found at i:35967270 original size:25 final size:26
Alignment explanation
Indices: 35967236--35967285 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
35967226 AAGTCATGCA
*
35967236 TAAATTAAAGC-ATTTAAAATACATT
1 TAAAGTAAAGCTATTTAAAATACATT
*
35967261 TAAAGTAAAGCTTATTTAACATACA
1 TAAAGTAAAGC-TATTTAAAATACA
35967286 AACTTACCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
27 11 0.52
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (26 bp):
TAAAGTAAAGCTATTTAAAATACATT
Found at i:35971201 original size:81 final size:80
Alignment explanation
Indices: 35971057--35971230 Score: 190
Period size: 81 Copynumber: 2.2 Consensus size: 80
35971047 GAATACTTTA
* * * * ***
35971057 ATTTACCAAATTATTGAAATATCCTCAGTTGTAAAATTACCAAAGTACCCTCGGTTTATAAAATT
1 ATTTACAAAATTATCGAAATACCCTCAGTTGCAAAATTACCAAAGTACCCTCGACATATAAAATT
*
35971122 ACCCAAA-TATCCTCG
66 A-CCAAAGTACCCTCG
** * *
35971137 ATTTGTAAAATTATCGAAATACCCTCAGTTTGCAAAATTATTCAAA-TACCCTCGACATGTAAAA
1 ATTTACAAAATTATCGAAATACCCTCAG-TTGCAAAATTA-CCAAAGTACCCTCGACATATAAAA
*
35971201 TTATCAAAGTACCCTCG
64 TTACCAAAGTACCCTCG
35971218 ATTTACAAAATTA
1 ATTTACAAAATTA
35971231 CCATTTTACC
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
80 27 0.36
81 45 0.59
82 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (80 bp):
ATTTACAAAATTATCGAAATACCCTCAGTTGCAAAATTACCAAAGTACCCTCGACATATAAAATT
ACCAAAGTACCCTCG
Found at i:35971249 original size:27 final size:27
Alignment explanation
Indices: 35971210--35971447 Score: 323
Period size: 27 Copynumber: 8.8 Consensus size: 27
35971200 ATTATCAAAG
*
35971210 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
35971237 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35971264 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35971291 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
35971318 TACCCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35971345 TACCCTCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACCATTT
*
35971372 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
35971399 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35971426 TACCCTCGATTTAGAAAATTAC
1 TACCCTCGATTTACAGAATTAC
35971448 AAAAATACCC
Statistics
Matches: 189, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:35971456 original size:27 final size:27
Alignment explanation
Indices: 35971089--35971584 Score: 252
Period size: 27 Copynumber: 18.3 Consensus size: 27
35971079 CCTCAGTTGT
* * *
35971089 AAAATTACCAAAGTACCCTCGGTTTAT
1 AAAATTACCAAATTACCCTCGATTTAC
* **
35971116 AAAATTACCCAAA-TATCCTCGATTTGT
1 AAAATTA-CCAAATTACCCTCGATTTAC
* *
35971143 AAAATTATCGAAA-TACCCTC-AGTTTGC
1 AAAATTA-CCAAATTACCCTCGA-TTTAC
* ** **
35971170 AAAATTATTCAAA-TACCCTCGACATGT
1 AAAATTA-CCAAATTACCCTCGATTTAC
* *
35971197 AAAATTATCAAAGTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
**
35971224 AAAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* ****
35971251 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* **
35971278 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* * * ** * *
35971305 AGAGTTACTATTTTACCCTTGAATTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* **
35971332 AAAATTACTATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* ** *
35971359 AGAATTACC-GTTCTACCCTCGATTTAT
1 AAAATTACCAAAT-TACCCTCGATTTAC
* ** *
35971386 AGAATTACCATTTTACCCTCGATTTAG
1 AAAATTACCAAATTACCCTCGATTTAC
* ** *
35971413 AGAATTACCATTTTACCCTCGATTTAG
1 AAAATTACCAAATTACCCTCGATTTAC
* * * **
35971440 AAAATTACAAAAATACCC-CTGGTTTGT
1 AAAATTACCAAATTACCCTC-GATTTAC
* * * **
35971467 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACCAAATTACCCTC-GATTTAC
* *
35971495 AAAATTACTGAAA-TACCCTCGACTGGTA-
1 AAAATTAC-CAAATTACCCTCGA-T-TTAC
*
35971523 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* * ** *
35971550 AGAATTACTATTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
*
35971577 AAAGTTAC
1 AAAATTAC
35971585 TGTTTTACCC
Statistics
Matches: 393, Mismatches: 63, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.03
27 330 0.84
28 48 0.12
29 4 0.01
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (27 bp):
AAAATTACCAAATTACCCTCGATTTAC
Found at i:35971486 original size:28 final size:28
Alignment explanation
Indices: 35971440--35971512 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
35971430 CTCGATTTAG
* *
35971440 AAAATTACAAAAATA-CCCCTGGTTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
35971467 AAAATTACTAAAATACCCCCTGATTTGT
1 AAAATTACTAAAATACCCCCTGATTTGT
*
35971495 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
35971513 TCGACTGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 14 0.33
28 28 0.67
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCCTGATTTGT
Found at i:35971526 original size:28 final size:27
Alignment explanation
Indices: 35971465--35971544 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
35971455 CCCCTGGTTT
* * *
35971465 GTAAAATTACTAAAATACCCCCTGATTT
1 GTAAAATTACTAAAATACCCTC-GACTG
*
35971493 GTAAAATTACTGAAATACCCTCGACTG
1 GTAAAATTACTAAAATACCCTCGACTG
* *
35971520 GTAAAAATTACCAAAGTACCCTCGA
1 GT-AAAATTACTAAAATACCCTCGA
35971545 TTTACAGAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 5 0.11
28 39 0.89
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (27 bp):
GTAAAATTACTAAAATACCCTCGACTG
Found at i:35971585 original size:27 final size:27
Alignment explanation
Indices: 35971536--35971600 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
35971526 ATTACCAAAG
35971536 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTT
* *
35971563 TACCCTTGATTTACA-AAGTTACTGTTT
1 TACCCTCGATTTACAGAA-TTACTATTT
35971590 TACCCTCGATT
1 TACCCTCGATT
35971601 GTGAAATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTATTT
Found at i:35971635 original size:27 final size:27
Alignment explanation
Indices: 35971605--35972041 Score: 504
Period size: 27 Copynumber: 16.3 Consensus size: 27
35971595 TCGATTGTGA
* *
35971605 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * ** *
35971632 AATTACCAAAACACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
35971659 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
35971686 AATTACTAAAATA-CCCTAGTAAGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
35971713 AATTACCG-AATACCTCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
35971739 AATTATCGAAATACCCTTGTACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
35971766 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
35971793 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35971820 AATTACCGAAATAACCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
35971847 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35971874 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35971901 AATTACCAAAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
35971928 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
35971955 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
35971982 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
35972009 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
35972035 AATTACC
1 AATTACC
35972042 ATTTTGCCCC
Statistics
Matches: 349, Mismatches: 56, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
26 41 0.12
27 307 0.88
28 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:35972371 original size:67 final size:67
Alignment explanation
Indices: 35972263--35972416 Score: 290
Period size: 67 Copynumber: 2.3 Consensus size: 67
35972253 GAGGAAGCGT
*
35972263 TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTGTTTTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
35972328 TA
66 TA
*
35972330 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
35972395 TA
66 TA
35972397 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
35972417 TTCTGTGGTG
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 85 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:35972387 original size:27 final size:26
Alignment explanation
Indices: 35972349--35972400 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
35972339 CTCGCTGCAA
*
35972349 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
35972376 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
35972401 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:35972553 original size:19 final size:19
Alignment explanation
Indices: 35972547--35972701 Score: 115
Period size: 19 Copynumber: 7.9 Consensus size: 19
35972537 TTACCAGATA
