Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 369 of 770
Found at i:113355950 original size:14 final size:14
Alignment explanation
Indices: 113355931--113355964 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
113355921 GATTATATTA
*
113355931 TTACAAAGGAAAGT
1 TTACAAAAGAAAGT
113355945 TTACAAAAGAAAGT
1 TTACAAAAGAAAGT
113355959 TTACAA
1 TTACAA
113355965 TGAGAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
TTACAAAAGAAAGT
Found at i:113356162 original size:36 final size:34
Alignment explanation
Indices: 113356121--113356187 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
113356111 AAAGATCCTA
113356121 TCTTGTCATCAACATAGTTGT-TTCCACGTTGCATAG
1 TCTTGTCA-CAACAT--TTGTCTTCCACGTTGCATAG
*
113356157 TCTTGTCACATCATTTGTCTTCCACGTTGCA
1 TCTTGTCACAACATTTGTCTTCCACGTTGCA
113356188 GCCTTTTCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 4 0.14
34 12 0.41
35 5 0.17
36 8 0.28
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.40
Consensus pattern (34 bp):
TCTTGTCACAACATTTGTCTTCCACGTTGCATAG
Found at i:113359267 original size:29 final size:29
Alignment explanation
Indices: 113359206--113359304 Score: 168
Period size: 28 Copynumber: 3.5 Consensus size: 29
113359196 ACAGTAAGTC
113359206 CGCACACTTAGTGCT-TA-ATATTCAAACT
1 CGCACACTTAGTGCTATACA-ATTCAAACT
113359234 CGCACACTTAGTGCTATACAATTCAAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
113359263 CGCACACTTAGTGCTATACAATT-AAACT
1 CGCACACTTAGTGCTATACAATTCAAACT
113359291 CGCACACTTAGTGC
1 CGCACACTTAGTGC
113359305 CAATCTCATT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 34 0.49
29 34 0.49
30 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAATTCAAACT
Found at i:113363409 original size:23 final size:22
Alignment explanation
Indices: 113363366--113363418 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
113363356 TCTAATTATA
*
113363366 ATTTAATATAAACACATAATATT
1 ATTT-ATATAAACACATAATAAT
*
113363389 ATTTATATAAACATATAAATAAT
1 ATTTATATAAACACAT-AATAAT
113363412 A-TTATAT
1 ATTTATAT
113363419 TTTTTCCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTATATAAACACATAATAAT
Found at i:113363672 original size:31 final size:31
Alignment explanation
Indices: 113363634--113363698 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
113363624 AAGAGCGGCC
*
113363634 AAAATAGAAACGATCTAGAACGTAAATGACT
1 AAAATAGAAACGATCTAAAACGTAAATGACT
* * *
113363665 AAAATAGAAATGATCTAAAACGTTAGTGACT
1 AAAATAGAAACGATCTAAAACGTAAATGACT
113363696 AAA
1 AAA
113363699 TTGAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (31 bp):
AAAATAGAAACGATCTAAAACGTAAATGACT
Found at i:113363684 original size:16 final size:16
Alignment explanation
Indices: 113363634--113363684 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
113363624 AAGAGCGGCC
*
113363634 AAAATAGAAACGATCT
1 AAAATAGAAATGATCT
* *
113363650 AGAA-CGTAAATGA-CT
1 AAAATAG-AAATGATCT
113363665 AAAATAGAAATGATCT
1 AAAATAGAAATGATCT
113363681 AAAA
1 AAAA
113363685 CGTTAGTGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.20
Consensus pattern (16 bp):
AAAATAGAAATGATCT
Found at i:113371444 original size:36 final size:36
Alignment explanation
Indices: 113371397--113371465 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
113371387 TCTCAAATTC
113371397 CATTCTTCATTCATTATAGATTAACATGTCTTATTT
1 CATTCTTCATTCATTATAGATTAACATGTCTTATTT
113371433 CATTCTTCATTCATTATAGATTAACATGTCTTA
1 CATTCTTCATTCATTATAGATTAACATGTCTTA
113371466 CTCTGAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (36 bp):
CATTCTTCATTCATTATAGATTAACATGTCTTATTT
Found at i:113373076 original size:23 final size:25
Alignment explanation
Indices: 113373039--113373099 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 25
113373029 TATAACTAGG
113373039 ACGAGCAATCCTGTTATAAC-CTTC-T
1 ACGAGC-ATCCTGTTA-AACACTTCTT
*
113373064 -CGAGCATCCTGTTAAACAGTTCTT
1 ACGAGCATCCTGTTAAACACTTCTT
113373088 ACGAGCATCCTG
1 ACGAGCATCCTG
113373100 ATCGGTAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 3 0.09
23 12 0.38
24 6 0.19
25 11 0.34
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (25 bp):
ACGAGCATCCTGTTAAACACTTCTT
Found at i:113378323 original size:25 final size:25
Alignment explanation
Indices: 113378287--113378348 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
113378277 TCTCTGACTT
*
113378287 GTGTGC-ACTGCCATGCCACACGCTC
1 GTGTGCTA-TGCCATGCCACACGCCC
113378312 GTGTGCTATGCCATGCCACACGCCC
1 GTGTGCTATGCCATGCCACACGCCC
113378337 GTGTGCTATGCC
1 GTGTGCTATGCC
113378349 GTGCGATTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.15, C:0.37, G:0.26, T:0.23
Consensus pattern (25 bp):
GTGTGCTATGCCATGCCACACGCCC
Found at i:113388935 original size:11 final size:11
Alignment explanation
Indices: 113388919--113388943 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
113388909 AACATGAGAA
113388919 CTTTTTTTTTT
1 CTTTTTTTTTT
113388930 CTTTTTTTTTT
1 CTTTTTTTTTT
113388941 CTT
1 CTT
113388944 CATCATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:113391163 original size:25 final size:25
Alignment explanation
Indices: 113391134--113391184 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
113391124 CAAAGGAAAA
**
113391134 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
113391159 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
113391184 T
1 T
113391185 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:113394577 original size:15 final size:15
Alignment explanation
Indices: 113394557--113394585 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
113394547 TGAAGGTGGA
113394557 GGAGATAAGGATGGC
1 GGAGATAAGGATGGC
113394572 GGAGATAAGGATGG
1 GGAGATAAGGATGG
113394586 GGTCGCTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.48, T:0.14
Consensus pattern (15 bp):
GGAGATAAGGATGGC
Found at i:113395920 original size:11 final size:11
Alignment explanation
Indices: 113395887--113395939 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
113395877 GTCTTAATTT
113395887 TAAAAATTA-A
1 TAAAAATTATA
113395897 -AAAAATTAT-
1 TAAAAATTATA
*
113395906 TAAAAATTTTA
1 TAAAAATTATA
*
113395917 TAAAAAATATA
1 TAAAAATTATA
113395928 TACAAAATTATA
1 TA-AAAATTATA
113395940 AATAAATGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 8 0.23
10 8 0.23
11 11 0.31
12 8 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:113395938 original size:21 final size:20
Alignment explanation
Indices: 113395882--113395946 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 20
113395872 AATTAGTCTT
113395882 AATT-TTAAAAATTA-AAAA
1 AATTATTAAAAATTATAAAA
113395900 AATTATTAAAAATTTTATAAAA
1 AATTATTAAAAA--TTATAAAA
113395922 AA-TATATACAAAATTATAAATA
1 AATTAT-TA-AAAATTATAAA-A
113395944 AAT
1 AAT
113395947 GAATATCTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.10
19 7 0.18
21 13 0.33
22 11 0.28
23 4 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AATTATTAAAAATTATAAAA
Found at i:113395946 original size:11 final size:10
Alignment explanation
Indices: 113395888--113395946 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 10
113395878 TCTTAATTTT
113395888 AAAAATTA-A
1 AAAAATTATA
113395897 AAAAATTATTA
1 AAAAATTA-TA
*
113395908 AAAATTTTATA
1 AAAA-ATTATA
113395919 AAAAATATATA
1 AAAAAT-TATA
*
113395930 CAAAATTATA
1 AAAAATTATA
113395940 AATAAAT
1 AA-AAAT
113395947 GAATATCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 8 0.20
10 6 0.15
11 24 0.59
12 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:113399589 original size:40 final size:40
Alignment explanation
Indices: 113399534--113399743 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
113399524 AACATTGGAA
113399534 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113399574 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113399614 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
113399654 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
113399693 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
113399734 CTATATCCGG
1 ATATATCCGG
113399744 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:113407653 original size:40 final size:40
Alignment explanation
Indices: 113407598--113407807 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
113407588 AACATTGGAA
113407598 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113407638 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113407678 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
113407718 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
113407757 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
113407798 CTATATCCGG
1 ATATATCCGG
113407808 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:113412900 original size:40 final size:40
Alignment explanation
Indices: 113412792--113413001 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
113412782 CGGGATTTAA
* * * * *
113412792 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
113412832 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113412872 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113412912 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113412952 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
