Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 135 of 328
Found at i:39329088 original size:7 final size:7
Alignment explanation
Indices: 39329076--39329100 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39329066 GTTGTCTTCT
39329076 TGTTTGA
1 TGTTTGA
39329083 TGTTTGA
1 TGTTTGA
39329090 TGTTTGA
1 TGTTTGA
39329097 TGTT
1 TGTT
39329101 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:39330623 original size:46 final size:46
Alignment explanation
Indices: 39330556--39330684 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
39330546 TGTAACCCGC
* * *
39330556 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39330602 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
39330648 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
39330685 TGCTGAACCA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:39334590 original size:124 final size:124
Alignment explanation
Indices: 39334368--39334592 Score: 317
Period size: 124 Copynumber: 1.8 Consensus size: 124
39334358 GAACTATGTG
* * * * * * *
39334368 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* **
39334433 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
*
39334492 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
* *
39334557 GCTAAGTCTCGAAGACG-TTATTGCTGGAAATTATAT
66 GCTAAGTCCCGAAGACGATTA-TGCTAGAAATTATAT
39334593 CCGGGTTAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 3 0.03
124 84 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.36
Consensus pattern (124 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGAAATTATATTTGTGTTTGAGCCTTAGTAACGA
Found at i:39334714 original size:40 final size:40
Alignment explanation
Indices: 39334587--39334716 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
39334577 TTGCTGGAAA
* *
39334587 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
39334627 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
39334667 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
39334707 TTATATCCGG
1 TTATATCCGG
39334717 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:39339818 original size:21 final size:20
Alignment explanation
Indices: 39339794--39339861 Score: 52
Period size: 21 Copynumber: 3.3 Consensus size: 20
39339784 AAACAGAAAG
39339794 TGAAAGTGATTCGTGAAAGTC
1 TGAAAGTGATTC-TGAAAGTC
* *
39339815 TGAAAGCAGTGA-ACAGAAAG--
1 TG-AA--AGTGATTCTGAAAGTC
39339835 TGAAAGTGATTCATGAAAGTC
1 TGAAAGTGATTC-TGAAAGTC
39339856 TGAAAG
1 TGAAAG
39339862 CAGCGTCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 5 0.14
18 1 0.03
19 7 0.19
20 2 0.06
21 8 0.22
22 7 0.19
23 1 0.03
24 5 0.14
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.22
Consensus pattern (20 bp):
TGAAAGTGATTCTGAAAGTC
Found at i:39339842 original size:41 final size:41
Alignment explanation
Indices: 39339785--39339864 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
39339775 AAAGAGACTA
*
39339785 AACAGAAAGTGAAAGTGATTCGTGAAAGTCTGAAAGCAGTG
1 AACAGAAAGTGAAAGTGATTCATGAAAGTCTGAAAGCAGTG
39339826 AACAGAAAGTGAAAGTGATTCATGAAAGTCTGAAAGCAG
1 AACAGAAAGTGAAAGTGATTCATGAAAGTCTGAAAGCAG
39339865 CGTCAAATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.44, C:0.10, G:0.28, T:0.19
Consensus pattern (41 bp):
AACAGAAAGTGAAAGTGATTCATGAAAGTCTGAAAGCAGTG
Found at i:39341684 original size:43 final size:43
Alignment explanation
Indices: 39341581--39341715 Score: 132
Period size: 43 Copynumber: 3.1 Consensus size: 43
39341571 TCTAGGACGT
* * *
39341581 TGGCATCGAT-TTGTGATTTACGTGTAAGACCATGTTTGGGACAT
1 TGGCATCGATATT-TGATTT-CATGTAAGACCATGTCTGGGACAG
* * * *
39341625 TAGCATC-ATATATGATTTCATGTAAGACCCTGTCTGGGATAG
1 TGGCATCGATATTTGATTTCATGTAAGACCATGTCTGGGACAG
* * *
39341667 TGGCATCGATATTTGATTACATGTAAGACCACGCCTGGGAC-G
1 TGGCATCGATATTTGATTTCATGTAAGACCATGTCTGGGACAG
39341709 TTGGCAT
1 -TGGCAT
39341716 TGTATGAGCT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 26 0.35
43 41 0.55
44 7 0.09
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGGCATCGATATTTGATTTCATGTAAGACCATGTCTGGGACAG
Found at i:39348039 original size:40 final size:39
Alignment explanation
Indices: 39347871--39348041 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
39347861 AGAAATTGAA
* *
39347871 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
39347911 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
39347951 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
39347991 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
39348031 TGATATCCGGG
1 TGATATCCGGG
39348042 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:39356141 original size:40 final size:39
Alignment explanation
Indices: 39355973--39356143 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
39355963 AGAAATTGAA
* *
39355973 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
39356013 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
39356053 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
39356093 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
39356133 TGATATCCGGG
1 TGATATCCGGG
39356144 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:39358977 original size:71 final size:70
Alignment explanation
Indices: 39358857--39359001 Score: 272
Period size: 71 Copynumber: 2.1 Consensus size: 70
39358847 TTACAAGGCG
39358857 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
39358922 CAAGCC
66 CAA-CC
*
39358928 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCATATCATTTTATACCAAATGTT
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
39358993 CAACC
66 CAACC
39358998 AATT
1 AATT
39359002 CACAACCAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 6 0.08
71 67 0.92
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (70 bp):
AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
CAACC
Found at i:39364005 original size:40 final size:40
Alignment explanation
Indices: 39363960--39364089 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
39363950 CGGAATATAA
39363960 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
39364000 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
39364040 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
39364080 CCGGATATAA
1 CCGGATATAA
39364090 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:39364104 original size:40 final size:39
Alignment explanation
Indices: 39363976--39364126 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
39363966 ATAACCATGT
* * *
39363976 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
39364016 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
39364056 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
39364095 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
39364127 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:39364110 original size:80 final size:79
Alignment explanation
Indices: 39363960--39364126 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
39363950 CGGAATATAA
*
39363960 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
39364025 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
39364040 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
39364102 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
39364119 CCGGATAT
1 CCGGATAT
39364127 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:39366102 original size:5 final size:6
Alignment explanation
Indices: 39366063--39366115 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
39366053 TATGTCTTTC
* * * * *
39366063 AAAATAA AAAATT GAAATG AAAAGA AAAAGA AAAATA AAAATA AAAATA
1 AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
39366112 AAAA
1 AAAA
39366116 GATAGGAGGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (6 bp):
AAAATA
Found at i:39371279 original size:13 final size:13
Alignment explanation
Indices: 39371257--39371289 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
39371247 AAGGGTTTGT
39371257 TTAT-TAAACTAA
1 TTATCTAAACTAA
39371269 TTATCTAAACTAA
1 TTATCTAAACTAA
*
39371282 TTAACTAA
1 TTATCTAA
39371290 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:39372876 original size:40 final size:40
Alignment explanation
Indices: 39372811--39372985 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
39372801 CGGATGTAAC
*
39372811 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
39372851 AACCTGCACAAATGCCTTCGGGACTTAACCCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
39372891 AACCTGCACGAATGTCTTCGGGGCTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
39372931 AACCCGCACGAATGCCTTCGGGACTTAACTCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
39372971 AACCCGCACGAATGC
1 AACCCGCACGAATGC
39372986 TATGCACATA
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 124 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:39380115 original size:40 final size:40
Alignment explanation
Indices: 39380066--39380235 Score: 277
Period size: 40 Copynumber: 4.2 Consensus size: 40
39380056 GTAACAACTA
39380066 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* * * *
39380106 GCACAAATGCCTTCAGTACTTAACCCGGTTATAATAACCG
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
* * *
39380146 GAACGAATGCCTTCGGGACTTAACTCGGTTATAATAACCT
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
39380186 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
1 GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
39380226 GCACGAATGC
1 GCACGAATGC
39380236 TATGCATATA
Statistics