35972547 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
35972566 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
35972584 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
*
35972604 TGATACTGATTCTGATTCTGTTAT
1 -----CTGATTCTGATTCTGTTAC
* *
35972628 CTAATTCTTATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
* *
35972646 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
35972665 CTGATTCTGATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
*
35972683 CTGATTTTGATTCTAGTTA
1 CTGATTCTGATTCT-GTTA
35972702 TGATAATGTT
Statistics
Matches: 109, Mismatches: 12, Indels: 30
0.72 0.08 0.20
Matches are distributed among these distances:
17 5 0.05
18 39 0.36
19 40 0.37
20 7 0.06
25 18 0.17
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:35972558 original size:6 final size:6
Alignment explanation
Indices: 35972519--35972696 Score: 130
Period size: 6 Copynumber: 28.8 Consensus size: 6
35972509 TTGCATTCAC
* * * *
35972519 ATTCTG ATTTTG ATTCTG -TTACCAG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* *
35972569 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * *
35972618 ATTCTG TTATCTA ATTCTT ATTCTG GTTCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
35972668 ATTCTG ATTCTG ATTCTG ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
35972697 AGTTATGATA
Statistics
Matches: 134, Mismatches: 25, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
5 7 0.05
6 108 0.81
7 14 0.10
8 5 0.04
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:35972575 original size:25 final size:25
Alignment explanation
Indices: 35972519--35972586 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
35972509 TTGCATTCAC
*
35972519 ATTCTGATTTTGATTCTGTTACCAG
1 ATTCTGATTCTGATTCTGTTACCAG
*
35972544 ATACTGATTCTGATTCTGTTACCTA-
1 ATTCTGATTCTGATTCTGTTACC-AG
*
35972569 ATTCTGATTCTGGTTCTG
1 ATTCTGATTCTGATTCTG
35972587 ATTCTGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCAG
Found at i:35972588 original size:37 final size:37
Alignment explanation
Indices: 35972547--35972623 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
35972537 TTACCAGATA
* *
35972547 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTGTTACCTAATACTGATTCTGATT
*
35972584 CTGATTCTGATTCTGTTACCTGATACTGATTCTGATT
1 CTGATTCTGATTCTGTTACCTAATACTGATTCTGATT
35972621 CTG
1 CTG
35972624 TTATCTAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGTTACCTAATACTGATTCTGATT
Found at i:35972617 original size:62 final size:62
Alignment explanation
Indices: 35972520--35972685 Score: 278
Period size: 62 Copynumber: 2.7 Consensus size: 62
35972510 TGCATTCACA
*
35972520 TTCTGATTTTGATTCTGTTACCAGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
* * *
35972582 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTATCTAATTCTTATTCTGG
1 TTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
* *
35972644 TTCTGATTTTGATTCTGTCACCTGATTCTGATTCTGATTCTG
1 TTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTG
35972686 ATTTTGATTC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (62 bp):
TTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
Found at i:35972640 original size:25 final size:25
Alignment explanation
Indices: 35972582--35972648 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
35972572 CTGATTCTGG
*
35972582 TTCTGATTCTGATTCTGTTACCTGA
1 TTCTGATTCTGATTCTGTTACCTAA
* *
35972607 TACTGATTCTGATTCTGTTATCTAA
1 TTCTGATTCTGATTCTGTTACCTAA
* *
35972632 TTCTTATTCTGGTTCTG
1 TTCTGATTCTGATTCTG
35972649 ATTTTGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.16, C:0.18, G:0.15, T:0.51
Consensus pattern (25 bp):
TTCTGATTCTGATTCTGTTACCTAA
Found at i:35972672 original size:37 final size:37
Alignment explanation
Indices: 35972603--35972696 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
35972593 ATTCTGTTAC
* * * * *
35972603 CTGATACTGATTCTGATTCTGTTATCTAATTCTTATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTGATT
* *
35972640 CTGGTTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTGATT
35972677 CTGATTCTGATTTTGATTCT
1 CTGATTCTGATTTTGATTCT
35972697 AGTTATGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (37 bp):
CTGATTCTGATTTTGATTCTGTCACCTAATTCTGATT
Found at i:35975813 original size:71 final size:71
Alignment explanation
Indices: 35975729--35975892 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35975719 CGATTTGTCT
35975729 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35975794 CTTTCA
66 CTTTCA
35975800 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35975865 CTTTCA
66 CTTTCA
35975871 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35975893 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35975930 original size:71 final size:70
Alignment explanation
Indices: 35975729--35975926 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35975719 CGATTTGTCT
* * * *
35975729 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35975794 CTTTCA
65 CTTTCA
* * * *
35975800 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35975865 CTTTCA
65 CTTTCA
* *
35975871 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35975927 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35977229 original size:27 final size:28
Alignment explanation
Indices: 35977199--35977297 Score: 92
Period size: 27 Copynumber: 3.5 Consensus size: 28
35977189 ATAGTGAATC
*
35977199 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
35977226 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * * * *
35977254 TGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-AA-ATCAAACT
35977284 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35977298 CAATCTTGTC
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
27 21 0.38
28 17 0.30
29 1 0.02
30 17 0.30
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:35986672 original size:71 final size:71
Alignment explanation
Indices: 35986588--35986751 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
35986578 CGATTTGTCT
35986588 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35986653 CTTTCA
66 CTTTCA
35986659 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
35986724 CTTTCA
66 CTTTCA
35986730 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
35986752 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:35986789 original size:71 final size:70
Alignment explanation
Indices: 35986588--35986785 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
35986578 CGATTTGTCT
* * * *
35986588 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35986653 CTTTCA
65 CTTTCA
* * * *
35986659 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
35986724 CTTTCA
65 CTTTCA
* *
35986730 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
35986786 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:35988087 original size:27 final size:28
Alignment explanation
Indices: 35988057--35988155 Score: 92
Period size: 27 Copynumber: 3.5 Consensus size: 28
35988047 ATAGTGAATC
*
35988057 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
35988084 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * * * *
35988112 TGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-AA-ATCAAACT
35988142 CGCACACTTAGTGC
1 CGCACACTTAGTGC
35988156 CAATCTTGTC
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
27 21 0.38
28 17 0.30
29 1 0.02
30 17 0.30
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:35994277 original size:29 final size:29
Alignment explanation
Indices: 35994187--35994346 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
35994177 ACTCGATTTC
* * **
35994187 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
35994216 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
35994244 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
35994274 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35994303 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
35994332 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
35994347 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:36002330 original size:29 final size:29
Alignment explanation
Indices: 36002240--36002399 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
36002230 ACTCGATTTC
* * **
36002240 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
36002269 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
36002297 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