113412992 CCGGATATAT
1 CCGGATATAT
113413002 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:113414807 original size:28 final size:28
Alignment explanation
Indices: 113414767--113414832 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
113414757 GGCTGTCACA
* *
113414767 AACAGTATCAGGTGGGCCTTAA-CCCATT
1 AACAGAATCAGGTGGGCC-TAAGCCCAAT
113414795 AACAGAATCAGGTGGGCCTAAGCCCAAT
1 AACAGAATCAGGTGGGCCTAAGCCCAAT
113414823 -ACAGAATCAG
1 AACAGAATCAG
113414833 TATCAAATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (28 bp):
AACAGAATCAGGTGGGCCTAAGCCCAAT
Found at i:113415278 original size:27 final size:27
Alignment explanation
Indices: 113415248--113415299 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
113415238 GGGCATAATC
113415248 GTCATTCTA-CCATACAGGGGTATTACG
1 GTCATTCTATCC-TACAGGGGTATTACG
* *
113415275 GTCATTTTATCCTATAGGGGTATTA
1 GTCATTCTATCCTACAGGGGTATTA
113415300 GGTGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTCTATCCTACAGGGGTATTACG
Found at i:113420274 original size:27 final size:27
Alignment explanation
Indices: 113420214--113420277 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
113420204 GGGCATAATC
*
113420214 GTCATTCTACCATACAGAGGTACTACG
1 GTCATTTTACCATACAGAGGTACTACG
* *
113420241 GTCATTTTACCCTACA-AGGGTATTACG
1 GTCATTTTACCATACAGA-GGTACTACG
113420268 GTCATTTTAC
1 GTCATTTTAC
113420278 AAACTGAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCATACAGAGGTACTACG
Found at i:113424155 original size:2 final size:2
Alignment explanation
Indices: 113424143--113424173 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
113424133 ATAAATTATG
113424143 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
113424174 TTACATTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:113430142 original size:40 final size:40
Alignment explanation
Indices: 113430094--113430299 Score: 351
Period size: 40 Copynumber: 5.2 Consensus size: 40
113430084 GGACTAAGAT
*
113430094 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
**
113430134 CCGAAGGCATTTGTATGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
113430174 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
113430214 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
113430254 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
113430293 CCGAAGG
1 CCGAAGG
113430300 TACTTGGGTT
Statistics
Matches: 159, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 15 0.09
40 144 0.91
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:113439009 original size:21 final size:21
Alignment explanation
Indices: 113438985--113439029 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
113438975 TAAAGTGCAC
*
113438985 TTTATTTTTGTGAAAAGATCT
1 TTTATTTTTGTCAAAAGATCT
*
113439006 TTTATTTTTGTCAAAAGATTT
1 TTTATTTTTGTCAAAAGATCT
113439027 TTT
1 TTT
113439030 TTAGATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.11, T:0.58
Consensus pattern (21 bp):
TTTATTTTTGTCAAAAGATCT
Found at i:113439074 original size:25 final size:25
Alignment explanation
Indices: 113439044--113439107 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
113439034 ATGTTTTCAA
113439044 TTTTAATATTA-AGTAAATTGAATTT
1 TTTTAATATTAGA-TAAATTGAATTT
* * *
113439069 TTTTAAAATTAGATTAATTTAATTT
1 TTTTAATATTAGATAAATTGAATTT
*
113439094 TTGTTAATTTTAGA
1 TT-TTAATATTAGA
113439108 AGTGAGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
25 22 0.69
26 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.55
Consensus pattern (25 bp):
TTTTAATATTAGATAAATTGAATTT
Found at i:113440049 original size:9 final size:8
Alignment explanation
Indices: 113440034--113440075 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
113440024 AGATAAAAGT
113440034 GAAAAAAA
1 GAAAAAAA
*
113440042 GAACAAAA
1 GAAAAAAA
113440050 GAAAAAAA
1 GAAAAAAA
113440058 -AAAGAAAA
1 GAAA-AAAA
113440066 GAAAGAAAA
1 GAAA-AAAA
113440075 G
1 G
113440076 GAAACAATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
7 3 0.10
8 18 0.60
9 9 0.30
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:113440055 original size:16 final size:16
Alignment explanation
Indices: 113440034--113440075 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
113440024 AGATAAAAGT
113440034 GAAAAAAAGAACAAAA
1 GAAAAAAAGAACAAAA
* *
113440050 GAAAAAAAAAAGAAAA
1 GAAAAAAAGAACAAAA
113440066 GAAAGAAAAG
1 GAAA-AAAAG
113440076 GAAACAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
GAAAAAAAGAACAAAA
Found at i:113440060 original size:20 final size:20
Alignment explanation
Indices: 113440035--113440074 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
113440025 GATAAAAGTG
*
113440035 AAAAAAAGAACA-AAAGAAA
1 AAAAAAAGAAAAGAAAGAAA
113440054 AAAAAAAGAAAAGAAAGAAA
1 AAAAAAAGAAAAGAAAGAAA
113440074 A
1 A
113440075 GGAAACAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAGAAAGAAA
Found at i:113447475 original size:27 final size:28
Alignment explanation
Indices: 113447419--113447488 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
113447409 AAATTTGTAC
113447419 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
113447447 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
113447474 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
113447489 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:113454655 original size:27 final size:28
Alignment explanation
Indices: 113454599--113454668 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
113454589 AAATTTGTAC
113454599 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
113454627 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
113454654 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
113454669 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:113458479 original size:40 final size:40
Alignment explanation
Indices: 113458424--113458633 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
113458414 AACATTGGAA
113458424 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113458464 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113458504 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
113458544 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
113458583 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
113458624 CTATATCCGG
1 ATATATCCGG
113458634 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:113466615 original size:40 final size:40
Alignment explanation
Indices: 113466560--113466769 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
113466550 AACATTGGAA
113466560 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113466600 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
113466640 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
113466680 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
113466719 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
113466760 CTATATCCGG
1 ATATATCCGG
113466770 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:113479003 original size:40 final size:40
Alignment explanation
Indices: 113478939--113479163 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
113478929 GCTACTCGTT
**
113478939 CAAATGCCTTCGGGA-AATAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
113478979 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
113479019 -AAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* *
113479058 CGAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * * *
113479098 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
113479139 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
113479164 CATCATTCGA
Statistics
Matches: 170, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
38 3 0.02
39 33 0.19
40 124 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:113479043 original size:79 final size:80
Alignment explanation
Indices: 113478960--113479163 Score: 306
Period size: 79 Copynumber: 2.6 Consensus size: 80
113478950 GGGAAATAGC
*
113478960 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA-AAATG
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
113479024 CCTTCGGATCTTAGT
66 CCTTCGGATCTTAGT
* * *
113479039 CCGGATTTAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGAAT
1 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAAT
113479103 GCCTTCGGATCTTAGT
65 GCCTTCGGATCTTAGT
* * *
113479119 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
113479164 CATCATTCGA
Statistics
Matches: 112, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
78 3 0.03
79 52 0.46
80 47 0.42
81 10 0.09
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (80 bp):
CCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATG
CCTTCGGATCTTAGT
Found at i:113479878 original size:2 final size:2
Alignment explanation
Indices: 113479871--113479898 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113479861 ATGTGCAAAC
113479871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113479899 GTGCAAGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113483476 original size:40 final size:40
Alignment explanation
Indices: 113483391--113483541 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
113483381 AATTGAATGA
* * *