Matches: 117, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 117 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGACTTAACCCGGTTATAATAACCC
Found at i:39383671 original size:24 final size:24
Alignment explanation
Indices: 39383644--39383706 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
39383634 CTTATTATGT
39383644 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
39383668 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
39383692 TCGCACACATAGTGC
1 TCGCACACATAGTGC
39383707 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:39385811 original size:40 final size:40
Alignment explanation
Indices: 39385756--39385837 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
39385746 TTTATCGACC
*
39385756 GTTGGGTTTCTAGGTTCTCACGAGTAGTGGTGGAGTGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAGTGCAA
39385796 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAGTGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAGTGCAA
39385836 GT
1 GT
39385838 ATTTTGGAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.18, C:0.12, G:0.38, T:0.32
Consensus pattern (40 bp):
GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAGTGCAA
Found at i:39386659 original size:27 final size:27
Alignment explanation
Indices: 39386628--39386815 Score: 234
Period size: 27 Copynumber: 7.0 Consensus size: 27
39386618 ACCCTAAATT
39386628 AGGTAAAATGACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
* *
39386655 AGGTAAAATAACCGTAATGCCTCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
39386682 AGGTAAAATGACCGTAATGCCCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
* *
39386709 AGGTAAAATGACCGTAATGCCCTTGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
* * ** *
39386736 GGGTAATATGACCGTAATGCCTTTGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
* * * * *
39386763 GGGTAAAATGATCGTAATACCCATGTA
1 AGGTAAAATGACCGTAATGCCCCTATA
*
39386790 GGGTAAAATGACCGTAATG-CCCTATA
1 AGGTAAAATGACCGTAATGCCCCTATA
39386816 GGATTTAAGG
Statistics
Matches: 143, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 5 0.03
27 138 0.97
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
AGGTAAAATGACCGTAATGCCCCTATA
Found at i:39387164 original size:33 final size:33
Alignment explanation
Indices: 39387122--39387192 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
39387112 ATTGCATTAC
*
39387122 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
*
39387155 ACTGTACTGATACTGAATAGGGCTCAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
39387188 ACTGT
1 ACTGT
39387193 TACTAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
Found at i:39388451 original size:43 final size:42
Alignment explanation
Indices: 39388393--39388502 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
39388383 CAATGCCAAC
39388393 GTCCCAGAC-GTGGTCTTACATGTAATCAAATATAGATGCC-ATT
1 GTCCCAGACAG-GGTCTTACATGTAATCAAATA-AGATGCCGA-T
* * * * *
39388436 GTCCTAGATAGGGTCTTACACGAAATCAAATACGATGCCGAT
1 GTCCCAGACAGGGTCTTACATGTAATCAAATAAGATGCCGAT
*
39388478 GTCCCAGACATGGTCTTACATGTAA
1 GTCCCAGACAGGGTCTTACATGTAA
39388503 ATAATAAGTC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 27 0.49
43 27 0.49
44 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACATGTAATCAAATAAGATGCCGAT
Found at i:39390204 original size:20 final size:20
Alignment explanation
Indices: 39390164--39390205 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
39390154 ACCAAACTTT
*
39390164 AAATTAATTGTATGTATTTG
1 AAATTAATTGTATGTAATTG
39390184 AAATTAA-TGTATGTAGATTG
1 AAATTAATTGTATGTA-ATTG
39390204 AA
1 AA
39390206 TATATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (20 bp):
AAATTAATTGTATGTAATTG
Found at i:39390384 original size:23 final size:22
Alignment explanation
Indices: 39390357--39390430 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
39390347 GACTCACCAT
* *
39390357 AGCTCGTATGAGCTTACCATTTC
1 AGCTC-TAAGAGCTTACCGTTTC
39390380 AGCTCTTCAAG-GCTTACCGTTTC
1 AGCTC-T-AAGAGCTTACCGTTTC
39390403 AGCTCTACAGAGCTTACCGTTT-
1 AGCTCTA-AGAGCTTACCGTTTC
39390425 AGCTCT
1 AGCTCT
39390431 TTGGAGCTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
21 1 0.02
22 9 0.20
23 33 0.73
24 2 0.04
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (22 bp):
AGCTCTAAGAGCTTACCGTTTC
Found at i:39393162 original size:21 final size:20
Alignment explanation
Indices: 39393132--39393176 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
39393122 TTGGGGTCGA
*
39393132 TGGG-CCATATGAATGTGATT
1 TGGGCCCATATGAATGAGA-T
39393152 TGGGCCCATATGAATGAGAT
1 TGGGCCCATATGAATGAGAT
39393172 TGGGC
1 TGGGC
39393177 TTAGTGGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (20 bp):
TGGGCCCATATGAATGAGAT
Found at i:39394274 original size:17 final size:18
Alignment explanation
Indices: 39394243--39394276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39394233 TTTAAAGAAG
39394243 GGTTTTTAATGAAAACAA
1 GGTTTTTAATGAAAACAA
*
39394261 GGTTTTTGAT-AAAACA
1 GGTTTTTAATGAAAACA
39394277 TTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (18 bp):
GGTTTTTAATGAAAACAA
Found at i:39397386 original size:16 final size:16
Alignment explanation
Indices: 39397365--39397395 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39397355 GACAAAATCC
39397365 TGAAATGCCGAAAAGT
1 TGAAATGCCGAAAAGT
*
39397381 TGAAATGCCTAAAAG
1 TGAAATGCCGAAAAG
39397396 CCAGAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (16 bp):
TGAAATGCCGAAAAGT
Found at i:39401508 original size:41 final size:43
Alignment explanation
Indices: 39401452--39401560 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 43
39401442 GGTTATGTGT
* *
39401452 AAGACCATGTCTGGGACA-TCGGCATCG-TATATGATT-CGTGC
1 AAGACCCTGTCTGGGACAGT-GGCATCGATATATGATTACATGC
* * *
39401493 AAGACCCTGTCTGGGATAGTGGCATCGATATGTGATTACATGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATATGATTACATGC
39401536 AAGACCAC-GTCTGGGAC-GTTGGCAT
1 AAGACC-CTGTCTGGGACAG-TGGCAT
39401561 TGTATGATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
41 23 0.40
42 10 0.18
43 23 0.40
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
AAGACCCTGTCTGGGACAGTGGCATCGATATATGATTACATGC
Found at i:39403603 original size:40 final size:40
Alignment explanation
Indices: 39403546--39403731 Score: 229
Period size: 40 Copynumber: 4.7 Consensus size: 40
39403536 TCGAATGATG
* * *
39403546 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
39403586 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39403626 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39403666 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
39403707 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
39403732 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 7, Indels: 12
0.88 0.05 0.08
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39403745 original size:40 final size:40
Alignment explanation
Indices: 39403599--39403750 Score: 116
Period size: 40 Copynumber: 3.8 Consensus size: 40
39403589 GGACTAAGAT
** *
39403599 CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGA-TAAG-TC
** *
39403639 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGATAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGATAAGTC
** * *
39403679 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
* *
39403719 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
39403751 TTAAACTCCG
Statistics
Matches: 101, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 93 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGATAAGTC
Found at i:39410671 original size:79 final size:79
Alignment explanation
Indices: 39410535--39410729 Score: 274
Period size: 79 Copynumber: 2.5 Consensus size: 79
39410525 TCGAATGATG
* * * *
39410535 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCAGACTAAGATCCGAA-GCATT
39410598 TGTGCGAGTTACTAAA
64 TGTGCGAGTTACTAAA
39410614 T-C-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGCATT
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGCATT
39410676 TGTGCGAGTTACTAAA
64 TGTGCGAGTTACTAAA
*
39410692 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA
39410730 TAACCGGGCA
Statistics
Matches: 104, Mismatches: 5, Indels: 14
0.85 0.04 0.11
Matches are distributed among these distances:
77 2 0.02
78 42 0.40
79 57 0.55
80 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGCATTTG
TGCGAGTTACTAAA
Found at i:39410748 original size:39 final size:40
Alignment explanation
Indices: 39410535--39410729 Score: 260
Period size: 39 Copynumber: 5.0 Consensus size: 40
39410525 TCGAATGATG
* * *
39410535 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
39410574 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
39410614 T-CGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
39410653 TCCAGACTAAGATCCGAA-GCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
39410692 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
39410730 TAACCGGGCA
Statistics
Matches: 143, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
38 1 0.01
39 96 0.67
40 46 0.32
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39410756 original size:39 final size:39
Alignment explanation
Indices: 39410587--39410756 Score: 158
Period size: 39 Copynumber: 4.3 Consensus size: 39
39410577 GGACTAAGAT
*
39410587 CCGAAGGCATTTGTGCGAGTTACTAAAT-C-GGACTAAGAT-
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGGA-T-AG-TC
* *
39410626 CCGAAGGCATTTGTGCGAGTTACTAAATCC-AGACTAAGAT-
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGGA-T-AG-TC
*
