Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 266 of 276
Found at i:88121169 original size:58 final size:57
Alignment explanation
Indices: 88120981--88121148 Score: 246
Period size: 58 Copynumber: 2.9 Consensus size: 57
88120971 CGAATGATTA
* * *
88120981 GAGGTACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATT-CTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
88121039 GAGGCACTGTGTGTGCGAATTCTTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTC-TTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * * * *
88121097 GAGGCACTGTGTGTGCGAGTTCTTCAACCGAGCGCTATGTATGGGAGATCGG
1 GAGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGG
88121149 CAAGTGGGCA
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
57 27 0.27
58 74 0.73
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:88136004 original size:43 final size:43
Alignment explanation
Indices: 88135956--88136074 Score: 193
Period size: 43 Copynumber: 2.8 Consensus size: 43
88135946 GCATGAAACT
* *
88135956 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCCGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
88135999 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGTAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
88136042 CAGTGATGTGTATTCGGGTCTTCGTGCCTAGCA
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCA
88136075 TAATGCCGGT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.10, C:0.24, G:0.34, T:0.33
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:88136305 original size:29 final size:29
Alignment explanation
Indices: 88136273--88136375 Score: 111
Period size: 29 Copynumber: 3.6 Consensus size: 29
88136263 CTTTAACCGA
*
88136273 GCACTATGTGTACGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAATTGAG
* ** **
88136302 GCACTGTGTGTGCGA-ATTCCTTTAACCGA-
1 GCACTATGTGTGCGAGA-T-CGGTAATTGAG
88136331 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTAATTGAG
*
88136360 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
88136376 TTCTTCAACC
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
28 7 0.12
29 44 0.76
30 7 0.12
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCGGTAATTGAG
Found at i:88136310 original size:58 final size:58
Alignment explanation
Indices: 88136241--88136408 Score: 275
Period size: 58 Copynumber: 2.9 Consensus size: 58
88136231 CGAATGATTA
* *
88136241 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTACGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
88136299 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * * *
88136357 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCGCTATGTATGCGAGATCGG
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGG
88136409 CCAGTGGGTA
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 28 0.27
58 76 0.73
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:88138813 original size:68 final size:68
Alignment explanation
Indices: 88138729--88138876 Score: 181
Period size: 68 Copynumber: 2.2 Consensus size: 68
88138719 CTTAAAATTA
* * * * *
88138729 AGCTGTTCGAATGTGTTAGATTCACTATTCAAAGCA-TCATCATTTATGCTATTTTATTTGGTAA
1 AGCTGTCCGAATGTGTTAAATTCACTATTCAAAGCACT-ACCATATATGCTATTTTATTTAGTAA
88138793 ATGT
65 ATGT
* * * * * *
88138797 AGCTGTCCGAATGTGTTAAATTCATTGTTCGATGCACTACCATATATGTTGTTTTATTTAGTAAA
1 AGCTGTCCGAATGTGTTAAATTCACTATTCAAAGCACTACCATATATGCTATTTTATTTAGTAAA
88138862 TGT
66 TGT
88138865 AGCTGTCCGAAT
1 AGCTGTCCGAAT
88138877 CTATTGATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 67 0.99
69 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (68 bp):
AGCTGTCCGAATGTGTTAAATTCACTATTCAAAGCACTACCATATATGCTATTTTATTTAGTAAA
TGT
Found at i:88140318 original size:44 final size:43
Alignment explanation
Indices: 88140269--88140384 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 43
88140259 AAGTGATTTT
*
88140269 ATGTAAGACCACATCTGGGACATTGGCATCAAT-TTGAGATTTAC
1 ATGTAAGACCACATCTGGGACATTGGCATCAATATT-AGA-TAAC
* * *
88140313 GTGTAAGACC-CTATCTGGGACAGTGGCATCAATATTTGATAAC
1 ATGTAAGACCAC-ATCTGGGACATTGGCATCAATATTAGATAAC
**
88140356 ATGTAAGACCATGTCTGGGACATTGGCAT
1 ATGTAAGACCACATCTGGGACATTGGCAT
88140385 TGTACGAGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 28 0.46
44 31 0.51
45 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (43 bp):
ATGTAAGACCACATCTGGGACATTGGCATCAATATTAGATAAC
Found at i:88143679 original size:42 final size:42
Alignment explanation
Indices: 88143626--88143787 Score: 216
Period size: 42 Copynumber: 3.8 Consensus size: 42
88143616 AGGGTTACTA
* *
88143626 AGACTATGTGTAAGACCATATCTGGGATATGACATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
* *
88143668 AGACTACGTGTAAGATCATATCAGGGATATGGCATCAATATG
1 AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * * * *
88143710 AGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGACTACGTGTAAGACCATATCTGGGATA-TGGCATCAATATG
* *
88143753 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGACTACGTGTAAGACCATATCTGGGATATGGCAT
88143788 TGGAACAGTA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 68 0.66
43 35 0.34
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
AGACTACGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:88143785 original size:85 final size:84
Alignment explanation
Indices: 88143633--88143787 Score: 220
Period size: 85 Copynumber: 1.8 Consensus size: 84
88143623 CTAAGACTAT
* * * *
88143633 GTGTAAGACCATATCTGGGATATGACATCAATATGAGACTACGTGTAAGATCATATCAGGGATAT
1 GTGTAAGACCATAGCTGGGATATGACATCAATACGAGACTACATGTAAGACCATATCAGGGATAT
88143698 GGCATCAATATGAGACTTC
66 GGCATCAATATGAGACTTC
* * * * *
88143717 GTGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTACATGTAAGACCATATCTGGGATA
1 GTGTAAGACCATAGCTGGGATA-TGACATCAATACGAGACTACATGTAAGACCATATCAGGGATA
88143782 TGGCAT
65 TGGCAT
88143788 TGGAACAGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
84 20 0.33
85 41 0.67
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (84 bp):
GTGTAAGACCATAGCTGGGATATGACATCAATACGAGACTACATGTAAGACCATATCAGGGATAT
GGCATCAATATGAGACTTC
Found at i:88149201 original size:30 final size:30
Alignment explanation
Indices: 88149165--88149263 Score: 189
Period size: 30 Copynumber: 3.3 Consensus size: 30
88149155 AGCCACACGG
88149165 GCGTGTGGGCCCACACGAGTGAACTACAGA
1 GCGTGTGGGCCCACACGAGTGAACTACAGA
*
88149195 GTGTGTGGGCCCACACGAGTGAACTACAGA
1 GCGTGTGGGCCCACACGAGTGAACTACAGA
88149225 GCGTGTGGGCCCACACGAGTGAACTACAGA
1 GCGTGTGGGCCCACACGAGTGAACTACAGA
88149255 GCGTGTGGG
1 GCGTGTGGG
88149264 AATCCGGGTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.24, C:0.24, G:0.36, T:0.15
Consensus pattern (30 bp):
GCGTGTGGGCCCACACGAGTGAACTACAGA
Found at i:88150014 original size:30 final size:30
Alignment explanation
Indices: 88149971--88150032 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
88149961 CTTAACAAGA
88149971 AAATGCTTCTAAAATAATAAAAAAATTAAC
1 AAATGCTTCTAAAATAATAAAAAAATTAAC
*
88150001 AAATGCCTT-TAAAATAATAAGAAAATTAAC
1 AAATG-CTTCTAAAATAATAAAAAAATTAAC
88150031 AA
1 AA
88150033 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.26
Consensus pattern (30 bp):
AAATGCTTCTAAAATAATAAAAAAATTAAC
Found at i:88159598 original size:39 final size:40
Alignment explanation
Indices: 88159498--88159682 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
88159488 TTGAATGATG
* * * *
88159498 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
88159537 ATCCGGATTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
88159578 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
88159617 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
88159656 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
88159683 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.29
40 75 0.63
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:88159634 original size:79 final size:81
Alignment explanation
Indices: 88159498--88159682 Score: 245
Period size: 79 Copynumber: 2.3 Consensus size: 81
88159488 TTGAATGATG
* * *
88159498 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATT
88159562 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* *
88159577 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACAAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGAT-CCGAAGGCA
*
88159639 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
88159657 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88159683 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.63
80 33 0.35
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAAAATCCGGATTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:88159696 original size:40 final size:40
Alignment explanation
Indices: 88159579--88159701 Score: 108
Period size: 40 Copynumber: 3.1 Consensus size: 40
88159569 GATACTAATT
** * * *
88159579 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTAC-AAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
88159617 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
88159658 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
88159698 CCGG
1 CCGG
88159702 TTAAATTCCG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 10 0.14
40 59 0.82
41 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:88159704 original size:79 final size:77
Alignment explanation
Indices: 88159499--88159715 Score: 197
Period size: 79 Copynumber: 2.7 Consensus size: 77
88159489 TGAATGATGT
* ** *
88159499 CCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATATCCGGATTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-AAGTGACAATATCCGG-TTAAG-TCCGAAGGCATTT
*
88159563 GTGCGAGATACTAATT
62 GTGCGAGATACTAATA
** * *
88159579 CCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACAAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACAAGTGACAATATCC-GGTTAAGT-CCGAAGGCATTTGT
*
88159644 GCGAGTTACT-ATAA
64 GCGAGATACTAAT-A
* * * *
88159658 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACAAGTGA-CAATATCCGGTT-AAGTCCGAAGG
88159716 TACGTGATTT
Statistics
Matches: 116, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 68 0.59
80 45 0.39
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACAAGTGACAATATCCGGTTAAGTCCGAAGGCATTTGTGC
GAGATACTAATA
Found at i:88166507 original size:8 final size:8
Alignment explanation
Indices: 88166489--88166535 Score: 69
Period size: 8 Copynumber: 5.9 Consensus size: 8
88166479 TAATAGAAAT
88166489 ATAATTTTA
1 ATAA-TTTA
88166498 ATAATTTA
1 ATAATTTA
88166506 ATAATTTA
1 ATAATTTA
*
88166514 ATAATTAA
1 ATAATTTA
88166522 ATAATTT-
1 ATAATTTA
88166529 ATAATTT
1 ATAATTT
88166536 TTAAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 7 0.19
8 25 0.69
9 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATAATTTA
Found at i:88168218 original size:3 final size:3
Alignment explanation
Indices: 88168212--88168240 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
88168202 GGTAAGCGAT
88168212 TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
88168241 TTGTTGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.34, T:0.34
Consensus pattern (3 bp):
TGC
Found at i:88170062 original size:3 final size:3
Alignment explanation
Indices: 88170054--88170092 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
88170044 AATTAATCCT
88170054 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
88170093 ATTCTTCTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:88170998 original size:24 final size:24
Alignment explanation
Indices: 88170969--88171020 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
88170959 TACTTTCATT
88170969 TATTCTAATTTAAGTCTCGTCAAG
1 TATTCTAATTTAAGTCTCGTCAAG
88170993 TATTCTAATTTAAGTCTCGTCAAG
1 TATTCTAATTTAAGTCTCGTCAAG
88171017 TATT
1 TATT
88171021 AATTATGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (24 bp):