113483391 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
113483431 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
113483472 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
113483511 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
113483542 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:113483555 original size:40 final size:40
Alignment explanation
Indices: 113483428--113483557 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
113483418 ATGCTGGAAA
* * * *
113483428 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
113483468 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
113483508 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
113483548 TTATATCCGG
1 TTATATCCGG
113483558 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:113494021 original size:46 final size:46
Alignment explanation
Indices: 113493971--113494146 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
113493961 TGGTTGAGCA
113493971 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113494017 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
113494062 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
113494110 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
113494147 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:113494127 original size:93 final size:93
Alignment explanation
Indices: 113493968--113494139 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
113493958 GGATGGTTGA
* *
113493968 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113494033 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
113494061 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
113494126 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
113494140 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:113499277 original size:40 final size:40
Alignment explanation
Indices: 113499218--113499344 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
113499208 TGGAATACAA
* * *
113499218 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
*
113499258 CCGGATAGAACGACTTGCACGAATTCCTTCGGGTCTTAGC
1 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
* * *
113499298 CCGGAT-GTAGCCG-CTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAG-A-ACGACTTGCACGAA-TGCCTTCGGGTCTTAGC
113499338 CCGGATA
1 CCGGATA
113499345 TAATTTCCAG
Statistics
Matches: 75, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
39 3 0.04
40 70 0.93
41 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:113504939 original size:107 final size:107
Alignment explanation
Indices: 113504753--113504954 Score: 368
Period size: 107 Copynumber: 1.9 Consensus size: 107
113504743 TAGTCCCCAA
*
113504753 AATTGCCAAATATCAACAAGCATTACATGTTTATATTTAATCACATAACCAAGCCATATACACAT
1 AATTGCCAAATATCAACAAGCATAACATGTTTATATTTAATCACATAACCAAGCCATATACACAT
113504818 TGATATATACATAACCACATCAACCTAAACTCACAACCCCGT
66 TGATATATACATAACCACATCAACCTAAACTCACAACCCCGT
* *
113504860 AATTGCCAAATATCAACAAGCATAACATGTTTATATTTAATCACATAACCAAGCCATATGCACGT
1 AATTGCCAAATATCAACAAGCATAACATGTTTATATTTAATCACATAACCAAGCCATATACACAT
*
113504925 TGATATATACATAACCACCTCAACCTAAAC
66 TGATATATACATAACCACATCAACCTAAAC
113504955 AGGCCAACTC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 91 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.26
Consensus pattern (107 bp):
AATTGCCAAATATCAACAAGCATAACATGTTTATATTTAATCACATAACCAAGCCATATACACAT
TGATATATACATAACCACATCAACCTAAACTCACAACCCCGT
Found at i:113510761 original size:40 final size:40
Alignment explanation
Indices: 113510704--113510922 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
113510694 GCTCGATTGT
* * * *
113510704 CTTCGGGACA-TAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGA-ATTAACCCGGTTTTAGTAACTCGCACAAATGC
* *
113510744 CTTTGGGAATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
* *
113510784 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
* * *
113510824 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
1 CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
* * * * * *
113510864 CTTCGGGAATTGACCTGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGAATTAACCCGGTTTTAGTAAC-TCGCACAAATGC
* *
113510905 CTTCGGGACTTAGCCCGG
1 CTTCGGGAATTAACCCGG
113510923 ACATCATTCG
Statistics
Matches: 153, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 1 0.01
40 128 0.84
41 24 0.16
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CTTCGGGAATTAACCCGGTTTTAGTAACTCGCACAAATGC
Found at i:113510885 original size:120 final size:121
Alignment explanation
Indices: 113510704--113510922 Score: 305
Period size: 120 Copynumber: 1.8 Consensus size: 121
113510694 GCTCGATTGT
* * * * *
113510704 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTTGGGAATTAACCCGGATTTAGT
1 CTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
* *
113510769 AAC-TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
66 AACTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * *
113510824 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCTGGATTTAGT
1 CTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
* *
113510889 CACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
66 AACTTAGCACAAAAGCCTTCGGGACTTAACCCGG
113510923 ACATCATTCG
Statistics
Matches: 84, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
120 57 0.68
121 27 0.32
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (121 bp):
CTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTTAGT
AACTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:113518864 original size:40 final size:40
Alignment explanation
Indices: 113518813--113519010 Score: 263
Period size: 40 Copynumber: 5.0 Consensus size: 40
113518803 TAGCCGGTTA
* * *
113518813 TAGTAATTCGCACAATTGCCTTCGGGAATTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
*
113518853 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* *
113518893 TGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* * *
113518933 TGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGA-T
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* * * *
113518972 TAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
113519011 CATCATTCGA
Statistics
Matches: 142, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
39 6 0.04
40 136 0.96
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
Found at i:113518968 original size:120 final size:119
Alignment explanation
Indices: 113518793--113519009 Score: 310
Period size: 120 Copynumber: 1.8 Consensus size: 119
113518783 GCTCGATTGT
* * *
113518793 CTTCGGGACATAGCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAACCCGGATTTAGTA
1 CTTCGGGACATACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGA-TTAGTA
* *
113518858 AC-TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
65 ACTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
* * * * *
113518912 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTAGTC
1 CTTCGGGACAT-ACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTAGTA
*
113518977 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
65 ACTTAGCACAAAAGCCTTCGGGACTTAACCCGG
113519010 ACATCATTCG
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
119 17 0.20
120 68 0.80
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (119 bp):
CTTCGGGACATACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGGATTAGTAA
CTTAGCACAAAAGCCTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
Found at i:113522942 original size:12 final size:12
Alignment explanation
Indices: 113522925--113522957 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
113522915 TCCGTAAATA
*
113522925 CTTCCATGATAT
1 CTTCCACGATAT
113522937 CTTCCACGATAT
1 CTTCCACGATAT
113522949 CTTCCACGA
1 CTTCCACGA
113522958 GTTCATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.33
Consensus pattern (12 bp):
CTTCCACGATAT
Found at i:113535917 original size:28 final size:28
Alignment explanation
Indices: 113535856--113535953 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
113535846 TCACAAATTG
** * *
113535856 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
113535885 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
113535913 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
113535941 GCACTAAGTGTGC
1 GCACTAAGTGTGC
113535954 GGGCTTATGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:113543589 original size:28 final size:28
Alignment explanation
Indices: 113543528--113543625 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
113543518 TCACAAATTG
** * *
113543528 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
113543557 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
113543585 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
113543613 GCACTAAGTGTGC
1 GCACTAAGTGTGC
113543626 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:113551268 original size:28 final size:28
Alignment explanation
Indices: 113551207--113551304 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
113551197 TCACAAATTG
** * *
113551207 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
113551236 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