39410666 CCGAA-GCATTTGTGCGAGTTACTAAATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGGAT-AGTC
39410705 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCAT-GTC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGG-ATAGTC
*
39410744 CCGAAGGTATTTG
1 CCGAAGGCATTTG
39410757 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
38 1 0.01
39 76 0.63
40 40 0.33
41 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGGATAGTC
Found at i:39419107 original size:39 final size:39
Alignment explanation
Indices: 39419053--39419204 Score: 232
Period size: 39 Copynumber: 3.9 Consensus size: 39
39419043 GAATGTTCGA
*
39419053 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
* * *
39419092 GTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
*
39419131 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
* *
39419170 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGC
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGC
39419205 GGGTTACCAT
Statistics
Matches: 101, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 85 0.84
40 16 0.16
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTT
Found at i:39419150 original size:78 final size:79
Alignment explanation
Indices: 39419054--39419205 Score: 261
Period size: 78 Copynumber: 1.9 Consensus size: 79
39419044 AATGTTCGAG
*
39419054 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCTGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
39419118 AATTGTGCGAGCTA
66 AATTGTGCGAGCTA
* *
39419132 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
39419197 ATTTGTGCG
66 AATTGTGCG
39419206 GGTTACCATA
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
78 52 0.75
79 17 0.25
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGCTA
Found at i:39419221 original size:40 final size:39
Alignment explanation
Indices: 39419054--39419235 Score: 220
Period size: 39 Copynumber: 4.6 Consensus size: 39
39419044 AATGTTCGAG
* * *
39419054 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
39419093 TGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* *
39419132 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
39419171 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
39419211 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
39419236 TGTTTTGAAC
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 84 0.68
40 39 0.32
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:39423531 original size:41 final size:42
Alignment explanation
Indices: 39423429--39423586 Score: 142
Period size: 42 Copynumber: 3.7 Consensus size: 42
39423419 TATGTGTTCT
* * * * *
39423429 CGTGTAAGACCACATTTGGGACATTGACATCGATATATGTAGTTA
1 CGTGTAAGACCATATCTGGGACAGTGGCATCG--ATATGT-GATA
* * * *
39423474 TGTGTAAGACCATATCTGGGACA-TCGGCGTCG-TATTTGATT
1 CGTGTAAGACCATATCTGGGACAGT-GGCATCGATATGTGATA
*
39423515 CGTGTAAGACCCTATCTGGGACAGTGGCATCGATATGTGATA
1 CGTGTAAGACCATATCTGGGACAGTGGCATCGATATGTGATA
* *
39423557 CATGTAAGACCATGTCTGGGAC-GTTGGCAT
1 CGTGTAAGACCATATCTGGGACAG-TGGCAT
39423587 TGCACGATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
41 30 0.32
42 37 0.40
44 1 0.01
45 25 0.27
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGACAGTGGCATCGATATGTGATA
Found at i:39426334 original size:39 final size:39
Alignment explanation
Indices: 39426216--39426435 Score: 300
Period size: 39 Copynumber: 5.6 Consensus size: 39
39426206 TCGTTCAAAC
* * ** * **
39426216 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
39426256 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
39426296 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
39426335 GCCTTC-GGCTTAGCCC-GATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
39426372 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
39426411 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
39426436 CTCGAACATT
Statistics
Matches: 161, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
37 26 0.16
38 20 0.12
39 77 0.48
40 38 0.24
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:39426372 original size:76 final size:78
Alignment explanation
Indices: 39426216--39426436 Score: 302
Period size: 76 Copynumber: 2.8 Consensus size: 78
39426206 TCGTTCAAAC
* * ** * ** *
39426216 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATC
* *
39426281 ACAATTTGCACAATT
64 ACAACTCGCACAATT
* *
39426296 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATTGCCTTC-GGCTTAGCCC-GATATCAT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
39426359 AACTCGCACAATT
66 AACTCGCACAATT
39426372 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
39426437 TCGAACATTC
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
76 62 0.50
77 17 0.14
78 9 0.07
79 28 0.22
80 9 0.07
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
AACTCGCACAATT
Found at i:39432004 original size:39 final size:40
Alignment explanation
Indices: 39431889--39432032 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
39431879 TCGTTCAAAC
* * ** * **
39431889 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* * * *
39431929 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
39431969 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
39432008 GCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
39432033 CTCGAACATT
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:39434924 original size:9 final size:9
Alignment explanation
Indices: 39434910--39434996 Score: 104
Period size: 9 Copynumber: 9.7 Consensus size: 9
39434900 AAAACTAATT
39434910 GAATTAACC
1 GAATTAACC
*
39434919 GAATTAATC
1 GAATTAACC
*
39434928 GAATTAATC
1 GAATTAACC
39434937 GAATTAACC
1 GAATTAACC
* *
39434946 AAATTACCC
1 GAATTAACC
39434955 GAATT-ACC
1 GAATTAACC
*
39434963 TGAATTACCC
1 -GAATTAACC
*
39434973 GAATTACCC
1 GAATTAACC
39434982 GAATTAACC
1 GAATTAACC
39434991 GAATTA
1 GAATTA
39434997 TTTGTATAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
8 2 0.03
9 64 0.94
10 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (9 bp):
GAATTAACC
Found at i:39435126 original size:28 final size:29
Alignment explanation
Indices: 39435086--39435140 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
39435076 TATGATTGGG
39435086 TTGGGTACTTGGGTTA-GTATATATTAGA
1 TTGGGTACTTGGGTTATGTATATATTAGA
* *
39435114 TTGGGTATTTGGGTTATTTATATATTA
1 TTGGGTACTTGGGTTATGTATATATTA
39435141 TAATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (29 bp):
TTGGGTACTTGGGTTATGTATATATTAGA
Found at i:39435646 original size:27 final size:27
Alignment explanation
Indices: 39435616--39435680 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
39435606 CCCCAAAATA
*
39435616 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
39435643 GGTAAAATGATCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
39435670 GGTAAAATGAC
1 GGTAAAATGAC
39435681 GATTATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:39435883 original size:27 final size:27
Alignment explanation
Indices: 39435817--39435895 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
39435807 TGGAGGAAGT
*
39435817 ACTG-TACTGGTGACTATGTCACATTC
1 ACTGATACTGGTGGCTATGTCACATTC
39435843 ACTGATACTGGTGGCTATGTCACATTC
1 ACTGATACTGGTGGCTATGTCACATTC
* *
39435870 ACTGATACTGGTGGCTTTGCCACATT
1 ACTGATACTGGTGGCTATGTCACATT
39435896 TACTATTTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (27 bp):
ACTGATACTGGTGGCTATGTCACATTC
Found at i:39436120 original size:28 final size:28
Alignment explanation
Indices: 39436057--39436121 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
39436047 ATTACACTGT
* * * *
39436057 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTGTTACTATATAGGGCTAAGGCCCAC
* * *
39436085 ACTATTACTATATAGGGCTAAGGCCTAG
1 ACTGTTACTATATAGGGCTAAGGCCCAC
39436113 ACTGTTACT
1 ACTGTTACT
39436122 GCATGCATTG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
ACTGTTACTATATAGGGCTAAGGCCCAC
Found at i:39442649 original size:46 final size:46
Alignment explanation
Indices: 39442596--39442771 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
39442586 TATTTGGGCA
39442596 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
39442642 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
39442689 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
39442735 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39442772 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:39442751 original size:93 final size:93
Alignment explanation
Indices: 39442592--39442763 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
39442582 GGGATATTTG
* *
39442592 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39442657 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
39442685 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39442750 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39442764 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:39445762 original size:15 final size:15
Alignment explanation
Indices: 39445723--39445801 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
39445713 GTATCTTGGG
*
39445723 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
39445738 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
39445753 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
39445767 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
39445782 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
39445796 TTTCTT
1 TTTCTT
39445802 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:39445786 original size:29 final size:29
