Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 30 of 120
Found at i:3288441 original size:45 final size:45
Alignment explanation
Indices: 3288392--3288503 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 45
3288382 TGCTGGCGGC
* *
3288392 TGCCTCGATCACCATCGGCACAAGCCGACCCTTCGTACGGGCGAT
1 TGCCTCGAACACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
* * * * *
3288437 TGCCT-TAACCACCATCGGCACAAGATGGCCCTTGGTGCGGGCGAT
1 TGCCTCGAA-CACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
* *
3288482 TACATCGAACACCATCGGCACA
1 TGCCTCGAACACCATCGGCACA
3288504 TGCTGGGCCG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.02
45 52 0.95
46 2 0.04
ACGTcount: A:0.23, C:0.35, G:0.24, T:0.18
Consensus pattern (45 bp):
TGCCTCGAACACCATCGGCACAAGACGACCCTTCGTACGGGCGAT
Found at i:3288518 original size:45 final size:45
Alignment explanation
Indices: 3288446--3288550 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
3288436 TTGCCTTAAC
* *
3288446 CACCATCGGCACAAGATGGCCCTTGGTGCGGGCGATTACATCGAA
1 CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTACATCGAA
* * * * * * *
3288491 CACCATCGGCACATGCTGGGCCGTGGTGTGGGCGGTTGCCTCGAC
1 CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTACATCGAA
*
3288536 CACCATCGTCACATG
1 CACCATCGGCACATG
3288551 TCGAGCCTCG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.19, C:0.31, G:0.30, T:0.19
Consensus pattern (45 bp):
CACCATCGGCACATGATGGCCCGTGGTGCGGGCGATTACATCGAA
Found at i:3289025 original size:26 final size:26
Alignment explanation
Indices: 3288989--3289041 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
3288979 CCGGTTCGAT
3288989 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
3289015 CTTAGACTGGGAATGAACTCCATATG
1 CTTAGACTGGGAATGAACTCCATATG
3289041 C
1 C
3289042 CTAAGTCAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCCATATG
Found at i:3295071 original size:25 final size:25
Alignment explanation
Indices: 3295037--3295087 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
3295027 CCGGTCCAAT
*
3295037 CTTAGACTGGAATGAACTTCGTATG
1 CTTAGACTGGAATGAACTCCGTATG
*
3295062 CTTAGACTGGGATGAACTCCGTATG
1 CTTAGACTGGAATGAACTCCGTATG
3295087 C
1 C
3295088 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (25 bp):
CTTAGACTGGAATGAACTCCGTATG
Found at i:3295567 original size:26 final size:26
Alignment explanation
Indices: 3295537--3295587 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
3295527 GGTATGATCC
* *
3295537 TAGACTAGGAATGAACTCTGTATGCT
1 TAGACTAGGAATAAACTCCGTATGCT
*
3295563 TAGACTGGGAATAAACTCCGTATGC
1 TAGACTAGGAATAAACTCCGTATGC
3295588 CTAAGTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (26 bp):
TAGACTAGGAATAAACTCCGTATGCT
Found at i:3295919 original size:26 final size:26
Alignment explanation
Indices: 3295883--3295935 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3295873 CCGATCCGAT
3295883 CTTAGACTGGGAATGAACT-TCGTATG
1 CTTAGACTGGGAATGAACTCT-GTATG
*
3295909 CTTAGACTGGGGATGAACTCTGTATG
1 CTTAGACTGGGAATGAACTCTGTATG
3295935 C
1 C
3295936 CTAAGTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (26 bp):
CTTAGACTGGGAATGAACTCTGTATG
Found at i:3297358 original size:26 final size:26
Alignment explanation
Indices: 3297317--3297369 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3297307 CCATTCTGAT
* *
3297317 CTTAGACTAGGAATGAAGTTCGTATG
1 CTTAGACTAGGAATGAACTCCGTATG
3297343 CTTAGACT-GGAGATGAACTCCGTATG
1 CTTAGACTAGGA-ATGAACTCCGTATG
3297369 C
1 C
3297370 CTAAGTCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (26 bp):
CTTAGACTAGGAATGAACTCCGTATG
Found at i:3298043 original size:43 final size:45
Alignment explanation
Indices: 3297981--3298113 Score: 137
Period size: 45 Copynumber: 3.0 Consensus size: 45
3297971 TGACACAAGC
* **
3297981 TGGGCCCTGGTG-TGAGTGGTTGTGTCGACCACCATCGGCACA-GA
1 TGGGCCCTGGTGCAG-GTGGTTGCATCGACCACCATCGGCACATGA
* * *
3298025 T-GGCCCTGGTGCAGGTGGTTGCATCGAACACAATCGGCACATGT
1 TGGGCCCTGGTGCAGGTGGTTGCATCGACCACCATCGGCACATGA
** * * *
3298069 TGGGCAGTGGTGCGGGCGGTTGCCTCGACCACCATCGGCACATGA
1 TGGGCCCTGGTGCAGGTGGTTGCATCGACCACCATCGGCACATGA
3298114 CGAGCCCCGA
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
43 33 0.46
44 4 0.06
45 35 0.49
ACGTcount: A:0.17, C:0.26, G:0.35, T:0.21
Consensus pattern (45 bp):
TGGGCCCTGGTGCAGGTGGTTGCATCGACCACCATCGGCACATGA
Found at i:3299309 original size:43 final size:44
Alignment explanation
Indices: 3299195--3299324 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 44
3299185 CGGGGCTCGT
* * * * *
3299195 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCACTGCCCAA
1 CATGTGCCGATGGTGGTCGACGCAACCACCTGCACCA-GGGCCAA
* * * *
3299240 CATGTGCCGATTGTGTTCGATGCAACCACCTGCACCAGGGCCAT
1 CATGTGCCGATGGTGGTCGACGCAACCACCTGCACCAGGGCCAA
* *
3299284 C-TGTGCCGATGGTGGTCGACACAACCA-CTCACACCAGGGCC
1 CATGTGCCGATGGTGGTCGACGCAACCACCT-GCACCAGGGCC
3299325 CAGCTTGTGT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
42 2 0.03
43 32 0.45
44 5 0.07
45 32 0.45
ACGTcount: A:0.21, C:0.35, G:0.27, T:0.17
Consensus pattern (44 bp):
CATGTGCCGATGGTGGTCGACGCAACCACCTGCACCAGGGCCAA
Found at i:3299556 original size:26 final size:27
Alignment explanation
Indices: 3299516--3299573 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
3299506 ACTCCTTCTA
* **
3299516 AAAAAATTTTAAAAAATCTTGAACCAT
1 AAAAAATTTTAAAAAATCATGAAAAAT
*
3299543 AAAAAGTTTT-AAAAATCATGAAAAAT
1 AAAAAATTTTAAAAAATCATGAAAAAT
3299569 AAAAA
1 AAAAA
3299574 CGAGTCGTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAAAATTTTAAAAAATCATGAAAAAT
Found at i:3299967 original size:26 final size:26
Alignment explanation
Indices: 3299938--3299990 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
3299928 GTTGACTTAG
* *
3299938 GCATACGGAGTTCATCTCC-AGTCTAA
1 GCATACGAACTTCAT-TCCTAGTCTAA
3299964 GCATACGAACTTCATTCCTAGTCTAA
1 GCATACGAACTTCATTCCTAGTCTAA
3299990 G
1 G
3299991 ATCAGAATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACGAACTTCATTCCTAGTCTAA
Found at i:3301409 original size:26 final size:26
Alignment explanation
Indices: 3301372--3301424 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3301362 GTTGACTTAG
3301372 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
3301398 GCATAC-GAAGTTCATTCCCAGTCTAA
1 GCATACAG-AGTTCATCCCCAGTCTAA
3301424 G
1 G
3301425 ATCGGATCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:3301750 original size:26 final size:26
Alignment explanation
Indices: 3301721--3301771 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3301711 GTTGACTTAG
* *
3301721 GCATACGGAGTTTATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
3301747 GCATACAGAGTTCATTCCCAGTCTA
1 GCATACAGAGTTCATTCCCAGTCTA
3301772 GGATCATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:3302257 original size:25 final size:25
Alignment explanation
Indices: 3302221--3302271 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
3302211 GTTGACTTAG
*
3302221 GCATACGGAGTTCATCCCAGTCTAA
1 GCATACGAAGTTCATCCCAGTCTAA
*
3302246 GCATACGAAGTTCATTCCAGTCTAA
1 GCATACGAAGTTCATCCCAGTCTAA
3302271 G
1 G
3302272 ATTGGACCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
GCATACGAAGTTCATCCCAGTCTAA
Found at i:3308303 original size:26 final size:27
Alignment explanation
Indices: 3308252--3308305 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
3308242 GTTGACTTAG
3308252 GCATACGAAGTTCATTTCCCAGTCTAA
1 GCATACGAAGTTCATTTCCCAGTCTAA
*
3308279 GCATACGGAGTTCA-TTCCCAGTCTAA
1 GCATACGAAGTTCATTTCCCAGTCTAA
3308305 G
1 G
3308306 ATCGAATCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (27 bp):
GCATACGAAGTTCATTTCCCAGTCTAA
Found at i:3308844 original size:45 final size:45
Alignment explanation
Indices: 3308749--3308981 Score: 170
Period size: 45 Copynumber: 5.2 Consensus size: 45
3308739 AGGCTCGACA
* * * * * *
3308749 TGTGACGATGGTGGTCGAGGCAACCCGCCCACACCACGGCCCAGCA
1 TGTGCCGATGGTGTTCGAGGCAA-CCGCCCGCACCAAGGGCCAGCT
* * *
3308795 TGTGCCGATGGTGTTCGATGCAATCGCCCGCACCAAGGGCCATCT
1 TGTGCCGATGGTGTTCGAGGCAACCGCCCGCACCAAGGGCCAGCT
* * * * * *
3308840 TGTGCTGATGGTGTT-AAGGCAATCGCCCGTACGAAGGGTC-GCT
1 TGTGCCGATGGTGTTCGAGGCAACCGCCCGCACCAAGGGCCAGCT
* * *
3308883 TGTGCGCGATGGTGATCGAGGCAGCCGCCAGCACC-AGGGCCAGCT
1 TGTGC-CGATGGTGTTCGAGGCAACCGCCCGCACCAAGGGCCAGCT
* * * ** * *
3308928 TCTGCCGATGGAG-TCGAGGTAAATGCCCGTACCAAAGGG-CAGCC
1 TGTGCCGATGGTGTTCGAGGCAACCGCCCGCACC-AAGGGCCAGCT
*
3308972 TGTACCGATG
1 TGTGCCGATG
3308982 ATGGTCGATG
Statistics
Matches: 146, Mismatches: 36, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
43 21 0.14
44 52 0.36
45 53 0.36
46 20 0.14
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (45 bp):
TGTGCCGATGGTGTTCGAGGCAACCGCCCGCACCAAGGGCCAGCT
Found at i:3309891 original size:26 final size:26
Alignment explanation
Indices: 3309862--3309914 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3309852 GTTAACTTAG
* *
3309862 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATAAGGAGTTCATCCCCAATCTAA
*
3309888 GCATAAGGAGTTCATTCCCAATCTAA
1 GCATAAGGAGTTCATCCCCAATCTAA
3309914 G
1 G
3309915 ATGGGATAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATAAGGAGTTCATCCCCAATCTAA
Found at i:3310253 original size:26 final size:26
Alignment explanation
Indices: 3310216--3310266 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
3310206 GTTGACTTAG
*
3310216 GCATACGGAGTTCATTCCCAATCTAA
1 GCATACGAAGTTCATTCCCAATCTAA
*
3310242 GCATACGAAGTTCATTCCCAGTCTA
1 GCATACGAAGTTCATTCCCAATCTA
3310267 GGATCGGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAATCTAA
Found at i:3310850 original size:45 final size:45
Alignment explanation
Indices: 3310705--3310850 Score: 134
Period size: 45 Copynumber: 3.2 Consensus size: 45
3310695 GGCCTTAGAA
* * * *
3310705 TGTGCCGATGGTGGTCGAGGCAACCGCCTGCACCACGGCCCAGCA
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACAAGGGCCCAGCT
* * * * * *
3310750 TGTACCAATGGTGTTCGATGCAACCGCCCGCACCAAGAG-CCATCT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCA-CAAGGGCCCAGCT
* * * *
3310795 TATGCTGATGGTGGTCGAGGCAACCACCCGCACTAGGGCCCCA-CT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACAAGGG-CCCAGCT
3310840 TGTGCCGATGG
1 TGTGCCGATGG
3310851 CGGTTCAGGT
Statistics
Matches: 77, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
44 4 0.05
45 67 0.87
46 6 0.08
ACGTcount: A:0.20, C:0.33, G:0.29, T:0.18
Consensus pattern (45 bp):
TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACAAGGGCCCAGCT
Found at i:3311834 original size:26 final size:26
Alignment explanation
Indices: 3311804--3311856 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
3311794 GTTGACTTAG
3311804 GCATACGGAGTTCA-TCCCTAGTCTAA
1 GCATACGGAGTTCATTCCC-AGTCTAA
3311830 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
3311856 G
1 G
3311857 ATCAGACCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:3312002 original size:197 final size:196
Alignment explanation