36002327 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
36002356 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
36002385 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
36002400 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:36009679 original size:30 final size:30
Alignment explanation
Indices: 36009643--36009703 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
36009633 TTCCTGAGCC
*
36009643 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
36009673 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
36009703 T
1 T
36009704 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:36013384 original size:16 final size:16
Alignment explanation
Indices: 36013363--36013396 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
36013353 CAAGTTTTTC
36013363 TATTGTTAAACGGGGT
1 TATTGTTAAACGGGGT
36013379 TATTGTTAAACGGGGT
1 TATTGTTAAACGGGGT
36013395 TA
1 TA
36013397 AATCAATAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.38
Consensus pattern (16 bp):
TATTGTTAAACGGGGT
Found at i:36021059 original size:29 final size:29
Alignment explanation
Indices: 36021027--36021089 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
36021017 TTTAAGCCCA
*
36021027 CACACATAGTGCCATATAGTCCAAACTCG
1 CACACATAGTGCCATACAGTCCAAACTCG
* * * * *
36021056 CACACTTCGTGCCATACATTTCAAGCTCG
1 CACACATAGTGCCATACAGTCCAAACTCG
36021085 CACAC
1 CACAC
36021090 TCATTGCCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (29 bp):
CACACATAGTGCCATACAGTCCAAACTCG
Found at i:36028987 original size:29 final size:28
Alignment explanation
Indices: 36028953--36029055 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
36028943 TACTCGATCA
*
36028953 CGCACACTTAGTGCCATGTAATTTAAGCC
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
* * ** *
36028982 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
36029011 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
36029040 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
36029056 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
27 2 0.03
28 1 0.02
29 56 0.95
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:36032934 original size:40 final size:40
Alignment explanation
Indices: 36032875--36033082 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
36032865 CAATTGAATG
* * * *
36032875 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
36032915 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
36032955 ACATCCGGGCTAAGACCAGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * *
36032995 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
36033035 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
36033075 ATATCCGG
1 ATATCCGG
36033083 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:36034882 original size:2 final size:2
Alignment explanation
Indices: 36034875--36034901 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36034865 GTTCGATCAG
36034875 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36034902 GAGTACGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36034991 original size:29 final size:29
Alignment explanation
Indices: 36034935--36034999 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
36034925 TACTCGATTT
* * * *
36034935 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACATAGTGCCATACCATTCAAGCC
* *
36034964 CGCACACATAGTGCCATACCCTTCAAGCT
1 CGCACACATAGTGCCATACCATTCAAGCC
36034993 CGCACAC
1 CGCACAC
36035000 CCAGTGCCGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.37, G:0.17, T:0.20
Consensus pattern (29 bp):
CGCACACATAGTGCCATACCATTCAAGCC
Found at i:36035026 original size:29 final size:29
Alignment explanation
Indices: 36035002--36035124 Score: 237
Period size: 29 Copynumber: 4.2 Consensus size: 29
36034992 TCGCACACCC
*
36035002 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
36035031 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
36035060 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
36035089 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
36035118 AGTGCCA
1 AGTGCCA
36035125 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 93 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:36035027 original size:58 final size:58
Alignment explanation
Indices: 36034965--36035124 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
36034955 ATTTAAGCCC
* * *
36034965 GCACACATAGTGCCATACCCTTCAAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCAAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * * **
36035023 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCAAGCATGCACACCCAGTGCCATATATTTCCAGCAT
* * * **
36035081 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 GCACACTTAGTGCCATACACTTCAAGCATGCACACCCAGTGCCA
36035125 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
58 92 0.99
59 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCAAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:36035056 original size:87 final size:87
Alignment explanation
Indices: 36034965--36035124 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 87
36034955 ATTTAAGCCC
* *
36034965 GCACACATAGTGCCATACCCTTCAAGC-TCGCACACCCAGTGCCGTATATTTCCAGCATGCACAC
1 GCACACATAGTGCCATACACTTCAAGCAT-GCACACCCAGTGCCATATATTTCCAGCATGCACAC
36035029 TTAGTGCCATATATTTCCAGCAT
65 TTAGTGCCATATATTTCCAGCAT
* * * * **
36035052 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCATGCACACT
1 GCACACATAGTGCCATACACTTCAAGCATGCACACCCAGTGCCATATATTTCCAGCATGCACACT
36035117 TAGTGCCA
66 TAGTGCCA
36035125 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (87 bp):
GCACACATAGTGCCATACACTTCAAGCATGCACACCCAGTGCCATATATTTCCAGCATGCACACT
TAGTGCCATATATTTCCAGCAT
Found at i:36040607 original size:42 final size:41
Alignment explanation
Indices: 36040507--36040655 Score: 156
Period size: 42 Copynumber: 3.6 Consensus size: 41
36040497 CGCACCAATG
* *** * *
36040507 CCATATCCCAGATATGGTCTTACATGGGGTTCGTATCGATGT
1 CCATATCCCAGATATGGTCTTACACGAAATTCATATCGAT-A
* *
36040549 CAATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCGATA
1 CCATATCCCAGA-TATGGTCTTACACGAAAT-TCATATCGATA
* *
36040591 CCATATCCCAGATATGGTCTTACACGAAAATTCATATTGATG
1 CCATATCCCAGATATGGTCTTACACG-AAATTCATATCGATA
*
36040633 CCATTTCCCAGATATGGTCTTAC
1 CCATATCCCAGATATGGTCTTAC
36040656 GCATAGTCTC
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 75 0.83
43 14 0.16
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (41 bp):
CCATATCCCAGATATGGTCTTACACGAAATTCATATCGATA
Found at i:36045313 original size:29 final size:29
Alignment explanation
Indices: 36045281--36045383 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
36045271 GTGACGAGAT
* *
36045281 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* *
36045310 TGGCACTAAGTGTGCGAGTTTGAACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
36045339 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
36045368 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
36045384 TGATCGAGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 3 0.05
29 60 0.95
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:36046655 original size:29 final size:29
Alignment explanation
Indices: 36046623--36046687 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
36046613 CACGGCCAAA
*
36046623 ACACATGCCCATGAGGCAAGCCGTGTTTC
1 ACACATGCCCATGAGGCAAGCCGTGTGTC
*
36046652 ACACATGCCCATGGGGCAAGCCGTGTGTC
1 ACACATGCCCATGAGGCAAGCCGTGTGTC
36046681 ACACATG
1 ACACATG
36046688 GCATAGACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.25, C:0.31, G:0.26, T:0.18
Consensus pattern (29 bp):
ACACATGCCCATGAGGCAAGCCGTGTGTC
Found at i:36053194 original size:66 final size:66
Alignment explanation
Indices: 36053095--36053281 Score: 313
Period size: 66 Copynumber: 2.8 Consensus size: 66
36053085 AACACTCAGT
* * * *
36053095 ACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
1 ACCACGCATGCGACCTAGCTACATATATC-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTG
36053159 GA
65 GA
36053161 ACCACGCATGCGACCTAGCTACATATATCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
1 ACCACGCATGCGACCTAGCTACATATATCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
36053226 A
66 A
36053227 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGCTACATATAT-CCGTAGCTCTCTTGTCTACATGGTGT
36053282 ACACATAGTA
Statistics
Matches: 115, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
66 83 0.72
67 32 0.28
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.30
Consensus pattern (66 bp):