113551264 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
113551292 GCACTAAGTGTGC
1 GCACTAAGTGTGC
113551305 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:113556528 original size:40 final size:40
Alignment explanation
Indices: 113556443--113556593 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
113556433 AATTGAATGA
* * *
113556443 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
113556483 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
113556524 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
113556563 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
113556594 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:113556607 original size:40 final size:40
Alignment explanation
Indices: 113556480--113556609 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
113556470 ATGCTGGAAA
* * * *
113556480 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
113556520 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
113556560 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
113556600 TTATATCCGG
1 TTATATCCGG
113556610 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:113558373 original size:93 final size:93
Alignment explanation
Indices: 113558261--113558432 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
113558251 GCCCATAAGT
* *
113558261 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
113558326 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
*
113558354 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
113558419 CAAGTTCGGATGCC
66 CAAGCTCGGATGCC
113558433 CAAACATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:113558425 original size:46 final size:46
Alignment explanation
Indices: 113558253--113558428 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
113558243 TGTAACCCGC
* *
113558253 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
113558299 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
113558345 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
113558392 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
113558429 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:113561551 original size:40 final size:39
Alignment explanation
Indices: 113561391--113561553 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
113561381 TGTGTATGAA
*
113561391 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
113561430 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
113561469 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
113561508 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
113561548 TGTGCG
1 TGTGCG
113561554 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:113561569 original size:40 final size:39
Alignment explanation
Indices: 113561391--113561584 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
113561381 TGTGTATGAA
* *
113561391 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
113561430 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
113561469 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
113561508 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
113561548 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
113561585 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:113566857 original size:40 final size:39
Alignment explanation
Indices: 113566812--113567018 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 39
113566802 CGGAATACAA
*
113566812 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113566852 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113566892 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *** *
113566932 TCGGATGTGGTCACTAGCAC-AATGGCCTTC-GGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
113566971 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
113567011 CCGGATAT
1 CCGGATAT
113567019 CATTCAATTG
Statistics
Matches: 137, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
39 31 0.23
40 106 0.77
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:113566952 original size:80 final size:79
Alignment explanation
Indices: 113566812--113567017 Score: 211
Period size: 80 Copynumber: 2.6 Consensus size: 79
113566802 CGGAATACAA
* *
113566812 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
113566876 GCCTTCGGGTATTAGC
65 GCCTTC-GGTATTAAC
* * * * **
113566892 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCTCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
113566956 GCCTTCGGTCTTAAC
65 GCCTTCGGTATTAAC
** ** * *
113566971 CCGGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
113567018 TCATTCAATT
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
78 1 0.01
79 46 0.44
80 55 0.53
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGTATTAAC
Found at i:113573102 original size:41 final size:41
Alignment explanation
Indices: 113573057--113573174 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
113573047 TGAAAGATAA
113573057 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
113573098 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
113573128 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
113573169 ATGTAG
1 ATGTAG
113573175 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:113573113 original size:71 final size:71
Alignment explanation
Indices: 113573025--113573188 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
113573015 GAGATGTATC
113573025 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
113573090 AGGACA
66 AGGACA
113573096 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
113573161 AGGACA
66 AGGACA
113573167 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
113573189 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:113600293 original size:13 final size:13
Alignment explanation
Indices: 113600271--113600303 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
113600261 AAGGGTTTGT
113600271 TTAT-TAAACTAA
1 TTATCTAAACTAA
113600283 TTATCTAAACTAA
1 TTATCTAAACTAA
*
113600296 TTAACTAA
1 TTATCTAA
113600304 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:113603229 original size:11 final size:10
Alignment explanation
Indices: 113603210--113603280 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 10
113603200 AAGAAAATTG
113603210 AAATGAAAATA
1 AAAT-AAAATA
*
113603221 AAATCAAAAGAA
1 AAAT-AAAA-TA
113603233 AAATAAGAATA
1 AAATAA-AATA
113603244 AAAT-AAATA
1 AAATAAAATA
113603253 AAATATAAATA
1 AAATA-AAATA
113603264 TAAATAAAAATA
1 -AAAT-AAAATA
113603276 AAATA
1 AAATA
113603281 GGAGGATTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
9 8 0.16
10 2 0.04
11 24 0.47
12 16 0.31
13 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (10 bp):
AAATAAAATA
Found at i:113603235 original size:17 final size:16
Alignment explanation
Indices: 113603215--113603280 Score: 51
Period size: 17 Copynumber: 3.7 Consensus size: 16
113603205 AATTGAAATG
*
113603215 AAAATAAAATCAAAAGA
1 AAAATAAAAT-AAAAAA
113603232 AAAATAAGAATAAAATAAA
1 AAAATAA-AAT-AAA-AAA
*
113603251 TAAAATATAAATATAAATA
1 -AAAATA-AAATA-AAAAA
113603270 AAAATAAAATA
1 AAAATAAAATA
113603281 GGAGGATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
17 12 0.29
18 12 0.29
19 5 0.12
20 11 0.27
21 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAATAAAATAAAAAA
Found at i:113603243 original size:6 final size:5
Alignment explanation
Indices: 113603210--113603280 Score: 63
Period size: 6 Copynumber: 13.0 Consensus size: 5
113603200 AAGAAAATTG
*
113603210 AAATGA AAATA AAATCA AAAGAA AAATA AGAATA AAAT- AAATA AAATA
1 AAAT-A AAATA AAAT-A AAA-TA AAATA A-AATA AAATA AAATA AAATA
113603258 TAAATA TAAATAA AAATA AAATA
1 -AAATA -AAAT-A AAATA AAATA
113603281 GGAGGATTCA
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
4 4 0.07
5 21 0.37
6 31 0.54
7 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:113608642 original size:13 final size:13
Alignment explanation
Indices: 113608620--113608652 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
113608610 AAGGGTTTGT
113608620 TTAT-TAAACTAA
1 TTATCTAAACTAA
113608632 TTATCTAAACTAA
1 TTATCTAAACTAA
*
113608645 TTAACTAA
1 TTATCTAA
113608653 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:113612411 original size:39 final size:40
Alignment explanation
Indices: 113612338--113612531 Score: 258
Period size: 39 Copynumber: 5.0 Consensus size: 40
113612328 TCGAATGATG
* * *
113612338 TCCGGGCTAAG-TCCCGAAGGC-TCTGTGCTAAGTTACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
113612378 TCCAGACTAAGAT-CGAAGGCAATTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
113612417 TCC-GACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
113612456 TCCGGACTAAGATCCGAA-GCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
113612495 TCCGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
113612532 TAACCGGGCT
Statistics
Matches: 141, Mismatches: 7, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
37 1 0.01
38 18 0.13
39 93 0.66
40 28 0.20
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:113616417 original size:39 final size:38
Alignment explanation
Indices: 113616363--113616476 Score: 138