Indices: 3311649--3312028 Score: 480
Period size: 197 Copynumber: 1.9 Consensus size: 196
3311639 TGTAGTGCAC
** * * *
3311649 TCCCAGTCTAAGATTGGATCGGACCGAGGGTTGCGGCAGCAGGACCTGCAGCAGGATCGATAGCA
1 TCCCAGTCTAAGATCAGACCGAACCGAGGGTTACGGCAGCAGGACCTGCAGCAGGATCGATAGCA
* * * * ** *
3311714 CGTAGAGGGGATCGGGTCGATCCTCGGCTTGCGTATCCTACCTCTCTGGCCGGTTGAGTGCCCGC
66 CGCAGAGGGGATCGCGTCGATCCTCGACTTGCGCATCCTACCTCTCTGGCCAATTGAGTCCCCGC
*
3311779 ACACTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATCCC-TAGTCTAAGCATACGGAGTTC
131 ACACTCGTTTCATGGGTTGACTTAGGCATACGAAGTTCATCCCAT-GTCTAAGCATACGGAGTTC
3311843 AT
195 AT
* ** *
3311845 TCCCAGTCTAAGATCAGACCGAACCTAGGGTTACGGTTGCAGGA-CTAGCAGTAGGATCGATAGC
1 TCCCAGTCTAAGATCAGACCGAACCGAGGGTTACGGCAGCAGGACCT-GCAGCAGGATCGATAGC
* * *
3311909 ACGCAGAGAGGGATCGCGTTGATCC-CTGACTTGCGCATTCTACCTTTCTGGCCAATTGAG-CCC
65 ACGCAGAG-GGGATCGCGTCGATCCTC-GACTTGCGCATCCTACCTCTCTGGCCAATTGAGTCCC
* * *
3311972 TCGCACGCTCGTTTCATGGGTTGGCTTAGGCATACGAAGTTCATTCCATGTCTAAGC
128 -CGCACACTCGTTTCATGGGTTGACTTAGGCATACGAAGTTCATCCCATGTCTAAGC
3312029 CCCAACCGGA
Statistics
Matches: 156, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
195 2 0.01
196 62 0.40
197 91 0.58
198 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (196 bp):
TCCCAGTCTAAGATCAGACCGAACCGAGGGTTACGGCAGCAGGACCTGCAGCAGGATCGATAGCA
CGCAGAGGGGATCGCGTCGATCCTCGACTTGCGCATCCTACCTCTCTGGCCAATTGAGTCCCCGC
ACACTCGTTTCATGGGTTGACTTAGGCATACGAAGTTCATCCCATGTCTAAGCATACGGAGTTCA
T
Found at i:3312190 original size:26 final size:26
Alignment explanation
Indices: 3312160--3312212 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3312150 GTTGACTTAG
*
3312160 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
3312186 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
3312212 G
1 G
3312213 ATCATACCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:3315686 original size:26 final size:26
Alignment explanation
Indices: 3315644--3315696 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3315634 GTTGACTTAG
*
3315644 GCATACGAAGATGATTCCCAGTCTAA
1 GCATACGAAGATCATTCCCAGTCTAA
* *
3315670 GCATACGAAGTTCATTCCCATTCTAA
1 GCATACGAAGATCATTCCCAGTCTAA
3315696 G
1 G
3315697 ATCGAACCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (26 bp):
GCATACGAAGATCATTCCCAGTCTAA
Found at i:3316339 original size:45 final size:44
Alignment explanation
Indices: 3316150--3316345 Score: 171
Period size: 45 Copynumber: 4.4 Consensus size: 44
3316140 GGGCTCGGCA
* * ** * *
3316150 TGTGCTGATGGTGGTCGAGGCAACTGGTCGCACCACGGCCCAATA
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCC-ATT
* * *
3316195 TGTGCCGATGGTGTTCGATGCAACCGCCCGCACCAGGGGCCATCT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAT-T
* * *
3316240 TGTGCCGATGGTGGTCGACGCAATCGCCCGCACCAAAGGCCGGCA--
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACC-AGGGCC--CATT
* * *
3316285 TGTGTCGATGGTGATCGAGGCAACCGCCCACACCAGGGCCCAATT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCC-ATT
* *
3316330 TATGCCGATGGCGGTC
1 TGTGCCGATGGTGGTC
3316346 CAGGTAAGTG
Statistics
Matches: 120, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 7 0.06
45 105 0.88
46 4 0.03
48 2 0.02
ACGTcount: A:0.19, C:0.31, G:0.32, T:0.18
Consensus pattern (44 bp):
TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCATT
Found at i:3317314 original size:26 final size:26
Alignment explanation
Indices: 3317285--3317337 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3317275 GGTTGACTTG
*
3317285 GCATACAGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCAAGTCTAA
* *
3317311 GCATACGGAGTTCATTCCAAGTCTAA
1 GCATACAGAGTTCATCCCAAGTCTAA
3317337 G
1 G
3317338 ATCGAACCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCAAGTCTAA
Found at i:3317457 original size:195 final size:196
Alignment explanation
Indices: 3317131--3317508 Score: 478
Period size: 195 Copynumber: 1.9 Consensus size: 196
3317121 CGTAGTGTGC
* * *
3317131 TCCAAGTCTAAGATTGAGCCAGACTGAGGGTTATGGTAGCAGGACCTGCAACAGGATCGATAGCA
1 TCCAAGTCTAAGATCGAACCAGACTGAGGGTTATGGTAGCAGGACCAGCAACAGGATCGATAGCA
* * * * * * * *
3317196 CATAGAAGGGACCAGGTCGATCCTCGACTTACGTATTCTGCCCCTCTGGCCGGCTGAGCGCCCGT
66 CACAGAAGGGACCAGCTCGATCCCCGACTTACGCATTCTGCCCCTCCGACCGACTGAGCACCCGT
* *
3317261 ACGCTCGTTTCATGGGTTGACTT-GGCATACAGAGTTCATCCCCA-GTCTAAGCATACGGAGTTC
131 ACACTCATTTCATGGGTTGACTTAGGCATACAGAGTTCAT-CCCATGTCTAAGCATACGGAGTTC
3317324 AT
195 AT
* *
3317326 TCCAAGTCTAAGATCGAACCCGA-TCGAGGGTTACT-GTAGTAGGACCAGCAACAGGATCGATAG
1 TCCAAGTCTAAGATCGAACCAGACT-GAGGGTTA-TGGTAGCAGGACCAGCAACAGGATCGATAG
* ** * *
3317389 CACGCAGGGGGGACCGAGCT-GATCCCCGGCTTACGCATTCTGCCCTTCCGACCGACTGAGCACC
64 CACACAGAAGGGACC-AGCTCGATCCCCGACTTACGCATTCTGCCCCTCCGACCGACTGAGCACC
* * *
3317453 CGTACACTCATTTCATGGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGC
128 CGTACACTCATTTCATGGGTTGACTTAGGCATACAGAGTTCATCCCATGTCTAAGC
3317509 CCCAGTCGGA
Statistics
Matches: 155, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
194 1 0.01
195 127 0.82
196 27 0.17
ACGTcount: A:0.24, C:0.27, G:0.26, T:0.23
Consensus pattern (196 bp):
TCCAAGTCTAAGATCGAACCAGACTGAGGGTTATGGTAGCAGGACCAGCAACAGGATCGATAGCA
CACAGAAGGGACCAGCTCGATCCCCGACTTACGCATTCTGCCCCTCCGACCGACTGAGCACCCGT
ACACTCATTTCATGGGTTGACTTAGGCATACAGAGTTCATCCCATGTCTAAGCATACGGAGTTCA
T
Found at i:3318888 original size:26 final size:26
Alignment explanation
Indices: 3318858--3318910 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3318848 GTTGACTTAG
3318858 GCATACGGAGTTCA-TCTCCAGTCTAA
1 GCATACGGAGTTCATTC-CCAGTCTAA
*
3318884 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
3318910 G
1 G
3318911 ATCGGATCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:3319250 original size:26 final size:26
Alignment explanation
Indices: 3319213--3319265 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3319203 GTTGACTTAG
*
3319213 GCATACGGAGTTCATTCCCAA-TCTAA
1 GCATACGAAGTTCATT-CCAAGTCTAA
3319239 GCATACGAAGTTCATTCCAAGTCTAA
1 GCATACGAAGTTCATTCCAAGTCTAA
3319265 G
1 G
3319266 ATCGAGCCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCAAGTCTAA
Found at i:3320326 original size:26 final size:26
Alignment explanation
Indices: 3320295--3320347 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3320285 ATTGACTTAG
*
3320295 GCATACGGATTTCATCCCCAATCTAA
1 GCATACGGAGTTCATCCCCAATCTAA
* *
3320321 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAATCTAA
3320347 G
1 G
3320348 ATCAGTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAATCTAA
Found at i:3321228 original size:45 final size:45
Alignment explanation
Indices: 3321174--3321331 Score: 174
Period size: 45 Copynumber: 3.5 Consensus size: 45
3321164 TGACCCAGTA
* * * *
3321174 TGTGCCGATGGTGTTCGATGCAACCACCCGCACCAGGGGCCATCT
1 TGTGTCGATGGTGATCGAGGCAACCACCCGCACCAGGGGCCAGCT
* * * * * *
3321219 TAG-GTCGATGGTGGTCGAGGCAATCACCCACACCAAGGGCCGGCA
1 T-GTGTCGATGGTGATCGAGGCAACCACCCGCACCAGGGGCCAGCT
* * *
3321264 TGTGTCGATGGTGATCGAGGCAACCGCCAGCACCAGGGCCCAGCT
1 TGTGTCGATGGTGATCGAGGCAACCACCCGCACCAGGGGCCAGCT
*
3321309 TGTGTCGATGGCGATCGAGGCAA
1 TGTGTCGATGGTGATCGAGGCAA
3321332 GTGCTCGTAC
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.01
45 90 0.98
46 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.17
Consensus pattern (45 bp):
TGTGTCGATGGTGATCGAGGCAACCACCCGCACCAGGGGCCAGCT
Found at i:3322310 original size:26 final size:26
Alignment explanation
Indices: 3322274--3322324 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
3322264 TTGACTTAGG
3322274 CATACGGAGTTCA-TCCCAAGTCTAAC
1 CATACGGAGTTCATTCCC-AGTCTAAC
3322300 CATACGGAGTTCATTCCCAGTCTAA
1 CATACGGAGTTCATTCCCAGTCTAA
3322325 GATCGGATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (26 bp):
CATACGGAGTTCATTCCCAGTCTAAC
Found at i:3322470 original size:196 final size:196
Alignment explanation
Indices: 3322118--3322494 Score: 456
Period size: 196 Copynumber: 1.9 Consensus size: 196
3322108 CGTAAGGCAC
* * ** ** *
3322118 TCCCAGTCTAAGATCAGACCGAACCAAGGGTTACGGTAGCAGGACCTGCAGTAGGATCGATCACA
1 TCCCAGTCTAAGATCAGACAGAACCAAGGGCTACGACAGCAGGACCAACAGCAGGATCGATCACA
* * * * * *
3322183 CGTAGAGGGTATCGGGTCGATCCCTGACTTACGTATCCTGCCTCTCTGGCAGGCTGAGTGCCCGC
66 CGCAGAGGGGATCGGGCCGATCCCCGACTTACGCATCCTGCCTCTCTGGCAGACTGAGTGCCCGC
*
3322248 ACGCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCAAGTCTAACCATACGGAGTTCA
131 ACGCTCATTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCAAGTCTAACCATACGGAGTTCA
3322313 T
196 T
* *
3322314 TCCCAGTCTAAGATCGGATCAG-ACCAAGGGCTGCGACAGCAGGACCAACAGCAGGATCGA-CAA
1 TCCCAGTCTAAGATCAGA-CAGAACCAAGGGCTACGACAGCAGGACCAACAGCAGGATCGATC-A
** * *
3322377 CACGCAGAGGGGATCGGGCCGATCCCCGACTTGTGCATTCTGCCTCT-TCGGCCGACTGAGTGCC
64 CACGCAGAGGGGATCGGGCCGATCCCCGACTTACGCATCCTGCCTCTCT-GGCAGACTGAGTGCC
* ** * * *
3322441 CGTACGCTTGTTTCATGGGTT-AGCTTAGGCATACGGAGTTTATTCCATGTCTAA
128 CGCACGCTCATTTCATGGGTTGA-CTTAGGCATACGGAGTTCATCCCAAGTCTAA
3322495 GCCCCAATCG
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
195 3 0.02
196 146 0.97
197 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (196 bp):
TCCCAGTCTAAGATCAGACAGAACCAAGGGCTACGACAGCAGGACCAACAGCAGGATCGATCACA
CGCAGAGGGGATCGGGCCGATCCCCGACTTACGCATCCTGCCTCTCTGGCAGACTGAGTGCCCGC
ACGCTCATTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCAAGTCTAACCATACGGAGTTCA
T
Found at i:3323242 original size:90 final size:90
Alignment explanation
Indices: 3323100--3323300 Score: 219
Period size: 90 Copynumber: 2.2 Consensus size: 90
3323090 CTCAAAATGA
* * * * *
3323100 GCCGATGGTGGTCGAGGCAACCGCTCGCACCACAGCCCGGCATGTGCCGATGGTG-TTAGATGCA
1 GCCGATGGTGGTCGAGGCAACCGCTCACACCACAGCCCAGCATATGCCGATGGTGATCA-AGGCA
* *
3323164 ACCGCCTGTACCAAGGG-CCATCTTGT
65 ACCGCCCGTACC-AGGGCCCAGCTTGT
* * * * *
3323190 GTCGATGGTGGTCGAGGCAATCGTTCACACGA-AGGGCCAGCATATGCCGATGGTGATCAAGGCA
1 GCCGATGGTGGTCGAGGCAACCGCTCACACCACA-GCCCAGCATATGCCGATGGTGATCAAGGCA
*
3323254 ACTGCCCGTACCAGGGCCCAGCTTGT
65 ACCGCCCGTACCAGGGCCCAGCTTGT
* *
3323280 GCCGATGGTGATCAAGGCAAC
1 GCCGATGGTGGTCGAGGCAAC
3323301 TGCCTGTACC
Statistics
Matches: 91, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
89 5 0.05
90 84 0.92
91 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.32, T:0.18
Consensus pattern (90 bp):
GCCGATGGTGGTCGAGGCAACCGCTCACACCACAGCCCAGCATATGCCGATGGTGATCAAGGCAA
CCGCCCGTACCAGGGCCCAGCTTGT
Found at i:3323275 original size:45 final size:44
Alignment explanation
Indices: 3323222--3323311 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 44
3323212 GTTCACACGA
3323222 AGGGCCAGCATATGCCGATGGTGATCAAGGCAACTGCCCGTACC
1 AGGGCCAGCATATGCCGATGGTGATCAAGGCAACTGCCCGTACC
* * *
3323266 AGGGCCCAGCTTGTGCCGATGGTGATCAAGGCAACTGCCTGTACC
1 AGGG-CCAGCATATGCCGATGGTGATCAAGGCAACTGCCCGTACC
3323311 A
1 A
3323312 AAGGGTAGCC
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 4 0.10
45 38 0.90
ACGTcount: A:0.23, C:0.29, G:0.30, T:0.18
Consensus pattern (44 bp):