TATTCTAATTTAAGTCTCGTCAAG
Found at i:88176971 original size:38 final size:38
Alignment explanation
Indices: 88176929--88177005 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
88176919 TAACATGTGT
*
88176929 TTGCTTAGTTCAGTGACTGGAATAATTTTTAGAGACAA
1 TTGCTTAGTTCAGTGACGGGAATAATTTTTAGAGACAA
88176967 TTGCTTAGTTCAGTGACGGGAATAATTTTTAGAGACAA
1 TTGCTTAGTTCAGTGACGGGAATAATTTTTAGAGACAA
88177005 T
1 T
88177006 GAGAGGTATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.36
Consensus pattern (38 bp):
TTGCTTAGTTCAGTGACGGGAATAATTTTTAGAGACAA
Found at i:88179491 original size:23 final size:23
Alignment explanation
Indices: 88179461--88179507 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
88179451 GAAATTTCAA
*
88179461 GCAGTTAATTATTGATTGATCTT
1 GCAGTTAATTACTGATTGATCTT
88179484 GCAGTTAATTACTGATTGATCTT
1 GCAGTTAATTACTGATTGATCTT
88179507 G
1 G
88179508 GTAAACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (23 bp):
GCAGTTAATTACTGATTGATCTT
Found at i:88180092 original size:13 final size:13
Alignment explanation
Indices: 88180074--88180099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88180064 TTAGTTTTAA
88180074 AAATTCAATAAAT
1 AAATTCAATAAAT
88180087 AAATTCAATAAAT
1 AAATTCAATAAAT
88180100 TTAACTCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTCAATAAAT
Found at i:88180193 original size:23 final size:23
Alignment explanation
Indices: 88180144--88180197 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
88180134 TCTTAATTTA
*
88180144 TAAAAAATTCAAAAATAAAAATT
1 TAAAAAATTCAAAAATAAAAATC
* *
88180167 TAAAAACTTTAAAAACTAAAAA-C
1 TAAAAAATTCAAAAA-TAAAAATC
88180190 TAAAAAAT
1 TAAAAAAT
88180198 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (23 bp):
TAAAAAATTCAAAAATAAAAATC
Found at i:88189482 original size:40 final size:40
Alignment explanation
Indices: 88189388--88189568 Score: 206
Period size: 40 Copynumber: 4.5 Consensus size: 40
88189378 TATTCGAATG
*
88189388 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* *
88189429 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
88189469 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * * **
88189509 ATATCCGGGCTAAGACTCGAAAGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88189548 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
88189569 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 11 0.09
39 16 0.14
40 61 0.52
41 29 0.25
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88194470 original size:64 final size:66
Alignment explanation
Indices: 88194396--88194532 Score: 163
Period size: 64 Copynumber: 2.1 Consensus size: 66
88194386 ATTTTTAAAA
* * *
88194396 TTTTATTTTTTAATTTTAAGAATTACGACT-AAATTAATAGAATATGTAAA-GTT-GAGGGTTAA
1 TTTTA-TTTTTAATTTTAAGAATTA-GACTCAAAATAATAAAATATGTAAACATTGGAGGGTTAA
88194458 ATT
64 ATT
* * * *
88194461 TTTTATTTTTATTTTTTAGAATTAGACTCAAAATAATAAAATCTGTAAACATTGGAGGGTTAGAT
1 TTTTATTTTTAATTTTAAGAATTAGACTCAAAATAATAAAATATGTAAACATTGGAGGGTTAAAT
88194526 T
66 T
*
88194527 TGTTAT
1 TTTTAT
88194533 AATTCCAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
63 4 0.07
64 34 0.56
65 7 0.11
66 16 0.26
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.45
Consensus pattern (66 bp):
TTTTATTTTTAATTTTAAGAATTAGACTCAAAATAATAAAATATGTAAACATTGGAGGGTTAAAT
T
Found at i:88199293 original size:49 final size:49
Alignment explanation
Indices: 88199227--88199398 Score: 143
Period size: 49 Copynumber: 3.5 Consensus size: 49
88199217 GTTGTGTGTT
* *
88199227 AGTGTAAGACTTGTCTGGGACATGGCATCGACAC-CAATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * * * **
88199276 AGTGTAAGACCTATCTGGAACATGGCATTGACCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* * * * * ** *
88199325 AGTGTAAGACCTGTCTGGGACACGACATTGACTTTAAT-G-TGCTAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
*
88199372 AGTGTAAAACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
88199399 GTCGGCGTTT
Statistics
Matches: 98, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
47 15 0.15
48 14 0.14
49 69 0.70
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:88199344 original size:142 final size:138
Alignment explanation
Indices: 88199089--88199346 Score: 324
Period size: 142 Copynumber: 1.8 Consensus size: 138
88199079 CATGAGTGCC
* * *
88199089 AGTGTAAGACGTGTCTGGGACATGCATCGGCAATGAGACGAGAGCTAGTGTAAGACATGTCTAGG
1 AGTGTAAGACGTGTCTGGGACATGCATCGCCAATGAGACGAGAGCCAGTGTAAGACATATCTAGG
* * *
88199154 ACATGCGTCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTTTGGGACATGGCGTTAGCTTGT
66 ACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTTAGCTTGT
88199219 TGTGTGTT
131 TGTGTGTT
* * *
88199227 AGTGTAAGACTTGTCTGGGACATGGCATCGACACCAAT-AGATGAGAGCCAGTGTAAGACCTATC
1 AGTGTAAGACGTGTCTGGGACAT-GCATCG---CCAATGAGACGAGAGCCAGTGTAAGACATATC
* * *
88199291 T-GGAACATGGCATTGACCTCGATATATGA-AAGTTAGTGTAAGACCTGTCTGGGACA
62 TAGG-ACAT-GCATCGACCTCGAGATAT-ACAAGCTAGTGTAAGACCTGTCTGGGACA
88199347 CGACATTGAC
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
138 22 0.22
139 6 0.06
140 2 0.02
141 27 0.27
142 43 0.43
143 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (138 bp):
AGTGTAAGACGTGTCTGGGACATGCATCGCCAATGAGACGAGAGCCAGTGTAAGACATATCTAGG
ACATGCATCGACCTCGAGATATACAAGCTAGTGTAAGACCTGTCTGGGACATGGCGTTAGCTTGT
TGTGTGTT
Found at i:88206871 original size:48 final size:47
Alignment explanation
Indices: 88206711--88206966 Score: 184
Period size: 48 Copynumber: 5.4 Consensus size: 47
88206701 GGTGGTATAT
* * * *
88206711 AAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AT-CATGA
1 AAGCTAGTGTAAGACCTGTCT-GGACATGCATCGGCCTCGATATATGA
** * * * * ** * *
88206757 GTGCCAGTGTAAGACGTGTCTAGGACATGCATTGACAACG--AGACGA
1 AAGCTAGTGTAAGACCTGTCT-GGACATGCATCGGCCTCGATATATGA
* * *
88206803 AAGCTAGTGTAAGACATGTCTAGGACATGCGTCGGCCTCGAGATAT-A
1 AAGCTAGTGTAAGACCTGTCT-GGACATGCATCGGCCTCGATATATGA
* *
88206850 CAAGCTAGTGTAAGACCTGTCTGGGACATGTCATCGACAC-CGATAGATGA
1 -AAGCTAGTGTAAGACCTGTCT-GGACATG-CATCGGC-CTCGATATATGA
* * *
88206900 GAGCCAGTGTAAGACCTGTCTGGACATGGCATCGGCCTCAATATATGA
1 AAGCTAGTGTAAGACCTGTCTGGACAT-GCATCGGCCTCGATATATGA
88206948 AAG-TCAGTGTAAGACCTGT
1 AAGCT-AGTGTAAGACCTGT
88206967 TTGGGACACG
Statistics
Matches: 164, Mismatches: 35, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
46 64 0.39
47 2 0.01
48 65 0.40
49 31 0.19
50 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (47 bp):
AAGCTAGTGTAAGACCTGTCTGGACATGCATCGGCCTCGATATATGA
Found at i:88206937 original size:97 final size:94
Alignment explanation
Indices: 88206711--88206984 Score: 254
Period size: 97 Copynumber: 2.9 Consensus size: 94
88206701 GGTGGTATAT
* * * * ** * *
88206711 AAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-C-C-ACATCATGAGTGCCAGTGTAAGACG
1 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGAT-ATGAAAGTCAGTGTAAGACC
* *
88206773 TGTCTAGGACATGCATTGACAACGAGACGA
65 TGTCTGGGACATGCATCGACAACGAGACGA
* * *
88206803 AAGCTAGTGTAAGACATGTCTAGGACATGCGTCGGCCTCGAGATAT-ACAAG-CTAGTGTAAGAC
1 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATATGA-AAGTC-AGTGTAAGAC
* *
88206866 CTGTCTGGGACATGTCATCGACACCGATAGATGA
64 CTGTCTGGGACATG-CATCGACAACG--AGACGA
* * *
88206900 GAGCCAGTGTAAGACCTGTCT-GGACATGGCATCGGCCTCAATATATGAAAGTCAGTGTAAGACC
1 AAGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCAAGATATGAAAGTCAGTGTAAGACC
* *
88206964 TGTTTGGGACACGGCATCGAC
65 TGTCTGGGACA-TGCATCGAC
88206985 TTTAATGTGC
Statistics
Matches: 151, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
92 32 0.21
93 3 0.02
94 26 0.17
95 12 0.08
96 6 0.04
97 69 0.46
98 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (94 bp):
AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATATGAAAGTCAGTGTAAGACCT
GTCTGGGACATGCATCGACAACGAGACGA
Found at i:88212173 original size:92 final size:93
Alignment explanation
Indices: 88212042--88212228 Score: 313
Period size: 92 Copynumber: 2.0 Consensus size: 93
88212032 AGAAATCCTT
**
88212042 TTCTTAGCCTTAATTTACTTTTGTTAGGATTGAGGTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTAATTTACTTTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
*
88212107 TGTTGATTCATCTTTTTTCTATTATTTC
66 TGTTGATTCATCTTTTTTCTATTATGTC
* *
88212135 TTCTTCGCCTTTATTTAC-TTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
1 TTCTTAGCCTTAATTTACTTTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
*
88212199 TGTTTATTCATCTTTTTTCTATTATGTC
66 TGTTGATTCATCTTTTTTCTATTATGTC
88212227 TT
1 TT
88212229 GGCAGCTCCT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 72 0.82
93 16 0.18
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.56
Consensus pattern (93 bp):
TTCTTAGCCTTAATTTACTTTTGTTAGGATTGAACTCTGATTAGAGATTTTGTTTTGGGTTTAAT
TGTTGATTCATCTTTTTTCTATTATGTC
Found at i:88213775 original size:20 final size:19
Alignment explanation
Indices: 88213730--88213767 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
88213720 CATCCAAACA
*
88213730 CTAGAAAAGTAAATCATTT
1 CTAGAAAAATAAATCATTT
88213749 CTAGAAAAATAAATCATTT
1 CTAGAAAAATAAATCATTT
88213768 TTCAGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (19 bp):
CTAGAAAAATAAATCATTT
Found at i:88213778 original size:14 final size:14
Alignment explanation
Indices: 88213759--88213796 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
88213749 CTAGAAAAAT
88213759 AAATCATTTTTCAG
1 AAATCATTTTTCAG
*
88213773 AAATCATTTTTCGG
1 AAATCATTTTTCAG
*
88213787 AAAACATTTT
1 AAATCATTTT
88213797 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:88221418 original size:51 final size:51
Alignment explanation
Indices: 88221348--88221488 Score: 282
Period size: 51 Copynumber: 2.8 Consensus size: 51
88221338 ATGATAGTAA
88221348 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
88221399 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
88221450 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
88221489 CGTGACAAGG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 90 1.00
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (51 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
Found at i:88221719 original size:37 final size:37
Alignment explanation
Indices: 88221663--88221741 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
88221653 CCGAGCTCTA
* * *
88221663 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
88221700 AAGACCCGATAACTTCGTGTGGAGATTATGTCCTGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
88221737 AAGAC
1 AAGAC
88221742 TTTGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:88222882 original size:47 final size:47
Alignment explanation
Indices: 88221870--88222853 Score: 1590
Period size: 47 Copynumber: 20.9 Consensus size: 47
88221860 GAAAGCAATC
* * *
88221870 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
88221917 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88221964 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222011 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222058 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222105 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222152 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222199 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222246 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222293 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222340 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222387 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222434 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222481 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222528 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222575 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222622 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