Period size: 39 Copynumber: 2.9 Consensus size: 38
113616353 TATCACGATT
*
113616363 TGCACAAATGCCTTCGGGTCTTAGCCCAGATTTAACAAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCAGATATAACAAC
* * *
113616402 TGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCTAC
1 TGCAC-AATGCCTTCGGGTCTTAGCCCAGATATAACAAC
* *
113616441 TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
1 T-GCACAA-TGCCTTCGGGTCTTAGCCCAGATATAA
113616477 TTTTCAGCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.56
40 29 0.44
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (38 bp):
TGCACAATGCCTTCGGGTCTTAGCCCAGATATAACAAC
Found at i:113616470 original size:40 final size:37
Alignment explanation
Indices: 113616332--113616475 Score: 135
Period size: 40 Copynumber: 3.7 Consensus size: 37
113616322 CCGCACCAAG
* * **
113616332 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAACCCGGATAT-AC-AACTGCAC-AAT
* * *
113616372 GCCTTCGGGTCTTAGCCCAGATTTAACAACTGCACGAAT
1 GCCTTCGGGTCTTAACCCGGATAT-ACAACTGCAC-AAT
* *
113616411 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAACCCGGATATA-CAACT-GCACAA-T
113616451 GCCTTCGGGTCTTAACCCGGATATA
1 GCCTTCGGGTCTTAACCCGGATATA
113616476 ATTTTCAGCA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 1 0.01
39 37 0.42
40 50 0.57
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (37 bp):
GCCTTCGGGTCTTAACCCGGATATACAACTGCACAAT
Found at i:113616491 original size:40 final size:40
Alignment explanation
Indices: 113616364--113616514 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
113616354 ATCACGATTT
* * * * *
113616364 GCACAAATGCCTTCGGGTCTTAGCCCAGATTTAACAACT-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
113616403 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
113616443 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
113616483 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
113616515 CATTCAATTT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
39 36 0.38
40 60 0.62
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:113623068 original size:40 final size:40
Alignment explanation
Indices: 113622893--113623060 Score: 259
Period size: 40 Copynumber: 4.2 Consensus size: 40
113622883 CTCTCTGCTA
* *
113622893 AGTTACTAAATCCAGACTAAGATCCGAAGGCAATTGTGCG
1 AGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
*
113622933 AGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGTG
1 AGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
113622973 AGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
1 AGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
*
113623013 AGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCAGTTGTGCG
1 AGTTACTAAATCC-GGACTAAGAT-CCGAAGGCATTTGTGCG
*
113623053 AGCTACTA
1 AGTTACTA
113623061 TAACCGGGCT
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
39 1 0.01
40 116 0.97
41 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (40 bp):
AGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCG
Found at i:113624560 original size:54 final size:55
Alignment explanation
Indices: 113624479--113624589 Score: 163
Period size: 54 Copynumber: 2.0 Consensus size: 55
113624469 GTTACAACCT
* * *
113624479 TTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGTTCTTACATGATTTCC
1 TTGCCTTATAGTAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
*
113624534 TTGCCTTATAG-AAC-CTATCAATGCCATGCCTTGCCATGGTCTTACATGATATCC
1 TTGCCTTATAGTAACTC-ATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
113624588 TT
1 TT
113624590 ATCTTACCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 1 0.02
54 39 0.76
55 11 0.22
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.38
Consensus pattern (55 bp):
TTGCCTTATAGTAACTCATCAATGCCATGCCTTGACATGGTCTTACATGATATCC
Found at i:113624620 original size:47 final size:47
Alignment explanation
Indices: 113624568--113624689 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
113624558 CATGCCTTGC
* * *
113624568 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCGTGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
**
113624615 CATGGTCTTACATGGTATTATTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
* *
113624662 CATTGTCATACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
113624690 GCGCCAATGC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:113624911 original size:44 final size:44
Alignment explanation
Indices: 113624826--113624912 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
113624816 GTATCCTTAA
* * *
113624826 CCGTCAATTCCTCCTTAAATGCCATGTTATGAAAATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAAAATAGACTTTT
* * *
113624870 CCGTCAATTCTTCCTTAATTGCCATGGTA-CAACCATAGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAA-AATAGACTTT
113624913 GAGATATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTATCAAAATAGACTTTT
Found at i:113625020 original size:14 final size:13
Alignment explanation
Indices: 113624984--113625021 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
113624974 CATAACTCAA
113624984 TAATAACAAT-AC
1 TAATAACAATAAC
113624996 TAATAACAATAAC
1 TAATAACAATAAC
*
113625009 TACATAATAATAA
1 TA-ATAACAATAA
113625022 AATGCTACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 4 0.17
14 9 0.39
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (13 bp):
TAATAACAATAAC
Found at i:113639474 original size:27 final size:26
Alignment explanation
Indices: 113639422--113639480 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
113639412 CCACATATAT
*
113639422 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
113639448 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
113639475 ATATCT
1 ATATCT
113639481 AGCAGCCCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:113639673 original size:56 final size:56
Alignment explanation
Indices: 113639610--113639721 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
113639600 CATGATGTAT
* *
113639610 TTGTTCTGTATCTGCTATGGTCCTGTGGGTTTCATTCTGATTTCTGTACTGGGCCA
1 TTGTTCTGTATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTGGGCCA
*
113639666 TTGTTCTGTATCTGCTATGGGCCTATGGGTTTCATTTTGATTTCTGTACTGGGCCA
1 TTGTTCTGTATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTGGGCCA
113639722 AGGTGACTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.45
Consensus pattern (56 bp):
TTGTTCTGTATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTGGGCCA
Found at i:113646836 original size:26 final size:26
Alignment explanation
Indices: 113646805--113646855 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
113646795 GCCTCTGCAA
*
113646805 TCTGGTGGC-TCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
113646831 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
113646856 GCAGCGTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:113652323 original size:45 final size:45
Alignment explanation
Indices: 113652267--113652357 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
113652257 GAATTATGTG
113652267 ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
1 ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
* * **
113652312 ATTTGAACTCATTGAGTTGTGGTCTGAGTTCATGATGTATGTGAC
1 ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
113652357 A
1 A
113652358 CATGTTTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (45 bp):
ATTTAAACTCATTCAGTTGTGGTCTGAGTTCATGACATATGTGAC
Found at i:113659382 original size:20 final size:21
Alignment explanation
Indices: 113659357--113659395 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
113659347 CTAAATGTAC
113659357 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
113659377 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
113659396 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:113659674 original size:41 final size:43
Alignment explanation
Indices: 113659567--113659678 Score: 115
Period size: 41 Copynumber: 2.7 Consensus size: 43
113659557 ATATCGTACA
* * *
113659567 ATGCCAAC-GTCCCAGACGTGGTCTTACATGCTATCACATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
* * * *
113659610 ATGCCACTGTCCCAAATAGGGTCTTACATG-AATTAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
113659651 ATGCCGA-TGTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
113659679 AGAGAACACA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 25 0.44
42 9 0.16
43 23 0.40
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGCAATCAAATATCG
Found at i:113660836 original size:15 final size:15
Alignment explanation
Indices: 113660803--113660832 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
113660793 AATAAATCAC
113660803 ATAAATTTCACACAT
1 ATAAATTTCACACAT
113660818 ATAAA-TTCACACAT
1 ATAAATTTCACACAT
113660832 A
1 A
113660833 ATAAGAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAAATTTCACACAT
Found at i:113667215 original size:24 final size:24
Alignment explanation
Indices: 113667183--113667294 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
113667173 GGCTATCTCA
*
113667183 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
*
113667207 AATGCACTATGTGTGCGATTTACT
1 AATGCACTATGTGTGCAATTTACT
* *
113667231 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