AGGGCCAGCATATGCCGATGGTGATCAAGGCAACTGCCCGTACC
Found at i:3323326 original size:45 final size:44
Alignment explanation
Indices: 3323222--3323331 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 44
3323212 GTTCACACGA
* *
3323222 AGGGCCAGCATATGCCGATGGTGATCAAGGCAACTGCCCGTACC
1 AGGGCCAGCCTGTGCCGATGGTGATCAAGGCAACTGCCCGTACC
* *
3323266 AGGGCCCAGCTTGTGCCGATGGTGATCAAGGCAACTGCCTGTACC
1 AGGG-CCAGCCTGTGCCGATGGTGATCAAGGCAACTGCCCGTACC
*
3323311 AAAGGG-TAGCCTGTGCCGATG
1 --AGGGCCAGCCTGTGCCGATG
3323332 ATGGTCGATG
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 4 0.07
45 50 0.86
47 4 0.07
ACGTcount: A:0.23, C:0.27, G:0.32, T:0.18
Consensus pattern (44 bp):
AGGGCCAGCCTGTGCCGATGGTGATCAAGGCAACTGCCCGTACC
Found at i:3324291 original size:26 final size:26
Alignment explanation
Indices: 3324243--3324293 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
3324233 GTTGACTTAG
*
3324243 GCATACAGAGTTTATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* * *
3324269 GCATACGGAGTTCATTCCTAGTCTA
1 GCATACAGAGTTCATCCCCAGTCTA
3324294 GGATCGGACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:3329447 original size:26 final size:26
Alignment explanation
Indices: 3329410--3329462 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
3329400 GTTGACTTAG
3329410 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
*
3329436 GCATAC-AGAGTTCATTCCTAGTCTAA
1 GCATACGA-AGTTCATTCCCAGTCTAA
3329462 G
1 G
3329463 ATCGGACCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:3330431 original size:45 final size:44
Alignment explanation
Indices: 3330287--3330440 Score: 116
Period size: 45 Copynumber: 3.5 Consensus size: 44
3330277 GGGCTCGGCA
* * * * *
3330287 TGTGCTGATGG-GGTGGAGGCAACCGCCCGCACCACTGCCCAGCA
1 TGTGCCGATGGTGGTCGAGGTAACCGCCCGCACCA-AGCCCAGCT
* * * * *
3330331 TGTGCCAATGGTGTTC--GGTACAACCGCCCACACCAAACACCATCT
1 TGTGCCGATGGTGGTCGAGGT--AACCGCCCGCACCAAGC-CCAGCT
* * *
3330376 TGGGCTGATGGTGGTCGAGGTAACCGCCCGCACCAGGGCCCAGCT
1 TGTGCCGATGGTGGTCGAGGTAACCGCCCGCACCA-AGCCCAGCT
*
3330421 TGTGCCGATGGCGGTCGAGG
1 TGTGCCGATGGTGGTCGAGG
3330441 CAAGTGCTCA
Statistics
Matches: 82, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
43 2 0.02
44 10 0.12
45 66 0.80
46 1 0.01
47 3 0.04
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.17
Consensus pattern (44 bp):
TGTGCCGATGGTGGTCGAGGTAACCGCCCGCACCAAGCCCAGCT
Found at i:3331414 original size:26 final size:26
Alignment explanation
Indices: 3331385--3331437 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3331375 GTTGACTTAG
3331385 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
3331411 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
3331437 G
1 G
3331438 ATCAGATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:3331767 original size:26 final size:26
Alignment explanation
Indices: 3331738--3331790 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3331728 GTTGACTTAG
3331738 GCATACGGAGTTCAGTCCCAGTCTAA
1 GCATACGGAGTTCAGTCCCAGTCTAA
* *
3331764 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCAGTCCCAGTCTAA
3331790 G
1 G
3331791 ATCAGACCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCAGTCCCAGTCTAA
Found at i:3332286 original size:26 final size:26
Alignment explanation
Indices: 3332250--3332302 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3332240 GGTGGTCGAG
*
3332250 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* *
3332276 GCATACAGAGTTCATTCCTAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
3332302 G
1 G
3332303 ATTGGATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:3332487 original size:26 final size:26
Alignment explanation
Indices: 3332447--3332499 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3332437 GTTGACTTAG
* *
3332447 GCATATGGAGCTCATTCCCTGTCTAA
1 GCATATGCAGCTCATTCCCAGTCTAA
* *
3332473 GCATATGCAGTTCATTCTCAGTCTAA
1 GCATATGCAGCTCATTCCCAGTCTAA
3332499 G
1 G
3332500 ATTGAACCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (26 bp):
GCATATGCAGCTCATTCCCAGTCTAA
Found at i:3333067 original size:45 final size:45
Alignment explanation
Indices: 3332958--3333108 Score: 126
Period size: 45 Copynumber: 3.4 Consensus size: 45
3332948 TCGACATGCA
* * * * * * * *
3332958 CTGATGGTGGTCGAGGCTATCGCCCGCACCATGGCCCAACATGTG
1 CTGATGGTGGTTGAGGCAACCACCAGCACCAGGGCCCAGCTTGTG
* * * *
3333003 CTGATGGT-GTTCGATGCAACCGCCTA-CACCAGGGGCCATCTTGTG
1 CTGATGGTGGTT-GAGGCAACCACC-AGCACCAGGGCCCAGCTTGTG
* *
3333048 CCGATGGTGGTTGAGGCAACCACCAGTACCAGGGCCCAGCTTGTG
1 CTGATGGTGGTTGAGGCAACCACCAGCACCAGGGCCCAGCTTGTG
* *
3333093 CTGATAGTGGTCGAGG
1 CTGATGGTGGTTGAGG
3333109 AAAGTGCCCC
Statistics
Matches: 84, Mismatches: 18, Indels: 8
0.76 0.16 0.07
Matches are distributed among these distances:
44 3 0.04
45 78 0.93
46 3 0.04
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.21
Consensus pattern (45 bp):
CTGATGGTGGTTGAGGCAACCACCAGCACCAGGGCCCAGCTTGTG
Found at i:3333843 original size:25 final size:26
Alignment explanation
Indices: 3333797--3333848 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
3333787 GTTGACTTAG
* *
3333797 GCATATGGAGTTCTTTCCCAGTCTAA
1 GCATATGGAGTTCATTCACAGTCTAA
*
3333823 GCATAT-GTGTTCATTCACAGTCTAA
1 GCATATGGAGTTCATTCACAGTCTAA
3333848 G
1 G
3333849 ATCAGACCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (26 bp):
GCATATGGAGTTCATTCACAGTCTAA
Found at i:3333970 original size:172 final size:168
Alignment explanation
Indices: 3333684--3333996 Score: 378
Period size: 172 Copynumber: 1.8 Consensus size: 168
3333674 GCGGCAACAG
* * *
3333684 GACCAGCAGCAGGATCGACAACACGTAGGGGGGACCGAGCCGATCCTCGGCTTACGCATTATGCC
1 GACCAGCAGCAGGATCGACAACACGCAGAGGGGACCGAGCCGATCCTCGGCTTACGCATCATGCC
** * * * * *
3333749 TCTCCGGCCAGCTTAGCACCTGTACGCTCGTTTCGTGTGTTGACTTAGGCATATGGAGTTCTTTC
66 TCTCCGGCCA-CTTAGCACCCATACGCTCATTTCATGGGTTGACTTAGGCATATGAAGTTCATTC
3333814 CC-AGTCTAAGCATATGTGTTCATTCACAGTCTAAGATCA
130 CCGA-TCTAAGCATATGTGTTCATTCACAGTCTAAGATCA
* * * * *
3333853 GACCAGCAGCGGGATCGACAGTATCACGCAGAGGGGTCCGGGCCGATCCTCGGCTTATGCATCCT
1 GACCAGCAGCAGGATCGACA--A-CACGCAGAGGGGACCGAGCCGATCCTCGGCTTACGCATCAT
** * *
3333918 GCCTCTCCGGCCTA-TTGAGTGCCCATACGGTCATTTCATGGGTTGGCTTAGGCATATGAAGTTC
63 GCCTCTCCGGCC-ACTT-AGCACCCATACGCTCATTTCATGGGTTGACTTAGGCATATGAAGTTC
3333982 ATTCCCGATCTAAGC
126 ATTCCCGATCTAAGC
3333997 CCGAACTGGA
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
169 19 0.16
171 3 0.03
172 95 0.80
173 2 0.02
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (168 bp):
GACCAGCAGCAGGATCGACAACACGCAGAGGGGACCGAGCCGATCCTCGGCTTACGCATCATGCC
TCTCCGGCCACTTAGCACCCATACGCTCATTTCATGGGTTGACTTAGGCATATGAAGTTCATTCC
CGATCTAAGCATATGTGTTCATTCACAGTCTAAGATCA
Found at i:3334450 original size:45 final size:45
Alignment explanation
Indices: 3334284--3334451 Score: 165
Period size: 45 Copynumber: 3.7 Consensus size: 45
3334274 GGGCCTATCG
* * * *
3334284 GGGCTCAACATGTACCGATGGTGGTCGAGGCAATCGCCCGTACCA
1 GGGCCCAACATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCA
* * * * * *
3334329 TGGCCCAGCATGTGCCGATGGTGTTCGATGCAACCGCCTGCACTA
1 GGGCCCAACATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCA
* *** * * *
3334374 GGGGCCATTTTGTGCCGATGGTGATCAAGGCAACCACCCGCACCA
1 GGGCCCAACATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCA
* *
3334419 GGGCCCAACTTGTGCCGATGGCGGTCGAGGCAA
1 GGGCCCAACATGTGCCGATGGTGGTCGAGGCAA
3334452 ATACTTGTAC
Statistics
Matches: 96, Mismatches: 27, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (45 bp):
GGGCCCAACATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCA
Found at i:3344937 original size:44 final size:43
Alignment explanation
Indices: 3344794--3344944 Score: 142
Period size: 45 Copynumber: 3.4 Consensus size: 43
3344784 GGCATGTGTT
*
3344794 GATGGTGGTCGAGGCAACCGTCCGCACCATGGCCCAGCATGTGCC
1 GATGGTGGTCGAGGCAACCGT-CGCACCAGGGCCCAGC-TGTGCC
* * * * * * * * *
3344839 AATGGTGTTCGATGCAACTGCCCACACCAGGGGCCATCTTGTGCT
1 GATGGTGGTCGAGGCAACCG-TCGCACCAGGGCCCAGC-TGTGCC
3344884 GATGGTGGTCGAGGCAACCGATCGCACC-GGGCCCAGCTGGTGCC
1 GATGGTGGTCGAGGCAACCG-TCGCACCAGGGCCCAGCT-GTGCC
*
3344928 GATGCTGGTCGAGGCAA
1 GATGGTGGTCGAGGCAA
3344945 GTGCCCGTAC
Statistics
Matches: 82, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
43 1 0.01
44 27 0.33
45 54 0.66
ACGTcount: A:0.19, C:0.30, G:0.34, T:0.18
Consensus pattern (43 bp):
GATGGTGGTCGAGGCAACCGTCGCACCAGGGCCCAGCTGTGCC
Found at i:3346164 original size:26 final size:26
Alignment explanation
Indices: 3346128--3346177 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
3346118 GACTTAGGTT
3346128 TACGGAGTTCATTCCCAATCTAAGCA
1 TACGGAGTTCATTCCCAATCTAAGCA
*
3346154 TACGGAGTTCATTCCCAGTCTAAG
1 TACGGAGTTCATTCCCAATCTAAG
3346178 ATTGAATCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (26 bp):
TACGGAGTTCATTCCCAATCTAAGCA
Found at i:3346837 original size:13 final size:13
Alignment explanation
Indices: 3346819--3346843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3346809 ATGGTTGATG
3346819 CATGTGCCATCAC
1 CATGTGCCATCAC
3346832 CATGTGCCATCA
1 CATGTGCCATCA
3346844 TGTGCCATTG
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:3347543 original size:45 final size:45
Alignment explanation
Indices: 3347464--3347627 Score: 179
Period size: 45 Copynumber: 3.6 Consensus size: 45
3347454 GGTTCGGTGC
* * * * * *
3347464 CCAGCATGTGCTGATGGTGTTCGATGCAACCGCCCACACGAGAGG
1 CCAGCTTGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGAGG
* *
3347509 CCATCTTGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCA-AGGG
1 CCAGCTTGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGA-GG
* * * *
3347554 CCAGCATGTGCCGATGGTGATCGAGGCAACCACGCGCACCAG-GG
1 CCAGCTTGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGAGG
*
3347598 CCCAGCTTGTGCCGATGGCGGTCGAGGCAA
1 -CCAGCTTGTGCCGATGGTGGTCGAGGCAA
3347628 GTGCCCATAC
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
44 3 0.03
45 96 0.97
ACGTcount: A:0.20, C:0.30, G:0.34, T:0.16
Consensus pattern (45 bp):
CCAGCTTGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGAGG
Found at i:3347621 original size:90 final size:91
Alignment explanation
Indices: 3347464--3347658 Score: 236
Period size: 90 Copynumber: 2.2 Consensus size: 91
3347454 GGTTCGGTGC
* * * * * * *
3347464 CCAGCATGTGCTGATGGTGTTCGATGCAACCGCCCACACGAGAGGCCATCTTGTGCCGATGGTGG
1 CCAGCATGTGCCGATGGTGATCGAGGCAACCACCCACACCAGAGGCCAGCTTGTGCCGATGGCGG
*
3347529 TCGAGGCAA-TCGCCCGCACC-AAGGG
66 TCGAGGCAAGT-GCCCACACCAAAGGG
* *
3347554 CCAGCATGTGCCGATGGTGATCGAGGCAACCACGCGCACCAG-GGCCCAGCTTGTGCCGATGGCG
1 CCAGCATGTGCCGATGGTGATCGAGGCAACCACCCACACCAGAGG-CCAGCTTGTGCCGATGGCG
*
3347618 GTCGAGGCAAGTGCCCATACCAAAGGG
65 GTCGAGGCAAGTGCCCACACCAAAGGG
*
3347645 -CAGCCTGTGCCGAT
1 CCAGCATGTGCCGAT
3347659 AATGGTCGAT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
89 2 0.02
90 82 0.91
91 6 0.07
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.16