*
88222669 TAGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* *
88222716 TGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* *
88222763 TGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAA
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* * *
88222810 TGGCCGATGTGATGAATGAGAAAGTGTATATATGTGACAAGGCC
1 TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
88222854 GAGTGGCCAA
Statistics
Matches: 867, Mismatches: 70, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 867 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
TAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
Found at i:88222897 original size:94 final size:94
Alignment explanation
Indices: 88221870--88222853 Score: 1851
Period size: 94 Copynumber: 10.5 Consensus size: 94
88221860 GAAAGCAATC
88221870 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
*
88221935 TGAAAGTGTATATATGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88221964 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222029 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88222058 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222123 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88222152 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222217 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88222246 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222311 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88222340 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222405 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88222434 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222499 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88222528 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222593 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
88222622 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222687 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
* * * ** *
88222716 TGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
88222781 TGAAAGTGTATATACGTGATAAGGCCTAA
66 TGAAAGTGTATATACGTGATAAGGCCTAA
* * * * * *
88222810 TGGCCGATGTGATGAATGAGAAAGTGTATATATGTGACAAGGCC
1 TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCC
88222854 GAGTGGCCAA
Statistics
Matches: 880, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 880 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.28
Consensus pattern (94 bp):
TAGCCGACGTGATGAATGTGAAAGTGTATGTGTGTGATAAGGCCTAATAGCCGATGTGATGAATG
TGAAAGTGTATATACGTGATAAGGCCTAA
Found at i:88223072 original size:37 final size:37
Alignment explanation
Indices: 88223016--88223094 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
88223006 CCGAGCTCTA
* * *
88223016 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
88223053 AAGACCCGATAACTTCGTGTGGAGATTATGTCCTGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
88223090 AAGAC
1 AAGAC
88223095 TTTGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:88234350 original size:131 final size:131
Alignment explanation
Indices: 88234065--88234449 Score: 390
Period size: 131 Copynumber: 2.9 Consensus size: 131
88234055 AGAAAAATAC
* *
88234065 GAATGAAATTCCGAAGAGACATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAT-GAT
1 GAATGAAATTCCGAAG-GATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGC-TCGAT
* * * * *
88234129 AGGGCACT-ATTCCTCGAATCGCCAAACATCGAATATTTCTTTCGTTTTAAAAGGTTTTTTGAAA
64 AGGGCA-TGATTCCACGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAAGGTTTTTGGAAA
88234193 ACAT
128 ACAT
* * *
88234197 GAATGAAATTCCGAAGGGTATTCGATTGTTTTGAAGAAACGAGAAATCT-CAACCCAGCTCGATA
1 GAATGAAATTCCGAAGGATATTCGATTATTTTGAACAAACGAGAAAT-TGCAACCCAGCTCGATA
* * * *
88234261 GGGCATGATTCC-CGAATTGTCAAACATCGAGTATTGCCTTCGTTTT-GAAGGATTTTTGGAAGA
65 GGGCATGATTCCACGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAAGG-TTTTTGGAAAA
88234324 CAT
129 CAT
** * * * * * *
88234327 GGGTGAAAGTT-TGAAGCGATATTCGATTATTTCGAACAAAC-ACGAAATTGTAACCCAACACGT
1 GAATGAAA-TTCCGAAG-GATATTCGATTATTTTGAACAAACGA-GAAATTGCAACCCAGCTCGA
* * * * *
88234390 TAGGGCACGATTCCACGAATTGCCAAATATCGAATCTCGTCTTCGTTTT-AAAGAGTTTTT
63 TAGGGCATGATTCCACGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAAG-GTTTTT
88234450 AAAACAATTA
Statistics
Matches: 211, Mismatches: 32, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
129 4 0.02
130 55 0.26
131 98 0.46
132 53 0.25
133 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (131 bp):
GAATGAAATTCCGAAGGATATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAGCTCGATAG
GGCATGATTCCACGAATTGCCAAACATCGAATATTGCCTTCGTTTTAAAAGGTTTTTGGAAAACA
T
Found at i:88236365 original size:52 final size:51
Alignment explanation
Indices: 88236298--88236397 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 51
88236288 TCCCCTTTAC
* *
88236298 CACGATGAACACGCGGGTCATGAGGGCGCTGAATCGGGTCGGTTGGGTCTA
1 CACGACGAACACGCGGGTCATGAGGGCGCTGAATCGGGTCGGTCGGGTCTA
* *
88236349 NCACGACGAACGCGCGGGTCATGAGGGTGCTGAATCGGGTCGGTCGGGT
1 -CACGACGAACACGCGGGTCATGAGGGCGCTGAATCGGGTCGGTCGGGT
88236398 TTAACTACCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.18, C:0.22, G:0.41, T:0.18
Consensus pattern (51 bp):
CACGACGAACACGCGGGTCATGAGGGCGCTGAATCGGGTCGGTCGGGTCTA
Found at i:88237784 original size:132 final size:131
Alignment explanation
Indices: 88237458--88238081 Score: 849
Period size: 132 Copynumber: 4.7 Consensus size: 131
88237448 GCGATCTTCG
*
88237458 GCCTACTCCACTACAACTTTAGGGAGCTA-GATTGGTAGCTTAAATCTGCTTCACTGCAACTTCA
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGA-TGGTGGCTTAAATCTGCTTCACTGCAACTTCA
* * * **
88237522 AGAAGCCAAGATTTGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAGACAAA-ATCTACTAT
65 GGAAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGA-A-AAAGATCTAAAAT
88237586 CTTCA
128 -TTCA
*
88237591 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGAAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * * *
88237656 GAAGCCAAGATTCGTTGTCTTCGATTTGCTCCACTGCAGCTTTAGGGAAAAGAGATCTAAAATTT
66 GAAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAAA-AGATCTAAAATTT
*
88237721 TA
130 CA
* * * *
88237723 GCCTACTCCACTACGACTTTAGGGAGCTAGGACGGTGGCTTAAATCTACTTCACTGCAACTTCAA
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* * *
88237788 GAAGCCAAGATTCG-CCTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAATTT
66 GAAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAA-AAGATCTAAAATTT
88237852 CA
130 CA
* * ** *
88237854 GCCTACTCCACTAAAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTATTTCACTGCAATTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
* ** * * * * *
88237919 GAAGCCTAGATTCACCATATTTGATCTGCTCCACTACAACTTCAGGGAAACGAGATCTAAAATTT
66 GAAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAA-AAGATCTAAAATTT
88237984 CA
130 CA
* *
88237986 GCCTACTCCATTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTACAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
*
88238051 GAAGCCAAGATTCGTCGTCTTCGATTTGCTC
66 GAAGCCAAGATTCGTCGTCTTCGATCTGCTC
88238082 TTTGTCAATC
Statistics
Matches: 431, Mismatches: 55, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
131 114 0.26
132 207 0.48
133 108 0.25
134 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (131 bp):
GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAG
GAAGCCAAGATTCGTCGTCTTCGATCTGCTCCACTGCAACTTCAGGGAAAAAGATCTAAAATTTC
A
Found at i:88237951 original size:263 final size:265
Alignment explanation
Indices: 88237458--88238080 Score: 910
Period size: 263 Copynumber: 2.4 Consensus size: 265
88237448 GCGATCTTCG
*
88237458 GCCTACTCCACTACAACTTTAGGGAGCTA-GATTGGTAGCTTAAATCTGCTTCACTGCAACTTCA
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGA-TGGTGGCTTAAATCTGCTTCACTGCAACTTCA
* * **
88237522 AGAAGCCAAGATTTGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAGACAAAATCTACTATC
65 AGAAGCCAAGATTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAAATCTAAAATC
* *
88237587 TTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGAAACT
130 TTCAGCCTACTCCACTAAAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTACTTCACTGAAACT
**** * * * * *
88237652 TCAGGAAGCCAAGATTCGTTGTCTTCGATTTGCTCCACTGCAGCTTTAGGGAAAAGAGATCTAAA
195 TCAGGAAGCCAAGATTCACCATATTCGATCTGCTCCACTACAACTTCAGGGAAAAGAGATCTAAA
*
88237717 ATTTTA
260 ATTTCA
* * *
88237723 GCCTACTCCACTACGACTTTAGGGAGCTAGGACGGTGGCTTAAATCTACTTCACTGCAACTTCAA
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAA
* * *
88237788 GAAGCCAAGATTCG-CCTCTTCGATCTGCTTCACTGCAATTTCAGGGAAACAAGATCTAAAAT-T
66 GAAGCCAAGATTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAAATCTAAAATCT
* * * *
88237851 TCAGCCTACTCCACTAAAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTATTTCACTGCAATTT
131 TCAGCCTACTCCACTAAAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTACTTCACTGAAACTT
* * *
88237916 CAGGAAGCCTAGATTCACCATATTTGATCTGCTCCACTACAACTTCAGGGAAACGAGATCTAAAA
196 CAGGAAGCCAAGATTCACCATATTCGATCTGCTCCACTACAACTTCAGGGAAAAGAGATCTAAAA
88237981 TTTCA
261 TTTCA
* * *
88237986 GCCTACTCCATTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTACAACTTCAG
1 GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAA
*
88238051 GAAGCCAAGATTCGTCGTCTTCGATTTGCT
66 GAAGCCAAGATTCGTCGTCTTCGATCTGCT
88238081 CTTTGTCAAT
Statistics
Matches: 318, Mismatches: 38, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
263 190 0.60
264 55 0.17
265 71 0.22
266 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (265 bp):
GCCTACTCCACTACAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAA
GAAGCCAAGATTCGTCGTCTTCGATCTGCTTCACTGCAACTTCAGGGAAACAAAATCTAAAATCT
TCAGCCTACTCCACTAAAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTACTTCACTGAAACTT
CAGGAAGCCAAGATTCACCATATTCGATCTGCTCCACTACAACTTCAGGGAAAAGAGATCTAAAA
TTTCA
Found at i:88238204 original size:88 final size:88
Alignment explanation
Indices: 88238068--88238374 Score: 391
Period size: 88 Copynumber: 3.5 Consensus size: 88
88238058 AGATTCGTCG
* ** * * * *
88238068 TCTTCGATTTGCTCTTTGTCAATCACAGAGACACCAAATCTG-TCATCTTTGATCTGCCCTTTGA
1 TCTTCGATCTGCTCTCCGCCAAT-ACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCCCTCTGA
* *
88238132 CGATATAGAAACGCCAAATCTGCTA
64 CAATATAGAGACGCCAAATCTGCTA
* * *
88238157 TCTTTGATCTGCTCTCTGCCAATACAGAGACGCCAAATCGGCTATCTTCGATCTGCCCTCTGACA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACA
* *
88238222 ATGTAGAGACGCCAAATCTTCTA
66 ATATAGAGACGCCAAATCTGCTA
* * * * *
88238245 TCTTTGATCTGCTTTCCGCCAATACAGAGATGCTAAATCTGCTATCTTCGATCTGTCCTCTGACA
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACA
*
88238310 ATACAGAGACGCCAAATCTGCTA
66 ATATAGAGACGCCAAATCTGCTA
* *
88238333 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
1 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGC
88238375 AGGATTTGCC
Statistics
Matches: 192, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
88 172 0.90
89 20 0.10
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACA
ATATAGAGACGCCAAATCTGCTA
Found at i:88238374 original size:44 final size:44
Alignment explanation
Indices: 88238068--88238374 Score: 330
Period size: 44 Copynumber: 7.0 Consensus size: 44
88238058 AGATTCGTCG
* * * *
88238068 TCTTCGATTTGCTCTTTGTCAATCACAGAGACACCAAATCTG-TCA
1 TCTTCGATCTGCTCTCTGCCAAT-ACAGAGACGCCAAATCTGCT-A
* * * * * * *
88238113 TCTTTGATCTGCCCTTTGACGATATAGAAACGCCAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTA
* *
88238157 TCTTTGATCTGCTCTCTGCCAATACAGAGACGCCAAATCGGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTA
* * ** *
88238201 TCTTCGATCTGCCCTCTGACAATGTAGAGACGCCAAATCTTCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTA
* * * * *
88238245 TCTTTGATCTGCTTTCCGCCAATACAGAGATGCTAAATCTGCTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTA
*
88238289 TCTTCGATCTG-TCCTCTGACAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGCT-CTCTGCCAATACAGAGACGCCAAATCTGCTA
* * *
88238333 TCTTCGATTTGCTCTCCGCCAATACAGAGATGCCAAATCTGC
1 TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGC
88238375 AGGATTTGCC
Statistics
Matches: 217, Mismatches: 42, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
43 1 0.00
44 196 0.90
45 20 0.09
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGACGCCAAATCTGCTA
Found at i:88242734 original size:23 final size:23
Alignment explanation
Indices: 88242708--88242751 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
88242698 ATGACACTCG
88242708 GCCATGGATGCATCATTCTTGCA
1 GCCATGGATGCATCATTCTTGCA
88242731 GCCATGGATGCATCATTCTTG
1 GCCATGGATGCATCATTCTTG
88242752 GTTGATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (23 bp):
GCCATGGATGCATCATTCTTGCA
Found at i:88243706 original size:39 final size:40
Alignment explanation
Indices: 88243609--88243831 Score: 239
Period size: 39 Copynumber: 5.7 Consensus size: 40
88243599 TTGAATGATG
* *
88243609 TCCGGGCTAAGTCCCAAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
88243647 ATCCGGACTAAGAT-CGGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
88243688 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
88243727 TCCGGCCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
88243766 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
88243805 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
88243832 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
39 88 0.55
40 59 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:88243756 original size:78 final size:80
Alignment explanation
Indices: 88243609--88243831 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 80
88243599 TTGAATGATG
* * * * * * *
88243609 TCCGGGCTAAGTCCCAAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CGGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGCCTAAG-TCCCGAAGGCAT
*
88243671 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
88243688 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGCCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGCCTAAGTCCCGAAGGCAT
*
88243749 TTGTGCGAGTTACTAAA
64 TTGTGCGAGATACTAAA
* * *
88243766 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGCCTAAGTCCCGAAGGCATTT
88243831 G
66 G
88243832 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
78 44 0.36
79 56 0.46
80 22 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGCCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:88243853 original size:79 final size:79
Alignment explanation
Indices: 88243663--88243864 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 79
88243653 ACTAAGATCG
** * *
88243663 GAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
1 GAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
*
88243726 TTCCGGCCTAAGCCC
65 TACCGGCCTAAGCCC
** *
88243741 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-A
1 GAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAA
* *
88243804 TAACCGGGCTATGTCCC
65 T-ACCGGCCTAAG-CCC
* * *
88243821 GAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 GAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
88243865 TACGTGATTT
Statistics
Matches: 107, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 35 0.33
79 46 0.43
80 25 0.23
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
GAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
ACCGGCCTAAGCCC
Found at i:88244983 original size:81 final size:81
Alignment explanation
Indices: 88244848--88245004 Score: 269
Period size: 81 Copynumber: 1.9 Consensus size: 81
88244838 CCTCTATGAT
* * *
88244848 TCTAGCTTCTATAGAAACAAATGGTATCAGTATTGAGGCTCTGTGCAGGGAGATATCCAAGTCGT
1 TCTAGCTTCTATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAAGTCGT
*
88244913 ATTGCGCAAAGCTGAG
66 ATTACGCAAAGCTGAG
*
88244929 TCTAGTTTCTATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAAGTCGT
1 TCTAGCTTCTATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAAGTCGT
88244994 ATTACGCAAAG
66 ATTACGCAAAG
88245005 GTCAGTGTAG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (81 bp):
TCTAGCTTCTATAGAAACAAACGGCATCAGTATTGAAGCTCTGTGCAGGGAGATATCCAAGTCGT
ATTACGCAAAGCTGAG
Found at i:88249070 original size:245 final size:245
Alignment explanation
Indices: 88248640--88249129 Score: 935
Period size: 245 Copynumber: 2.0 Consensus size: 245
88248630 AGGTCGAGTC
* **
88248640 GTGGCCTATGCGTCGAGACAATTGAAGCCACACGAGAGGAATTATCCGACCCATGATCTCGAACT
1 GTGGCCTATGCGTCGAGACAATTAAAGCCACACGAGAAAAATTATCCGACCCATGATCTCGAACT
88248705 AGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTAT
66 AGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTAT
88248770 TTTCGGATCACGAAAGTCTCAAATATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGT
131 TTTCGGATCACGAAAGTCTCAAATATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGT
88248835 TGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCACCCGGG
196 TGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCACCCGGG
* *
88248885 GTGGCCTATGCGTCGAGACAATTAAAGCCACATGAGAAAAATTATCCGACCCATGATCTTGAACT
1 GTGGCCTATGCGTCGAGACAATTAAAGCCACACGAGAAAAATTATCCGACCCATGATCTCGAACT
88248950 AGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTAT
66 AGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTAT
88249015 TTTCGGATCACGAAAGTCTCAAATATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGT
131 TTTCGGATCACGAAAGTCTCAAATATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGT
88249080 TGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCACCCGGG
196 TGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCACCCGGG
88249130 AAAGGCTAAT
Statistics
Matches: 240, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
245 240 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (245 bp):
GTGGCCTATGCGTCGAGACAATTAAAGCCACACGAGAAAAATTATCCGACCCATGATCTCGAACT
AGCTGCCATCGTATTTGCTTTAAAAATATGGCGACATTACTTATTTGGTGAAAAGTGCCATGTAT
TTTCGGATCACGAAAGTCTCAAATATTTGATGACTCAAAGAGACTTAAATCTGCGACAAAGACGT
TGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGATTACCACCCGGG
Found at i:88252494 original size:40 final size:39
Alignment explanation
Indices: 88252410--88252594 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
88252400 TTGAATGATG
* * * *
88252410 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
88252450 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
88252490 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
88252529 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
88252570 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
88252595 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 37 0.30
40 78 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:88252546 original size:79 final size:81
Alignment explanation
Indices: 88252410--88252594 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
88252400 TTGAATGATG
*
88252410 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
88252474 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
88252489 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
88252551 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
88252569 ACCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
88252595 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:88252616 original size:79 final size:79
Alignment explanation
Indices: 88252411--88252627 Score: 192
Period size: 79 Copynumber: 2.7 Consensus size: 79
88252401 TGAATGATGT
** * * * **
88252411 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
88252474 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
88252491 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
88252556 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * * *
88252570 CCGGGCTATGTCCTGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
88252628 TACGTGATTT
Statistics
Matches: 115, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.62
80 41 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:88269584 original size:46 final size:46
Alignment explanation
Indices: 88269524--88269652 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
88269514 TGGTTGAGCA
* * *
88269524 TCCGAACTCATTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
88269570 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
88269616 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88269653 GTGGGTTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:88270546 original size:54 final size:54
Alignment explanation
Indices: 88270487--88270591 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
88270477 GCGATTTCTA
* * *
88270487 GATCCCCTATTCTGACTTTGAAAATTCACCATAAATTTTACAAAGAGATTTTCG
1 GATCCCCTATTCTAAATTTGAAAATTCACCATAAATTTTAAAAAGAGATTTTCG
* * * *
88270541 GATCCCTTGTTCTAAATTTGGAAATTCACCATAAATTTTAAAAAGATATTT
1 GATCCCCTATTCTAAATTTGAAAATTCACCATAAATTTTAAAAAGAGATTT
88270592 AGAAGTCATG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (54 bp):
GATCCCCTATTCTAAATTTGAAAATTCACCATAAATTTTAAAAAGAGATTTTCG
Found at i:88275442 original size:40 final size:40
Alignment explanation
Indices: 88275382--88275551 Score: 245
Period size: 40 Copynumber: 4.2 Consensus size: 40
88275372 TGGGATTTAT
* *
88275382 CCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGC
*
88275422 CCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
*
88275462 CCGGATGTAGTCACTAGCACAAATGCCTTCGGGACTTAG-
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
*
88275501 CCGGATATAGTAACTACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGT--C-ACTAGCACAAATGCCTTCGGGACTTAGC
88275544 CCGGATAT
1 CCGGATAT
88275552 CATCTGAATA
Statistics
Matches: 118, Mismatches: 7, Indels: 7
0.89 0.05 0.05
Matches are distributed among these distances:
39 10 0.08
40 72 0.61
41 2 0.02
42 26 0.22
43 8 0.07
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:88275547 original size:82 final size:80
Alignment explanation
Indices: 88275398--88275549 Score: 243
Period size: 82 Copynumber: 1.9 Consensus size: 80
88275388 ATAGCAACTC
*
88275398 GCACAAATGCCTTCGGGTCTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
88275463 CGGATGTAGTCACTA
66 CGGATGTAGTCACTA
* *
88275478 GCACAAATGCCTTCGGGACTTAG-CCGGATATAGTAACTACTCGCACAAATGCCTTCGGGACTTA
1 GCACAAATGCCTTCGGGACTTAGCCCGAATATAGT--C-ACTAGCACAAATGCCTTCGGGACTTA
88275542 GCCCGGAT
63 GCCCGGAT
88275550 ATCATCTGAA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
79 10 0.15
80 22 0.33
81 1 0.02
82 33 0.50
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGACTTAGCCCGAATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATGTAGTCACTA
Found at i:88278220 original size:46 final size:46
Alignment explanation
Indices: 88278167--88278339 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
88278157 TTGAGCATCC
*
88278167 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
* * * * *
88278213 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCT
** * * *
88278260 GAACTTATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
*
88278306 -AAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88278340 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 55 0.55
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCT
Found at i:88278320 original size:93 final size:93
Alignment explanation
Indices: 88278161--88278332 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
88278151 GGATGGTTGA
* * * *
88278161 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCTGAACTCGTTGAGT
88278226 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