ACCACGCATGCGACCTAGCTACATATATCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
A
Found at i:36055167 original size:197 final size:197
Alignment explanation
Indices: 36054801--36055197 Score: 742
Period size: 198 Copynumber: 2.0 Consensus size: 197
36054791 GAAATTTTCA
*
36054801 CACAATCATGCAATCATGTCATAGACCTAAAATAATCATAAAATAATTATTTCTATCTCGAATTT
1 CACAATCATGCAATCATATCATAGACCTAAAATAATCATAAAATAATTATTTCTATCTCGAATTT
*
36054866 TGTGGTCCGGAAACCTCTGTTCCAACTAGACCCAATTTTAGGCTATTACACTCCCCCTTAGGGAT
66 TGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTAGGCTATTACACTCCCCCTTAGGGAT
*
36054931 TTTCGTCCCCGAAAATCTTACCAGTGTATAGGTTAGGATAATGTTTCTCATAGCTCCCTCGGGCT
131 TTTCGTCCCCAAAAATCTTACCAGTGTATAGGTTAGGATAATGTTTCTCATAGCTCCCTCGGGCT
36054996 CC
196 CC
36054998 CACAATCATGCAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTCTATCTCGAATT
1 CACAATCATGCAATCATATCATAGACCT-AAAATAATCATAAAATAATTATTTCTATCTCGAATT
*
36055063 TTGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTGGGCTATTACACTCCCCCTTAGGGA
65 TTGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTAGGCTATTACACTCCCCCTTAGGGA
36055128 TTTTCGT-CCCAAAAATCTTACCAGTGTATAGGTTAGGATAATGTTTCTCATAGCTCCCTCGGGC
130 TTTTCGTCCCCAAAAATCTTACCAGTGTATAGGTTAGGATAATGTTTCTCATAGCTCCCTCGGGC
36055192 TCC
195 TCC
36055195 CAC
1 CAC
36055198 GTAGCCTCTT
Statistics
Matches: 195, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
197 89 0.46
198 106 0.54
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (197 bp):
CACAATCATGCAATCATATCATAGACCTAAAATAATCATAAAATAATTATTTCTATCTCGAATTT
TGTGGTCCCGAAACCTCTGTTCCAACTAGACCCAATTTTAGGCTATTACACTCCCCCTTAGGGAT
TTTCGTCCCCAAAAATCTTACCAGTGTATAGGTTAGGATAATGTTTCTCATAGCTCCCTCGGGCT
CC
Found at i:36057019 original size:29 final size:28
Alignment explanation
Indices: 36056917--36057020 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
36056907 GTGACAAGAT
*
36056917 TGGCACTAAGTGTGCAAGCTTGAAATATA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
* *
36056946 TGGCACTAAGTGTGCGAACTTAAATTGTA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
36056975 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
36057004 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
36057021 AATCGATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:36058538 original size:46 final size:46
Alignment explanation
Indices: 36058471--36058649 Score: 236
Period size: 46 Copynumber: 3.9 Consensus size: 46
36058461 TGTAACCCGC
* * *
36058471 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGTAT
*
36058517 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGT-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCGTAT
* * * * *
36058563 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGTAT
36058610 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
36058650 CCAAATATCC
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
45 2 0.02
46 74 0.65
47 36 0.32
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGTAT
Found at i:36058591 original size:93 final size:93
Alignment explanation
Indices: 36058479--36058650 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
36058469 GCCCATAAGT
** * *
36058479 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36058544 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
36058572 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36058637 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
36058651 CAAATATCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:36061012 original size:30 final size:30
Alignment explanation
Indices: 36060968--36061056 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
36060958 CAAAGATAAC
36060968 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
36060997 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
36061027 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
36061057 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:36061016 original size:15 final size:15
Alignment explanation
Indices: 36060968--36061047 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
36060958 CAAAGATAAC
*
36060968 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
36060982 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
36060997 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
36061012 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
36061027 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
36061042 AAGAAA
1 AAGAAA
36061048 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:36061056 original size:15 final size:15
Alignment explanation
Indices: 36060979--36061056 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
36060969 AGAAAACCGA
36060979 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
36060994 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
36061008 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
36061023 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
36061039 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
36061054 ATA
1 ATA
36061057 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:36064110 original size:93 final size:93
Alignment explanation
Indices: 36063998--36064169 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
36063988 GCCCATAAGT
* *
36063998 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36064063 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
36064091 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36064156 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
36064170 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:36064165 original size:46 final size:46
Alignment explanation
Indices: 36063990--36064165 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
36063980 TGTAACCCGC
* * *
36063990 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
36064036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
36064086 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
36064129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36064166 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:36072872 original size:29 final size:29
Alignment explanation
Indices: 36072839--36072998 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
36072829 GTGACGAGAT
36072839 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36072868 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
36072897 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
36072926 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
36072955 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
36072984 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
36072999 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:36075649 original size:26 final size:26
Alignment explanation
Indices: 36075612--36075665 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
36075602 GTCTGAGTCT
*
36075612 GAGTCATGTTAATAGTGAGTTAAAAA
1 GAGTCATCTTAATAGTGAGTTAAAAA
*
36075638 GAGTCATCTTAATATTGAGTTAAAAA
1 GAGTCATCTTAATAGTGAGTTAAAAA
36075664 GA
1 GA
36075666 TAAAACGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (26 bp):
GAGTCATCTTAATAGTGAGTTAAAAA
Found at i:36076119 original size:13 final size:13
Alignment explanation
Indices: 36076101--36076125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36076091 AACGCCTAGT
36076101 TTAAAAGTGCTTC
1 TTAAAAGTGCTTC
36076114 TTAAAAGTGCTT
1 TTAAAAGTGCTT
36076126 TTGGGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
TTAAAAGTGCTTC
Found at i:36084258 original size:93 final size:93
Alignment explanation
Indices: 36084146--36084317 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
36084136 GCCCATAAGT
*
36084146 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
36084210 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
36084239 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
36084304 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
36084318 CAAATATCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
93 74 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:36084312 original size:46 final size:46
Alignment explanation
Indices: 36084138--36084313 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
36084128 TGTAACCCGC
* *
36084138 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CGCTCGCAT
* *
36084184 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
36084234 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