Consensus pattern (91 bp):
CCAGCATGTGCCGATGGTGATCGAGGCAACCACCCACACCAGAGGCCAGCTTGTGCCGATGGCGG
TCGAGGCAAGTGCCCACACCAAAGGG
Found at i:3348535 original size:26 final size:26
Alignment explanation
Indices: 3348499--3348551 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
3348489 GTTGACTTAG
3348499 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
*
3348525 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
3348551 G
1 G
3348552 GTCGGACCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:3349179 original size:45 final size:45
Alignment explanation
Indices: 3349031--3349235 Score: 189
Period size: 45 Copynumber: 4.6 Consensus size: 45
3349021 CGGGGCTCGA
* * * *
3349031 CATGTGCCAATGGTGGTCGAGGCAACCGCCCGCACCACGGCCCAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCACACCAGGGCCAAG
* * * * *
3349076 CATATGCCGATGGTGTTCGATGCAACCGTCCACACCAGGGGCC-AT
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCACACCA-GGGCCAAG
** * * * * * **
3349121 TTTGTGTCAATGGTGGTTGAGGCAATCGCTCACACCAAGGG-CTGG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCACACC-AGGGCCAAG
* *
3349166 CATGTGCCGATGGTGATCGAGGCAACCGCCCGCACCAGGGCCAAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCACACCAGGGCCAAG
*
3349211 CTTGTGCCGATGGTGGTCGAGGCAA
1 CATGTGCCGATGGTGGTCGAGGCAA
3349236 GTGTCCGTAC
Statistics
Matches: 122, Mismatches: 34, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
44 5 0.04
45 112 0.92
46 5 0.04
ACGTcount: A:0.20, C:0.29, G:0.32, T:0.18
Consensus pattern (45 bp):
CATGTGCCGATGGTGGTCGAGGCAACCGCCCACACCAGGGCCAAG
Found at i:3349191 original size:90 final size:90
Alignment explanation
Indices: 3349033--3349235 Score: 237
Period size: 90 Copynumber: 2.3 Consensus size: 90
3349023 GGGCTCGACA
* * * *
3349033 TGTGCCAATGGTGGTCGAGGCAACCGCCCGCACCACGGCCCAGCATATGCCGATGGTGTTCGATG
1 TGTGCCAATGGTGGTCGAGGCAACCGCCCACACCAAGGCCCAGCATATGCCGATGGTGATCGAGG
*
3349098 CAACCGTCCACACCAGGGGCCATTT
66 CAACCGCCCACACCAGGGGCCATTT
* * * * * ** *
3349123 TGTGTCAATGGTGGTTGAGGCAATCGCTCACACCAAGGGCTGGCATGTGCCGATGGTGATCGAGG
1 TGTGCCAATGGTGGTCGAGGCAACCGCCCACACCAAGGCCCAGCATATGCCGATGGTGATCGAGG
* **
3349188 CAACCGCCCGCACCA-GGGCCAAGCT
66 CAACCGCCCACACCAGGGGCC-ATTT
*
3349213 TGTGCCGATGGTGGTCGAGGCAA
1 TGTGCCAATGGTGGTCGAGGCAA
3349236 GTGTCCGTAC
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
89 5 0.05
90 88 0.95
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (90 bp):
TGTGCCAATGGTGGTCGAGGCAACCGCCCACACCAAGGCCCAGCATATGCCGATGGTGATCGAGG
CAACCGCCCACACCAGGGGCCATTT
Found at i:3349248 original size:90 final size:88
Alignment explanation
Indices: 3349033--3349267 Score: 215
Period size: 90 Copynumber: 2.6 Consensus size: 88
3349023 GGGCTCGACA
* * * * * * * *
3349033 TGTGCCAATGGTGGTCGAGGCAACCGCCCGCACCACGGCCCAGCATATGCCGATGGTGTTCGATG
1 TGTGCCAATGGTGGTCGAGGCAA-TGTCCG-ACCAAGGGCTAGCATGTGCCGATGGTGATCGAGG
* **
3349098 CAACCGTCCACACCAGGGGCCATTT
64 CAACCGCCCACACCAGGGGCCAGCT
* * *
3349123 TGTGTCAATGGTGGTTGAGGCAATCGCTCAC-ACCAAGGGCTGGCATGTGCCGATGGTGATCGAG
1 TGTGCCAATGGTGGTCGAGGCAAT-G-TC-CGACCAAGGGCTAGCATGTGCCGATGGTGATCGAG
*
3349187 GCAACCGCCCGCACCA-GGGCCAAGCT
63 GCAACCGCCCACACCAGGGGCC-AGCT
* *
3349213 TGTGCCGATGGTGGTCGAGGCAAGTGTCCGTACCAAAGGG-TAGCCTGTGCCGATG
1 TGTGCCAATGGTGGTCGAGGCAA-TGTCCG-ACC-AAGGGCTAGCATGTGCCGATG
3349268 ATGGTCGATG
Statistics
Matches: 117, Mismatches: 20, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
88 1 0.01
89 7 0.06
90 101 0.86
91 7 0.06
92 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.19
Consensus pattern (88 bp):
TGTGCCAATGGTGGTCGAGGCAATGTCCGACCAAGGGCTAGCATGTGCCGATGGTGATCGAGGCA
ACCGCCCACACCAGGGGCCAGCT
Found at i:3350562 original size:26 final size:26
Alignment explanation
Indices: 3350533--3350585 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3350523 GTTGACTTAG
* *
3350533 GCATATAGAGTTCATTCTTAGTCTAA
1 GCATACAGAGTTCATTCCTAGTCTAA
*
3350559 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACAGAGTTCATTCCTAGTCTAA
3350585 G
1 G
3350586 ATTGAACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCTAGTCTAA
Found at i:3351107 original size:45 final size:45
Alignment explanation
Indices: 3351044--3351196 Score: 144
Period size: 45 Copynumber: 3.4 Consensus size: 45
3351034 TGACATGTGT
* *
3351044 CGATGGTGGTCGAGGCAACCGCCCGCCCCACGGCCCAGCATGTAC
1 CGATGGTGGTCGAGGCAACCGCCAGCACCACGGCCCAGCATGTAC
* * * * * *
3351089 CGATGGTGTTCGATGCAACCGCCAGCACCAGGGGCCAGCTTGTGC
1 CGATGGTGGTCGAGGCAACCGCCAGCACCACGGCCCAGCATGTAC
* * * * * * *
3351134 CGATGGTGGTTGAGGCAACCACCTGCACCAAGGGCCAGCTTGTGC
1 CGATGGTGGTCGAGGCAACCGCCAGCACCACGGCCCAGCATGTAC
* * *
3351179 TGATGGCGGTTGAGGCAA
1 CGATGGTGGTCGAGGCAA
3351197 GTATCGGTAC
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 92 1.00
ACGTcount: A:0.19, C:0.31, G:0.34, T:0.16
Consensus pattern (45 bp):
CGATGGTGGTCGAGGCAACCGCCAGCACCACGGCCCAGCATGTAC
Found at i:3352162 original size:26 final size:26
Alignment explanation
Indices: 3352133--3352185 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3352123 GTTCACTTAG
*
3352133 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
3352159 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
3352185 G
1 G
3352186 ATCAGACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:3353076 original size:45 final size:45
Alignment explanation
Indices: 3352955--3353147 Score: 138
Period size: 45 Copynumber: 4.3 Consensus size: 45
3352945 GCGGTGCTCG
* *
3352955 GCATGTGCCGATGGTGGTCAAGGCAACCATCGGCACCACGGCCCA
1 GCATGTGCCGATGGTGGTCAAGGCAACCACCCGCACCACGGCCCA
* * * ** * *
3353000 GCATGTGCCGATGGTGTTCGATGCAACCACCCGCATTAGGGGCCA
1 GCATGTGCCGATGGTGGTCAAGGCAACCACCCGCACCACGGCCCA
* * * * * * * *
3353045 TCTTGTGCCGATGGTGGTCAAGGCCATCACCCGCACGAAGGGCCG
1 GCATGTGCCGATGGTGGTCAAGGCAACCACCCGCACCACGGCCCA
* * * * * * *
3353090 GCATGTGTCGATTGTGATCGAGGTAA-CAGCCCACACCAGGGCCCA
1 GCATGTGCCGATGGTGGTCAAGGCAACCA-CCCGCACCACGGCCCA
*
3353135 GCTTGTGCC-ATGG
1 GCATGTGCCGATGG
3353148 GCAAGTGCCC
Statistics
Matches: 111, Mismatches: 36, Indels: 3
0.74 0.24 0.02
Matches are distributed among these distances:
44 5 0.05
45 106 0.95
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (45 bp):
GCATGTGCCGATGGTGGTCAAGGCAACCACCCGCACCACGGCCCA
Found at i:3354675 original size:45 final size:45
Alignment explanation
Indices: 3354542--3354694 Score: 139
Period size: 45 Copynumber: 3.4 Consensus size: 45
3354532 CGACATTTGC
* * * * * *
3354542 CGATAGTGGTTGAGGCAACCGCCTGCACCACGGCCCAGCATG-CA
1 CGATGGTGGTCGAGGCAACCGCCTGTACCAGGGCCCAGCTTGTGA
* * ** * *
3354586 CCGATGGTGTTCGATGCAACCGCCCATACCAGGGGCCATCTTGTGA
1 -CGATGGTGGTCGAGGCAACCGCCTGTACCAGGGCCCAGCTTGTGA
* *
3354632 CGATGGTGGTCGAGGTAACCGCCTGTACCAGGGCCCAGGTTGTG-
1 CGATGGTGGTCGAGGCAACCGCCTGTACCAGGGCCCAGCTTGTGA
*
3354676 CTGATGGCGGTCGAGGCAA
1 C-GATGGTGGTCGAGGCAA
3354695 GTGCCCATAC
Statistics
Matches: 84, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
44 1 0.01
45 82 0.98
46 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (45 bp):
CGATGGTGGTCGAGGCAACCGCCTGTACCAGGGCCCAGCTTGTGA
Found at i:3355672 original size:26 final size:26
Alignment explanation
Indices: 3355636--3355688 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3355626 GTTGACTTAT
3355636 GCATACAAAGTTCATCCCCAGTCTAA
1 GCATACAAAGTTCATCCCCAGTCTAA
* *
3355662 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACAAAGTTCATCCCCAGTCTAA
3355688 G
1 G
3355689 ATCAGATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (26 bp):
GCATACAAAGTTCATCCCCAGTCTAA
Found at i:3356265 original size:45 final size:45
Alignment explanation
Indices: 3356216--3356323 Score: 126
Period size: 45 Copynumber: 2.4 Consensus size: 45
3356206 CAGCATGTGT
* * * * *
3356216 CGATGGTGTTCGATGCAACCACCCGCACTAGGGGCCATCTTGTAA
1 CGATGGTGGTCGAGGCAACCACCCGCACCAGGGCCCAACTTGTAA
* **
3356261 CGATGGTGGTCGAGGCAACTACCCGCACCAGGGCCCAACTTGTGC
1 CGATGGTGGTCGAGGCAACCACCCGCACCAGGGCCCAACTTGTAA
* *
3356306 CAATGGCGGTCGAGGCAA
1 CGATGGTGGTCGAGGCAA
3356324 GTGCCTGTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.18
Consensus pattern (45 bp):
CGATGGTGGTCGAGGCAACCACCCGCACCAGGGCCCAACTTGTAA
Found at i:3357940 original size:13 final size:13
Alignment explanation
Indices: 3357919--3357957 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3357909 ATGGTCGATG
*
3357919 CATGGGCCATCAT
1 CATGTGCCATCAT
*
3357932 CATGTGCCATCAC
1 CATGTGCCATCAT
3357945 CATGTGCCATCAT
1 CATGTGCCATCAT
3357958 GTGCCATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (13 bp):
CATGTGCCATCAT
Found at i:3358862 original size:26 final size:26
Alignment explanation
Indices: 3358833--3358885 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
3358823 GTTGACTTAG
3358833 GCATAC-AGAGTTCA-TTCATAGTCTAA
1 GCATACGA-AGTTCATTTC-TAGTCTAA
3358859 GCATACGAAGTTCATTTCTAGTCTAA
1 GCATACGAAGTTCATTTCTAGTCTAA
3358885 G
1 G
3358886 ATCAAATCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 21 0.84
27 4 0.16
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (26 bp):
GCATACGAAGTTCATTTCTAGTCTAA
Found at i:3359802 original size:45 final size:45
Alignment explanation
Indices: 3359632--3359794 Score: 166
Period size: 45 Copynumber: 3.6 Consensus size: 45
3359622 CAGGGCTTGA
*
3359632 CATGTGCCGATGGTGGTCGAGGCAACCACCCGCATCACGACCCAG
1 CATGTACCGATGGTGGTCGAGGCAACCACCCGCATCACGACCCAG
* * * ** * ** *
3359677 CATGTACCAATTGGTGTTCGATGCATTACCGTCCGCACCA-GGGCCAT
1 CATGTACCGA-TGGTGGTCGAGGCA--ACCACCCGCATCACGACCCAG
* *
3359724 CTTGTGCCGATGGTGGTCGAGGCAACCACCCGCATCACGACCCAG
1 CATGTACCGATGGTGGTCGAGGCAACCACCCGCATCACGACCCAG
* *
3359769 CATGTACCGATGGTGTTCGATGCAAC
1 CATGTACCGATGGTGGTCGAGGCAAC
3359795 TGCCCGCACC
Statistics
Matches: 89, Mismatches: 25, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
44 10 0.11
45 34 0.38
46 24 0.27
47 11 0.12
48 10 0.11
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.20
Consensus pattern (45 bp):
CATGTACCGATGGTGGTCGAGGCAACCACCCGCATCACGACCCAG
Found at i:3361174 original size:25 final size:24
Alignment explanation
Indices: 3361140--3361191 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
3361130 TTAGGGATAT
* *
3361140 GGAGTTCATTCCTAGTCTAGCATAC
1 GGAGTTCATTCCCAGTCTAACAT-C
3361165 GGAGTTCATTCCCAGTCTAACATC
1 GGAGTTCATTCCCAGTCTAACATC
3361189 GGA
1 GGA
3361192 TCGACAGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (24 bp):
GGAGTTCATTCCCAGTCTAACATC
Found at i:3361692 original size:45 final size:43
Alignment explanation
Indices: 3361618--3361759 Score: 158
Period size: 45 Copynumber: 3.2 Consensus size: 43
3361608 TCGACATGTA
*
3361618 CCGATGGTGGTCGAGGCAACAGCCCGCACCAGTGGCCATCTTGTG
1 CCGATGGTGGTCGAGGCAAC-GCCCGCACCAG-GGCCAGCTTGTG
* * *
3361663 CCGATGGTGGTCGAGGCAATCGCCTGCACCAAGGGCCGGCATGTG
1 CCGATGGTGGTCGAGGCAA-CGCCCGCACC-AGGGCCAGCTTGTG
* * * *
3361708 TCGATGGTGATCGAGGCAACCGCCCGTACCAGGGCTTAGCTTGTG
1 CCGATGGTGGTCGAGGCAA-CGCCCGCACCAGGGC-CAGCTTGTG
3361753 CCGATGG