** *
113667255 -ATGGCACTATGTGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
113667280 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
113667295 CACATTCAGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 71 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:113674416 original size:24 final size:24
Alignment explanation
Indices: 113674384--113674495 Score: 113
Period size: 24 Copynumber: 4.7 Consensus size: 24
113674374 GGCTATCTCA
*
113674384 AATGCACTATGTGTGCAATTTATT
1 AATGCACTATGTGTGCAATTTACT
*
113674408 AATGCACTATGTGTGCGATTTACT
1 AATGCACTATGTGTGCAATTTACT
* *
113674432 -ATGGCACTATGTGTGCGATTTGCT
1 AAT-GCACTATGTGTGCAATTTACT
** *
113674456 -ATGGCACTATGTGTGCGAACATAAT
1 AAT-GCACTATGTGTGC-AATTTACT
113674481 AA-GCACTATGTGTGC
1 AATGCACTATGTGTGC
113674496 CACATTCGGT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
23 2 0.03
24 71 0.92
25 3 0.04
26 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (24 bp):
AATGCACTATGTGTGCAATTTACT
Found at i:113676598 original size:20 final size:21
Alignment explanation
Indices: 113676573--113676611 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
113676563 CCGAATGTAC
113676573 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
113676593 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
113676612 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:113676852 original size:43 final size:42
Alignment explanation
Indices: 113676784--113676938 Score: 127
Period size: 43 Copynumber: 3.7 Consensus size: 42
113676774 ATATCGTACA
** * * *
113676784 ATGCCAACATCCCGAACGTGGTCTTACATGCTATCATATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATG-TATCAAATATCG
* * *
113676827 ATGCCACTGTCCCAGAA-A-GGATCTTACATGAATTAAATAT-G
1 ATGCCAATGTCCCA-AACATGG-TCTTACATGTATCAAATATCG
* *
113676868 ATGCCAATGTCCCAAACATGGTCTTACAAGTAATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGT-ATCAAATATCG
* * * *
113676911 ATGCCAAAGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCCAAACATGGTCTTACA
113676939 CGAGAACACA
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
40 2 0.02
41 23 0.26
42 18 0.20
43 44 0.49
44 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTATCAAATATCG
Found at i:113684369 original size:40 final size:39
Alignment explanation
Indices: 113684324--113684531 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
113684314 CGGAATACAA
*
113684324 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113684364 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113684404 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
113684444 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
113684484 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
113684524 CCGGATAT
1 CCGGATAT
113684532 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:113684471 original size:80 final size:81
Alignment explanation
Indices: 113684324--113684529 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
113684314 CGGAATACAA
* * * *
113684324 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
113684388 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
113684404 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
113684467 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
113684484 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
113684530 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:113692009 original size:40 final size:39
Alignment explanation
Indices: 113691964--113692171 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
113691954 CGGAATACAA
*
113691964 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113692004 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
113692044 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
113692084 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
113692124 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
113692164 CCGGATAT
1 CCGGATAT
113692172 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:113692111 original size:80 final size:81
Alignment explanation
Indices: 113691964--113692169 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
113691954 CGGAATACAA
* * * *
113691964 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
113692028 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
113692044 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
113692107 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
113692124 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
113692170 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:113696559 original size:18 final size:18
Alignment explanation
Indices: 113696536--113696570 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
113696526 AGAACCTAAG
*
113696536 CCTAAAAAATTAAAATAT
1 CCTAAAAAAATAAAATAT
113696554 CCTAAAAAAATAAAATA
1 CCTAAAAAAATAAAATA
113696571 AAGTAAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (18 bp):
CCTAAAAAAATAAAATAT
Found at i:113699172 original size:43 final size:42
Alignment explanation
Indices: 113699064--113699172 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
113699054 GACTTATTAT
* * *
113699064 TTACAAGTAAGACAATGTCTGGGATGCTGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGATGCTGGCATCGTACTTGA
* *
113699106 TTTCGTGTAAGACGCTAT-T-TGGGATAG-TGGCATCGATACTTGA
1 TTACATGTAAGAC-C-ATGTCTGGGAT-GCTGGCATCG-TACTTGA
113699149 TTACATGTAAGACCATGTCTGGGA
1 TTACATGTAAGACCATGTCTGGGA
113699173 CGTTGACATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
41 2 0.04
42 26 0.48
43 24 0.44
44 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGATGCTGGCATCGTACTTGA
Found at i:113706788 original size:42 final size:44
Alignment explanation
Indices: 113706676--113706832 Score: 146
Period size: 43 Copynumber: 3.6 Consensus size: 44
113706666 TGTGTTATCA
* * * * * *
113706676 TGTAAGACCACATCTTGGATGTTGGCATTGACT-TATGATTTACG
1 TGTAAGACAACGTCTAGGACGTTGGCATCGA-TATTTGATTTACG
*
113706720 TGTAAGACAACGTCTGGGACGTTGGCATC-ATATTTGATTTA-G
1 TGTAAGACAACGTCTAGGACGTTGGCATCGATATTTGATTTACG
* *
113706762 TGTAAGAC-CCTGTCTAGGACAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACAAC-GTCTAGGAC-GTTGGCATCGATATTTGATTTACG
* *
113706805 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACAACGTCTAGGACGTTGGCAT
113706833 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 40 0.42
44 25 0.26
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (44 bp):
TGTAAGACAACGTCTAGGACGTTGGCATCGATATTTGATTTACG
Found at i:113708091 original size:24 final size:24
Alignment explanation
Indices: 113707993--113708079 Score: 111
Period size: 24 Copynumber: 3.6 Consensus size: 24
113707983 ATTCAACTCT
* * * *
113707993 GCACACATAGTGCCAAATAATTCC
1 GCACACATAGTGCCATACAAATAC
* *
113708017 ACACACATAGTGCCATACATATAC
1 GCACACATAGTGCCATACAAATAC
*
113708041 GCACACATACTGCCATACAAATAC
1 GCACACATAGTGCCATACAAATAC
113708065 GCACACATAGTGCCA
1 GCACACATAGTGCCA
113708080 CTCAAATCCG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.39, C:0.31, G:0.11, T:0.18
Consensus pattern (24 bp):
GCACACATAGTGCCATACAAATAC
Found at i:113715285 original size:40 final size:41
Alignment explanation
Indices: 113715208--113715424 Score: 216
Period size: 40 Copynumber: 5.4 Consensus size: 41
113715198 ACCCAAGTAT
113715208 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAAGCAACTCGCACAAATGC
* * *
113715247 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
**
113715287 CTTCGGGAT-AGAGCCCGGATAT-AGCAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAAGCAACTCGCACAAATGC
* * * * *
113715327 CATCGGGTCTTAGCCCAGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
** * *
113715367 CTTCGGCACATAGCCCGGATAT-AGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
* *
113715407 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
113715425 TTATCATCCA
Statistics
Matches: 143, Mismatches: 27, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.01
39 16 0.11
40 122 0.85
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
CTTCGGGTCTTAGCCCGGATATAAGCAACTCGCACAAATGC
Found at i:113715354 original size:80 final size:80
Alignment explanation
Indices: 113715208--113715419 Score: 336
Period size: 80 Copynumber: 2.7 Consensus size: 80
113715198 ACCCAAGTAT
* * *
113715208 CTTCGGGATTTAG-CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGATATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAAT
113715272 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* *
113715287 CTTCGGGATAGAGCCCGGATATAGCAACTCGCACAAATGCCATCGGGTCTTAGCCCAGATATAAT
1 CTTCGGGATATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAAT
113715352 CACTAGCATAAATGC
66 CACTAGCATAAATGC
* * * *
113715367 CTTCGGCACATAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAG
1 CTTCGGGATATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAG
113715420 TCCGGTTATC
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 11 0.09
80 110 0.91
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (80 bp):
CTTCGGGATATAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAAT
CACTAGCATAAATGC
Found at i:113723201 original size:40 final size:40
Alignment explanation