36084277 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
36084314 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.59
47 34 0.30
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:36084332 original size:46 final size:45
Alignment explanation
Indices: 36084189--36084332 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
36084179 CGCATCCATA
* *
36084189 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
36084237 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
36084282 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
36084328 AGTGA
1 AGTGA
36084333 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:36088145 original size:32 final size:32
Alignment explanation
Indices: 36088104--36088165 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
36088094 CTGGATTTCT
36088104 TCCCCTTTTATCAAATATATCAATGTTAATGA
1 TCCCCTTTTATCAAATATATCAATGTTAATGA
36088136 TCCCCTTTTATCAAATATATCAATGTTAAT
1 TCCCCTTTTATCAAATATATCAATGTTAAT
36088166 AAACACTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (32 bp):
TCCCCTTTTATCAAATATATCAATGTTAATGA
Found at i:36091665 original size:46 final size:47
Alignment explanation
Indices: 36091563--36091781 Score: 148
Period size: 46 Copynumber: 4.7 Consensus size: 47
36091553 ATTAGGTGAG
* *
36091563 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CA-TTGA-GACG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATGATGACT
* *
36091609 AGGGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-T
1 A--GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGACT
* ** * * * *
36091657 AGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTA-AAGAGGAGT
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACATGATGACT
* * * * *
36091706 -GCCAATGTAGGACATGTCT-GGACATGCATCGGCCTCAACGATGA-T
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGACT
* *
36091751 AGCCAGTGTAAGACGTGCCTGGGACATGCAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCAT
36091782 AGGCTAAGCT
Statistics
Matches: 136, Mismatches: 24, Indels: 25
0.74 0.13 0.14
Matches are distributed among these distances:
45 8 0.06
46 45 0.33
47 45 0.33
48 34 0.25
49 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGACT
Found at i:36091675 original size:47 final size:45
Alignment explanation
Indices: 36091562--36091685 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 45
36091552 AATTAGGTGA
36091562 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCATTGAGAC
*
36091608 GAGGGCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATT-ATGA-
1 GA--GCCAGTGTAAGACCATGTCTGGGACATGCATCAG---CATTGA-GAC
* *
36091656 TAGCCAGTGTAAGACCATGTTTGGGACATG
1 GAGCCAGTGTAAGACCATGTCTGGGACATG
36091686 GCATTGGCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
46 20 0.30
47 28 0.42
48 13 0.19
49 6 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCATTGAGAC
Found at i:36091688 original size:94 final size:94
Alignment explanation
Indices: 36091563--36091778 Score: 258
Period size: 94 Copynumber: 2.3 Consensus size: 94
36091553 ATTAGGTGAG
* * *
36091563 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATT-GAGACGAGGGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC-TTAAAGACGAGGGCCAATGTAAGACAT
**
36091627 GTCTGGGACATGCATCAGCCAC-ATTATGAT
65 GTCT-GGACATGCATCAGCCACAACGATGAT
* ** * * *
36091657 AGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCTTAAAGAGGAGTGCCAATGTAGGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTAAAGACGAGGGCCAATGTAAGACATG
* *
36091722 TCTGGACATGCATCGGCCTCAACGATGAT
66 TCTGGACATGCATCAGCCACAACGATGAT
* *
36091751 AGCCAGTGTAAGA-CGTGCCTGGGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATG
36091779 CATAGGCTAA
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 29 0.28
94 75 0.72
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCTTAAAGACGAGGGCCAATGTAAGACATG
TCTGGACATGCATCAGCCACAACGATGAT
Found at i:36094195 original size:40 final size:40
Alignment explanation
Indices: 36094031--36094195 Score: 174
Period size: 40 Copynumber: 4.1 Consensus size: 40
36094021 CGAAATTTAA
** *
36094031 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * ** *
36094071 CCGGTTATAGTAACTCGCATAAATGCCTTCTAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36094111 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
36094151 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36094191 CCGGA
1 CCGGA
36094196 CATCATTCGA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 89 0.86
41 11 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36102302 original size:40 final size:40
Alignment explanation
Indices: 36102157--36102302 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
36102147 ACTACTCGTT
* * *
36102157 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* * *
36102197 TAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCT-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-TGCA
* *
36102237 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
36102278 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36102303 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.04
40 76 0.85
41 9 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:36105638 original size:47 final size:46
Alignment explanation
Indices: 36105580--36105895 Score: 158
Period size: 47 Copynumber: 6.7 Consensus size: 46
36105570 CGAGGGCTAT
* *
36105580 TGTAAGACATGTCTGGGACATGCATCAACCACGTTATGACAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACCACGTGATGACAGCCAG
* *** * * ** *
36105626 TGTAAGACCATGTCTGGGACATGGCATTAGTGTA-GAGAGGAGTGCCAA
1 TGTAAGA-CATGTCTGGGACAT-GCA-TCGACCACGTGATGACAGCCAG
* ** * * * *
36105674 TGTGAGACATGTCTAAGACATGCATCGGCCTCGACGATGATAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCGACCACG-TGATGACAGCCAG
* * * * *
36105721 TGTAAGACGTGTCTGGGACATGCATCGACTAAGCT--T--CGTGCTAG
1 TGTAAGACATGTCTGGGACATGCATCGACCACG-TGATGAC-AGCCAG
* * * * *
36105765 TGTAAGACATGTCTGGGACATGCATC-AGCACGTATACATGAGAACTAG
1 TGTAAGACATGTCTGGGACATGCATCGACCACG--T-GATGACAGCCAG
* * * *
36105813 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAAGATAGCCAG
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACCACG-TGATGACAGCCAG
* *
36105862 TGTAAGACCATGTCTAGGACATGGCATCGGCCAC
1 TGTAAGA-CATGTCTGGGACAT-GCATCGACCAC
36105896 TTAACCCATG
Statistics
Matches: 200, Mismatches: 55, Indels: 27
0.71 0.20 0.10
Matches are distributed among these distances:
43 3 0.01
44 30 0.15
45 3 0.01
46 11 0.05
47 60 0.30
48 28 0.14
49 55 0.28
50 7 0.04
51 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGACCACGTGATGACAGCCAG
Found at i:36105646 original size:94 final size:93
Alignment explanation
Indices: 36105526--36105843 Score: 286
Period size: 94 Copynumber: 3.4 Consensus size: 93
36105516 ATTATGTGAG
* * *
36105526 AGCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTATTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAATGTAAGACATG
36105591 TCTGGGACATGCATCAACCACGTTATGAC
66 TCTGGGACATGCATC-ACCACGTTATGAC
** ** * * * *
36105620 AGCCAGTGTAAGACCATGTCTGGGACATGGCATTAGTGTAGAGAGGAGTGCCAATGTGAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAATGTAAGACATG
** * * ** *
36105685 TCTAAGACATGCATCGGCCTCGACGATGAT
66 TCTGGGACATGCATC-ACCACG-TTATGAC
* * * ** *
36105715 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATC-G-ACTAAG-CTTCGTGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC-GAGTGCTAATGTAAGACAT
* *
36105775 GTCTGGGACATGCATCAGCACGTATACATGAG
65 GTCTGGGACATGCATCACCACGT-T--ATGAC
* *
36105807 AACTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
36105844 CTCGATGAAG
Statistics
Matches: 173, Mismatches: 42, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
90 3 0.02
91 30 0.17
92 16 0.09
93 17 0.10
94 89 0.51
95 18 0.10
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAATGTAAGACATG
TCTGGGACATGCATCACCACGTTATGAC
Found at i:36115707 original size:367 final size:367
Alignment explanation
Indices: 36115025--36115763 Score: 1444
Period size: 367 Copynumber: 2.0 Consensus size: 367
36115015 GCCTTGATAT
*
36115025 TAAATGATATGTAAGTTTATATGTAAGTAATACATCACTATTACTTGTATTATGATATTTTATAA
1 TAAATGAGATGTAAGTTTATATGTAAGTAATACATCACTATTACTTGTATTATGATATTTTATAA
36115090 TAATATTGAAAATATGTTTGTGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAAA
66 TAATATTGAAAATATGTTTGTGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAAA
36115155 TCCCGGTTGAACATTCGAAAAGATTGGATGATACAGATGGTATGTAGCTAGGTTACATGTATGGT
131 TCCCGGTTGAACATTCGAAAAGATTGGATGATACAGATGGTATGTAGCTAGGTTACATGTATGGT