1 CCGATGG
3361760 CAGCCGTGGC
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
44 5 0.06
45 73 0.90
46 3 0.04
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (43 bp):
CCGATGGTGGTCGAGGCAACGCCCGCACCAGGGCCAGCTTGTG
Found at i:3361784 original size:90 final size:91
Alignment explanation
Indices: 3361619--3361789 Score: 195
Period size: 90 Copynumber: 1.9 Consensus size: 91
3361609 CGACATGTAC
* * ** *
3361619 CGATGGTGGTCGAGGCAACAGCCCGCACCAGTGGCCATCTTGTGCCGATGGTGGTCGAGGCAATC
1 CGATGGTGATCGAGGCAACAGCCCGCACCAGTGGCCAGCTTGTGCCGATGGCAGCCGAGGCAATC
**
3361684 GCCTGCACC-AAGGGCCGGCATGTGT
66 GCCCACACCAAAGGGCCGGCATGTGT
* * * *
3361709 CGATGGTGATCGAGGCAACCGCCCGTACCAG-GGCTTAGCTTGTGCCGATGGCAGCCGTGGCAAG
1 CGATGGTGATCGAGGCAACAGCCCGCACCAGTGGC-CAGCTTGTGCCGATGGCAGCCGAGGCAA-
*
3361773 T-GCCCATACCAAAGGGC
64 TCGCCCACACCAAAGGGC
3361790 AGCCTGTGAT
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
89 3 0.05
90 56 0.85
91 7 0.11
ACGTcount: A:0.19, C:0.29, G:0.35, T:0.17
Consensus pattern (91 bp):
CGATGGTGATCGAGGCAACAGCCCGCACCAGTGGCCAGCTTGTGCCGATGGCAGCCGAGGCAATC
GCCCACACCAAAGGGCCGGCATGTGT
Found at i:3364828 original size:26 final size:26
Alignment explanation
Indices: 3364792--3364844 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
3364782 GTTGACTTAG
3364792 GCATACGGAGTTCATTCCC-AGTCTAA
1 GCATACGGAGTTCA-TCCCTAGTCTAA
3364818 GCATACGGAGTTCATCCCTAGTCTAA
1 GCATACGGAGTTCATCCCTAGTCTAA
3364844 G
1 G
3364845 ATCAGACCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCTAGTCTAA
Found at i:3365369 original size:45 final size:45
Alignment explanation
Indices: 3365299--3365456 Score: 199
Period size: 45 Copynumber: 3.5 Consensus size: 45
3365289 AGGCTCGGCC
* * * * *
3365299 TGTGCTGATGGTGGTCGAGGCAACCGCCCGCAGCAAGGCCCAGCA
1 TGTGCCGATGGTGGTCGAGGCAACCGCTCGCACCAGGGCCCAGCT
* * * * * *
3365344 TGTGCCGATAGTGTTCGATGCAACCGCTCGTACCAGGGGCCATCT
1 TGTGCCGATGGTGGTCGAGGCAACCGCTCGCACCAGGGCCCAGCT
* *
3365389 TGTGCCGATGGTGGTCGAGGCAACCGCTCGCACCAGGGCCCTGTT
1 TGTGCCGATGGTGGTCGAGGCAACCGCTCGCACCAGGGCCCAGCT
3365434 TGTGCCGATGGTGGTCGAGGCAA
1 TGTGCCGATGGTGGTCGAGGCAA
3365457 GTGCCCATAC
Statistics
Matches: 94, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (45 bp):
TGTGCCGATGGTGGTCGAGGCAACCGCTCGCACCAGGGCCCAGCT
Found at i:3367345 original size:45 final size:45
Alignment explanation
Indices: 3367243--3367351 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 45
3367233 CCGGGGCTAG
* * *
3367243 GCATGTGTCGATGCTGGTCCAGGCAACCACCCGCACCACGGCCTA
1 GCATGTGTCGATGGTGGTCCAGGCAACCACCCGCACCACGCCCCA
* * * * *
3367288 GCATGTGCCGATGGTGTTCGATGCAACCTCCCGCACC-CAGCCCCA
1 GCATGTGTCGATGGTGGTCCAGGCAACCACCCGCACCAC-GCCCCA
* *
3367333 GCTTGTGTCGATGGCGGTC
1 GCATGTGTCGATGGTGGTC
3367352 GAGGTAAGTG
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
44 1 0.02
45 50 0.98
ACGTcount: A:0.17, C:0.36, G:0.28, T:0.19
Consensus pattern (45 bp):
GCATGTGTCGATGGTGGTCCAGGCAACCACCCGCACCACGCCCCA
Found at i:3369283 original size:45 final size:45
Alignment explanation
Indices: 3369129--3369289 Score: 135
Period size: 45 Copynumber: 3.6 Consensus size: 45
3369119 CAACCGTCTG
* * * * * *
3369129 CACCAAGGCCCAACATGTGCCGATGGTGTTCGATGCAACCACCCA
1 CACCAGGGCCCAGCATGTGCCGATGGTGATCAAAGCAATCACCCA
* * * * * * * * *
3369174 TACTAGGGGCCACCTTGTGCCGATGGTGGTCAAGGGAATCACCTA
1 CACCAGGGCCCAGCATGTGCCGATGGTGATCAAAGCAATCACCCA
** *
3369219 CACCAAGGG-CTGGCATGTGCCGATGGTGATCAAAGCAATCGCCCA
1 CACC-AGGGCCCAGCATGTGCCGATGGTGATCAAAGCAATCACCCA
*
3369264 CACCAGGGCCCAGCTTGTGCCGATGG
1 CACCAGGGCCCAGCATGTGCCGATGG
3369290 CGGTCGAGGC
Statistics
Matches: 88, Mismatches: 26, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
44 4 0.05
45 80 0.91
46 4 0.05
ACGTcount: A:0.24, C:0.30, G:0.29, T:0.17
Consensus pattern (45 bp):
CACCAGGGCCCAGCATGTGCCGATGGTGATCAAAGCAATCACCCA
Found at i:3370093 original size:26 final size:26
Alignment explanation
Indices: 3370064--3370116 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
3370054 GTTGAGTTAG
*
3370064 GCATACAG-AGTTCATCCCCCGTCTAA
1 GCATA-AGAAGTTCATCCCCAGTCTAA
* *
3370090 GCATATGAAGTTCATTCCCAGTCTAA
1 GCATAAGAAGTTCATCCCCAGTCTAA
3370116 G
1 G
3370117 ATTAGACCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (26 bp):
GCATAAGAAGTTCATCCCCAGTCTAA
Found at i:3372364 original size:26 final size:26
Alignment explanation
Indices: 3372334--3372412 Score: 131
Period size: 26 Copynumber: 3.0 Consensus size: 26
3372324 GTTGACTTAC
*
3372334 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
3372360 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
3372386 GCATACGGAGTTCATTCCCAATCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
3372412 G
1 G
3372413 ATCAGACCGG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:3372976 original size:45 final size:44
Alignment explanation
Indices: 3372853--3373010 Score: 129
Period size: 45 Copynumber: 3.5 Consensus size: 44
3372843 AGGCTCGGTA
* * * * * * *
3372853 TGTGCCGATGATGGTCGAGGCAATCGCCCGTACCACGACCCAGCA
1 TGTGCCAATGGTGGTCGAGGCAA-CGCTCGTACCAGGGCCCATCT
* * * ** *
3372898 TGTGCTAATGGTGTTCGATGCAACTATCTGTACCAGGGGCCATCT
1 TGTGCCAATGGTGGTCGAGGCAACGCTC-GTACCAGGGCCCATCT
*
3372943 TGTGCCGATGGTGGTCGAGGCAACCGCTCGTACCAGGGCCCAGT-T
1 TGTGCCAATGGTGGTCGAGGCAA-CGCTCGTACCAGGGCCCA-TCT
* *
3372988 TGTGCCAAAGGTGATCGAGGCAA
1 TGTGCCAATGGTGGTCGAGGCAA
3373011 GTGCCCGAAA
Statistics
Matches: 87, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
44 2 0.02
45 81 0.93
46 4 0.05
ACGTcount: A:0.21, C:0.27, G:0.31, T:0.22
Consensus pattern (44 bp):
TGTGCCAATGGTGGTCGAGGCAACGCTCGTACCAGGGCCCATCT
Found at i:3379912 original size:26 final size:26
Alignment explanation
Indices: 3379862--3379914 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3379852 GTTGACTTAG
*
3379862 GCATACGGAGTTCATACCCAGTCTAA
1 GCATACGGAGTTCATACCCAATCTAA
* * *
3379888 GCATATGGAGTTCATTCCTAATCTAA
1 GCATACGGAGTTCATACCCAATCTAA
3379914 G
1 G
3379915 GTCGGACAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATACCCAATCTAA
Found at i:3380869 original size:45 final size:43
Alignment explanation
Indices: 3380726--3380871 Score: 112
Period size: 45 Copynumber: 3.3 Consensus size: 43
3380716 TGTAGATGGT
* ** * * *
3380726 GGTCGAGGCAACCGCCCCCACCACGTTCCAGCATGTGCCAATGC
1 GGTCGAGGCAACCGCCCGCACCA-GGGCCAACTTGTGCCGATGC
* * * * * * *
3380770 TGTTCGATGTAACTGCCCGCACAAAGGGCCATCTTGTGCCGATGGT
1 -GGTCGAGGCAACCGCCCGCAC-CAGGGCCAACTTGTGCCGAT-GC
*
3380816 GGTTGAGGCAACCGCCCGCACCAGGGCCCAACTTGTGCCGATGAC
1 GGTCGAGGCAACCGCCCGCACCAGGG-CCAACTTGTGCCGATG-C
3380861 GGTCGAGGCAA
1 GGTCGAGGCAA
3380872 GTGCACGTAC
Statistics
Matches: 76, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
44 5 0.07
45 69 0.91
46 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (43 bp):
GGTCGAGGCAACCGCCCGCACCAGGGCCAACTTGTGCCGATGC
Found at i:3381844 original size:26 final size:26
Alignment explanation
Indices: 3381814--3381866 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3381804 GTTGACTTAG
3381814 GCATATGGAGTTCATCCCCAGTATAA
1 GCATATGGAGTTCATCCCCAGTATAA
* *
3381840 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATATGGAGTTCATCCCCAGTATAA
3381866 G
1 G
3381867 ATCGGATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
GCATATGGAGTTCATCCCCAGTATAA
Found at i:3382199 original size:26 final size:26
Alignment explanation
Indices: 3382169--3382221 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3382159 GTTGGCTTAG
3382169 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
**
3382195 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
3382221 G
1 G
3382222 ATTAGACCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:3382773 original size:45 final size:45
Alignment explanation
Indices: 3382678--3382830 Score: 162
Period size: 45 Copynumber: 3.4 Consensus size: 45
3382668 TAGAATGTGT
* * * * ** * *
3382678 CGATCGTGGTCGAGGTAACCGCCCACACCACAGCCCAGCATGTGC
1 CGATGGTGGTCAAGGCAACCACCCACACCAGGGCCCAGCTTGTAC
* * * * *
3382723 CGATGGTGTTCAATGCAACCACCCGCACCAGGGGCCATCTTGTAC
1 CGATGGTGGTCAAGGCAACCACCCACACCAGGGCCCAGCTTGTAC
*
3382768 CGATGGTGGTCAAGGCAACCACCCACACCAGGGCCCAGCTTGTGC
1 CGATGGTGGTCAAGGCAACCACCCACACCAGGGCCCAGCTTGTAC
* *
3382813 CGATGGCGGTCGAGGCAA
1 CGATGGTGGTCAAGGCAA
3382831 GTGCCCATGC
Statistics
Matches: 87, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 87 1.00
ACGTcount: A:0.22, C:0.34, G:0.29, T:0.15
Consensus pattern (45 bp):
CGATGGTGGTCAAGGCAACCACCCACACCAGGGCCCAGCTTGTAC
Found at i:3390528 original size:13 final size:13
Alignment explanation
Indices: 3390510--3390534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3390500 ATGGTCGATG
3390510 CATGTGCCATCAC
1 CATGTGCCATCAC
3390523 CATGTGCCATCA
1 CATGTGCCATCA
3390535 TGTGCCATTG
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:3392160 original size:45 final size:45
Alignment explanation
Indices: 3392060--3392214 Score: 166
Period size: 45 Copynumber: 3.4 Consensus size: 45
3392050 GGGCTTAACA
* * * ** *
3392060 TGTGTCGATGGTGGTCGAGGAAACCACCCGCACCATCGCCCAGCA
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCT
* * * * * *
3392105 TGTGTCGATGGTGGTCGATGCGACTGCCCGCACCAGGGTCCATCT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCT
* ** *
3392150 TGTGCTGATGGTGGTCGAGGCAACCGCCCGTGCTAGGGCCCAGCT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCT
3392195 TGTGCCGATGGTGGTCGAGG
1 TGTGCCGATGGTGGTCGAGG
3392215 TAAGTGCCCG
Statistics
Matches: 89, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 89 1.00
ACGTcount: A:0.15, C:0.28, G:0.35, T:0.21
Consensus pattern (45 bp):
TGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAGCT
Found at i:3393857 original size:45 final size:45
Alignment explanation
Indices: 3393787--3393991 Score: 225
Period size: 45 Copynumber: 4.6 Consensus size: 45
3393777 CGGGGCTCGA
* * *
3393787 CATGTGTCGATGGTGGTCGAGGCAACCGCCCGCACCATGACCCAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAG
* * * * *
3393832 CATGTGCCGATGGTGTTCGATGCAACCGCCCGCATCAGGGGCCAT
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAG
* * *
3393877 CTTGTGCCGATGGTGGTCGAGGCAATCGCCAGCACCAAGGG-CC-G
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACC-AGGGCCCAG
* * *
3393921 CCATGTGCCGATGGTGATCGAGGCAACCACCCACACCAGGGCCCAG
1 -CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAG
* * *
3393967 CTTGTGTCGATGGCGGTCGAGGCAA
1 CATGTGCCGATGGTGGTCGAGGCAA
3393992 GTGCTCGTAC
Statistics
Matches: 131, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
44 4 0.03
45 122 0.93
46 5 0.04
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.17
Consensus pattern (45 bp):
CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAGGGCCCAG
Found at i:3393947 original size:90 final size:90
Alignment explanation
Indices: 3393789--3393991 Score: 264
Period size: 90 Copynumber: 2.3 Consensus size: 90
3393779 GGGCTCGACA
* * * *
3393789 TGTGTCGATGGTGGTCGAGGCAACCGCCCGCACCATGACCCAGCATGTGCCGATGGTGTTCGATG