Alignment explanation
Indices: 39445714--39445800 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
39445704 CATAGTATCG
* * * *
39445714 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
39445744 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
39445773 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
39445801 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:39448238 original size:46 final size:46
Alignment explanation
Indices: 39448185--39448360 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
39448175 TATTTGGGCA
39448185 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
39448231 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
39448278 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
39448324 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39448361 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:39448340 original size:93 final size:93
Alignment explanation
Indices: 39448181--39448352 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
39448171 GGGATATTTG
* *
39448181 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39448246 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
39448274 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
39448339 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
39448353 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:39451858 original size:40 final size:40
Alignment explanation
Indices: 39451747--39451952 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
39451737 GGATTGATAC
*
39451747 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
39451786 TCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* * *
39451825 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* * *
39451865 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
39451905 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
39451945 CC-GGCTAA
1 CCGGGCTAA
39451953 ACTCCGAAGG
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 25 0.16
39 28 0.18
40 99 0.65
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:39460025 original size:40 final size:40
Alignment explanation
Indices: 39459920--39460125 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
39459910 GGATTGATAC
* *
39459920 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
39459960 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39459999 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39460039 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39460079 CCGGGCTAAGTCCC-AAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
39460118 CC-GGCTAA
1 CCGGGCTAA
39460126 ACTCCGAAGG
Statistics
Matches: 157, Mismatches: 6, Indels: 8
0.92 0.04 0.05
Matches are distributed among these distances:
38 8 0.05
39 56 0.36
40 93 0.59
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39460097 original size:79 final size:79
Alignment explanation
Indices: 39459920--39460102 Score: 298
Period size: 79 Copynumber: 2.3 Consensus size: 79
39459910 GGATTGATAC
* *
39459920 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGT
*
39459985 GCGAGTTACTATAT
66 GCGAGTTACTATAA
*
39459999 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
39460063 GTGCGAGTTACTATAA
64 GTGCGAGTTACTATAA
39460079 CCGGGCTAAGTCCC-AAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39460103 AGCTAGTAGC
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
78 2 0.02
79 54 0.55
80 42 0.43
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGT
GCGAGTTACTATAA
Found at i:39462539 original size:27 final size:27
Alignment explanation
Indices: 39462509--39462570 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
39462499 TAATTTGTAA
39462509 AATTACCAAAGTACCATCGATTTACAG
1 AATTACCAAAGTACCATCGATTTACAG
**** * *
39462536 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCATCGATTTACAG
39462563 AATTACCA
1 AATTACCA
39462571 TTTTACCCTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (27 bp):
AATTACCAAAGTACCATCGATTTACAG
Found at i:39462574 original size:27 final size:27
Alignment explanation
Indices: 39462520--39462650 Score: 192
Period size: 27 Copynumber: 4.9 Consensus size: 27
39462510 ATTACCAAAG
*
39462520 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39462547 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
39462574 TACCCTCTATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
39462601 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
39462628 TACCCTCGA-TTAGCAGAATTACC
1 TACCCTCGATTTA-CAGAATTACC
39462651 AAAATAACCA
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 3 0.03
27 89 0.97
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:39462690 original size:27 final size:27
Alignment explanation
Indices: 39462651--39462750 Score: 137
Period size: 27 Copynumber: 3.7 Consensus size: 27
39462641 CAGAATTACC
* *
39462651 AAAATAACCAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
39462678 AAAATTACTAAAAAACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
39462705 AAAATTACCAAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
39462732 AAAATTACCGAAATACCCC
1 AAAATTACCAAAATACCCC
39462751 CGTAGGGTAG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:39462764 original size:27 final size:27
Alignment explanation
Indices: 39462734--39462875 Score: 144
Period size: 27 Copynumber: 5.3 Consensus size: 27
39462724 TAGCTTGTAA
*
39462734 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
39462761 AATTA-CTATAATTCCCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
39462788 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
39462815 AATTACTGAAATACCCTTGTAGCGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
39462842 AATTATC-AAGATACCCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
39462869 AATTACC
1 AATTACC
39462876 ATTTTGCCCC
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 4 0.04
27 88 0.94
28 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:39462765 original size:54 final size:54
Alignment explanation
Indices: 39462707--39462843 Score: 138
Period size: 54 Copynumber: 2.5 Consensus size: 54
39462697 TGGTTTGTAA
* *
39462707 AATTACCAAAATACCCCTAGCT-TGTA-AAATTACCGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCCTAG-TAGGTAGAAA-TACCGAAATACCCCCGTAGGGTAG
* * * *
39462761 AATTACTATAAT-TCCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTAAAATACCCCTAGTA-GGTAGAAATACCGAAATACCCCCGTAGGGTAG
* *
39462815 AATTACTGAAATA-CCCTTGTAGCGTAGAA
1 AATTACTAAAATACCCCTAGTAG-GTAGAA
39462844 TTATCAAGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
52 1 0.01
53 6 0.09
54 60 0.86
55 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (54 bp):
AATTACTAAAATACCCCTAGTAGGTAGAAATACCGAAATACCCCCGTAGGGTAG
Found at i:39462856 original size:54 final size:54
Alignment explanation
Indices: 39462737--39462874 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
39462727 CTTGTAAAAT
* * *
39462737 TACCGAAATACCCCCGTAGGGTAGAATTACTATAATTCCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAATTACTATAATACCCTTGTAGCGTAGAAA
*
39462791 TACCGAAATACCCCTGTAGGGTAGAATTACTGA-AATACCCTTGTAGCGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAATTACT-ATAATACCCTTGTAGCGTAGAAA
* * * *
39462845 TATC-AAGATACCCTTGTGGGGTAAAATTAC
1 TACCGAA-ATACCCCTGTAGGGTAGAATTAC
39462875 CATTTTGCCC
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 2 0.03
54 71 0.96
55 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (54 bp):
TACCGAAATACCCCTGTAGGGTAGAATTACTATAATACCCTTGTAGCGTAGAAA
Found at i:39463112 original size:25 final size:25
Alignment explanation
Indices: 39463078--39463147 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
39463068 AGGAAGTGCT
*
39463078 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
39463103 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
39463128 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
39463148 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:39463160 original size:24 final size:24
Alignment explanation
Indices: 39463077--39463160 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
39463067 GAGGAAGTGC
*
39463077 TAAAAGGGCTTTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
39463102 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
39463126 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
39463150 TAAAAGAGGCT
1 TAAAAG-GGCT
39463161 AGGCCTCCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
23 5 0.09
24 8 0.15
25 40 0.75
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:39464311 original size:69 final size:70
Alignment explanation
Indices: 39464224--39464364 Score: 248
Period size: 69 Copynumber: 2.0 Consensus size: 70
39464214 TTATAGATTG
*
39464224 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATATTGG-AACTCTCTAGTTAGAGTAA
1 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTGGAAACTCTCTAGTTAGAGTAA
39464288 ACTGT
66 ACTGT
* *
39464293 AAGTGCTATATTGAGAAACTACTATAGATAGTAGCGCTATACTGGAAACTCTCTAGTTAGAGTAA
1 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTGGAAACTCTCTAGTTAGAGTAA
39464358 ACTGT
66 ACTGT
39464363 AA
1 AA
39464365 CGCTTGAATT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
69 42 0.62
70 26 0.38
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (70 bp):
AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTGGAAACTCTCTAGTTAGAGTAA
ACTGT
Found at i:39465217 original size:43 final size:42
Alignment explanation