36115220 GCTAAGTGCACATCATGTGTACAAGAGAGCTAAGAGACATTATGATGTAGCTAGGTCGCATGGGT
196 GCTAAGTGCACATCATGTGTACAAGAGAGCTAAGAGACATTATGATGTAGCTAGGTCGCATGGGT
36115285 GATACTATGTGTACACCATGTTGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTG
261 GATACTATGTGTACACCATGTTGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTG
36115350 GTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
326 GTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
36115392 TAAACTGAGATGTAAGTTTATATGTAAGTAATACATCACTATTACTTGTATTATGATATTTTATA
1 TAAA-TGAGATGTAAGTTTATATGTAAGTAATACATCACTATTACTTGTATTATGATATTTTATA
36115457 ATAATATTGAAAATATGTTTGTGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAA
65 ATAATATTGAAAATATGTTTGTGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAA
36115522 ATCCCGGTTGAACATTCG-AAAGATTGGATGATACAGATGGTATGTAGCTAGGTTACATGTATGG
130 ATCCCGGTTGAACATTCGAAAAGATTGGATGATACAGATGGTATGTAGCTAGGTTACATGTATGG
*
36115586 TGCTAAGTGCACATCATGTGTACAAGAGAGCTAAGAGACATTATGATGTAGCTAGGTTGCATGGG
195 TGCTAAGTGCACATCATGTGTACAAGAGAGCTAAGAGACATTATGATGTAGCTAGGTCGCATGGG
36115651 TGATACTATGTGTACACCATGTTGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGT
260 TGATACTATGTGTACACCATGTTGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGT
36115716 GGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
325 GGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
36115759 TAAAT
1 TAAAT
36115764 TGGCTAGGTC
Statistics
Matches: 369, Mismatches: 2, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
366 1 0.00
367 226 0.61
368 142 0.38
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (367 bp):
TAAATGAGATGTAAGTTTATATGTAAGTAATACATCACTATTACTTGTATTATGATATTTTATAA
TAATATTGAAAATATGTTTGTGGATAATTACTTGATTGGTGAAATTGTTGGAAAAGAGAGAGAAA
TCCCGGTTGAACATTCGAAAAGATTGGATGATACAGATGGTATGTAGCTAGGTTACATGTATGGT
GCTAAGTGCACATCATGTGTACAAGAGAGCTAAGAGACATTATGATGTAGCTAGGTCGCATGGGT
GATACTATGTGTACACCATGTTGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTG
GTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
Found at i:36115712 original size:64 final size:64
Alignment explanation
Indices: 36115631--36115814 Score: 192
Period size: 67 Copynumber: 2.8 Consensus size: 64
36115621 AGACATTATG
* * * *
36115631 ATGTAGCTAGGTTGCATGGGTGATACTATGTGTACACCATGTTGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTTGACAAGAGAGCTACGAGATAA
* * * * * *
36115695 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTTGACAAGAGAGCTACGAGAT
36115760 AA
63 AA
* * * *
36115762 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATG-TGTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTTG-ACAAGAGAGC
36115815 CAAACTATAT
Statistics
Matches: 96, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 24 0.25
66 22 0.23
67 31 0.32
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTTGACAAGAGAGCTACGAGATAA
Found at i:36124633 original size:43 final size:42
Alignment explanation
Indices: 36124535--36124655 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 42
36124525 TAGGGTTAGT
* * *
36124535 GAGATTACGTGTAAAACCATATCTGAGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
* * *
36124577 GAGACTT-TGTGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAC
*
36124620 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCAT
36124656 TGGAACATTA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:36126751 original size:40 final size:39
Alignment explanation
Indices: 36126707--36126888 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
36126697 GTTCAAAACA
* * ** * *
36126707 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
36126747 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
36126787 CCTTCGGGCTTAGCCCAGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
36126826 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
36126865 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
36126889 CAATTGCACA
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 86 0.68
40 40 0.32
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:36126893 original size:39 final size:39
Alignment explanation
Indices: 36126737--36126891 Score: 247
Period size: 39 Copynumber: 3.9 Consensus size: 39
36126727 TATGGTAACC
* *
36126737 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
36126777 CGCACAATTGCCTTCGGGCTTAGCCCAGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
36126816 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
36126855 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAA
36126892 TTGCACATTC
Statistics
Matches: 106, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:36161376 original size:37 final size:37
Alignment explanation
Indices: 36161323--36161425 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
36161313 CGAATAGTCC
*
36161323 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
36161360 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
36161397 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
36161426 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:36161624 original size:48 final size:48
Alignment explanation
Indices: 36161566--36162038 Score: 847
Period size: 48 Copynumber: 9.9 Consensus size: 48
36161556 ATGTACACAC
*
36161566 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36161614 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
36161662 ATCTCATATATATTTCATATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36161710 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
36161758 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36161806 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36161854 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36161902 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
36161950 ATCTCATATATATTTCACATTAGCTATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36161998 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
36162039 CACATATATA
Statistics
Matches: 405, Mismatches: 20, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 405 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:36165030 original size:24 final size:22
Alignment explanation
Indices: 36165003--36165049 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
36164993 AAACTTTAAT
36165003 ATCTCTTAGTATACTGTTCATATG
1 ATCTCTTAGT-TACT-TTCATATG
* *
36165027 ATCTTTTCGTTACTTTCATATG
1 ATCTCTTAGTTACTTTCATATG
36165049 A
1 A
36165050 AAATAGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (22 bp):
ATCTCTTAGTTACTTTCATATG
Found at i:36167565 original size:42 final size:42
Alignment explanation
Indices: 36167518--36167624 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
36167508 TATTGGTCTC
36167518 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
36167560 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
36167602 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
36167625 ATTTGTACAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:36174387 original size:31 final size:31
Alignment explanation
Indices: 36174352--36174414 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
36174342 ATTTTTGCAA
36174352 GCGTGTTAACTGAAATTTTTACAGCAACATT
1 GCGTGTTAACTGAAATTTTTACAGCAACATT
36174383 GCGTGTTAACTGAAATTTTTACAGCAACATT
1 GCGTGTTAACTGAAATTTTTACAGCAACATT
36174414 G
1 G
36174415 TTCATTCCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (31 bp):
GCGTGTTAACTGAAATTTTTACAGCAACATT
Found at i:36174517 original size:39 final size:41
Alignment explanation
Indices: 36174434--36174618 Score: 143
Period size: 40 Copynumber: 4.7 Consensus size: 41
36174424 GAATCACGTA
* * * * *
36174434 CCTTC-GGA-ATTTAACCGGATATAGTGACTAGCTCGATTG
1 CCTTCGGGACATTTACCCGGATTTAGTAACTCGCACGATTG
* * * *
36174473 TCTTCGGGACA-TTGCCCGG-TTATAGTGATTCGCAC-ATTG
1 CCTTCGGGACATTTACCCGGATT-TAGTAACTCGCACGATTG
*
36174512 CCTTCGGGA-ATTTACCCGGATTTAGTAACTCGCACGAATG
1 CCTTCGGGACATTTACCCGGATTTAGTAACTCGCACGATTG
* * * * *
36174552 CCTTCGGGAC-TTAACCCGGTTTTGGTAACTCGCACAAAATG
1 CCTTCGGGACATTTACCCGGATTTAGTAACTCGCAC-GATTG
* *
36174593 CCTTCGGGAC-TTAACCCGGTTTTAGT
1 CCTTCGGGACATTTACCCGGATTTAGT
36174619 CACTTAGCAC
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 35 0.29
40 55 0.45
41 30 0.25
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (41 bp):
CCTTCGGGACATTTACCCGGATTTAGTAACTCGCACGATTG
Found at i:36174570 original size:79 final size:80
Alignment explanation
Indices: 36174434--36174652 Score: 219
Period size: 79 Copynumber: 2.7 Consensus size: 80