Indices: 113723134--113723385 Score: 314
Period size: 40 Copynumber: 6.3 Consensus size: 40
113723124 ACCCAAGTAT
*
113723134 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
113723173 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
113723213 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
113723253 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * * *
113723293 CTTCGGGTCTTAGCCCGAATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
113723333 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
113723373 GTTCGGATCTTAG
1 CTTCGGGTCTTAG
113723386 TCGGTTATCA
Statistics
Matches: 181, Mismatches: 26, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.08
40 161 0.89
41 4 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:113723267 original size:80 final size:80
Alignment explanation
Indices: 113723134--113723385 Score: 393
Period size: 80 Copynumber: 3.2 Consensus size: 80
113723124 ACCCAAGTAT
* * * *
113723134 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
113723196 GCAACTCGCACAAATGC
64 GCAACTCGCACAAATGC
113723213 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
113723278 AACTCGCACAAATGC
66 AACTCGCACAAATGC
*
113723293 CTTCGGGTCTTAGCCCGAATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
*
113723358 AACTCGCACGAATGC
66 AACTCGCACAAATGC
* *
113723373 GTTCGGATCTTAG
1 CTTCGGGTCTTAG
113723386 TCGGTTATCA
Statistics
Matches: 162, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.07
80 149 0.92
81 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGACATAGCCCGGATATAGC
AACTCGCACAAATGC
Found at i:113729604 original size:39 final size:40
Alignment explanation
Indices: 113729546--113729646 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
113729536 GAATTGAATG
* *
113729546 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
113729585 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
113729625 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
113729647 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:113729639 original size:40 final size:40
Alignment explanation
Indices: 113729546--113729696 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
113729536 GAATTGAATG
* * * * *
113729546 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
113729585 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
113729625 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
113729665 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
113729697 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:113729711 original size:40 final size:38
Alignment explanation
Indices: 113729542--113729713 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
113729532 ATGAGAATTG
* *
113729542 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
113729581 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
113729618 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
113729658 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
113729698 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
113729714 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:113737713 original size:40 final size:39
Alignment explanation
Indices: 113737545--113737715 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
113737535 AGAAATTGAA
* *
113737545 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
113737585 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
113737625 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
113737665 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
113737705 TGATATCCGGG
1 TGATATCCGGG
113737716 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:113741571 original size:40 final size:40
Alignment explanation
Indices: 113741486--113741629 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
113741476 TATCCGGGCG
* * *
113741486 AAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGTT
1 AAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAACCGGGTT
* *
113741527 AAGTCCCGAAGGTATTTGTGCGAGTTACCAAAACCGGGTT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTT
* * *
113741567 AAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTT
* *
113741607 AATTCCCGAAGGCAATTGTGCGA
1 AAGTCCCGAAGGCATTTGTGCGA
113741630 ATCACTATAA
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 71 0.79
41 19 0.21
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAACCGGGTT
Found at i:113741653 original size:80 final size:81
Alignment explanation
Indices: 113741486--113741657 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 81
113741476 TATCCGGGCG
* * * * * *
113741486 AAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAACCGGGTTAAGTCCCGAAGGTATTTGTGCGAG
1 AAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAA
* *
113741551 TTACCAAAACCGGGTT
66 TCACCAAAACCGGGTC
* * * *
113741567 AAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAA
1 AAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAA
* * *
113741631 TCACTATAACCTGG-C
66 TCACCAAAACCGGGTC
113741646 AATGTCCCGAAG
1 AA-GTCCCGAAG
113741658 ACAATCGAGC
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 2 0.03
80 54 0.72
81 19 0.25
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (81 bp):
AAGTCCCGAAGGCATTCGTGCTAAGTGACTAAAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAA
TCACCAAAACCGGGTC
Found at i:113741654 original size:40 final size:42
Alignment explanation
Indices: 113741477--113741662 Score: 122
Period size: 40 Copynumber: 4.6 Consensus size: 42
113741467 TTCGAATGGT
* * * * *
113741477 ATCCGGGCGAA-GTCCCGAAGGC-TTTTGTGCTAAGTGACTAA
1 ATCCGGGCTAATGTCCCGAAGGCAATTCGTGCGAA-TCACTAA
* * * * * * *
113741518 AACCGGGTTAA-GTCCCGAAGG-TATTTGTGCGAGTTACCAA
1 ATCCGGGCTAATGTCCCGAAGGCAATTCGTGCGAATCACTAA
* * * *
113741558 AACCGGGTTAA-GTCCCGAAGGC-ATTCGTGCGAGTTACTAA
1 ATCCGGGCTAATGTCCCGAAGGCAATTCGTGCGAATCACTAA
113741598 ATCCGGGCTAAT-TCCCGAAGGCAATT-GTGCGAATCACTATA
1 ATCCGGGCTAATGTCCCGAAGGCAATTCGTGCGAATCACTA-A
* *
113741639 A-CCTGGC-AATGTCCCGAAGACAAT
1 ATCCGGGCTAATGTCCCGAAGGCAAT
113741663 CGAGCTAGTC
Statistics
Matches: 123, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 3 0.02
40 89 0.72
41 31 0.25
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (42 bp):
ATCCGGGCTAATGTCCCGAAGGCAATTCGTGCGAATCACTAA
Found at i:113743478 original size:40 final size:39
Alignment explanation
Indices: 113743414--113743572 Score: 185
Period size: 39 Copynumber: 4.1 Consensus size: 39
113743404 GCTACTCGTT
* * * ** *
113743414 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
113743454 CAAATGCCTTCGGGACTTAACCCGGATATCACAA-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
113743493 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
113743532 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
113743571 CA
1 CA
113743573 TTCATTCACA
Statistics
Matches: 105, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 17 0.16
39 61 0.58
40 27 0.26
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:113743504 original size:39 final size:39
Alignment explanation
Indices: 113743450--113743572 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 39
113743440 TATGGTAACC
* *
113743450 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAA-T
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
113743489 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
113743528 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
113743567 CGCACA
1 CGCACA
113743573 TTCATTCACA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 17 0.22
39 61 0.78
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:113743540 original size:78 final size:79
Alignment explanation
Indices: 113743419--113743572 Score: 222
Period size: 78 Copynumber: 2.0 Consensus size: 79
113743409 TCGTTCAAAC
* **
113743419 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCGGG-CTTAACCCGGATATC
113743484 ACAA-TCGCACAATT
65 ACAATTCGCACAATT
* * * *
113743498 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
113743562 CAATTCGCACA
66 CAATTCGCACA
113743573 TTCATTCACA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
77 18 0.27
78 40 0.60
79 9 0.13
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGACATAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGCTTAACCCGGATATCA
CAATTCGCACAATT
Found at i:113751447 original size:79 final size:79
Alignment explanation
Indices: 113751334--113751487 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
113751324 CATTCAAACG
* **
113751334 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
1 CCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGG-CTTAACCCGGATATCA
*
113751399 CAATTTGCACAATTA
65 CAATTCGCACAATTA
* * *** *
113751414 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTTCCTTCGGGCTTAGCCCGGATATCAC
1 CCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
113751478 AATTCGCACA
66 AATTCGCACA
113751488 TTCATTCACA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 25 0.39
79 31 0.48
80 8 0.12
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACATAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGGCTTAACCCGGATATCAC
AATTCGCACAATTA