1 TGTGTCGATGGTGGTCGAGGCAACCGCCAGCACCAAGACCCAGCATGTGCCGATGGTGATCGAGG
* * * * *
3393854 CAACCGCCCGCATCAGGGGCCATCT
66 CAACCACCCACACCAGGGCCCAGCT
* * **
3393879 TGTGCCGATGGTGGTCGAGGCAATCGCCAGCACCAAGGGCC-GCCATGTGCCGATGGTGATCGAG
1 TGTGTCGATGGTGGTCGAGGCAACCGCCAGCACCAAGACCCAG-CATGTGCCGATGGTGATCGAG
3393943 GCAACCACCCACACCAGGGCCCAGCT
65 GCAACCACCCACACCAGGGCCCAGCT
*
3393969 TGTGTCGATGGCGGTCGAGGCAA
1 TGTGTCGATGGTGGTCGAGGCAA
3393992 GTGCTCGTAC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 1 0.01
90 96 0.99
ACGTcount: A:0.19, C:0.31, G:0.33, T:0.17
Consensus pattern (90 bp):
TGTGTCGATGGTGGTCGAGGCAACCGCCAGCACCAAGACCCAGCATGTGCCGATGGTGATCGAGG
CAACCACCCACACCAGGGCCCAGCT
Found at i:3395354 original size:26 final size:26
Alignment explanation
Indices: 3395302--3395354 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3395292 GTTGACTTAG
* * *
3395302 GCATATAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAATATAA
3395328 GCATACAGAGTTCATTCCCAATATAA
1 GCATACAGAGTTCATTCCCAATATAA
3395354 G
1 G
3395355 ATCGGATCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAATATAA
Found at i:3395936 original size:45 final size:45
Alignment explanation
Indices: 3395792--3395987 Score: 144
Period size: 45 Copynumber: 4.4 Consensus size: 45
3395782 GATCGAGGCT
* * * * *
3395792 CAGCATGTGTCGATGGTGGTGGAGGCAA-CCCCTCGCACCATGGCC
1 CAGCATGTGCCGATGGTGGTCGAGGCAATCGCCT-GCACCAAGGAC
* * * * * * *
3395837 CAGCATATGCCGATGGTGTTCGATGCAACCGCCGGCACTAAGGGC
1 CAGCATGTGCCGATGGTGGTCGAGGCAATCGCCTGCACCAAGGAC
* * *
3395882 CATCTTGTGCCGATGGTGGTCGAGGCAATCGCCTGTACCAAGGAC
1 CAGCATGTGCCGATGGTGGTCGAGGCAATCGCCTGCACCAAGGAC
* * * * * * *
3395927 CGGCATGTGCCAATTGTGATCGAGGCAATTG-CTCGCACCAGGGCC
1 CAGCATGTGCCGATGGTGGTCGAGGCAATCGCCT-GCACCAAGGAC
* *
3395972 CAGCTTGTGCAGATGG
1 CAGCATGTGCCGATGG
3395988 CGATCAAGGC
Statistics
Matches: 114, Mismatches: 35, Indels: 4
0.75 0.23 0.03
Matches are distributed among these distances:
44 2 0.02
45 109 0.96
46 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.20
Consensus pattern (45 bp):
CAGCATGTGCCGATGGTGGTCGAGGCAATCGCCTGCACCAAGGAC
Found at i:3396801 original size:45 final size:45
Alignment explanation
Indices: 3396707--3396864 Score: 167
Period size: 45 Copynumber: 3.5 Consensus size: 45
3396697 GGGCTCGACA
* * * * *
3396707 TGTGTCGATGGTGGTCGAGGCAACCACCCGTACCACGGCCCAG-T
1 TGTGCCGATGGTGGTCGAGGCAACCGCCTGCACCAGGGCCCAGCT
* * * * *
3396751 ATGTGCCGATGGTGTTCGATGCAACCGCCAT-CACGAGGGGCCATCT
1 -TGTGCCGATGGTGGTCGAGGCAACCGCC-TGCACCAGGGCCCAGCT
*
3396797 TGTGCTGATGGTGGTCGAGGCAACCGCCTGCACCAGGGCCCAGCT
1 TGTGCCGATGGTGGTCGAGGCAACCGCCTGCACCAGGGCCCAGCT
* *
3396842 TGTGCCAATGGCGGTCGAGGCAA
1 TGTGCCGATGGTGGTCGAGGCAA
3396865 GTGCCCGTAC
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
44 1 0.01
45 89 0.98
46 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.34, T:0.19
Consensus pattern (45 bp):
TGTGCCGATGGTGGTCGAGGCAACCGCCTGCACCAGGGCCCAGCT
Found at i:3397854 original size:26 final size:26
Alignment explanation
Indices: 3397806--3397858 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3397796 GTTGACTTAG
*
3397806 GCATACGTAGTGCACTCCCAGTCTAA
1 GCATACGGAGTGCACTCCCAGTCTAA
* * *
3397832 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTGCACTCCCAGTCTAA
3397858 G
1 G
3397859 ATCAGATCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTGCACTCCCAGTCTAA
Found at i:3398691 original size:45 final size:44
Alignment explanation
Indices: 3398593--3398792 Score: 170
Period size: 45 Copynumber: 4.5 Consensus size: 44
3398583 GGGCTCAGCA
* * * *
3398593 TGTGCCGATGGGGGTCGAGGCAACCGCCTGCACCACA-GCCCAACAT
1 TGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCA-AGGGCC-AC-T
* * *
3398639 T-TACCGATGGTGTTCGAGGTAATCGCCCGCACCAAGGGCCATCT
1 TGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCAAGGGCCA-CT
* * * *
3398683 TGTGCCGATGGTGGTCGAGGCAATCACCCTCACCAAGGGCTGACA
1 TGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCAAGGGC-CACT
* * * * * *
3398728 TGTACCGACGGTGATCGAGGCAACCGCTCGCACCAAGGCCCAGCT
1 TGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCAAGGGCCA-CT
*
3398773 TGTGCCGATGGCGGTCGAGG
1 TGTGCCGATGGTGGTCGAGG
3398793 TAAGTTCCCG
Statistics
Matches: 121, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
44 5 0.04
45 114 0.94
46 2 0.02
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (44 bp):
TGTGCCGATGGTGGTCGAGGCAATCGCCCGCACCAAGGGCCACT
Found at i:3398811 original size:90 final size:90
Alignment explanation
Indices: 3398588--3398792 Score: 236
Period size: 90 Copynumber: 2.3 Consensus size: 90
3398578 GACTAGGGCT
* * * ** * *
3398588 CAGCATGTGCCGATGGGGGTCGAGGCAA-C-CGCCTGCACCACA-GCCCAACATTTACCGATGGT
1 CAGCTTGTGCCGATGGCGGTCGAGGCAATCAC-CCT-CACCA-AGGGCTGACATGTACCGACGGT
* * * *
3398650 GTTCGAGGTAATCGCCCGCACCAAGGGC
63 GATCGAGGCAACCGCCCGCACCAAGGCC
* *
3398678 CATCTTGTGCCGATGGTGGTCGAGGCAATCACCCTCACCAAGGGCTGACATGTACCGACGGTGAT
1 CAGCTTGTGCCGATGGCGGTCGAGGCAATCACCCTCACCAAGGGCTGACATGTACCGACGGTGAT
*
3398743 CGAGGCAACCGCTCGCACCAAGGCC
66 CGAGGCAACCGCCCGCACCAAGGCC
3398768 CAGCTTGTGCCGATGGCGGTCGAGG
1 CAGCTTGTGCCGATGGCGGTCGAGG
3398793 TAAGTTCCCG
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
89 1 0.01
90 91 0.94
91 4 0.04
92 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.31, T:0.17
Consensus pattern (90 bp):
CAGCTTGTGCCGATGGCGGTCGAGGCAATCACCCTCACCAAGGGCTGACATGTACCGACGGTGAT
CGAGGCAACCGCCCGCACCAAGGCC
Found at i:3399884 original size:26 final size:26
Alignment explanation
Indices: 3399855--3399904 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
3399845 GTTGACTTAG
* *
3399855 GCATACGGATTTCATTCCCAATCTAA
1 GCATACAGAGTTCATTCCCAATCTAA
* *
3399881 GCATATAGAGTTCATTCCCGATCT
1 GCATACAGAGTTCATTCCCAATCT
3399905 CAGATCGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAATCTAA
Found at i:3402434 original size:45 final size:44
Alignment explanation
Indices: 3402298--3402457 Score: 126
Period size: 45 Copynumber: 3.6 Consensus size: 44
3402288 GCCATCTTGA
* * *
3402298 GCCGATGGTGGTCGAGGCAA-TCGCCCGCACCAAGGGCCGGCATGT
1 GCCGATGGTGATCGAGGCAAGT-GCCCGTACCAAGGG-CAGCATGT
* *** * * *
3402343 GCTGATGGTGATCGAGGCAACCACCTGTATC-AGGGCTTAGCTTGT
1 GCCGATGGTGATCGAGGCAAGTGCCCGTACCAAGGGC--AGCATGT
*
3402388 GCCGATGGTGATCGAGGCAAGTGCCCGTACCAAAGGGCAGCCTGT
1 GCCGATGGTGATCGAGGCAAGTGCCCGTACC-AAGGGCAGCATGT
* * * *
3402433 GCCGATGATGGTCGATGCATGTGCC
1 GCCGATGGTGATCGAGGCAAGTGCC
3402458 ATCACCATGC
Statistics
Matches: 90, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 80 0.89
47 5 0.06
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (44 bp):
GCCGATGGTGATCGAGGCAAGTGCCCGTACCAAGGGCAGCATGT
Found at i:3403379 original size:26 final size:26
Alignment explanation
Indices: 3403349--3403401 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3403339 GTTGACTTAG
* *
3403349 GCATATGGAGTTCATCCCCAGTCTAA
1 GCATAGGGAGCTCATCCCCAGTCTAA
*
3403375 GCATAGGGAGCTCATTCCCAGTCTAA
1 GCATAGGGAGCTCATCCCCAGTCTAA
3403401 G
1 G
3403402 ATCAGACTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (26 bp):
GCATAGGGAGCTCATCCCCAGTCTAA
Found at i:3403534 original size:196 final size:194
Alignment explanation
Indices: 3403246--3403800 Score: 612
Period size: 195 Copynumber: 2.8 Consensus size: 194
3403236 GACCTGCAAT
* * *
3403246 GGGATCGGCAGCACGCAGAGGGGATCGGGTCAATCCTC-ATCTTACTCATCCTGCCTCTTTGGCT
1 GGGATCGGCAGCACGCAGAGGGGATAGGGTCAATCCTCGA-CTTGCTCATCCTGCCTCTCTGGC-
* * *
3403310 GGTTGAGCTCCCACACT-CTCGTTTCATGGGTTGACTTAGGCATATGGAGTTCATCCCCAGTCTA
64 GGTTGAGCACCCGCA-TGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTA
* * * * * * *
3403374 AGCATAGGGAGCTCATTCCCAGTCTAAGATCAGACTAGACCAAGGGTGGCGTTAGCAGGACCCAT
128 AGCATA-GAAGTTCATTCCAAGTCTAAGATCAGACCAGACCAAAGGTGGCGATAACAGGACCCAT
3403439 AGC
192 AGC
* * *
3403442 GGGATCGACAGCACGCAGAGGGGATAAGGTCAATCCTCGGCTTGCTCATCCTGCCTCTCTGGTCG
1 GGGATCGGCAGCACGCAGAGGGGATAGGGTCAATCCTCGACTTGCTCATCCTGCCTCTCTGG-CG
* * * *
3403507 GCTGAGCACCCGCATGCTCATTTCATGGGTTGACTTAGGCATACGGGGTTTATCCCCAGTCTAAG
65 GTTGAGCACCCGCATGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAAG
* * * * **
3403572 CATACAAGTTCATTCCAAGCCTAAGACCAGACCAGACCAAAGGTTGCGATAATGGGACCCATAGC
130 CATAGAAGTTCATTCCAAGTCTAAGATCAGACCAGACCAAAGGTGGCGATAACAGGACCCATAGC
* * ** * * * * *
3403637 GAGATCGGTAGCACTTAGAGGGGACAGGGTCGATCCCCGACTTG-TACATGCTGCCTCTCTAGCC
1 GGGATCGGCAGCACGCAGAGGGGATAGGGTCAATCCTCGACTTGCT-CATCCTGCCTCTCT-GGC
* ** * * * * *
3403701 GATTGAGTGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCTAATGTAA
64 GGTTGAGCACCCGCATGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAA
* *
3403766 GCATACGAAGTTCATTCCTAGTCTAAGATCGGACC
129 GCATA-GAAGTTCATTCCAAGTCTAAGATCAGACC
3403801 GGATCGAGAG
Statistics
Matches: 298, Mismatches: 55, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
194 1 0.00
195 155 0.52
196 141 0.47
197 1 0.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (194 bp):
GGGATCGGCAGCACGCAGAGGGGATAGGGTCAATCCTCGACTTGCTCATCCTGCCTCTCTGGCGG
TTGAGCACCCGCATGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAAGC
ATAGAAGTTCATTCCAAGTCTAAGATCAGACCAGACCAAAGGTGGCGATAACAGGACCCATAGC
Found at i:3403792 original size:26 final size:26
Alignment explanation
Indices: 3403740--3403792 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3403730 GTTGACTTAG
* *
3403740 GCATACGGAGTTCATCCCTAATGTAA
1 GCATACGAAGTTCATCCCTAATCTAA
* *
3403766 GCATACGAAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATCCCTAATCTAA
3403792 G
1 G
3403793 ATCGGACCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATCCCTAATCTAA
Found at i:3404329 original size:162 final size:162
Alignment explanation
Indices: 3404069--3404411 Score: 404
Period size: 162 Copynumber: 2.1 Consensus size: 162
3404059 TGCTTGTTTT
* * * * *
3404069 GTGGGTTGACTTAGGGATACGGAGTTTATTCCCAGTCTAAGCATATGGAGTTCATTCTCAGTCTA
1 GTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGCATATGGAGTTCATTCCCAATCTA
* * * * ** *
3404134 AGATCGAACTGACAGTCACATACAAATGGGGATCGGGTCGAT-CTTGGACTTACGCATCCTGCCC
66 AGATCGAACTGACAGACACATACAAAGGGGGATCGAGCCGATCCTCAG-CTTACACATCCTGCCC
** * *
3404198 CTCCGGTCGGCTGAGCACCCACACGCTCATTTC
130 CTCCGACCAGCTGAACACCCACACGCTCATTTC
3404231 GTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGCATATGGAGTTCATTCCCAATCTA
1 GTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGCATATGGAGTTCATTCCCAATCTA
* * * * * *
3404296 AGATCGGACCTG-CA-ACAGCATGCAGAGGGGGATCGAGCCGATCCTCAGCTTGCACATTCTGGC
66 AGATC-GAACTGACAGACA-CATACAAAGGGGGATCGAGCCGATCCTCAGCTTACACATCCTGCC
* *
3404359 TCTCCGACCAGCTGAACACCCACACGCTCGTTTC
129 CCTCCGACCAGCTGAACACCCACACGCTCATTTC
* *
3404393 ATGGGTTGACTTAAGCATA
1 GTGGGTTGACTTAGGCATA
3404412 TGTAGTGCAT
Statistics
Matches: 152, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
161 2 0.01
162 142 0.93
163 8 0.05
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (162 bp):
GTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAGCATATGGAGTTCATTCCCAATCTA
AGATCGAACTGACAGACACATACAAAGGGGGATCGAGCCGATCCTCAGCTTACACATCCTGCCCC
TCCGACCAGCTGAACACCCACACGCTCATTTC
Found at i:3404719 original size:45 final size:45
Alignment explanation
Indices: 3404670--3404771 Score: 168
Period size: 45 Copynumber: 2.3 Consensus size: 45
3404660 CAGGGGCCAT
* *
3404670 CTTGTGTCGATGGCGATCGAGGCAAGTGCCCGCTCCAAAGGGCAG
1 CTTGTGCCGATGGCGATCGAGGCAAGTGCCCACTCCAAAGGGCAG
* *
3404715 CTTGTGCCGATGGCGGTCGAGGCAAGTGCCCACTTCAAAGGGCAG
1 CTTGTGCCGATGGCGATCGAGGCAAGTGCCCACTCCAAAGGGCAG
3404760 CTTGTGCCGATG
1 CTTGTGCCGATG
3404772 ATGGTCGATG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.20
Consensus pattern (45 bp):
CTTGTGCCGATGGCGATCGAGGCAAGTGCCCACTCCAAAGGGCAG
Found at i:3404778 original size:45 final size:45
Alignment explanation
Indices: 3404670--3404789 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 45
3404660 CAGGGGCCAT
* * * *
3404670 CTTGTGTCGATGGCGATCGAGGCAAGTGCCCGCTCCAAAGGGCAG
1 CTTGTGCCGATGACGGTCGAGGCAAGTGCCCACTCCAAAGGGCAG
* *
3404715 CTTGTGCCGATGGCGGTCGAGGCAAGTGCCCACTTCAAAGGGCAG
1 CTTGTGCCGATGACGGTCGAGGCAAGTGCCCACTCCAAAGGGCAG
* * *
3404760 CTTGTGCCGATGATGGTCGATGCATGTGCC
1 CTTGTGCCGATGACGGTCGAGGCAAGTGCC
3404790 ATCACCATGC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.18, C:0.26, G:0.35, T:0.21
Consensus pattern (45 bp):
CTTGTGCCGATGACGGTCGAGGCAAGTGCCCACTCCAAAGGGCAG
Found at i:3405711 original size:26 final size:26
Alignment explanation
Indices: 3405681--3405733 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3405671 GTTGACTTAG
*
3405681 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
* * *
3405707 GCATATAGAGTTCATTCCTAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
3405733 G
1 G
3405734 AATAGACCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:3407159 original size:45 final size:44
Alignment explanation
Indices: 3407003--3407160 Score: 145
Period size: 45 Copynumber: 3.5 Consensus size: 44
3406993 GGGCTCGGTA
* * * *
3407003 TGTGCCGATGGTGGTCGAGACAACCGCCCGCACCAGGGGCCATCT
1 TGTGCCAATGGTGGTCGAGGCAACCGCCCGCA-CAAGGGCCAACT
* * *
3407048 TGTGCCAATGGTGGTCGAGGCAATCGCCCGCACCAAGGGCCAGCA
1 TGTGCCAATGGTGGTCGAGGCAACCGCCCGCA-CAAGGGCCAACT
* * * ** * *
3407093 TGTGTCAATGGTGATCAAGGCAACCGTTCGTACTAGGGCCCAACT
1 TGTGCCAATGGTGGTCGAGGCAACCGCCCGCACAAGGG-CCAACT
* *
3407138 TGTGCCGATGGCGGTCGAGGCAA
1 TGTGCCAATGGTGGTCGAGGCAA
3407161 GTGCCCGTAC
Statistics
Matches: 91, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 5 0.05
45 86 0.95
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (44 bp):
TGTGCCAATGGTGGTCGAGGCAACCGCCCGCACAAGGGCCAACT
Found at i:3408133 original size:26 final size:26
Alignment explanation
Indices: 3408103--3408161 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
3408093 GTTGACTTAG
3408103 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
* * *
3408129 GCATACAGATTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATCCCCAGTCTAA
3408155 -CAT-CGGA
1 GCATACGGA
3408162 TCGGATCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 3 0.10
25 3 0.10
26 23 0.79
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCATCCCCAGTCTAA
Found at i:3408510 original size:25 final size:26
Alignment explanation
Indices: 3408459--3408510 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3408449 GTTAACTTAG
3408459 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
3408485 GCATACGGAGTTGATT-CCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
3408510 G
1 G
3408511 ATCAGACCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:3409013 original size:45 final size:45
Alignment explanation
Indices: 3408962--3409167 Score: 143
Period size: 45 Copynumber: 4.6 Consensus size: 45
3408952 CGGGGGCTCG
* *
3408962 GCATGTGCCGATGGTGGTCGAGGCAACAGCCTGTACCACG-GCCCA
1 GCATGTGTCGATGGTGGTCGAGGCAACAGCCTGCACCA-GAGCCCA
* * * *
3409007 GCATGTGTCGATGGTGTTCGATGCAACCGCCTGCACCAGAGGCCA
1 GCATGTGTCGATGGTGGTCGAGGCAACAGCCTGCACCAGAGCCCA
* * * * ***
3409052 TCTTGTGTCGATGGTAGTCGAGGCAA-ATGCCCGCACCA-AGGGTAA
1 GCATGTGTCGATGGTGGTCGAGGCAACA-GCCTGCACCAGA-GCCCA
** * * *
3409097 GCATGTGTCGATGGTAATCAAGGCAACCA-TCTGCACTC-GGGCCCA
1 GCATGTGTCGATGGTGGTCGAGGCAA-CAGCCTGCAC-CAGAGCCCA
* **
3409142 GCTTGTACCGATGGTGGTCGAGGCAA
1 GCATGTGTCGATGGTGGTCGAGGCAA
3409168 GTGCCCATAC
Statistics
Matches: 123, Mismatches: 31, Indels: 14
0.73 0.18 0.08
Matches are distributed among these distances:
44 2 0.02
45 119 0.97
46 1 0.01
47 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.32, T:0.20
Consensus pattern (45 bp):
GCATGTGTCGATGGTGGTCGAGGCAACAGCCTGCACCAGAGCCCA
Found at i:3409123 original size:90 final size:90
Alignment explanation
Indices: 3409006--3409199 Score: 205
Period size: 90 Copynumber: 2.2 Consensus size: 90
3408996 ACCACGGCCC
** * * * * **
3409006 AGCATGTGTCGATGGTGTTCGATGCAACCGCCTGCAC-CAGAGG-CCATCTTGTGTCGATGGTAG
1 AGCATGTGTCGATGGTAATCAAGGCAACCACCTGCACTC-G-GGCCCAGCTTGTACCGATGGTAG
*
3409069 TCGAGGCAAATGCCCGCACC-AAGGGT
64 TCGAGGCAAATGCCCACACCAAAGGGT
* *
3409095 AAGCATGTGTCGATGGTAATCAAGGCAACCATCTGCACTCGGGCCCAGCTTGTACCGATGGTGGT
1 -AGCATGTGTCGATGGTAATCAAGGCAACCACCTGCACTCGGGCCCAGCTTGTACCGATGGTAGT
* *
3409160 CGAGGCAAGTGCCCATACCAAAGGGT
65 CGAGGCAAATGCCCACACCAAAGGGT
* *
3409186 AGCCTGTGCCGATG
1 AGCATGTGTCGATG
3409200 ATGGTCGATG
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
89 2 0.02
90 77 0.90
91 7 0.08
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (90 bp):
AGCATGTGTCGATGGTAATCAAGGCAACCACCTGCACTCGGGCCCAGCTTGTACCGATGGTAGTC
GAGGCAAATGCCCACACCAAAGGGT
Found at i:3410691 original size:333 final size:330
Alignment explanation
Indices: 3410084--3410982 Score: 976
Period size: 332 Copynumber: 2.7 Consensus size: 330
3410074 GAGTGCCCGT
* * * *
3410084 ACGCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATCCCCAGTCTAAGCATACAAAGTTCA
1 ACGCTCATTTCGTGGGTTAACTTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACAGAGATCA
* * * *
3410149 TTCCCAGTCTAAGATTGGACCGGACCAAGGGTTGCGACAGCAGGATCGGCAGCATGCAGGGGACC
66 TTCCCAGTCTAAGATTGGACCGGAGC--GGGAT-CGACAGCAGCA-C-GCAG-A-G--GGGGATC
* * * * * * *
3410214 AGGCCAATCCCCAGCTTGCGCATTCTACCTCTCTGGTCGGCTGAGCGCCCGCACGCTTATTTCAT
122 GGGTCGATCCCCAGCTTGCACATTCTACCTCTC-GGTCGACTGAGCGCCAGCACGCTCATTTCAT
*
3410279 GGGCTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCA
186 GGGTTGGCTTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCA
* * *
3410344 ACGGGACCGACAGCACGCAGAGGGGAACCAGGCCGATCCAC-GGCTTACGCATTATGCCTCTCTG
251 ACGGGACCGACAGCACGCAGAGGGAAACCAGGCCGATCC-CTGACTTACGCATTATGCC-CTCCG
* *
3410408 GCCAGCTCAATGCACGC
314 ACCAGCTCAATGCACAC
* * *
3410425 ATGCTCGTTTCGTGGGTTAACTTAGGCATACGGAGTTTATTCCCAGTCTAAGCATACAGAGATCA
1 ACGCTCATTTCGTGGGTTAACTTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACAGAGATCA
* ** * *
3410490 TTCCTAGTCTAAGATCAGTCCGGTAGCGGGATCGACAGCAGCACGTAGAGGGGGATCGGGTCGAT
66 TTCCCAGTCTAAGATTGGACCGG-AGCGGGATCGACAGCAGCACGCAGAGGGGGATCGGGTCGAT
* * * *
3410555 CCCCAGCTTGCACATTCTGCCTCTACGGTCGACTGAGCGCCAGCATGCTCGTTTCGTGGGTTGGC
130 CCCCAGCTTGCACATTCTACCTCT-CGGTCGACTGAGCGCCAGCACGCTCATTTCATGGGTTGGC
* * * * * * * * *
3410620 GTAGCCATAAGGAGTTCATTTCATGTCTAAGCCCTAGCCGGACTGAGGGTTGTGGTAGCGGGACC
194 TTAGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCAACGGGACC
* *** * * * * *
3410685 GACAGCACGTAGAGGGAAATTGGGTCGATCCCTGACTTGCGCATTATGCCCTCCGATCGGCTCAG
259 GACAGCACGCAGAGGGAAACCAGGCCGATCCCTGACTTACGCATTATGCCCTCCGACCAGCTCAA
*
3410750 TGCCCAC
324 TGCACAC
* * *
3410757 ACGCTCATTTCATAGGTTAACTTAGGCATACGGAGTTCATTCCTAGTCTAAGCATAC-GA-AGTC
1 ACGCTCATTTCGTGGGTTAACTTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACAGAGA-T-
** * * *
3410820 CATTCCCAGTCTAAGATTGGAAGGGCAGCGGGATCAACAGTAGCACACAGAGGGGGATCGGGTCG
64 CATTCCCAGTCTAAGATTGGACCGG-AGCGGGATCGACAGCAGCACGCAGAGGGGGATCGGGTCG
* * * ** * * * * *
3410885 ATCCTCGGCTTGCACATCCTACCTCTCCAATCGATTCAACGCCTGTACGCTCATTTCATGGGTTG
128 ATCCCCAGCTTGCACATTCTACCTCT-CGGTCGACTGAGCGCCAGCACGCTCATTTCATGGGTTG
*
3410950 GCTTAGGCATACGGAGTTCATTCCCTGTCTAAG
192 GCTTAGGCATACGGAGTTCATTCCATGTCTAAG
3410983 TGACAATCAG
Statistics
Matches: 464, Mismatches: 89, Indels: 19
0.81 0.16 0.03
Matches are distributed among these distances:
330 1 0.00
331 3 0.01
332 199 0.43
333 161 0.35
334 1 0.00
335 1 0.00
336 1 0.00
337 3 0.01
338 1 0.00
339 10 0.02
340 4 0.01
341 77 0.17
342 2 0.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.23
Consensus pattern (330 bp):
ACGCTCATTTCGTGGGTTAACTTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACAGAGATCA
TTCCCAGTCTAAGATTGGACCGGAGCGGGATCGACAGCAGCACGCAGAGGGGGATCGGGTCGATC
CCCAGCTTGCACATTCTACCTCTCGGTCGACTGAGCGCCAGCACGCTCATTTCATGGGTTGGCTT
AGGCATACGGAGTTCATTCCATGTCTAAGCCCCAGCCAGACCGAGGGTTGTGGCAACGGGACCGA
CAGCACGCAGAGGGAAACCAGGCCGATCCCTGACTTACGCATTATGCCCTCCGACCAGCTCAATG
CACAC
Found at i:3410812 original size:26 final size:26
Alignment explanation
Indices: 3410782--3410834 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3410772 GTTAACTTAG
* * *
3410782 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGAAGTCCATTCCCAGTCTAA
3410808 GCATACGAAGTCCATTCCCAGTCTAA
1 GCATACGAAGTCCATTCCCAGTCTAA
3410834 G
1 G
3410835 ATTGGAAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGAAGTCCATTCCCAGTCTAA
Found at i:3411504 original size:45 final size:45
Alignment explanation
Indices: 3411287--3411531 Score: 186
Period size: 45 Copynumber: 5.4 Consensus size: 45
3411277 CGAGGCTCGT
* * * * * *
3411287 CATGTGCCAATGGTAGTCGAGCCAACCACCCGAACCACGGCCCAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAG
* * * * * *
3411332 CATGTGCCGATGGTGTTCGATGCAACCACCCGCACCATGGGCCAT
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAG
** * * * * *
3411377 TTTGTGTCGATGGTGGTCGAGGCAATCGCCTGCACCAAGGGCCGG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAG
* * * * **
3411422 CATGTGTCGATGGTGATCGAGGAAACCGTCTACACCAAGGCCCAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAG
* * * * *
3411467 CTTGTGCCGATGGCGGTCGAGGCAACTGCCCGTACCAAAGG-GCAG
1 CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACC-AAGGCCCAG
* *
3411512 CCTGTGCCGATGATGGTCGA
1 CATGTGCCGATGGTGGTCGA
3411532 TGCATGTGCC
Statistics
Matches: 156, Mismatches: 43, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
45 152 0.97
46 4 0.03
ACGTcount: A:0.21, C:0.30, G:0.31, T:0.18
Consensus pattern (45 bp):
CATGTGCCGATGGTGGTCGAGGCAACCGCCCGCACCAAGGCCCAG
Found at i:3413088 original size:26 final size:26
Alignment explanation
Indices: 3413058--3413110 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3413048 GTTGACTTAG
*
3413058 GCATACGGAGTTCATCCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
*
3413084 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATCCCCAGTCTAA
3413110 G
1 G
3413111 ATCGAACCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (26 bp):
GCATACAGAGTTCATCCCCAGTCTAA