36174424 GAATCACGTA
* * * * * *
36174434 CCTTC-GGAATTTAACCGGATATAGTGACTAGCTCGATTGTCTTCGGGACATT-GCCCGGTTATA
1 CCTTCGGGAATTTACCCGGATTTAGTAACTAGCACGAATGCCTTCGGGAC-TTAGCCCGGTTATA
* * *
36174497 GTGATTCGCAC-ATTG
65 GTAACTCGCACAAATG
* * * *
36174512 CCTTCGGGAATTTACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTGG
1 CCTTCGGGAATTTACCCGGATTTAGTAACTAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAG
36174577 TAACTCGCACAAAATG
66 TAACTCGCAC-AAATG
* * * * * *
36174593 CCTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGAATTTACCCGGATTTAGTAAC-TAGCACGAATGCCTTCGGGACTTAGCCCGG
36174653 ATACCATTCG
Statistics
Matches: 115, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
78 7 0.06
79 54 0.47
81 28 0.24
82 26 0.23
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
CCTTCGGGAATTTACCCGGATTTAGTAACTAGCACGAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:36174605 original size:41 final size:41
Alignment explanation
Indices: 36174510--36174652 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 41
36174500 ATTCGCACAT
* * * *
36174510 TGCCTTCGGGAATTTACCCGGATTTAGTAACTCGCAC-GAA
1 TGCCTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAAA
*
36174550 TGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAAA
1 TGCCTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAAA
* *
36174591 TGCCTTCGGGACTTAACCCGGTTTTAGTCACTTAGCACAAAA
1 TGCCTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAAA
*
36174633 -GCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAACCCGG
36174653 ATACCATTCG
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 33 0.36
41 50 0.54
42 9 0.10
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAAA
Found at i:36177594 original size:28 final size:28
Alignment explanation
Indices: 36177550--36177819 Score: 283
Period size: 28 Copynumber: 9.5 Consensus size: 28
36177540 CTGGCTGATT
*
36177550 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
36177578 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
36177606 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
36177635 TCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
*
36177663 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * *
36177691 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
36177720 TTGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * * * ** *
36177748 TTGCACACACAGTGCCTCAACTATTGATC
1 TCGCACACATAGTG-CTCGATTAAAGAAC
* * *
36177777 TGGCACACATAGTGCTCGGTTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
*
36177805 TTGCACACATAGTGC
1 TCGCACACATAGTGC
36177820 CTCATAATTC
Statistics
Matches: 199, Mismatches: 36, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
27 2 0.01
28 130 0.65
29 65 0.33
30 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:36177645 original size:57 final size:56
Alignment explanation
Indices: 36177550--36177819 Score: 247
Period size: 57 Copynumber: 4.8 Consensus size: 56
36177540 CTGGCTGATT
*
36177550 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGCGCTCAATTAAAGAACTCGCACACATAGTGCTCGATTAAAGAAC
* * * *
36177606 TCGCACACATAGTGCCTCAATTACCA-ATCTCGCACACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGCG-CTCAATTA-AAGAACTCGCACACATAGTGCTCGATTAAAGAAC
* * * *
36177663 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGCGCTCAATTAAAGAACTCGCACACATAGTG-CTCGATTA-AAGAAC
* * * * * * * * ** *
36177720 TTGCACACATAGTGCTCGATTGAAGAACTTGCACACACAGTGCCTCAACTATTGATC
1 TCGCACACATAGCGCTCAATTAAAGAACTCGCACACATAGTG-CTCGATTAAAGAAC
* * ** * *
36177777 TGGCACACATAGTGCTCGGTTGAAGAACTTGCACACATAGTGC
1 TCGCACACATAGCGCTCAATTAAAGAACTCGCACACATAGTGC
36177820 CTCATAATTC
Statistics
Matches: 184, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
55 1 0.01
56 37 0.20
57 144 0.78
58 2 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.23
Consensus pattern (56 bp):
TCGCACACATAGCGCTCAATTAAAGAACTCGCACACATAGTGCTCGATTAAAGAAC
Found at i:36177693 original size:85 final size:85
Alignment explanation
Indices: 36177550--36177756 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
36177540 CTGGCTGATT
* * *
36177550 TCGCACACATAGCGCTCGATTAAAGAACTCGCACACATAGTGCTCGATTAAAGAACTCGCACACA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGCGCTCGATTAAAGAACTCGCACACA
36177615 TAGTGCCTCAATTACCAATC
66 TAGTGCCTCAATTACCAATC
36177635 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGCGCTCGATTAAAGAACTCGCACACA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGCGCTCGATTAAAGAACTCGCACACA
36177700 TAGTGCCTCAATTACCAATC
66 TAGTGCCTCAATTACCAATC
* *
36177720 TTGCACACATAGTGCTCGATTGAAGAACTTGCACACA
1 TCGCACACATAGTGCTCGATTGAAGAACTCGCACACA
36177757 CAGTGCCTCA
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 117 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (85 bp):
TCGCACACATAGTGCTCGATTGAAGAACTCGCACACATAGCGCTCGATTAAAGAACTCGCACACA
TAGTGCCTCAATTACCAATC
Found at i:36177896 original size:40 final size:40
Alignment explanation
Indices: 36177829--36178104 Score: 421
Period size: 40 Copynumber: 6.9 Consensus size: 40
36177819 CCTCATAATT
* *
36177829 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
* * *
36177868 CTAGCACGAATGCTCTTCGGGACTTAGCCCGAATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
36177908 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
36177948 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
36177988 CCAGTACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
36178028 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
36178068 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
36178105 TAACTCTCAA
Statistics
Matches: 222, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 14 0.06
40 208 0.94
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:36177900 original size:23 final size:23
Alignment explanation
Indices: 36177869--36177935 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
36177859 GATATATCAC
36177869 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * *
36177892 TAGCCCGAAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
36177909 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
36177932 TAGC
1 TAGC
36177936 CCGGATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 9 0.28
18 3 0.09
19 2 0.06
21 2 0.06
22 3 0.09
23 13 0.41
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:36179435 original size:37 final size:37
Alignment explanation
Indices: 36179383--36179484 Score: 177
Period size: 37 Copynumber: 2.8 Consensus size: 37
36179373 GAATAGTCCT
* *
36179383 CACACGTAGTTATCGGGTCTTATCCGGACAAAATCTC
1 CACACGTAGTCATCGGGTCTTACCCGGACAAAATCTC
*
36179420 CACACGTAGTCATCGGGTCTTACCCGGACATAATCTC
1 CACACGTAGTCATCGGGTCTTACCCGGACAAAATCTC
36179457 CACACGTAGTCATCGGGTCTTACCCGGA
1 CACACGTAGTCATCGGGTCTTACCCGGA
36179485 ATATATTTCC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.25
Consensus pattern (37 bp):
CACACGTAGTCATCGGGTCTTACCCGGACAAAATCTC
Found at i:36179683 original size:48 final size:48
Alignment explanation
Indices: 36179625--36180099 Score: 842
Period size: 48 Copynumber: 9.9 Consensus size: 48
36179615 ATGTACACAC
*
36179625 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36179673 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
36179721 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36179769 ATCTCATACATATTTCACACTACCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
36179817 ATCTCATATATATTTCACACTAGCCATTAGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
36179865 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
36179913 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACCT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36179961 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTA-C-CACATATACAT
36180011 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
36180059 ATCTCATACATATTTCACACTAGTCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
36180100 CACATATATA
Statistics
Matches: 408, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 360 0.88
49 2 0.00
50 46 0.11
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:36186384 original size:24 final size:26
Alignment explanation
Indices: 36186332--36186384 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
36186322 TTTCGATAGA
*
36186332 GATTATAAGTTGAGAATAATTTATTTT
1 GATTATAAGTTGAGAAT-ATTTATCTT
*
36186359 GATTATGAGTTGAGAAT-TTT-TCTT
1 GATTATAAGTTGAGAATATTTATCTT
36186383 GA
1 GA