Indices: 39465139--39465296 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
39465129 TTCCGTTATG
*
39465139 TGATTTCGTGTAAGACCATGTCTGGGACATTAGCATCGACT-TC
1 TGATTTCGTGTAAGACCATGTCTGGGACATCAGCATC-A-TATC
* *
39465182 TGTTTTACGTGTAAGACCA-GTTTGGGACATCAGCATCATATC
1 TGATTT-CGTGTAAGACCATGTCTGGGACATCAGCATCATATC
* * * * *
39465224 TGATTTCGTGTAAGACCCTGTCTAGGACAGT-AGAATCGATGTT
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TCAGCATC-ATATC
* * *
39465267 TGATTACATGTAAGACCATGTCTAGGACAT
1 TGATTTCGTGTAAGACCATGTCTGGGACAT
39465297 TGGCATTGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 12 0.12
42 22 0.23
43 51 0.53
44 12 0.12
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATCAGCATCATATC
Found at i:39465295 original size:85 final size:85
Alignment explanation
Indices: 39465139--39465296 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 85
39465129 TTCCGTTATG
* * * * * *
39465139 TGATTTCGTGTAAGACCATGTCTGGGACATTAGCATCGACTTCTGTTTTACGTGTAAGACCAGTT
1 TGATTTCGTGTAAGACCATGTCTAGGACAGTAGAATCGACTTCTGTATTACATGTAAGACCAGTC
*
39465204 TGGGACATCAGCATCATATC
66 TAGGACATCAGCATCATATC
* *
39465224 TGATTTCGTGTAAGACCCTGTCTAGGACAGTAGAATCGA-TGTTTG-ATTACATGTAAGACCATG
1 TGATTTCGTGTAAGACCATGTCTAGGACAGTAGAATCGACT-TCTGTATTACATGTAAGACCA-G
39465287 TCTAGGACAT
64 TCTAGGACAT
39465297 TGGCATTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 15 0.24
85 47 0.76
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (85 bp):
TGATTTCGTGTAAGACCATGTCTAGGACAGTAGAATCGACTTCTGTATTACATGTAAGACCAGTC
TAGGACATCAGCATCATATC
Found at i:39469388 original size:40 final size:40
Alignment explanation
Indices: 39469343--39469509 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
39469333 CGGAATATAA
39469343 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
39469383 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
39469423 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
39469463 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39469502 CCGGATAT
1 CCGGATAT
39469510 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39477007 original size:39 final size:33
Alignment explanation
Indices: 39476933--39477000 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
39476923 TAGAGGCGTG
39476933 GATAGTGTGGATGACTTCGACTTTATTGATCCC
1 GATAGTGTGGATGACTTCGACTTTATTGATCCC
39476966 GATAGTGTGGATGACTTCGACTTTATTGATCCC
1 GATAGTGTGGATGACTTCGACTTTATTGATCCC
39476999 GA
1 GA
39477001 ATCCGATTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (33 bp):
GATAGTGTGGATGACTTCGACTTTATTGATCCC
Found at i:39477411 original size:40 final size:40
Alignment explanation
Indices: 39477366--39477532 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
39477356 CGGAATATAA
39477366 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
39477406 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
39477445 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
39477485 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
39477525 CCGGATAT
1 CCGGATAT
39477533 CATTCAATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.31
40 73 0.68
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:39477430 original size:39 final size:39
Alignment explanation
Indices: 39477382--39477491 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
39477372 ATAATCACGT
* *
39477382 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGA-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
* *
39477421 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
*
39477461 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
39477492 TAATTTCCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.52
40 30 0.48
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAGACACTA
Found at i:39480177 original size:11 final size:11
Alignment explanation
Indices: 39480158--39480193 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
39480148 GATGGAATTT
39480158 AAATG-GCATG
1 AAATGTGCATG
*
39480168 GAATGTGCATG
1 AAATGTGCATG
39480179 AAATGTGCATG
1 AAATGTGCATG
39480190 AAAT
1 AAAT
39480194 TGTCATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (11 bp):
AAATGTGCATG
Found at i:39485785 original size:27 final size:26
Alignment explanation
Indices: 39485733--39485844 Score: 93
Period size: 27 Copynumber: 4.2 Consensus size: 26
39485723 GGTCGTTAAG
* **
39485733 ACCCCAGA-TTGTAAAGTTACTGAAAT
1 ACCCC-GATTTGTAAAATTACCAAAAT
39485759 ATCCCCGATTTGTAAAATTACCAAAAT
1 A-CCCCGATTTGTAAAATTACCAAAAT
** *
39485786 ACCCTTAGTTTGTAAAATTACCCAAAT
1 ACCCCGA-TTTGTAAAATTACCAAAAT
* *
39485813 ACCCTTGCA-GTGTAAAATTACCAAAAT
1 ACCC-CG-ATTTGTAAAATTACCAAAAT
39485840 ACCCC
1 ACCCC
39485845 TGTAGGGTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
26 7 0.10
27 62 0.87
28 1 0.01
29 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (26 bp):
ACCCCGATTTGTAAAATTACCAAAAT
Found at i:39485854 original size:27 final size:27
Alignment explanation
Indices: 39485769--39485857 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
39485759 ATCCCCGATT
39485769 TGTAAAATTACCAAAATA-CCCT-TAG
1 TGTAAAATTACCAAAATACCCCTGTAG
* * *
39485794 TTTGTAAAATTACCCAAATACCCTTGCAG
1 --TGTAAAATTACCAAAATACCCCTGTAG
39485823 TGTAAAATTACCAAAATACCCCTGTAG
1 TGTAAAATTACCAAAATACCCCTGTAG
*
39485850 GGTAAAAT
1 TGTAAAAT
39485858 GACTGTTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 48 0.91
28 3 0.06
29 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.28
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGTAG
Found at i:39486383 original size:33 final size:33
Alignment explanation
Indices: 39486300--39486394 Score: 105
Period size: 33 Copynumber: 3.0 Consensus size: 33
39486290 ATTGCATTAC
* *
39486300 ACTGTACTGATACTGTATTGGGCTTAAG-CCCAC
1 ACTGTACTGATACTGTATAGGGC-TAAGACCCAG
39486333 ACTGT--T-AT--TGTATAGGGCTAAGACCCAG
1 ACTGTACTGATACTGTATAGGGCTAAGACCCAG
39486361 ACTGTACTGATACTGTATAGGGCTAA-AGCCCAG
1 ACTGTACTGATACTGTATAGGGCTAAGA-CCCAG
39486394 A
1 A
39486395 TTATTTTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
27 4 0.08
28 18 0.34
30 3 0.06
31 3 0.06
32 1 0.02
33 24 0.45
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (33 bp):
ACTGTACTGATACTGTATAGGGCTAAGACCCAG
Found at i:39486752 original size:22 final size:26
Alignment explanation
Indices: 39486709--39486755 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 26
39486699 GGTAACTATT
39486709 TTTTAAACACTGCGTTTCCGCAACAG
1 TTTTAAACACTGCGTTTCCGCAACAG
39486735 TTTTAAA-A-TGC-TTT-CGCAACA
1 TTTTAAACACTGCGTTTCCGCAACA
39486756 ATTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 3 0.14
25 1 0.05
26 7 0.33
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (26 bp):
TTTTAAACACTGCGTTTCCGCAACAG
Found at i:39489333 original size:27 final size:26
Alignment explanation
Indices: 39489270--39489371 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
39489260 CGACCCCGAA
** *
39489270 TTGTAAAATTACTAAAATACCCTGGT
1 TTGTAAAATTACCGAAATACCCTGAT
39489296 TTGTAAAATTACCGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATACCCT-GAT
* *
39489323 TTGTAAAATTACCCAAATACCCTTAT
1 TTGTAAAATTACCGAAATACCCTGAT
*
39489349 TGTGTAAAATTATCGAAATACCC
1 T-TGTAAAATTACCGAAATACCC
39489372 ATGTAGGGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 24 0.36
27 43 0.64
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCCTGAT
Found at i:39489333 original size:53 final size:53
Alignment explanation
Indices: 39489262--39489371 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
39489252 GGTCGTTACG
* *
39489262 ACCCCGAATTGTAAAATTACTAAAATACCCTGGTT-TGTAAAATTACCGAAAT
1 ACCCCGAATTGTAAAATTACCAAAATACCCTGATTGTGTAAAATTACCGAAAT
* * * *
39489314 ACCCTCGATTTGTAAAATTACCCAAATACCCTTATTGTGTAAAATTATCGAAAT
1 ACCC-CGAATTGTAAAATTACCAAAATACCCTGATTGTGTAAAATTACCGAAAT
39489368 ACCC
1 ACCC
39489372 ATGTAGGGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 4 0.08
53 26 0.52
54 20 0.40
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (53 bp):
ACCCCGAATTGTAAAATTACCAAAATACCCTGATTGTGTAAAATTACCGAAAT
Found at i:39489382 original size:27 final size:27
Alignment explanation
Indices: 39489325--39489385 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
39489315 CCCTCGATTT
* * *
39489325 GTAAAATTACCCAAATACCCTTATTGT
1 GTAAAATTACCCAAATACCCATATAGG
* * *
39489352 GTAAAATTATCGAAATACCCATGTAGG
1 GTAAAATTACCCAAATACCCATATAGG
39489379 GTAAAAT
1 GTAAAAT
39489386 GACTATTTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (27 bp):
GTAAAATTACCCAAATACCCATATAGG
Found at i:39490489 original size:40 final size:41
Alignment explanation
Indices: 39490420--39490515 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
39490410 AACTATGTTC
39490420 GGCACTAAGTGTGCG-GTTCGAAATAGCTTCGGCTACA-AA
1 GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
* * * *
39490459 TGGCACTAAGTGTGCGAGTT-GGAATGGCTTCGGCTATATGA
1 -GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
39490500 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
39490516 TACCGAGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAGCTTCGGCTACATAA
Found at i:39490748 original size:19 final size:19
Alignment explanation
Indices: 39490724--39490761 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
39490714 TTAAATGAGA
39490724 TAGAATAGAATTGATGGAT
1 TAGAATAGAATTGATGGAT
39490743 TAGAATAGAATTGATGGAT
1 TAGAATAGAATTGATGGAT
39490762 GAATTGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (19 bp):
TAGAATAGAATTGATGGAT
Found at i:39495318 original size:27 final size:27