Found at i:3414899 original size:26 final size:26
Alignment explanation
Indices: 3414862--3414914 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3414852 GTTGACTTAG
* *
3414862 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
3414888 GCATACGAAGTTCATTCCCAGTCTAA
1 GCATACGAAGTTCATTCCCAGTCTAA
3414914 G
1 G
3414915 ATTGGACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGAAGTTCATTCCCAGTCTAA
Found at i:3415248 original size:26 final size:26
Alignment explanation
Indices: 3415218--3415270 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
3415208 CTTGACTTAG
* *
3415218 GCATACGGAGTTCATTCCTACTCTAA
1 GCATACGGAGCTCATTCCCACTCTAA
* *
3415244 GCATATGGAGCTCATTCCCAGTCTAA
1 GCATACGGAGCTCATTCCCACTCTAA
3415270 G
1 G
3415271 ATCAGACCAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (26 bp):
GCATACGGAGCTCATTCCCACTCTAA
Found at i:3415877 original size:13 final size:13
Alignment explanation
Indices: 3415859--3415883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3415849 ATGGTCGATG
3415859 CATGTGCCATCAC
1 CATGTGCCATCAC
3415872 CATGTGCCATCA
1 CATGTGCCATCA
3415884 TGTGCCATTG
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:3416789 original size:550 final size:550
Alignment explanation
Indices: 3415782--3416851 Score: 1739
Period size: 550 Copynumber: 1.9 Consensus size: 550
3415772 TAGCCCGTAT
* * *
3415782 CAGGGCCCAGCTTATGCCGATGGCGGTTGAGGCAAGTGGCCGTACCAAAGGGCAACCTGTGCCGA
1 CAGGGCCCAGCTTATGCCAATGGCGGTCGAGGCAAGTGCCCGTACCAAAGGGCAACCTGTGCCGA
* **
3415847 TGATGGTCGATGCATGTGCCATCACCATGTGCCATCATGTGCCATTGATGGTTGAAGCCTTGGCC
66 TGATGGTCGATGCATGTGCCATCACCATGCGCCATCATGTGCCATTGATGGTCCAAGCCTTGGCC
*
3415912 GAAGTTCAATTTTGAGCCACGGTGCACATGCTGGGCTCGAGCATGTGCTGGTGCCATATTTGTTT
131 GAAGTTCAATTTTGAGCCACGGTGCACATGCTGGGCTCGAGCATGTGCTGGTGCCACATTTGTTT
* * * * *
3415977 TGCTCGGGGCACCATAGCCGGAGCATCGTCGGAGAACCTAACCGACGGCATTGGGGGTTCCGACG
196 TACCCGGGGCACCATAGCCAGAGCATCATCGGAGAACCTAACCGACGGCATTAGGGGTTCCGACG
* *
3416042 ATTGGGGGGGTCGAGGGGTGTGCGCACATGATGTGCGATGGGTGCTAGTACTTGGCCCTTATATT
261 ATTGGGGGGGCCAAGGGGTGTGCGCACATGATGTGCGATGGGTGCTAGTACTTGGCCCTTATATT
*
3416107 GACCCCCTATCCCTCATCAAACCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTATA
326 GACCCCCTATCCCTCATCAAACCTCAAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTATA
* * * *
3416172 GGTTTGCTCCCAGTGGCCATTAAAGTGTTTGAAATGGGGACATTTTTTTCAAATGGTCACAAAAT
391 GGTTTGCTCCCAGTAGCCATTAAAGTGTTTAAAATAGGGACATTTTTTTCAAACGGTCACAAAAT
* *
3416237 CTTTTCCACTTCCTGTTTTTAGCTGAATTTGTTCGTGCGTGCCAACAAAAATACAAGGATCATGT
456 CTTCTCCACTTCCAGTTTTTAGCTGAATTTGTTCGTGCGTGCCAACAAAAATACAAGGATCATGT
3416302 GCCAATGGATATCGAGGCAACCGTTCATAC
521 GCCAATGGATATCGAGGCAACCGTTCATAC
* * * *
3416332 CAGGGCCTAGCTTGTGCCAATGGCGGTCGAGGCAAGTGCCCGTTCCAAAGGGCAGCCTGTGCCGA
1 CAGGGCCCAGCTTATGCCAATGGCGGTCGAGGCAAGTGCCCGTACCAAAGGGCAACCTGTGCCGA
* *
3416397 TGATGGTCGATGCATGTGCCATCACCTTGCGCCATCATGTGCCATTGATGGTCCAGGCCTTGGCC
66 TGATGGTCGATGCATGTGCCATCACCATGCGCCATCATGTGCCATTGATGGTCCAAGCCTTGGCC
** * *
3416462 GAAGTTTGATTTTGAGCCACGGTGCACATGCTGGGCTCGAGCATGTGCTGTTGCCACATTTTTTT
131 GAAGTTCAATTTTGAGCCACGGTGCACATGCTGGGCTCGAGCATGTGCTGGTGCCACATTTGTTT
* * *
3416527 TCACCCGGGGCACCATCA-CTAGAGCATCATCGGAGAACCTAACCGGCGGTATTAGGGGTTCCGA
196 T-ACCCGGGGCACCAT-AGCCAGAGCATCATCGGAGAACCTAACCGACGGCATTAGGGGTTCCGA
*
3416591 CGATT-GGGGGGCCAAGGGGTGTGCGCACATGATGTGCGATGGGTGCTGGTACTTGGCCCTTATA
259 CGATTGGGGGGGCCAAGGGGTGTGCGCACATGATGTGCGATGGGTGCTAGTACTTGGCCCTTATA
* *
3416655 TTGGCCCCCTATCCCTCTTCAAACCTCAAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTA
324 TTGACCCCCTATCCCTCATCAAACCTCAAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTA
3416720 TAGGTTTGCTCCCAGTAGCCATTAAAGTGTTTAAAATAGGGACATTTTTTTCAAACGGTCACAAA
389 TAGGTTTGCTCCCAGTAGCCATTAAAGTGTTTAAAATAGGGACATTTTTTTCAAACGGTCACAAA
** * *
3416785 ATCTTCTCCACTTGGAGTTTTTAGCTGAATTTGTTTGTGTGTGCCAACAAAAATACAAGGATCAT
454 ATCTTCTCCACTTCCAGTTTTTAGCTGAATTTGTTCGTGCGTGCCAACAAAAATACAAGGATCAT
3416850 GT
519 GT
3416852 CTACCAAATT
Statistics
Matches: 477, Mismatches: 41, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
550 419 0.88
551 57 0.12
552 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (550 bp):
CAGGGCCCAGCTTATGCCAATGGCGGTCGAGGCAAGTGCCCGTACCAAAGGGCAACCTGTGCCGA
TGATGGTCGATGCATGTGCCATCACCATGCGCCATCATGTGCCATTGATGGTCCAAGCCTTGGCC
GAAGTTCAATTTTGAGCCACGGTGCACATGCTGGGCTCGAGCATGTGCTGGTGCCACATTTGTTT
TACCCGGGGCACCATAGCCAGAGCATCATCGGAGAACCTAACCGACGGCATTAGGGGTTCCGACG
ATTGGGGGGGCCAAGGGGTGTGCGCACATGATGTGCGATGGGTGCTAGTACTTGGCCCTTATATT
GACCCCCTATCCCTCATCAAACCTCAAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTATA
GGTTTGCTCCCAGTAGCCATTAAAGTGTTTAAAATAGGGACATTTTTTTCAAACGGTCACAAAAT
CTTCTCCACTTCCAGTTTTTAGCTGAATTTGTTCGTGCGTGCCAACAAAAATACAAGGATCATGT
GCCAATGGATATCGAGGCAACCGTTCATAC
Found at i:3417636 original size:26 final size:26
Alignment explanation
Indices: 3417607--3417659 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3417597 ATTGACTTAG
* * *
3417607 GCATATGGAGTTTATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAATCTAA
3417633 GCATACGGAGTTCATTCCCAATCTAA
1 GCATACGGAGTTCATTCCCAATCTAA
3417659 G
1 G
3417660 ATTGAACCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAATCTAA
Found at i:3417970 original size:26 final size:26
Alignment explanation
Indices: 3417940--3417992 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
3417930 GTTGACGTAG
*
3417940 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
3417966 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
3417992 G
1 G
3417993 ATCGGACCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:3418093 original size:333 final size:332
Alignment explanation
Indices: 3417456--3418155 Score: 794
Period size: 333 Copynumber: 2.1 Consensus size: 332
3417446 GCACATTCAG
* * * *
3417456 AGTTCATTCCATGTCTATGCCCCAACCGGACCGAAGGTTGTGGCAGAGGGACCGATAGCATGCAG
1 AGTTCATTCCATGTCTAAG-CCCAACCGGACCGAAGGTTGTGGCAGAGGGACCGACAACACGCAG
* * ** * * * * * **
3417521 AGGGGGACCAGGCTGATCCCCGGCTTGTGCATTATGCCTCTTTGGCTGGCTCAGCACCCGCATGC
65 AGGGGGACCAGGCCGATCCCCGGCATGCACATTATGCCTCTTCGACCGACTCAACACCCGCACAC
* * * *
3417586 TCATTTCGTGGATTGACTTAGGCATATGGAGTTTATTCCCAGTCTAAGCATACGGAGTTCATTCC
130 TCATTTCATGGATTGACGTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACGGAGTTCATTCC
* ** ** *
3417651 CAATCTAAGATTGAACCGGTAGCGAGATCGACAGCAGCATGCAGGGAGGGATCGGGCCGATCATC
195 CAATCTAAGATCGAACCGACAGCGAGATCGACAGCAGCACACAGAGAGGGATCGGGCCGATCATC
* * * ** * * * **
3417716 GGCTTGCACATTCTACCTCTCTGACCGGCTGAGTGCCTACACGCTTGTTTCGTGGGTTGGCTTAG
260 GGCTTGCACATCCTACCTCCCTGACCCGCTGAGCACCCACACGCTCGTTTCATGGGTTAACTTAG
*
3417781 GCATACGA
325 GCATACAA
* * * * * *
3417789 CGTTCATTCCATGTCTAAGCCCAAGCCGGACGGAGGGTTGTGGCAGCGGGATCGACAACACGCAT
1 AGTTCATTCCATGTCTAAGCCCAA-CCGGACCGAAGGTTGTGGCAGAGGGACCGACAACACGCAG
* * *
3417854 AGGGGGCCCGGGCCGATCCCCGGCATGCACATTATGCCTCTTCGACCGACTCAACGCCCGCACAC
65 AGGGGGACCAGGCCGATCCCCGGCATGCACATTATGCCTCTTCGACCGACTCAACACCCGCACAC
* * *
3417919 TCATTTCATGGGTTGACGTAGGCATACGGAGTTCATTCCTAGTCTAAGCATATGGAGTTCATTCC
130 TCATTTCATGGATTGACGTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACGGAGTTCATTCC
* * * * * *
3417984 CAGTCTAAGATCGGACCGACAGC-AGGATTGGCAGCAGCACACAGA-AGGGGATCGGGTCGATCC
195 CAATCTAAGATCGAACCGACAGCGA-GATCGACAGCAGCACACAGAGA-GGGATCGGGCCGATCA
* * *
3418047 TTGGCTTGCGCATCCTGCCTCCCTGACCCGCTGAGCACCCACACGCTCGTTTCATGGGTTAACTT
258 TCGGCTTGCACATCCTACCTCCCTGACCCGCTGAGCACCCACACGCTCGTTTCATGGGTTAACTT
3418112 AGGCATACAA
323 AGGCATACAA
* *
3418122 AGTTCATTCTC-GGTCTAAGCCCCAACCGAACCGA
1 AGTTCATTC-CATGTCTAAG-CCCAACCGGACCGA
3418156 CGGACCCGTA
Statistics
Matches: 301, Mismatches: 61, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
332 7 0.02
333 288 0.96
334 6 0.02
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.23
Consensus pattern (332 bp):
AGTTCATTCCATGTCTAAGCCCAACCGGACCGAAGGTTGTGGCAGAGGGACCGACAACACGCAGA
GGGGGACCAGGCCGATCCCCGGCATGCACATTATGCCTCTTCGACCGACTCAACACCCGCACACT
CATTTCATGGATTGACGTAGGCATACGGAGTTCATTCCCAGTCTAAGCATACGGAGTTCATTCCC
AATCTAAGATCGAACCGACAGCGAGATCGACAGCAGCACACAGAGAGGGATCGGGCCGATCATCG
GCTTGCACATCCTACCTCCCTGACCCGCTGAGCACCCACACGCTCGTTTCATGGGTTAACTTAGG
CATACAA
Found at i:3419913 original size:26 final size:26
Alignment explanation
Indices: 3419883--3419935 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
3419873 GTTGACTTAG
3419883 GCATACGGAGTTCA-TCCCTAGTCTAA
1 GCATACGGAGTTCATTCCC-AGTCTAA
3419909 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
3419935 G
1 G
3419936 ATCAGACTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:3421365 original size:26 final size:26
Alignment explanation
Indices: 3421336--3421387 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3421326 GTTGACTAGA
3421336 CATACGAAGTTCA-TCCTCAGTCTAAG
1 CATACGAAGTTCATTCC-CAGTCTAAG
*
3421362 CATACGGAGTTCATTCCCAGTCTAAG
1 CATACGAAGTTCATTCCCAGTCTAAG
3421388 ATCAGACCGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 21 0.88
27 3 0.12
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (26 bp):
CATACGAAGTTCATTCCCAGTCTAAG
Found at i:3421654 original size:26 final size:26
Alignment explanation
Indices: 3421625--3421677 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
3421615 GTTGACTTAG
*
3421625 GCATACGGAGTTCATTCCCAATCTAA
1 GCATACGGAGTACATTCCCAATCTAA
* *
3421651 GCATATGGAGTACATTCCCAGTCTAA
1 GCATACGGAGTACATTCCCAATCTAA
3421677 G
1 G
3421678 ATCAGACTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTACATTCCCAATCTAA
Found at i:3422370 original size:13 final size:13
Alignment explanation
Indices: 3422352--3422376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3422342 ATGATCGATG
3422352 CATGTGCCATCAC
1 CATGTGCCATCAC
3422365 CATGTGCCATCA
1 CATGTGCCATCA
3422377 TGTGCTATTG
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:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGTGCCATCAC
Found at i:3427997 original size:45 final size:45
Alignment explanation
Indices: 3427856--3428060 Score: 157
Period size: 45 Copynumber: 4.6 Consensus size: 45
3427846 CGAGGCTCGA
* ** *
3427856 CATGTGACGATGGTGGTCGAGGCAA-CTATCC-GCACCATTGCCCAG
1 CATGTGCCGATGGTGGTCGAGGCAATC-A-CCTGCACCAAGGGCCAG
* * * * * *
3427901 CATGTGCCGATGGTGTTCGATGCAACCACCTGAACC-AGAGGCTAT
1 CATGTGCCGATGGTGGTCGAGGCAATCACCTGCACCAAG-GGCCAG
* * *
3427946 CTTGTGCCGATGGTGGTCGAGGCAATCGCCTGCACCAAGGGTCAG
1 CATGTGCCGATGGTGGTCGAGGCAATCACCTGCACCAAGGGCCAG
* * * * *
3427991 CATGTGCCAATGGTGATTGAGGCAACCACTTGCACC-AGGGCCCAG
1 CATGTGCCGATGGTGGTCGAGGCAATCACCTGCACCAAGGG-CCAG
* * *
3428036 CTTGTGTCGATGGCGGTCGAGGCAA
1 CATGTGCCGATGGTGGTCGAGGCAA
3428061 GTGCCCATAC
Statistics
Matches: 123, Mismatches: 32, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
44 6 0.05
45 114 0.93
46 3 0.02
ACGTcount: A:0.21, C:0.27, G:0.31, T:0.20
Consensus pattern (45 bp):
CATGTGCCGATGGTGGTCGAGGCAATCACCTGCACCAAGGGCCAG
Done.