88278254 GCATCCGAACTTATTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCT-AAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCTGAA-CTCGTTGAG
88278318 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
88278333 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCTGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:88279407 original size:231 final size:231
Alignment explanation
Indices: 88279004--88279459 Score: 912
Period size: 231 Copynumber: 2.0 Consensus size: 231
88278994 GCAACAGTTT
88279004 TGTGATTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGATGAATAAAATATGGAATT
1 TGTGATTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGATGAATAAAATATGGAATT
88279069 GAATAATTATGAGTCTATTTTCATATGGATGGAACAAAACAGGTATATGAGTTATATTTTATGAG
66 GAATAATTATGAGTCTATTTTCATATGGATGGAACAAAACAGGTATATGAGTTATATTTTATGAG
88279134 ATGTTTAAATTTTTGTGAAACAGGTCCAGAGCGATTTCTAGATCCCCTATTCTGACTTTGAAAAT
131 ATGTTTAAATTTTTGTGAAACAGGTCCAGAGCGATTTCTAGATCCCCTATTCTGACTTTGAAAAT
88279199 TCACCATAAATTTTACAAAGATAATTAGACTAGTGA
196 TCACCATAAATTTTACAAAGATAATTAGACTAGTGA
88279235 TGTGATTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGATGAATAAAATATGGAATT
1 TGTGATTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGATGAATAAAATATGGAATT
88279300 GAATAATTATGAGTCTATTTTCATATGGATGGAACAAAACAGGTATATGAGTTATATTTTATGAG
66 GAATAATTATGAGTCTATTTTCATATGGATGGAACAAAACAGGTATATGAGTTATATTTTATGAG
88279365 ATGTTTAAATTTTTGTGAAACAGGTCCAGAGCGATTTCTAGATCCCCTATTCTGACTTTGAAAAT
131 ATGTTTAAATTTTTGTGAAACAGGTCCAGAGCGATTTCTAGATCCCCTATTCTGACTTTGAAAAT
88279430 TCACCATAAATTTTACAAAGATAATTAGAC
196 TCACCATAAATTTTACAAAGATAATTAGAC
88279460 ATCATGCTTT
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
231 225 1.00
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.35
Consensus pattern (231 bp):
TGTGATTTTGAAAAATCATTAAAAATAGTAGAGATACAATTAGATGATGAATAAAATATGGAATT
GAATAATTATGAGTCTATTTTCATATGGATGGAACAAAACAGGTATATGAGTTATATTTTATGAG
ATGTTTAAATTTTTGTGAAACAGGTCCAGAGCGATTTCTAGATCCCCTATTCTGACTTTGAAAAT
TCACCATAAATTTTACAAAGATAATTAGACTAGTGA
Found at i:88280389 original size:5 final size:6
Alignment explanation
Indices: 88280374--88280418 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
88280364 TCCTCCTATC
* * *
88280374 TTTTTA TTTTTA TTTTTG TTTTTA TTTTTG TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
88280419 CAATTTTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:88280395 original size:12 final size:12
Alignment explanation
Indices: 88280374--88280413 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
88280364 TCCTCCTATC
*
88280374 TTTTTATTTTTA
1 TTTTTGTTTTTA
88280386 TTTTTGTTTTTA
1 TTTTTGTTTTTA
88280398 TTTTTGTTTTTA
1 TTTTTGTTTTTA
88280410 TTTT
1 TTTT
88280414 CATTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTTTGTTTTTA
Found at i:88282127 original size:52 final size:52
Alignment explanation
Indices: 88282060--88282163 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
88282050 AATTTGATTC
*
88282060 TTATCTTTAAGTTTTGATGAAGGAATTGTTGATGAAAGAAGTTGATCTTGTT
1 TTATCTTTAAGTTTTGATGAAGAAATTGTTGATGAAAGAAGTTGATCTTGTT
88282112 TTATCTTTAAGTTTTGATGAAGAAATTGTTGATGAAAGAAGTTGATCTTGTT
1 TTATCTTTAAGTTTTGATGAAGAAATTGTTGATGAAAGAAGTTGATCTTGTT
88282164 AAAAACTATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (52 bp):
TTATCTTTAAGTTTTGATGAAGAAATTGTTGATGAAAGAAGTTGATCTTGTT
Found at i:88283679 original size:40 final size:40
Alignment explanation
Indices: 88283616--88283800 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
88283606 CAATTGAGGA
* *
88283616 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTAGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
* *
88283656 TTATTTCCGGGTTAAGTCTCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
88283696 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
* * * **
88283736 CTATTTTCGGGTTAAGTCTCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
** * *
88283776 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
88283801 TAATTGGGTT
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 127 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
Found at i:88283754 original size:80 final size:80
Alignment explanation
Indices: 88283616--88283800 Score: 298
Period size: 80 Copynumber: 2.3 Consensus size: 80
88283606 CAATTGAGGA
*
88283616 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTAGTTGTTATTTCCGGGTTAAGTCTCGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTAGTTGCTATTTCCGGGTTAAGTCTCGAAGG
88283681 CATTCGTGCTGGTTG
66 CATTCGTGCTGGTTG
* * *
88283696 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGCTATTTTCGGGTTAAGTCTCGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTAGTTGCTATTTCCGGGTTAAGTCTCGAAGG
*
88283761 CATTTGTGCTGGTTG
66 CATTCGTGCTGGTTG
* * *
88283776 TTACATCCGGGCTAAATCCCGAAGG
1 TTATATCCGGGTTAAGTCCCGAAGG
88283801 TAATTGGGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 96 1.00
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (80 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCATGCTAGTTGCTATTTCCGGGTTAAGTCTCGAAGG
CATTCGTGCTGGTTG
Found at i:88291696 original size:40 final size:40
Alignment explanation
Indices: 88291615--88291711 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
88291605 GATTATATCT
**
88291615 GGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTCC
1 GGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTACATCC
**
88291655 GGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTACATCC
1 GGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTACATCC
* * *
88291695 GGGCTAAATCCCAAAGG
1 GGGTTAAGTCCCGAAGG
88291712 TAATTGGGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (40 bp):
GGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTACATCC
Found at i:88294500 original size:13 final size:13
Alignment explanation
Indices: 88294482--88294510 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
88294472 TTTAGTTTAA
88294482 TTAGTTAATTAGT
1 TTAGTTAATTAGT
88294495 TTAGTTAATTAGT
1 TTAGTTAATTAGT
88294508 TTA
1 TTA
88294511 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:88295212 original size:25 final size:28
Alignment explanation
Indices: 88295184--88295242 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 28
88295174 ATCTATAAGA
* *
88295184 TAAAATATTTAATTTAA-TTT-AATT-T
1 TAAAATAATCAATTTAATTTTAAATTAT
*
88295209 TAAAATAATCACTTTAATTTTAAATTAT
1 TAAAATAATCAATTTAATTTTAAATTAT
88295237 TAAAAT
1 TAAAAT
88295243 GATATTATGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.50
26 3 0.11
27 4 0.14
28 7 0.25
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
TAAAATAATCAATTTAATTTTAAATTAT
Found at i:88316839 original size:6 final size:6
Alignment explanation
Indices: 88316801--88317087 Score: 78
Period size: 6 Copynumber: 46.3 Consensus size: 6
88316791 AAGAAACATT
* * * *
88316801 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCAG- GTGACAGAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAG-A
* * * * *
88316851 AT-AGA ATCAGA ATTAGA ATTAG- GTGACAGA ATCAAA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
* * * * * *
88316901 A-CAGA ATCAGA ATCAGA GTCAGA ATCAAA ATTAAA ATCAG- GTGACAAA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
88316949 ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAGA ATAAGA ATTAG- GTGACAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
88316999 A-CTAGA ATCAGT ATCAGGTA AT-AGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATC-AGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
88317049 ATCCGA ATCAGTA AT-AGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAG-A ATCA-G-A ATCAGA ATCAGA ATCAGA AT
88317088 GTGAATGCAA
Statistics
Matches: 206, Mismatches: 41, Indels: 68
0.65 0.13 0.22
Matches are distributed among these distances:
5 20 0.10
6 149 0.72
7 28 0.14
8 8 0.04
9 1 0.00
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:88316858 original size:25 final size:25
Alignment explanation
Indices: 88316853--88317087 Score: 209
Period size: 25 Copynumber: 9.7 Consensus size: 25
88316843 TGACAGAAAT
* *
88316853 AGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
88316878 AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
88316903 AGAATCAGAATCAG----A-GT--C
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
88316921 AGAATCAAAATTAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * * *
88316946 AAAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTGAC
* *
88316971 AGAATCAGAATAAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
88316996 AGAA-CTAGAATCAGTATCAGGTAAT
1 AGAATC-AGAATCAGAATCAGGTGAC
*
88317021 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
88317046 AGAATCCGAATCAGTAAT-AGGTAAC
1 AGAATCAGAATCAG-AATCAGGTGAC
88317071 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
88317088 GTGAATGCAA
Statistics
Matches: 166, Mismatches: 34, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
18 12 0.07
20 2 0.01
21 1 0.01
22 1 0.01
23 2 0.01
24 4 0.02
25 140 0.84
26 4 0.02
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:88316859 original size:31 final size:32
Alignment explanation
Indices: 88316817--88316881 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
88316807 ACTAGAATCA
88316817 AAATGAGAATCAAAATCAGAATCAGGTGACAG
1 AAATGAGAATCAAAATCAGAATCAGGTGACAG
* * *
88316849 AAAT-AGAATCAGAATTAGAATTAGGTGACAG
1 AAATGAGAATCAAAATCAGAATCAGGTGACAG
88316880 AA
1 AA
88316882 TCAAAATCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.51, C:0.09, G:0.22, T:0.18
Consensus pattern (32 bp):
AAATGAGAATCAAAATCAGAATCAGGTGACAG
Found at i:88316890 original size:31 final size:31
Alignment explanation
Indices: 88316824--88316897 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
88316814 TCAAAATGAG
* *
88316824 AATCAAAATCAGAATCAGGTGACAGAAATAG
1 AATCAGAATCAGAATCAGGTGACAGAAATAA
* *
88316855 AATCAGAATTAGAATTAGGTGACAG-AATCAA
1 AATCAGAATCAGAATCAGGTGACAGAAAT-AA
*
88316886 AATCAGTATCAG
1 AATCAGAATCAG
88316898 GTAACAGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 3 0.08
31 33 0.92
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACAGAAATAA
Found at i:88316925 original size:68 final size:68
Alignment explanation
Indices: 88316853--88316981 Score: 204
Period size: 68 Copynumber: 1.9 Consensus size: 68
88316843 TGACAGAAAT
* * * *
88316853 AGAATCAGAATTAGAATTAGGTGACAGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGA
1 AGAATCAAAATTAAAATCAGGTGACAAAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGA
88316918 GTC
66 GTC
* *
88316921 AGAATCAAAATTAAAATCAGGTGACAAAATCAGAATCAGTATCAGGTAATAGAATCAGAAT
1 AGAATCAAAATTAAAATCAGGTGACAAAATCAAAATCAGTATCAGGTAACAGAATCAGAAT
88316982 AAGAATTAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (68 bp):
AGAATCAAAATTAAAATCAGGTGACAAAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGA
GTC
Found at i:88316930 original size:43 final size:43
Alignment explanation
Indices: 88316877--88316959 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
88316867 AATTAGGTGA
** *
88316877 CAGAATCAAAATCAGTATCAGGTAACAGAATCAGAATCAGAGT
1 CAGAATCAAAATCAAAATCAGGTAACAAAATCAGAATCAGAGT
* *
88316920 CAGAATCAAAATTAAAATCAGGTGACAAAATCAGAATCAG
1 CAGAATCAAAATCAAAATCAGGTAACAAAATCAGAATCAG
88316960 TATCAGGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (43 bp):
CAGAATCAAAATCAAAATCAGGTAACAAAATCAGAATCAGAGT
Found at i:88316957 original size:19 final size:19
Alignment explanation
Indices: 88316883--88316959 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
88316873 GTGACAGAAT
* *
88316883 CAAAATCAGTATCAGGTAA
1 CAAAATCAGAATCAGGTGA
*
88316902 CAGAATCAGAATCAGAGTCAGAA
1 CAAAATCAGAATCAG-GT--G-A
* *
88316925 TCAAAATTAAAATCAGGTGA
1 -CAAAATCAGAATCAGGTGA
88316945 CAAAATCAGAATCAG
1 CAAAATCAGAATCAG