Alignment explanation
Indices: 39495286--39495345 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
39495276 TGAATATTCA
39495286 TTTAGCTTTGTCTGATGGTGGTTCAGT
1 TTTAGCTTTGTCTGATGGTGGTTCAGT
39495313 TTTAGCTTTGTCTGATGGTGGTTCAGT
1 TTTAGCTTTGTCTGATGGTGGTTCAGT
39495340 TTTAGC
1 TTTAGC
39495346 AGAATTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.12, C:0.12, G:0.28, T:0.48
Consensus pattern (27 bp):
TTTAGCTTTGTCTGATGGTGGTTCAGT
Found at i:39498043 original size:39 final size:42
Alignment explanation
Indices: 39497958--39498052 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 42
39497948 GACTATGTTC
39497958 GGCACTAAGTGTGCG-GTTTGAAATAGCTTCGGCTACAAATGA
1 GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTA-AAATGA
* *
39498000 --CACT-AGTGTGCGAG-TTGGAATAGCTTCGGCT-ATATGA
1 GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTAAAATGA
39498037 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
39498053 TACTGAGATA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
37 5 0.11
39 28 0.60
40 14 0.30
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAGTTTGAAATAGCTTCGGCTAAAATGA
Found at i:39505614 original size:14 final size:15
Alignment explanation
Indices: 39505595--39505626 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39505585 TTGCCTTTAT
39505595 TTTTCTA-GATTGAA
1 TTTTCTATGATTGAA
39505609 TTTTCTATGATTGAA
1 TTTTCTATGATTGAA
39505624 TTT
1 TTT
39505627 CCTGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTTCTATGATTGAA
Found at i:39511125 original size:40 final size:40
Alignment explanation
Indices: 39511051--39511271 Score: 288
Period size: 40 Copynumber: 5.6 Consensus size: 40
39511041 AACCCAAGTA
* *
39511051 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
39511090 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
39511130 CCTTCGGGACTTAGCCCAGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
39511170 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
39511210 TCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
39511249 CCGTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
39511272 CATCCGAATA
Statistics
Matches: 159, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
39 36 0.23
40 121 0.76
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:39514122 original size:18 final size:19
Alignment explanation
Indices: 39514086--39514124 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
39514076 TGTGTTTTGA
39514086 AATGTTTATATTATAATTG
1 AATGTTTATATTATAATTG
*
39514105 AATGTTTAT-TTCTAATTG
1 AATGTTTATATTATAATTG
39514123 AA
1 AA
39514125 GTTAAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (19 bp):
AATGTTTATATTATAATTG
Found at i:39521013 original size:39 final size:39
Alignment explanation
Indices: 39520937--39521120 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 39
39520927 TCGAATGATG
* * *
39520937 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
39520976 TCCGGACTAAGATCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
39521015 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
39521055 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
39521096 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGT-CCGAAGGCATTTG
39521121 AACGAGTGCT
Statistics
Matches: 131, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
39 44 0.34
40 82 0.63
41 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39529122 original size:40 final size:40
Alignment explanation
Indices: 39529065--39529250 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
39529055 TCGAATGATG
* * *
39529065 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
39529105 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39529145 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39529185 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * * *
39529226 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
39529251 AACGAGTGGC
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39529268 original size:80 final size:80
Alignment explanation
Indices: 39529095--39529269 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
39529085 CTTTGTGCTA
* *
39529095 AGTGACTAAATCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT
1 AGTGACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACCAAGAT
**
39529158 CCGAAGGCATTTGTGCG
64 CCGAAGGCATTTGAACG
* * *
39529175 AGTTACTAAATCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCCATG-TC
1 AGTGACTAAATCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACCAAGAT-
*
39529238 CCGAAGGTATTTGAACG
64 CCGAAGGCATTTGAACG
* *
39529255 AGTGGCTATATCCGG
1 AGTGACTAAATCCGG
39529270 TTAAACTCCG
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
79 2 0.03
80 73 0.91
81 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (80 bp):
AGTGACTAAATCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACCAAGATCC
GAAGGCATTTGAACG
Found at i:39532241 original size:18 final size:18
Alignment explanation
Indices: 39532218--39532254 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
39532208 TACAGATTTG
39532218 GGGTTTAACTCTAAAGGA
1 GGGTTTAACTCTAAAGGA
39532236 GGGTTTAACTCTAAAGGA
1 GGGTTTAACTCTAAAGGA
39532254 G
1 G
39532255 TTCTGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (18 bp):
GGGTTTAACTCTAAAGGA
Found at i:39535681 original size:31 final size:31
Alignment explanation
Indices: 39535643--39535706 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
39535633 CCTTTTCATA
39535643 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
39535674 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
39535705 TT
1 TT
39535707 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:39535949 original size:24 final size:24
Alignment explanation
Indices: 39535898--39536017 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
39535888 GCTTTATCAT
*
39535898 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39535923 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
*
39535947 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
39535971 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39535995 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39536018 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
24 76 0.86
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39536093 original size:20 final size:20
Alignment explanation
Indices: 39536068--39536127 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39536058 TATGATTACT
39536068 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39536088 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39536108 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39536128 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39536098 original size:11 final size:11
Alignment explanation
Indices: 39536068--39536122 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39536058 TATGATTACT
39536068 TCATGTGCATA
1 TCATGTGCATA
*
39536079 TCA--TACATA
1 TCATGTGCATA
39536088 TCATGTGCATA
1 TCATGTGCATA
* *
39536099 TCA--TACATT
1 TCATGTGCATA
39536108 TCATGTGCATA
1 TCATGTGCATA
39536119 TCAT
1 TCAT
39536123 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39538392 original size:48 final size:48
Alignment explanation
Indices: 39538320--39538541 Score: 300
Period size: 48 Copynumber: 4.6 Consensus size: 48
39538310 ACGATGCCTC
* * *
39538320 ATGCCGATGCCATGTCCCATACATGGTCTTACACTGTCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
*
39538368 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
* * * *
39538416 ATGCCAATGCCATATCCCAGACATGGACTTATACTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
** * * ** *
39538464 ATGCAAATGCCATGTCCCAGATAGGGTCTTACACTGGCTCATGTAGCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
*
39538512 ATGTCGATGCCATGTCCCAGACATGGTCTT
1 ATGCCGATGCCATGTCCCAGACATGGTCTT
39538542 GCACGGTTAC
Statistics
Matches: 151, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 151 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACA
Found at i:39544883 original size:122 final size:123
Alignment explanation
Indices: 39544665--39544900 Score: 334
Period size: 122 Copynumber: 1.9 Consensus size: 123
39544655 CGTAAGTGAT
*
39544665 ATTCAGGGGTACCAAAGTACAAACAAAGGCATGCATGTGCAATTCAAGGGTACCGAAGTACAAAC
1 ATTCAGGGGTACCAAAGTACAAACAAAGGCACGCATGTGCAATTCAAGGGTACCGAAGTACAAAC
* *
39544730 AAGGGCACGTATATGCAATTCTGTAGTACTGAAGTACAAAAAGGGGCACAAATACACA
66 AAGGGCACGTATATGCAATTCAGGAGTACTGAAGTACAAAAAGGGGCACAAATACACA
* * * *
39544788 ATTCAGGGGTGCCGAAGTACAAA-AAGGGGCACGTATGTGCAATT-AAGGGTACCGAAGTACAAA
1 ATTCAGGGGTACCAAAGTACAAACAA-AGGCACGCATGTGCAATTCAAGGGTACCGAAGTACAAA
* * * *
39544851 CATGGGCACGTATGTGCAATTCAAGGA-TACTGAAGTATAAATAGGGGCAC
65 CAAGGGCACGTATATGCAATTC-AGGAGTACTGAAGTACAAAAAGGGGCAC
39544901 GTACGTGCAA
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
122 62 0.62
123 38 0.38
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (123 bp):
ATTCAGGGGTACCAAAGTACAAACAAAGGCACGCATGTGCAATTCAAGGGTACCGAAGTACAAAC
AAGGGCACGTATATGCAATTCAGGAGTACTGAAGTACAAAAAGGGGCACAAATACACA
Found at i:39544912 original size:122 final size:123
Alignment explanation
Indices: 39544624--39544914 Score: 315
Period size: 122 Copynumber: 2.4 Consensus size: 123
39544614 ATTTTACTTG
* ** * * * *
39544624 ATTCAAGGTTACCAAAGTGTAAACAGGGTCACGTAAGTG-ATATTCAGGGGTACCAAAGTACAAA
1 ATTCAAGGATACTGAAGTATAAAAAGGGGCACGTACGTGCA-ATTCAGGGGTACCAAAGTACAAA
*