36186385 GGACAAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 3 0.12
27 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (26 bp):
GATTATAAGTTGAGAATATTTATCTT
Found at i:36196398 original size:40 final size:40
Alignment explanation
Indices: 36196342--36196599 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
36196332 TGGATGATAA
* *
36196342 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-TAT
* *
36196382 ACGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
36196422 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
36196462 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATAT
* *
36196502 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
36196542 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATAT
* *
36196582 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36196600 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.08
40 183 0.92
41 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:36196555 original size:120 final size:120
Alignment explanation
Indices: 36196342--36196599 Score: 387
Period size: 120 Copynumber: 2.2 Consensus size: 120
36196332 TGGATGATAA
* *
36196342 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTACGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTACGGGCTAAGTCCCGAAGGCATTGG
* * *
36196407 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
66 TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
* *
36196462 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TACGGGCTAAGTCCCGAAGGCATT
*
36196525 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
64 GGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
* *
36196582 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
36196600 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
119 15 0.12
120 109 0.87
121 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTACGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTAGCTATAT
Found at i:36200878 original size:28 final size:27
Alignment explanation
Indices: 36200838--36200907 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
36200828 AAATTTGTAC
36200838 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
36200866 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
*
36200893 AACACTAAGTGTGCG
1 AGCACTAAGTGTGCG
36200908 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:36200918 original size:27 final size:27
Alignment explanation
Indices: 36200840--36200919 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
36200830 ATTTGTACAG
* * * *
36200840 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGAG-CTCACTATATAA
* * *
36200868 CACTAAGTGTGCGAGTTGATTATATAA
1 CACTAAGTGTGCGAGCTCACTATATAA
36200895 CACTAAGTGTGCG-GACTCACTATAT
1 CACTAAGTGTGCGAG-CTCACTATAT
36200920 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 31 0.66
28 15 0.32
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (27 bp):
CACTAAGTGTGCGAGCTCACTATATAA
Found at i:36204512 original size:38 final size:35
Alignment explanation
Indices: 36204455--36204572 Score: 126
Period size: 31 Copynumber: 3.5 Consensus size: 35
36204445 TCAATCATGC
*
36204455 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
*
36204494 ACTGGGCTGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
36204525 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
36204556 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
36204573 ACTGTAAACG
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
31 48 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 10 0.13
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:36204516 original size:31 final size:31
Alignment explanation
Indices: 36204478--36204572 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
36204468 CCTTTTCATA
* *
36204478 TTTCATATTTCATAATACTGGGCTGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
36204509 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
36204540 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
36204571 TT
1 TT
36204573 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:36204815 original size:24 final size:24
Alignment explanation
Indices: 36204764--36204906 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
36204754 GCTTTATCAT
*
36204764 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
36204789 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
36204813 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
36204836 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
36204860 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
36204884 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
36204907 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:36204843 original size:47 final size:48
Alignment explanation
Indices: 36204764--36204905 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
36204754 GCTTTATCAT
* *
36204764 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
36204813 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
36204860 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
36204906 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:36204864 original size:71 final size:72
Alignment explanation
Indices: 36204763--36204906 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
36204753 TGCTTTATCA
*
36204763 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
36204828 GCCCTTT
66 GCCCTTT
* * **
36204835 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
36204898 AGCCCTTT
65 AGCCCTTT
36204906 T
1 T
36204907 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:36204982 original size:20 final size:20
Alignment explanation
Indices: 36204957--36205016 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
36204947 TATGATTACC
36204957 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
36204977 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
36204997 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
36205017 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:36205091 original size:25 final size:25
Alignment explanation
Indices: 36205059--36205106 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36205049 ATACATAAAC
* * *
36205059 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
36205084 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
36205107 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:36206295 original size:27 final size:27
Alignment explanation
Indices: 36206265--36206329 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
36206255 GGGCATATTC
36206265 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
36206292 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
36206319 GTCTTTTTACC
1 GTCATTTTACC
36206330 TAATAGGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:36206413 original size:27 final size:27
Alignment explanation
Indices: 36206361--36206598 Score: 188
Period size: 27 Copynumber: 8.7 Consensus size: 27
36206351 TTCATCCTAC
* * * *
36206361 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** *
36206388 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * *
36206415 AATGGTATTTCTATAATTTTTAGAAAGT
1 AAGGGTATTTCGGTAA-TTTTACAAACT
* * ** *
36206443 CAAGGGTATTTCTGTAACTTTGTAAATT
1 -AAGGGTATTTCGGTAATTTTACAAACT
* * *
36206471 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * *
36206498 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
36206525 AAAGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
36206552 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
**
36206579 AAGGGTATTTTAGTAATTTT
1 AAGGGTATTTCGGTAATTTT
36206599 GTAAATCGAG
Statistics
Matches: 167, Mismatches: 42, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
27 139 0.83
28 14 0.08
29 14 0.08
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:36206532 original size:54 final size:54
Alignment explanation
Indices: 36206474--36206612 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
36206464 GTAAATTAGG
36206474 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAA
1 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAA
* * * * *
36206528 GGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAAG
1 GGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAA
* ** *
36206582 GGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGTATTTTGGTAATTTTACAAATTGAGGGTA
36206613 AAATAGTAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.97
55 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAA
Done.