88316960 TATCAGGTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
19 26 0.58
20 3 0.07
21 1 0.02
23 3 0.07
24 12 0.27
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (19 bp):
CAAAATCAGAATCAGGTGA
Found at i:88317286 original size:27 final size:26
Alignment explanation
Indices: 88317204--88317289 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
88317194 AACATGGCTG
* *
88317204 CCAGAACAGATATTGTGACAGAATCA
1 CCAGAACAGATATTGTGGCAGAACCA
*
88317230 CCAGATACAGATATTGTGGCAGAACGA
1 CCAGA-ACAGATATTGTGGCAGAACCA
* *
88317257 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAACCA
88317284 CCAGAA
1 CCAGAA
88317290 ATAGATAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.23
27 40 0.77
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAACCA
Found at i:88317973 original size:52 final size:53
Alignment explanation
Indices: 88317902--88318023 Score: 158
Period size: 52 Copynumber: 2.3 Consensus size: 53
88317892 CAAAATGGTA
* * *
88317902 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTA-TTCGGT
1 ATTTCTACCCTACAA-GGTATCTCGGTAATTCTACCCTACAGGGATATTTCAGT
* * *
88317954 ATTTCTACCCTACAAGGTATTTCGGTAATTCTACCCTACATGGATATTTTAGT
1 ATTTCTACCCTACAAGGTATCTCGGTAATTCTACCCTACAGGGATATTTCAGT
*
88318007 AATTCTACCCTACAAGG
1 ATTTCTACCCTACAAGG
88318024 GTATTTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
52 32 0.52
53 29 0.48
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (53 bp):
ATTTCTACCCTACAAGGTATCTCGGTAATTCTACCCTACAGGGATATTTCAGT
Found at i:88318037 original size:27 final size:27
Alignment explanation
Indices: 88317898--88318030 Score: 171
Period size: 27 Copynumber: 5.0 Consensus size: 27
88317888 GGGGCAAAAT
* * *
88317898 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
88317925 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
88317951 GGTATTTCTACCCTACAA-GGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
88317977 GGTAATTCTACCCTACATGGATATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
88318004 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
88318031 AATAATTTTG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 4 0.04
26 37 0.41
27 49 0.54
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:88318088 original size:27 final size:27
Alignment explanation
Indices: 88318033--88318107 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
88318023 GGTATTTCAA
*
88318033 TAATTTTGTAAATCAAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* **
88318060 TAATTTTGTAAATCGAGGGTACATTGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
** *
88318087 TAATTTTACAAGTCGAGGGTA
1 TAATTTTGTAAATCGAGGGTA
88318108 TTTCAGTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAACGG
Found at i:88320156 original size:25 final size:25
Alignment explanation
Indices: 88320121--88320502 Score: 262
Period size: 25 Copynumber: 14.6 Consensus size: 25
88320111 AAATGAGAAT
* * *
88320121 CAGAATTAGAATCAAAATTAAGTGA
1 CAGAATCAGAATCAAAATCAGGTGA
** *
88320146 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTGA
* *
88320171 CAGAATCAGAATCAATATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTGA
* *
88320196 CAGAACCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAAAATCAGGTGA
** *
88320221 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTGA
* * *
88320246 CAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGGTGA
* ** *
88320271 CAAAATCA-ATATCAGTATCAGGTAA
1 CAGAATCAGA-ATCAAAATCAGGTGA
* *
88320296 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATC--AA--A--ATCAGGTGA
* * *
88320327 CAAAATTAGAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATCAGGTGA
**
88320352 CAGAATCAGAATCAGTATCAGGTAACAGAA
1 CAGAATCAGAATCAAAATCAGGT----G-A
* *
88320382 TCAGAATCAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAAAATCAGGTGA
* *
88320408 CAGAATCAGAATCAATATCAAGTAACAGAA
1 CAGAATCAGAATCAAAATCAGGT----G-A
* *
88320438 TCAGAATCAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAAAATCAGGTGA
* * *
88320464 CAGAATCAGAATCAATATCAAGTAA
1 CAGAATCAGAATCAAAATCAGGTGA
88320489 CAGAATCAGAATCA
1 CAGAATCAGAATCA
88320503 GAATGTGAAT
Statistics
Matches: 287, Mismatches: 50, Indels: 40
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.00
25 212 0.74
26 3 0.01
27 4 0.01
29 4 0.01
30 2 0.01
31 61 0.21
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTGA
Found at i:88320176 original size:19 final size:18
Alignment explanation
Indices: 88320152--88320254 Score: 61
Period size: 19 Copynumber: 5.5 Consensus size: 18
88320142 GTGACAGAAT
88320152 CAGAATCAGTATCAGGTAA
1 CAGAATCAGTATCA-GTAA
* * *
88320171 CAGAATCAGAATCAATAT
1 CAGAATCAGTATCAGTAA
* *
88320189 CAGGTAA-CAGAACCAG-AA
1 CA-G-AATCAGTATCAGTAA
88320207 TCAGAATCAGGTGA-CAG-AA
1 -CAGAATCA-GT-ATCAGTAA
88320226 TCAGAATCAGTATCAGGTAA
1 -CAGAATCAGTATCA-GTAA
88320246 CAGAATCAG
1 CAGAATCAG
88320255 AATTAGAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.04
18 12 0.18
19 48 0.71
20 5 0.07
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (18 bp):
CAGAATCAGTATCAGTAA
Found at i:88320181 original size:56 final size:56
Alignment explanation
Indices: 88320116--88320506 Score: 365
Period size: 56 Copynumber: 7.3 Consensus size: 56
88320106 AACCAAAATG
* *
88320116 AGAATCAGAATTAGAATCAAAATTAAGTGACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* * * * *
88320172 AGAATCAGAATC--AAT----ATCAGGTAACAGAACCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* * * * * *
88320222 AGAATCAGAATCAG--T----ATCAGGTAACAGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* * * * * *
88320272 AAAATCA-ATATCAG--T----ATCAGGTAACAGAATTAGAATCAGAATCA-GTATC
1 AGAATCAGA-ATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* *
88320321 AGGTAA-CAAAATTAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* * *
88320378 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAATATCAAGTAAC
1 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
* * *
88320434 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAATATCAAGTAAC
1 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
88320490 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
88320507 GTGAATGCAA
Statistics
Matches: 293, Mismatches: 28, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
49 5 0.02
50 118 0.40
51 3 0.01
52 1 0.00
54 3 0.01
55 2 0.01
56 156 0.53
57 5 0.02
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (56 bp):
AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAAC
Found at i:88320182 original size:50 final size:50
Alignment explanation
Indices: 88320121--88320502 Score: 343
Period size: 50 Copynumber: 7.3 Consensus size: 50
88320111 AAATGAGAAT
* *
88320121 CAGAATTAGAATCAAAATTAAGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
* * * * * *
88320171 CAGAATCAGAATCAATATCAGGTAACAGAACCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
** * * * * * *
88320221 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
* ** * *
88320271 CAAAATCA-ATATCAGTATCAGGTAACAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGA-ATCAAAATTAGGT----G-A-CAGAATCAGAATCAGTATCAGGTAA
* *
88320327 CAAAATTAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
* *
88320377 CAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAATATCAAGTAA
1 CAGAATCAGAATC---A--A-AATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
* *
88320433 CAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAATATCAAGTAA
1 CAGAATCAGAATC---A--A-AATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
88320489 CAGAATCAGAATCA
1 CAGAATCAGAATCA
88320503 GAATGTGAAT
Statistics
Matches: 290, Mismatches: 28, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
49 1 0.00
50 143 0.49
51 1 0.00
52 1 0.00
53 2 0.01
55 2 0.01
56 139 0.48
57 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (50 bp):
CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
Found at i:88320672 original size:27 final size:25
Alignment explanation
Indices: 88320626--88320724 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 25
88320616 CATGGCTGCA
* **
88320626 AGAATAGATATTGTAACAGAGTCACC
1 AGAACAGATATTGTGGCAGAG-CACC
88320652 AGATACAGATATTGTGGCAGAGCGACC
1 AGA-ACAGATATTGTGGCAGAGC-ACC
* *
88320679 AGAACAGATATTTGTGGCATAGCCACT
1 AGAACAGATA-TTGTGGCAGAG-CACC
* *
88320706 AGAAACAAATAATGTGGCA
1 AG-AACAGATATTGTGGCA
88320725 AAGCCACTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
26 11 0.18
27 42 0.69
28 8 0.13
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.21
Consensus pattern (25 bp):
AGAACAGATATTGTGGCAGAGCACC
Found at i:88321328 original size:27 final size:27
Alignment explanation
Indices: 88321300--88321438 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
88321290 GGTAAAATGG
* * ** *
88321300 TAATTTTACCCCACAAGGGTATCGCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
*
88321327 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
88321354 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
88321381 TAATTCTACCCTACATGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* *
88321407 GTAATTC-ACCCTACAGGGGTATTTCAA
1 -TAATTCTACCCTACAAGGGTATTTCGA
88321434 TAATT
1 TAATT
88321439 TTGTAAATCG
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.23
27 76 0.77
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:88321345 original size:54 final size:55
Alignment explanation
Indices: 88321287--88321401 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 55
88321277 TTAACACCCT
* *
88321287 AGGGGTAAAAT-GGTAATTT-TACCCCACAAGGGTATCGCGGTAATTCTACCCTAC
1 AGGGGTAAAATCGAT-ATTTCTACCCCACAAGGGTATCGCGATAATTCTACCCTAC
** * **
88321341 AGGGGT-ATTTCGATATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC
1 AGGGGTAAAATCGATATTTCTACCCCACAAGGGTATCGCGATAATTCTACCCTAC
*
88321395 ATGGGTA
1 AGGGGTA
88321402 TTTCAGTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
53 6 0.12
54 44 0.88
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (55 bp):
AGGGGTAAAATCGATATTTCTACCCCACAAGGGTATCGCGATAATTCTACCCTAC
Found at i:88325466 original size:43 final size:43
Alignment explanation
Indices: 88325418--88325501 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
88325408 CACATGTATC
* * * * *
88325418 GCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATGCTA
1 GCATCCATAAGGAACTCAGACCACTCAACAAGCTCAGATGCTA
88325461 GCATCCATAAGGAACTCAGACCACTCAACAAGCTCAGATGC
1 GCATCCATAAGGAACTCAGACCACTCAACAAGCTCAGATGC
88325502 CACATATATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (43 bp):
GCATCCATAAGGAACTCAGACCACTCAACAAGCTCAGATGCTA
Found at i:88327602 original size:42 final size:43
Alignment explanation
Indices: 88327502--88327614 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 43
88327492 CAGTTCCAAC
* * **
88327502 GTCCCAGACATGGTCTTAAACGTAATTCAATATCGTTGCCTCT
1 GTCCCAGACATGGTCTTAAACGTAAATCAATATCGATGCCGAT
* *
88327545 GTCCCAGACAGGGTCTTATACG-AAATCAGATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTAAACGTAAATCA-ATATCGATGCCGAT
* * *
88327587 TTCCCAGACATGGTCTTACACATAAATC
1 GTCCCAGACATGGTCTTAAACGTAAATC
88327615 TCAAATCGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 30 0.52
43 28 0.48
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTAAACGTAAATCAATATCGATGCCGAT
Found at i:88348453 original size:43 final size:43
Alignment explanation
Indices: 88348406--88348517 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
88348396 TACATGTAGG
88348406 ACCATGTCTGGGACATTGGCATTG-T-ATTGAGATTATGTGTAAC
1 ACCATGTCTGGGACATTGGCATTGTTAATT--GATTATGTGTAAC
* * * *
88348449 ACCATGTCTGAGACATTGGCATCGTTAATTGATTTTGTGTAAG
1 ACCATGTCTGGGACATTGGCATTGTTAATTGATTATGTGTAAC
*
88348492 ACCCTGTCTGGGACAGTGTGGCATTG
1 ACCATGTCTGGGACA-T-TGGCATTG
88348518 ATATGTGATA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 46 0.79