39544688 CAAAGGCATGCATGTGCAATTCAAGGGTACCGAAGTACAAACAAGGGCACGTATATGCA
65 CAAAGGCACGCATGTGCAATTCAAGGGTACCGAAGTACAAACAAGGGCACGTATATGCA
* * * * * * *
39544747 ATTC-TGTAGTACTGAAGTACAAAAAGGGGCACAAATAC--ACAATTCAGGGGTGCCGAAGTACA
1 ATTCAAGGA-TACTGAAGTATAAAAAGGGGCAC--GTACGTGCAATTCAGGGGTACCAAAGTACA
* * * *
39544809 AA-AAGGGGCACGTATGTGCAATT-AAGGGTACCGAAGTACAAACATGGGCACGTATGTGCA
63 AACAA-AGGCACGCATGTGCAATTCAAGGGTACCGAAGTACAAACAAGGGCACGTATATGCA
*
39544869 ATTCAAGGATACTGAAGTATAAATAGGGGCACGTACGTGCAATTCA
1 ATTCAAGGATACTGAAGTATAAAAAGGGGCACGTACGTGCAATTCA
39544915 AGGAATAACT
Statistics
Matches: 135, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
120 3 0.02
122 70 0.52
123 59 0.44
124 1 0.01
125 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (123 bp):
ATTCAAGGATACTGAAGTATAAAAAGGGGCACGTACGTGCAATTCAGGGGTACCAAAGTACAAAC
AAAGGCACGCATGTGCAATTCAAGGGTACCGAAGTACAAACAAGGGCACGTATATGCA
Found at i:39544918 original size:41 final size:41
Alignment explanation
Indices: 39544624--39544918 Score: 222
Period size: 41 Copynumber: 7.2 Consensus size: 41
39544614 ATTTTACTTG
* * ** * * *
39544624 ATTCAAGGTTACCAAAGTGTAAACAGGGTCACGTAAGTG-A
1 ATTCAAGGATACCGAAGTACAAAAAGGGGCACGTATGTGCA
* * * * * *
39544664 TATTCAGGGGTACCAAAGTACAAACAA-AGGCATGCATGTGCA
1 -ATTCAAGGATACCGAAGTACAAA-AAGGGGCACGTATGTGCA
* *
39544706 ATTCAAGGGTACCGAAGTACAAACAA-GGGCACGTATATGCA
1 ATTCAAGGATACCGAAGTACAAA-AAGGGGCACGTATGTGCA
* * * ** ***
39544747 ATTC-TGTAGTACTGAAGTACAAAAAGGGGCACAAATACACA
1 ATTCAAGGA-TACCGAAGTACAAAAAGGGGCACGTATGTGCA
* * *
39544788 ATTCAGGGGTGCCGAAGTACAAAAAGGGGCACGTATGTGCA
1 ATTCAAGGATACCGAAGTACAAAAAGGGGCACGTATGTGCA
* * *
39544829 ATT-AAGGGTACCGAAGTACAAACATGGGCACGTATGTGCA
1 ATTCAAGGATACCGAAGTACAAAAAGGGGCACGTATGTGCA
* * * *
39544869 ATTCAAGGATACTGAAGTATAAATAGGGGCACGTACGTGCA
1 ATTCAAGGATACCGAAGTACAAAAAGGGGCACGTATGTGCA
39544910 ATTCAAGGA
1 ATTCAAGGA
39544919 ATAACTAAGC
Statistics
Matches: 204, Mismatches: 44, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
40 39 0.19
41 162 0.79
42 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (41 bp):
ATTCAAGGATACCGAAGTACAAAAAGGGGCACGTATGTGCA
Found at i:39548180 original size:30 final size:31
Alignment explanation
Indices: 39548104--39548186 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
39548094 TCAGTCTCGA
39548104 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
*
39548134 CATATCACTGGGCCAAAACCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
39548165 CATATCACT-GGCCAAAGCCTTT
1 CATATCACTGGGCCAAAGCCTTT
39548187 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:39548438 original size:25 final size:25
Alignment explanation
Indices: 39548405--39548474 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
39548395 CTCTTTTAAT
*
39548405 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* * * *
39548430 AACTGGGGCAAAACCATTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
*
39548455 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
39548475 AGCACTTCCT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:39549346 original size:27 final size:27
Alignment explanation
Indices: 39549285--39549361 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
39549275 GGCATATTCA
39549285 TCATTTTACCATACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
39549312 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAGGGG-TATTACGG
* *
39549339 TCTTTTTACC-TATTAGGGGTATT
1 TCATTTTACCATA-CAGGGGTATT
39549362 TTAGCCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 38 0.90
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:39549506 original size:56 final size:54
Alignment explanation
Indices: 39549407--39549535 Score: 143
Period size: 56 Copynumber: 2.4 Consensus size: 54
39549397 TCTACAAAAC
* * *
39549407 AAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTTTAGAAAGTT
1 AAGGGTATTTCAGTAATTTTGTAAACCAAGGGCATTTCTATAA-TTTTACAAA-TT
* ** *
39549463 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGCATTT-TGATAATTTTACAAATT
1 AAGGGTATTTCAGTAATTTTGTAAACCAAGGGCATTTCT-ATAATTTTACAAATT
* *
39549517 GAGGGTATTTCGGTAATTT
1 AAGGGTATTTCAGTAATTT
39549536 CACAAACTAG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 19 0.30
55 9 0.14
56 35 0.56
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.43
Consensus pattern (54 bp):
AAGGGTATTTCAGTAATTTTGTAAACCAAGGGCATTTCTATAATTTTACAAATT
Found at i:39549515 original size:27 final size:27
Alignment explanation
Indices: 39549465--39549588 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
39549455 AGAAAGTTAA
** *
39549465 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
* * *
39549492 GGGCATTTTGATAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
39549518 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
39549546 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
39549573 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
39549589 CTATCCTACA
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.04
27 75 0.94
28 2 0.03
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:39549554 original size:54 final size:53
Alignment explanation
Indices: 39549408--39549588 Score: 175
Period size: 54 Copynumber: 3.3 Consensus size: 53
39549398 CTACAAAACA
* * * *
39549408 AGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AGGGTATTTCGGTAATTTTGTAAACTAGTGGTATTT-TGATAA-TTTTACAAA-TT
* * * *
39549463 AAGGGTATTTCTGTAATTTTGTAAATTAGGGGCATTTTGATAATTTTACAAATT
1 -AGGGTATTTCGGTAATTTTGTAAACTAGTGGTATTTTGATAATTTTACAAATT
*** * *
39549517 GAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTTGTAAACTAGTGGTATTTTGATAATTTTACAAATT
*
39549571 AGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATT
39549589 CTATCCTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 61 0.58
55 9 0.09
56 34 0.32
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTGTAAACTAGTGGTATTTTGATAATTTTACAAATT
Found at i:39549628 original size:27 final size:27
Alignment explanation
Indices: 39549519--39549628 Score: 98
Period size: 27 Copynumber: 4.1 Consensus size: 27
39549509 TACAAATTGA
*
39549519 GGGTATTTCGGTAATTTCACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACAAG
* * * *
39549546 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCGGTAATTTCACAAACAAG
* **
39549573 GGGTATTTTGGTAA-TTCTATCCTAC-AG
1 GGGTATTTCGGTAATTTC-A-CAAACAAG
* *
39549600 GGGTATTTCAGTAATTTCACAATCAAG
1 GGGTATTTCGGTAATTTCACAAACAAG
39549627 GG
1 GG
39549629 TAAAATGGTA
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
26 4 0.06
27 57 0.85
28 6 0.09
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTCACAAACAAG
Found at i:39549650 original size:27 final size:27
Alignment explanation
Indices: 39549620--39549738 Score: 184
Period size: 27 Copynumber: 4.4 Consensus size: 27
39549610 GTAATTTCAC
* *
39549620 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
39549647 AATCGAGGGTAAAACTGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
39549674 AACCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
39549701 AATTGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
39549728 AATCGAGGGTA
1 AATCGAGGGTA
39549739 CTTTGGTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:39551985 original size:27 final size:28
Alignment explanation
Indices: 39551955--39552054 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
39551945 TTTAGTTTAC
39551955 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
39551982 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
39552009 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
39552036 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
39552055 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:39552054 original size:54 final size:54
Alignment explanation
Indices: 39551955--39552073 Score: 134
Period size: 54 Copynumber: 2.2 Consensus size: 54
39551945 TTTAGTTTAC
* * *
39551955 TAAAATTACCGAAATACCCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * * *
39552009 TAAATTTACCGAAATA-CCTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTTA
1 TAAAATTACCGAAATACCCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTTG
*
39552063 CAAAATTACCG
1 TAAAATTACCG
39552074 TTTTACCCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 8 0.15
54 46 0.85
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:39552080 original size:27 final size:27
Alignment explanation
Indices: 39552050--39552341 Score: 311
Period size: 27 Copynumber: 10.8 Consensus size: 27
39552040 ATTACCAAAG
* *
39552050 TACCCCCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39552077 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
39552104 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * *
39552131 TACCCTCGACTCACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39552158 TACCC-CTAATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* * * *
39552185 TACCCCCGATTTATATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
39552212 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39552239 TACCCTCGATTTACTGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
39552266 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
39552293 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
39552320 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
39552342 TAAAATACCC
Statistics
Matches: 230, Mismatches: 31, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 226 0.98
28 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:39552342 original size:81 final size:81