Found at i:113751448 original size:39 final size:39
Alignment explanation
Indices: 113751374--113751487 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
113751364 CGCACAAAGG
* *
113751374 CCTTCGGGACTTAACCCGGATATCACAATTTGCACAATTA
1 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTA
* * *
113751414 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTT
1 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTA
113751453 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
113751488 TTCATTCACA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 59 0.88
40 8 0.12
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTA
Found at i:113751979 original size:16 final size:16
Alignment explanation
Indices: 113751958--113751990 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
113751948 GAGGCCAATT
113751958 ACATGTTTAACACCAC
1 ACATGTTTAACACCAC
113751974 ACATGTTTAACACCAC
1 ACATGTTTAACACCAC
113751990 A
1 A
113751991 TATATCATCA
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:0.39, C:0.30, G:0.06, T:0.24
Consensus pattern (16 bp):
ACATGTTTAACACCAC
Found at i:113755766 original size:29 final size:29
Alignment explanation
Indices: 113755724--113755823 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
113755714 GACGAGATTA
113755724 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
113755753 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
113755782 GCACTAAGTGTGCATGCTGGAAATATATG
1 GCACTAAGTGTGCATGCTGGAAATATATG
113755811 GCACTAAGTGTGC
1 GCACTAAGTGTGC
113755824 GAGCTCGAAG
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCATGCTGGAAATATATG
Found at i:113755839 original size:29 final size:30
Alignment explanation
Indices: 113755724--113755883 Score: 188
Period size: 29 Copynumber: 5.5 Consensus size: 30
113755714 GACGAGATTA
113755724 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
113755753 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
113755782 GCACTAAGTGTGC-ATGCTGGAAATATATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* ***
113755811 GCACTAAGTGTGCGA-GCTCGAAGGGTATG
1 GCACTAAGTGTGCGATGCTGGAAATATATG
* * * **
113755840 GCACTATGTGTGCG-GGCT-TAAATCGCATG
1 GCACTAAGTGTGCGATGCTGGAAAT-ATATG
113755869 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
113755884 AATCGAGTAT
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
28 2 0.02
29 114 0.97
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (30 bp):
GCACTAAGTGTGCGATGCTGGAAATATATG
Found at i:113760889 original size:47 final size:47
Alignment explanation
Indices: 113760818--113760991 Score: 249
Period size: 47 Copynumber: 3.7 Consensus size: 47
113760808 CCCTTCGGGA
* * * * *
113760818 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
113760865 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
113760912 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
113760959 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
113760992 GCGTAGAATC
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
47 96 0.83
49 19 0.17
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:113760896 original size:25 final size:25
Alignment explanation
Indices: 113760868--113760946 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
113760858 ACTCGGCCCT
113760868 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
113760893 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
113760915 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
113760940 ATCACAT
1 ATCACAT
113760947 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:113765990 original size:40 final size:40
Alignment explanation
Indices: 113765931--113766138 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
113765921 CAATTGAATG
* * * *
113765931 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
113765971 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
113766011 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
113766051 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
113766091 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
113766131 ATATCCGG
1 ATATCCGG
113766139 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:113766069 original size:80 final size:80
Alignment explanation
Indices: 113765932--113766138 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
113765922 AATTGAATGA
* * ** * * *
113765932 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
113765997 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
113766010 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
113766075 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
113766092 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
113766139 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:113771035 original size:40 final size:40
Alignment explanation
Indices: 113770956--113771211 Score: 385
Period size: 40 Copynumber: 6.5 Consensus size: 40
113770946 AAGCCAAGTA
* * * *
113770956 CCTTCGGGATTTA-ACCGGATATAGT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
113770994 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
113771034 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
113771074 CCTTCGGGACTTAGCCC-GATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
113771113 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
113771153 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
113771193 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
113771212 TTATCATCCA
Statistics
Matches: 202, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
38 12 0.06
39 50 0.25
40 140 0.69
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:113771113 original size:79 final size:80
Alignment explanation
Indices: 113770956--113771211 Score: 385
Period size: 79 Copynumber: 3.2 Consensus size: 80
113770946 AAGCCAAGTA
* * * *
113770956 CCTTCGGGATTTA-ACCGGATATAGT-ACTCGCTCGAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
113771019 TAACTCGCACCAATG
66 TAACTAGCACAAATG
113771034 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
113771098 TAACTTGCACAAATG
66 TAACTAGCACAAATG
*
113771113 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
* *
113771177 GTCACTAGCGCAAATG
65 GTAACTAGCACAAATG
113771193 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
113771212 TTATCATCCA
Statistics
Matches: 164, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
78 12 0.07
79 88 0.54
80 64 0.39
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTAGCACAAATG
Found at i:113771166 original size:119 final size:118
Alignment explanation
Indices: 113770956--113771210 Score: 386
Period size: 119 Copynumber: 2.2 Consensus size: 118
113770946 AAGCCAAGTA
* * * * *
113770956 CCTTCGGGATTTAACCGGATATAGTACTCGCTCGAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 CCTTCGGGACTTAGCCCGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
113771021 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
66 ACTCACACAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTAACTAGCACAAATG
*
113771074 CCTTCGGGACTTAGCCCGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCCGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
113771139 AACTCACACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCAAATG
65 AACTCACACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAATG
113771193 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
113771211 GTTATCATCC
Statistics
Matches: 124, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 23 0.19
119 101 0.81
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (118 bp):
CCTTCGGGACTTAGCCCGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
ACTCACACAAATGCCTTCGGGACTTAGCCCGGAACTAGTAACTAGCACAAATG
Found at i:113789556 original size:28 final size:28
Alignment explanation
Indices: 113789497--113789610 Score: 129
Period size: 28 Copynumber: 4.0 Consensus size: 28
113789487 ATCCATACTT
* * *
113789497 ATTCATTTGGCCCCTTTAGGCCCAATCTC
1 ATTCATATGG-CCCATTAGGCCCAATCAC
*
113789526 ATTCATATGGCCCATTGGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* *
113789554 ATTCATATGGCCCATCAAGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
* ** *
113789582 CTTCATATGGCCTGTCAGGCCCAATCAC
1 ATTCATATGGCCCATTAGGCCCAATCAC
113789610 A
1 A
113789611 CTTATAGTCA
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 64 0.88
29 9 0.12
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (28 bp):
ATTCATATGGCCCATTAGGCCCAATCAC
Found at i:113797223 original size:40 final size:40
Alignment explanation
Indices: 113797127--113797304 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
113797117 CGAATGGTGT
* * * *
113797127 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* *
113797168 CCGGG-TCAACT-CCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
113797207 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
113797247 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
113797287 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
113797305 ACAATCGAGC
Statistics
Matches: 112, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
39 16 0.14
40 88 0.79
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Done.