44 2 0.03
45 10 0.17
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
ACCATGTCTGGGACATTGGCATTGTTAATTGATTATGTGTAAC
Found at i:88349004 original size:17 final size:17
Alignment explanation
Indices: 88348982--88349018 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
88348972 TATATGGTAT
88348982 ATGGCATGTATAGGCTA
1 ATGGCATGTATAGGCTA
88348999 ATGGCATGTATAGGCTA
1 ATGGCATGTATAGGCTA
88349016 ATG
1 ATG
88349019 TCATTTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (17 bp):
ATGGCATGTATAGGCTA
Found at i:88353485 original size:66 final size:66
Alignment explanation
Indices: 88353412--88353547 Score: 263
Period size: 66 Copynumber: 2.1 Consensus size: 66
88353402 TTTTCAATAT
88353412 TTTTTATTTTTTTAAATTTAGAATTTTTTCTCAATTTTTGCTAATTTTAGGTTTTTCCTTTTTGT
1 TTTTTATTTTTTTAAATTTAGAATTTTTTCTCAATTTTTGCTAATTTTAGGTTTTTCCTTTTTGT
88353477 G
66 G
*
88353478 TTTTTATTTTTTTAAATTTAGAATTTTTTCTCAATTTTTGCTCATTTTAGGTTTTTCCTTTTTGT
1 TTTTTATTTTTTTAAATTTAGAATTTTTTCTCAATTTTTGCTAATTTTAGGTTTTTCCTTTTTGT
88353543 G
66 G
88353544 TTTT
1 TTTT
88353548 ATATATTTAC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 69 1.00
ACGTcount: A:0.17, C:0.08, G:0.09, T:0.66
Consensus pattern (66 bp):
TTTTTATTTTTTTAAATTTAGAATTTTTTCTCAATTTTTGCTAATTTTAGGTTTTTCCTTTTTGT
G
Found at i:88354129 original size:16 final size:16
Alignment explanation
Indices: 88354110--88354161 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
88354100 TAAAACTAAA
88354110 AAATAAATAATCTTTT
1 AAATAAATAATCTTTT
* *
88354126 AAAT-ATTAAT-ATTT
1 AAATAAATAATCTTTT
*
88354140 ACTATAAATAATCTTTT
1 A-AATAAATAATCTTTT
88354157 AAATA
1 AAATA
88354162 TTAATATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
14 4 0.15
15 7 0.26
16 12 0.44
17 4 0.15
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAAATAATCTTTT
Found at i:88354150 original size:31 final size:31
Alignment explanation
Indices: 88354112--88354173 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
88354102 AAACTAAAAA
88354112 ATAAATAATCTTTTAAATATTAATATTTACT
1 ATAAATAATCTTTTAAATATTAATATTTACT
88354143 ATAAATAATCTTTTAAATATTAATATTTACT
1 ATAAATAATCTTTTAAATATTAATATTTACT
88354174 TTTATCAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAATAATCTTTTAAATATTAATATTTACT
Found at i:88361471 original size:30 final size:30
Alignment explanation
Indices: 88361437--88361494 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
88361427 TTTTCGAGCA
* *
88361437 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGAAAAATGGTCATTTTACCAAAGTC
88361467 TAGGGGAAAAATGGTCATTTTACCAAAG
1 TAGGGGAAAAATGGTCATTTTACCAAAG
88361495 GTGTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAATGGTCATTTTACCAAAGTC
Found at i:88362999 original size:13 final size:13
Alignment explanation
Indices: 88362977--88363010 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
88362967 GGCACACACC
*
88362977 CGGGCATGGGACA
1 CGGGCGTGGGACA
*
88362990 TGGGCGTGGGACA
1 CGGGCGTGGGACA
88363003 CGGGCGTG
1 CGGGCGTG
88363011 TCCCAGGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.53, T:0.12
Consensus pattern (13 bp):
CGGGCGTGGGACA
Found at i:88373768 original size:28 final size:27
Alignment explanation
Indices: 88373711--88373769 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
88373701 AAAATTATAT
* *
88373711 TTAATAATTTAATTTTAAAATATTTTA
1 TTAATAATTTAATTTTAAAATAATTAA
* *
88373738 TTAATAATTTGGATTTTAAATTAATTAA
1 TTAATAATTT-AATTTTAAAATAATTAA
88373766 TTAA
1 TTAA
88373770 ATTGAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TTAATAATTTAATTTTAAAATAATTAA
Found at i:88390976 original size:39 final size:39
Alignment explanation
Indices: 88390922--88391053 Score: 212
Period size: 39 Copynumber: 3.4 Consensus size: 39
88390912 TGCATGGTAT
88390922 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
*
88390961 TGGAAATATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * *
88391000 TGGAAATATATCCGGACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
88391039 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
88391054 GCTAAGTCCC
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 2 0.02
39 86 0.98
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.25
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:88391078 original size:39 final size:39
Alignment explanation
Indices: 88391046--88391338 Score: 462
Period size: 39 Copynumber: 7.5 Consensus size: 39
88391036 TGCTGGAAAA
*
88391046 ATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
88391085 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* *
88391124 ATATCCGGGCT-ATTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* * **
88391162 ATATCGGGGCTAAGTCCCGAAGGCATTCATGCTGGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
88391201 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
88391240 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
88391279 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
88391318 ATATCCGGGCTTAAAGTCCCG
1 ATATCCGGGC-T-AAGTCCCG
88391339 CATGCTTTGT
Statistics
Matches: 232, Mismatches: 19, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 33 0.14
39 191 0.82
40 1 0.00
41 7 0.03
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:88416591 original size:48 final size:47
Alignment explanation
Indices: 88416514--88416789 Score: 197
Period size: 48 Copynumber: 5.7 Consensus size: 47
88416504 GGTGACATGT
* *
88416514 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTTTGTA
1 GAGCTAGTGTAAGACCATGT-TTGGACATGGCATCGGCCACATTATG-A
* * **
88416563 -TGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCTATGTTATGA
1 GAGCTAGTGTAAGACCATGTTTGG-ACATGGCATCGGCCACATTATGA
*
88416610 GAGCCAGTGTAAGACCATG-TTGGACATGGCATCGGCGTCGGCCACCA-TATGA
1 GAGCTAGTGTAAGACCATGTTTGGACATGGCA------TCGGCCA-CATTATGA
* * * * *
88416662 GAGCCAATGTAAGACCACG-TTGGACATGGCCTCGG---CATTGAGACGA
1 GAGCTAGTGTAAGACCATGTTTGGACATGGCATCGGCCACATT---ATGA
* * * ** *
88416708 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCAACATGT
1 GAGCTAGTGTAAGACCATGT-TTGGACATGGCATCGGCCACATTATGA
*
88416756 GAGCTAGTGTAAGACCATGTCTGCGACATGGCAT
1 GAGCTAGTGTAAGACCATGTTTG-GACATGGCAT
88416790 TGACAATTCA
Statistics
Matches: 181, Mismatches: 27, Indels: 39
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
46 31 0.17
47 9 0.05
48 97 0.54
51 2 0.01
52 39 0.22
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTTTGGACATGGCATCGGCCACATTATGA
Found at i:88418616 original size:75 final size:75
Alignment explanation
Indices: 88418492--88418644 Score: 272
Period size: 75 Copynumber: 2.0 Consensus size: 75
88418482 CATACGGGCA
88418492 TGTGGCTTGGCCATGTGTTTATAATTATTCGCTGACGTCATAGCCAGAGAGTTACATGGCCTGAG
1 TGTGGCTTGGCCATGTGTTTATAATTATTCGCTGACGTCATAGCCAGAGAGTTACATGGCCTGAG
88418557 GACACGAGCG
66 GACACGAGCG
*
88418567 TGTGGCTTGGCCATGTGTTTCA-AATTATTCGCTGACGTCATAGCTAGAGAGTTACATGGCCTGA
1 TGTGGCTTGGCCATGTGTTT-ATAATTATTCGCTGACGTCATAGCCAGAGAGTTACATGGCCTGA
*
88418631 GGACACGGGCG
65 GGACACGAGCG
88418642 TGT
1 TGT
88418645 CAAAGGCCTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
75 74 0.99
76 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (75 bp):
TGTGGCTTGGCCATGTGTTTATAATTATTCGCTGACGTCATAGCCAGAGAGTTACATGGCCTGAG
GACACGAGCG
Found at i:88423472 original size:45 final size:46
Alignment explanation
Indices: 88423354--88423712 Score: 215
Period size: 48 Copynumber: 7.7 Consensus size: 46
88423344 CATTTCGTAT
* * *
88423354 GCCAGTGTAAGACCATGTTGGGAACATGGCAT-TG-GTTATGTTATGATA
1 GCCAGTGTAAGACCATGTT--GAACATGGCATCAGCG-T-TGATATGAGA
* * * * *
88423402 GCTAGTGTAAGACCATGTTGGACATGGTATCAGCGTTGA-CTGTGA
1 GCCAGTGTAAGACCATGTTGAACATGGCATCAGCGTTGATATGAGA
* * ****
88423447 GCCAGTGCAAGACCATGTTGAACATGGTATCAGCCACCATATGAGA
1 GCCAGTGTAAGACCATGTTGAACATGGCATCAGCGTTGATATGAGA
* * * *
88423493 GCCAGTGTAAAACCATGTTGGACGTGGCATCGGCGTTGATTATGAGA
1 GCCAGTGTAAGACCATGTTGAACATGGCATCAGCGTTGA-TATGAGA
* ** * * * *
88423540 GCCAGTGTAGGACCATGTCAAACATTGCATCAACATTGAT-TGTGA
1 GCCAGTGTAAGACCATGTTGAACATGGCATCAGCGTTGATATGAGA
* * * ** *
88423585 GCCAGTGTAAGACCATGTCTGTGACATGGCGTCGGCCACT-ATATGAGG
1 GCCAGTGTAAGACCATGT-TG-AACATGGCATCAG-CGTTGATATGAGA
* * * * ** * *
88423633 GCTAGTGTAAAACCATGTCTGGGACATGGCATCAGCCTCAACATGTGA
1 GCCAGTGTAAGACCATGT-T-GAACATGGCATCAGCGTTGATATGAGA
*
88423681 GCCAGTGTAAGACCATGTCTGTGACATGGCAT
1 GCCAGTGTAAGACCATGT-TG-AACATGGCAT
88423713 TGACAATTCA
Statistics
Matches: 239, Mismatches: 61, Indels: 22
0.74 0.19 0.07
Matches are distributed among these distances:
45 56 0.23
46 45 0.19
47 50 0.21
48 87 0.36
49 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTTGAACATGGCATCAGCGTTGATATGAGA
Found at i:88423570 original size:47 final size:46
Alignment explanation
Indices: 88423395--88423603 Score: 127
Period size: 45 Copynumber: 4.6 Consensus size: 46
88423385 TTGGTTATGT
* * *** * * *
88423395 TATGATAGCTAGTGTAAGACCATGTTGGACATGGTATCAGCGTTGA
1 TATGAGAGCCAGTGTAAGACCATGTCAAACATGGCATCAACATTGA
* * * ** * * **
88423441 -CTGTGAGCCAGTGCAAGACCATGTTGAACATGGTATCAGCCA-CCA
1 TATGAGAGCCAGTGTAAGACCATGTCAAACATGGCATCA-ACATTGA
* *** * ** *
88423486 TATGAGAGCCAGTGTAAAACCATGTTGGACGTGGCATCGGCGTTGA
1 TATGAGAGCCAGTGTAAGACCATGTCAAACATGGCATCAACATTGA
* *
88423532 TTATGAGAGCCAGTGTAGGACCATGTCAAACATTGCATCAACATTGA
1 -TATGAGAGCCAGTGTAAGACCATGTCAAACATGGCATCAACATTGA
*
88423579 T-TGTGAGCCAGTGTAAGACCATGTC
1 TATGAGAGCCAGTGTAAGACCATGTC
88423604 TGTGACATGG
Statistics
Matches: 125, Mismatches: 34, Indels: 9
0.74 0.20 0.05
Matches are distributed among these distances:
45 56 0.45
46 33 0.26
47 36 0.29
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (46 bp):
TATGAGAGCCAGTGTAAGACCATGTCAAACATGGCATCAACATTGA
Found at i:88432930 original size:40 final size:40
Alignment explanation
Indices: 88432886--88433070 Score: 255
Period size: 40 Copynumber: 4.7 Consensus size: 40
88432876 GCCACTAGCT
* * * * *
88432886 CAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
88432926 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
* * * *
88432965 CAAACGACTTCGGGAATTAGCCCGGATATAATAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
* *
88433005 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
*
88433045 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
88433071 ATTAGCCACT
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.25
40 97 0.75
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
Found at i:88433091 original size:40 final size:39
Alignment explanation
Indices: 88432886--88433109 Score: 208
Period size: 40 Copynumber: 5.6 Consensus size: 39
88432876 GCCACTAGCT
* * *
88432886 CAAATGCCTTCGGGACTTAGCCCAG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTCGCA
*
88432926 CAAATGCCTTCGGGACTTAGCCCGGTATAATAG-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-ATAGACTCGCA
* * * *
88432965 CAAACGACTTCGGGAATTAGCCCGGATATAATAG-CTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT-ATAGACTCGCA
*
88433005 CAAACGCCTTCGGGACTTAGCCCGG-ATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG-A-CTCGCA
* * *
88433045 CGAATGCCTTCGGGACTTAGCCCGGAAT-TAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTCGCA
88433085 CAAATG-CTCTCGGGACTTAGCCCGG
1 CAAATGCCT-TCGGGACTTAGCCCGG
88433110 TTATCATCCG
Statistics
Matches: 158, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
37 4 0.03
38 2 0.01
39 29 0.18
40 115 0.73
41 4 0.03
42 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGACTCGCA
Found at i:88433098 original size:80 final size:78
Alignment explanation
Indices: 88432886--88433110 Score: 235
Period size: 80 Copynumber: 2.8 Consensus size: 78
88432876 GCCACTAGCT
* * * *
88432886 CAAATGCCTTCGGGACTTAGCCCAG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTAGCTCAAATGCCTTCGGGACTTAGCCCG