Alignment explanation
Indices: 39552050--39552341 Score: 367
Period size: 81 Copynumber: 3.6 Consensus size: 81
39552040 ATTACCAAAG
* *
39552050 TACCCCCGATTTACAAAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGACTTACAAAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
*
39552115 TACATAATTATCGTTT
66 TATATAATTATCGTTT
* *
39552131 TACCCTCGACTCACAAAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCCGATT
1 TACCCTCGACTTACAAAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
39552196 TATATAATTATCGTTT
66 TATATAATTATCGTTT
* * * *
39552212 TACCCTCGACTTACAGAATTACCGTTTTA-CCCTCGATTTAC-TGAATTACTGTTTTACCCTTGA
1 TACCCTCGACTTACAAAATTACCGTTTTACCCCT-AATTTACAT-AATTACCGTTTTACCCCTGA
* *
39552275 TTTATAGAATTA-CTATTT
64 TTTATATAATTATC-GTTT
* * * * * *
39552293 TACCCTTGATTTACAGAATTACTGTTTTA-CCCTCGATTTACAAAATTAC
1 TACCCTCGACTTACAAAATTACCGTTTTACCCCT-AATTTACATAATTAC
39552342 TAAAATACCC
Statistics
Matches: 190, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
80 6 0.03
81 184 0.97
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGACTTACAAAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
TATATAATTATCGTTT
Found at i:39552350 original size:27 final size:27
Alignment explanation
Indices: 39552239--39552568 Score: 71
Period size: 27 Copynumber: 12.1 Consensus size: 27
39552229 ATTACCGTTT
** ****
39552239 TACCCTCGATTTACTGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * * ***
39552266 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
39552293 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
39552320 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
39552347 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
39552374 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** *
39552401 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
** * * *** **
39552428 TACTATTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
39552455 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
39552482 TACCC-CTGATTTACAGAGTTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
* *
39552509 TACCATTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
39552538 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
39552565 TACC
1 TACC
39552569 TTTGGTTTGT
Statistics
Matches: 250, Mismatches: 42, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
26 3 0.01
27 220 0.88
28 7 0.03
29 20 0.08
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:39552351 original size:54 final size:54
Alignment explanation
Indices: 39552239--39552353 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
39552229 ATTACCGTTT
* * * * * ***
39552239 TACCCTCGATTTACTGAATTACTGTTTTACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
39552293 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
39552347 TACCCTT
1 TACCCTT
39552354 AGTTTGTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:39552367 original size:54 final size:53
Alignment explanation
Indices: 39552255--39552422 Score: 142
Period size: 54 Copynumber: 3.1 Consensus size: 53
39552245 CGATTTACTG
* *** *
39552255 AATTACTGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTT-GATT-TACA
1 AATTACTGTTTTACCC-TGATTTATAAAATTACTAAAATACCCTTAGTTTGTA-A
*
39552308 GAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAA
1 -AATTACTGTTTTACCCT-GATTTATAAAATTACTAAAATACCCTTAGTTTGTAA
***** * * * *
39552363 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAA
1 AATTACTGTTTTACCCTGA-TTTATAAAATTACTAAAATACCCTTAGTTTGTAA
39552417 AATTAC
1 AATTAC
39552423 CAAAATACTA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
53 2 0.02
54 86 0.91
55 4 0.04
56 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (53 bp):
AATTACTGTTTTACCCTGATTTATAAAATTACTAAAATACCCTTAGTTTGTAA
Found at i:39552367 original size:81 final size:81
Alignment explanation
Indices: 39552128--39552368 Score: 218
Period size: 81 Copynumber: 3.0 Consensus size: 81
39552118 ATAATTATCG
* * * * ***** **
39552128 TTTTACCCTCGACTCACAAAATTACCGTTTTACCC-CTAATTTACATAATTACCGTTTTACCCCC
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTC-GATTTACAAAATTACTAAAATACCCTT
* *
39552192 GATTTATATAATTA-TCG
65 GATTTATAAAATTACT-A
** ****
39552209 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACTGAATTACTGTTTTACCCTTG
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
*
39552274 ATTTATAGAATTACTA
66 ATTTATAAAATTACTA
* * *
39552290 TTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTT-
1 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
*
39552354 AGTTTGTAAAATTAC
66 A-TTTATAAAATTAC
39552369 CAAAATACCC
Statistics
Matches: 136, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 133 0.98
82 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
ATTTATAAAATTACTA
Found at i:39552394 original size:81 final size:81
Alignment explanation
Indices: 39552320--39552496 Score: 223
Period size: 81 Copynumber: 2.2 Consensus size: 81
39552310 ATTACTGTTT
* * * *
39552320 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGT
1 TACCC-CGAGTTTACAAAATTACCAAAATACCATTAGTTTGTAAAATTACCAAAATACCCTCAAT
39552384 TTGTAAAATTACCAAAA
65 TTGTAAAATTACCAAAA
* ** * * * *
39552401 TACCCCTAGTTTGTAAAATTACCAAAATACTATTGGTTTGTGAAATTACCGAAATACCCTCAATT
1 TACCCCGAGTTTACAAAATTACCAAAATACCATTAGTTTGTAAAATTACCAAAATACCCTCAATT
39552466 TGTAAAATTACCAAAA
66 TGTAAAATTACCAAAA
39552482 TACCCCTGA-TTTACA
1 TACCCC-GAGTTTACA
39552497 GAGTTATAGA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 2 0.03
81 77 0.96
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (81 bp):
TACCCCGAGTTTACAAAATTACCAAAATACCATTAGTTTGTAAAATTACCAAAATACCCTCAATT
TGTAAAATTACCAAAA
Found at i:39552423 original size:54 final size:54
Alignment explanation
Indices: 39552334--39552486 Score: 218
Period size: 54 Copynumber: 2.8 Consensus size: 54
39552324 CTCGATTTAC
* *
39552334 AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
** *
39552388 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACTATTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* * *
39552442 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCC
39552487 CTGATTTACA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.05
54 84 0.95
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
Found at i:39552511 original size:81 final size:81
Alignment explanation
Indices: 39552334--39552492 Score: 230
Period size: 81 Copynumber: 2.0 Consensus size: 81
39552324 CTCGATTTAC
* * * * *
39552334 AAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
*
39552399 AATACCCCTAGTTTGT
66 AATACCCCTAGATTGT
* * *
39552415 AAAATTACCAAAATACTATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
39552480 AATACCCCT-GATT
66 AATACCCCTAGATT
39552493 TACAGAGTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
80 3 0.04
81 66 0.96
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (81 bp):
AAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGATTGT
Found at i:39552573 original size:27 final size:27
Alignment explanation
Indices: 39552491--39552576 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
39552481 ATACCCCTGA
* * *
39552491 TTTACAGAGTTATAGAAATACCATTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
39552519 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
39552547 TTTACAAAATTACT-GAAATACCTTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
39552574 TTT
1 TTT
39552577 GTTGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 23 0.46
28 7 0.14
29 20 0.40
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:39552660 original size:27 final size:27
Alignment explanation
Indices: 39552630--39552690 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
39552620 ACCCCTAAAA
39552630 GGTAAAAAGACCGTAA-AGCCCCTGTAG
1 GGTAAAAAGACCGTAATA-CCCCTGTAG
** * *
39552657 GGTAAAGTGATCGTAATACCCCTGTAT
1 GGTAAAAAGACCGTAATACCCCTGTAG
39552684 GGTAAAA
1 GGTAAAA
39552691 TGACGAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
GGTAAAAAGACCGTAATACCCCTGTAG
Found at i:39553952 original size:9 final size:9
Alignment explanation
Indices: 39553940--39553996 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
39553930 TTTGATAAAC
39553940 ATGATATGT
1 ATGATATGT
*
39553949 ATGATATGCAC
1 ATGATATG--T
*
39553960 ATGACATGT
1 ATGATATGT
*
39553969 ATGATATGCAC
1 ATGATATG--T
39553980 ATGATATGT
1 ATGATATGT
39553989 ATGATATG
1 ATGATATG
39553997 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:39553963 original size:20 final size:20
Alignment explanation
Indices: 39553938--39554000 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
39553928 ATTTTGATAA
39553938 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
39553958 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
39553978 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
39553998 ACA
1 ACA
39554001 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:39554085 original size:23 final size:23
Alignment explanation
Indices: 39554055--39554150 Score: 165
Period size: 23 Copynumber: 4.1 Consensus size: 23
39554045 AGGAAGTGAA
39554055 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39554078 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
39554101 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
39554125 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
39554148 AAA
1 AAA
39554151 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
23 48 0.70
24 21 0.30
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Done.