88432950 GTATAATAGCTCGCA
64 GTATAATAGCTCGCA
* * * * *
88432965 CAAACGACTTCGGGAATTAGCCCGGATATAATAG-CTCG-TACAAACGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT-ATAGACTAGCT-CAAATGCCTTCGGGACTTAGCCC
*
88433028 GGATATAGTAGCTCGCA
63 GG-TATAATAGCTCGCA
*
88433045 CGAATGCCTTCGGGACTTAGCCCGGAAT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAG--ACTAGCTCAAATGCCT-TCGGGACTTAGCCC
88433108 GGT
63 GGT
88433111 TATCATCCGA
Statistics
Matches: 121, Mismatches: 15, Indels: 20
0.78 0.10 0.13
Matches are distributed among these distances:
77 3 0.02
79 53 0.44
80 59 0.49
81 2 0.02
82 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGACTAGCTCAAATGCCTTCGGGACTTAGCCCGGT
ATAATAGCTCGCA
Found at i:88434895 original size:21 final size:23
Alignment explanation
Indices: 88434853--88434895 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
88434843 TGAAATATAA
*
88434853 AAATATATTTAATAATTCATTTT
1 AAATATATTTAATAATTAATTTT
*
88434876 AAATAT-TTTATTAA-TAATTT
1 AAATATATTTAATAATTAATTT
88434896 GGGTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 7 0.39
23 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATATTTAATAATTAATTTT
Found at i:88441641 original size:22 final size:21
Alignment explanation
Indices: 88441616--88441666 Score: 50
Period size: 22 Copynumber: 2.3 Consensus size: 21
88441606 ATACATGCTT
88441616 CATAAACCATATTATCAAC-TAC
1 CATAAA-CA-ATTATCAACATAC
*
88441638 CATACGAACACTTATCAACATAC
1 CATA--AACAATTATCAACATAC
88441661 CATAAA
1 CATAAA
88441667 TCAAACATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 9 0.36
24 2 0.08
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (21 bp):
CATAAACAATTATCAACATAC
Found at i:88442136 original size:23 final size:22
Alignment explanation
Indices: 88442101--88442149 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
88442091 TATTTTAACA
*
88442101 CATAAACACTCAAATTATATTGG
1 CATAAACAATC-AATTATATTGG
* *
88442124 CATAATCAATCAATTATATTGT
1 CATAAACAATCAATTATATTGG
88442146 CATA
1 CATA
88442150 CTACATCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (22 bp):
CATAAACAATCAATTATATTGG
Found at i:88444597 original size:29 final size:29
Alignment explanation
Indices: 88444522--88444640 Score: 118
Period size: 29 Copynumber: 4.2 Consensus size: 29
88444512 TACATACATG
*
88444522 CATATGGCCCACTAGGCCCAATT-TTATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* *
88444550 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
* * *
88444579 CTTATGGCCCACTAAGCCCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* * * *
88444608 CATATTGCCAATTAGGCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
88444637 -ATAT
1 CATAT
88444641 TCATGCTCGC
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 24 0.33
29 49 0.67
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:88446145 original size:16 final size:16
Alignment explanation
Indices: 88446124--88446156 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
88446114 AAAAATTCAA
88446124 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
88446140 GATTTCGGGATTTTTG
1 GATTTCGGGATTTTTG
88446156 G
1 G
88446157 GGCGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.06, G:0.33, T:0.48
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:88448710 original size:27 final size:25
Alignment explanation
Indices: 88448669--88448722 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
88448659 TTTCAACACC
* *
88448669 TAGGGGTATTCTGGTCATTCTCGCCCT
1 TAGGGGCATTCTGGTAATT-TC-CCCT
*
88448696 TAGGGGCATTTTGGTAATTTCCCCT
1 TAGGGGCATTCTGGTAATTTCCCCT
88448721 TA
1 TA
88448723 ATTATGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 2 0.08
27 16 0.67
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (25 bp):
TAGGGGCATTCTGGTAATTTCCCCT
Found at i:88449047 original size:29 final size:29
Alignment explanation
Indices: 88448981--88449099 Score: 136
Period size: 29 Copynumber: 4.2 Consensus size: 29
88448971 TACATACATG
* *
88448981 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
88449009 CAAATGGCCCATCT-GGCCCAATTCATATT
1 CATATGGCCCAT-TAGGCCCAATTCATATT
* ** *
88449038 CTTATGGCCCATTAACCCCAATTCACATT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
88449067 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
88449096 -ATAT
1 CATAT
88449100 TCATGCTCCC
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 22 0.29
29 53 0.71
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:88450581 original size:16 final size:16
Alignment explanation
Indices: 88450560--88450590 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88450550 AAAAATTTAA
88450560 GATTTCGAGATTTTTG
1 GATTTCGAGATTTTTG
*
88450576 GATTTCGGGATTTTT
1 GATTTCGAGATTTTT
88450591 AGGACGTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.06, G:0.26, T:0.52
Consensus pattern (16 bp):
GATTTCGAGATTTTTG
Found at i:88453956 original size:40 final size:40
Alignment explanation
Indices: 88453897--88454365 Score: 649
Period size: 40 Copynumber: 11.7 Consensus size: 40
88453887 CATTTGAATG
* *
88453897 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-T
* * *
88453937 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
* * *
88453977 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-T
* * *
88454017 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
* * *
88454057 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGA-T
* * *
88454097 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
* *
88454137 ATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
*
88454177 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
*
88454217 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
*
88454257 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
*
88454297 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTTGAT
* *
88454337 ATACCCGGGTTAAGACCCGAAGGCAATTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTG
88454366 NAGCAGTGAT
Statistics
Matches: 383, Mismatches: 39, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
39 7 0.02
40 367 0.96
41 9 0.02
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTTGAT
Found at i:88456756 original size:45 final size:44
Alignment explanation
Indices: 88456687--88456809 Score: 126
Period size: 45 Copynumber: 2.8 Consensus size: 44
88456677 CTAGGAATTA
88456687 AGAAATCC-AAGCTCGTTGAGTTGGTTCGAGTTCGT-GATATATGT
1 AGAAATCCGAA-CTCGTTGAGTTGGTTCGAGTTCGTAG-TATATGT
* * * * *
88456731 GAGAAATCCGAACTTGTTGATTTGGTCCAAGTTTGTAGTATATGT
1 -AGAAATCCGAACTCGTTGAGTTGGTTCGAGTTCGTAGTATATGT
*
88456776 A-AAGCATCCGAGCTCGTTGAGTTGGTTCGAGTTC
1 AGAA--ATCCGAACTCGTTGAGTTGGTTCGAGTTC
88456810 ATTATGGATG
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
43 2 0.03
44 1 0.02
45 57 0.90
46 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (44 bp):
AGAAATCCGAACTCGTTGAGTTGGTTCGAGTTCGTAGTATATGT
Found at i:88456834 original size:44 final size:44
Alignment explanation
Indices: 88456778--88456864 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
88456768 GTATATGTAA
* *
88456778 AGCATCCGAGCTCGTTGAGTTGGTTC-GAGTTCATTATGGATGCG
1 AGCATCCAAGCTCGTTGAGTT-GTTCTGAGTTCATAATGGATGCG
88456822 AGCATCCAAGCTCGTTGAGTTGTTCTGAGTTCATAATGGATGC
1 AGCATCCAAGCTCGTTGAGTTGTTCTGAGTTCATAATGGATGC
88456865 AATACATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 4 0.10
44 36 0.90
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (44 bp):
AGCATCCAAGCTCGTTGAGTTGTTCTGAGTTCATAATGGATGCG
Found at i:88460746 original size:15 final size:15
Alignment explanation
Indices: 88460728--88460796 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
88460718 ATATTGTATA
*
88460728 TTGGATTTCTGTATC
1 TTGGATTTCTTTATC
88460743 TTGGATTTCTTTATC
1 TTGGATTTCTTTATC
*
88460758 TAT-GATTTCTTTGTC
1 T-TGGATTTCTTTATC
* *
88460773 TTGTACTTCTTTATC
1 TTGGATTTCTTTATC
*
88460788 TTGGTTTTC
1 TTGGATTTC
88460797 ATGTCATCTC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 1 0.02
15 42 0.95
16 1 0.02
ACGTcount: A:0.12, C:0.14, G:0.14, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:88463291 original size:14 final size:16
Alignment explanation
Indices: 88463272--88463310 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
88463262 AAGAAAATGA
*
88463272 TGATATATGACA-A-G
1 TGATATATGAAATATG
88463286 TGATATATGAAATATG
1 TGATATATGAAATATG
88463302 TGATATATG
1 TGATATATG
88463311 TTATGTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 1 0.05
16 10 0.45
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (16 bp):
TGATATATGAAATATG
Found at i:88463561 original size:45 final size:45
Alignment explanation
Indices: 88463497--88463668 Score: 140
Period size: 45 Copynumber: 3.8 Consensus size: 45
88463487 CTAGGAATTA
*
88463497 AGAAATCTGAGCTCGTTGAGTTGGTCCGAGTTCAT-GATATATGTG
1 AGAAATCTGAACTCGTTGAGTTGGTCCGAGTTCATAG-TATATGTG
* * * *
88463542 AGAAATTTGAACTTGTTGAGTTGGTCCGATTTCGTAGTATATGTG
1 AGAAATCTGAACTCGTTGAGTTGGTCCGAGTTCATAGTATATGTG
* * * * *
88463587 A-AGCATCCGAGCTCGTTGAGTTGGTCTGAGTTCATTA-TAGATGCT-
1 AGA-AATCTGAACTCGTTGAGTTGGTCCGAGTTCA-TAGTATATG-TG
* * *
88463632 AG-CATC-CAAGCTCGTTGAGTTGGTCCGAGGTCATAGT
1 AGAAATCTGAA-CTCGTTGAGTTGGTCCGAGTTCATAGT
88463669 GGATGCAATA
Statistics
Matches: 102, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
43 3 0.03
44 27 0.26
45 68 0.67
46 4 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (45 bp):
AGAAATCTGAACTCGTTGAGTTGGTCCGAGTTCATAGTATATGTG
Found at i:88464414 original size:23 final size:24
Alignment explanation
Indices: 88464374--88464421 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
88464364 GGCCCATTGT
88464374 AGTAACAGTAAACAGTGCACTAAC
1 AGTAACAGTAAACAGTGCACTAAC
*
88464398 AGTAACAGT-AACAGTGCAGTAAC
1 AGTAACAGTAAACAGTGCACTAAC
88464421 A
1 A
88464422 ATAAATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (24 bp):
AGTAACAGTAAACAGTGCACTAAC
Found at i:88464813 original size:27 final size:27
Alignment explanation
Indices: 88464782--88464974 Score: 93
Period size: 27 Copynumber: 7.1 Consensus size: 27
88464772 ACATAGGGGT
*
88464782 AAAACAATCATCTTACCATAAAAGGGC
1 AAAACAATCATCTTACCACAAAAGGGC
* * *
88464809 AAAACAGTCATTTTACCACATAAGGGC
1 AAAACAATCATCTTACCACAAAAGGGC
* * * * *
88464836 AAAGCAGTCATTTTACTC-CATAAGGGA
1 AAAACAATCATCTTAC-CACAAAAGGGC
* * * *
88464863 AAAACAGTCATTTTACCTCATAAGGGC
1 AAAACAATCATCTTACCACAAAAGGGC
** * * ** *
88464890 AAAGTAGTCATTTTACTTCATAAGGGC
1 AAAACAATCATCTTACCACAAAAGGGC
* * * *
88464917 AAAAGAGTCATTTTACC-CTATAAGGGC
1 AAAACAATCATCTTACCAC-AAAAGGGC
* * * * *
88464944 AAAATAGTCATTTTACCCCATAAGGGC
1 AAAACAATCATCTTACCACAAAAGGGC
88464971 AAAA
1 AAAA
88464975 TAGTCATTTT
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.01
27 143 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
AAAACAATCATCTTACCACAAAAGGGC
Found at i:88464830 original size:54 final size:52
Alignment explanation
Indices: 88464771--88464985 Score: 234
Period size: 54 Copynumber: 4.0 Consensus size: 52
88464761 AAACATACAT
* * * *
88464771 CACATAGGGGTAAAACAATCATCTTACCATAAAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTACCAT--AAGGGCAAAACAGTCATTTTAC
* *
88464825 CACATAAGGGCAAAGCAGTCATTTTACTCCATAAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTA--CCATAAGGGCAAAACAGTCATTTTAC
* ** *
88464879 CTCATAAGGGCAAAGTAGTCATTTTACTTCATAAGGGCAAAAGAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC--CATAAGGGCAAAACAGTCATTTTAC
* *
88464933 C-CTATAAGGGCAAAATAGTCATTTTACCCCATAAGGGCAAAATAGTCATTTTA
1 CAC-ATAAGGGCAAAACAGTCATTTTA--CCATAAGGGCAAAACAGTCATTTTA
88464986 TCGATTAAGG
Statistics
Matches: 142, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 135 0.95
56 5 0.04
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (52 bp):
CACATAAGGGCAAAACAGTCATTTTACCATAAGGGCAAAACAGTCATTTTAC
Done.