Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 74 of 320
Found at i:23081640 original size:48 final size:47
Alignment explanation
Indices: 23081299--23081667 Score: 244
Period size: 47 Copynumber: 7.8 Consensus size: 47
23081289 TAAGGTATAA
* * *
23081299 TGCCGATGCTATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAA-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CA-AAATG
* * * *
23081348 T--TGATGCCATGTTCCAGACATGGTCTTACACTGACTATCAAAATAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAAT-G
* * * *
23081394 AGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-AAAT--G
* * * * * *
23081445 TGCCGATGCCATGTCCCAAACATGGTCTTACATTGACAC-CATTATACG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--AAATG
* * *
23081493 TACCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC----TCG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCAAAAT-G
* * * **
23081538 TAGCTGATG-CATGTCCCAGACAT-GTCTTATACTAGCTCTCGTCTCAA--
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTC-TCAAAATG
*
23081585 TGCCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCAAAATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATG
*
23081632 TGGTCGATG-CATGTCCCAGACAT-GTCTTACACTGGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
23081668 ACACAAATAA
Statistics
Matches: 254, Mismatches: 43, Indels: 49
0.73 0.12 0.14
Matches are distributed among these distances:
44 11 0.04
45 23 0.09
46 33 0.13
47 59 0.23
48 51 0.20
49 37 0.15
50 40 0.16
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAAAATG
Found at i:23081672 original size:140 final size:143
Alignment explanation
Indices: 23081297--23081676 Score: 397
Period size: 140 Copynumber: 2.7 Consensus size: 143
23081287 CTTAAGGTAT
* * * *
23081297 AATGCCGATGCTATGTCCCAGACATGGTCTTACATTGGCTCATCCATCAAGTT-GATGCCATGTT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTC-T-CATAAAGTTCGATGCCATGTC
*
23081361 CCAGACATGGTCTTACACTGACTATCA-AAATAGAGGCCGATGCCATGTCCCAGACATGGTCTTA
64 CCAGACATGGTCTTACACTGGC-A-CACAAATAGAGGCCGATGCCATGTCCCAGACATGGTCTTA
23081425 CACTAGCTCTCACATATC
127 CACTAGCTCT-ACATATC
* * * * *
23081443 CATGCCGATGCCATGTCCCAAACATGGTCTTACATTGACAC-CATTATACGTACCGATGCCATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCA-TA-AAGT-TCGATGCCATGT
** * *
23081507 CCCAGACATGGTCTTACACT-G-ACACATCTCGTA-GCTGATG-CATGTCCCAGACAT-GTCTTA
63 CCCAGACATGGTCTTACACTGGCACACAAATAG-AGGCCGATGCCATGTCCCAGACATGGTCTTA
* * *
23081567 TACTAGCTCT-CGTCTC
127 CACTAGCTCTACATATC
* *
23081583 AATGCCGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCA-AAATGTGGTCGATG-CATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAA-GT--TCGATGCCATGT
23081646 CCCAGACAT-GTCTTACACTGGCACACAAATA
63 CCCAGACATGGTCTTACACTGGCACACAAATA
23081677 ACCCGAATGT
Statistics
Matches: 195, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
138 11 0.06
139 18 0.09
140 51 0.26
141 2 0.01
142 15 0.08
143 18 0.09
144 11 0.06
145 4 0.02
146 36 0.18
147 29 0.15
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (143 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATAAAGTTCGATGCCATGTCCC
AGACATGGTCTTACACTGGCACACAAATAGAGGCCGATGCCATGTCCCAGACATGGTCTTACACT
AGCTCTACATATC
Found at i:23087912 original size:20 final size:21
Alignment explanation
Indices: 23087887--23087926 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23087877 TTCTTGAAAT
*
23087887 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
23087907 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
23087927 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:23089314 original size:46 final size:44
Alignment explanation
Indices: 23089178--23089338 Score: 155
Period size: 46 Copynumber: 3.5 Consensus size: 44
23089168 AGGTTGACGC
* * * *
23089178 CATGTCCCAGTCATGGTCTTACATTGACACCACTATACGT-GCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGACA-CA-TCT-CGTAGCCGATG
* *
23089225 CCTTGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATG
* *
23089271 CATGTCCCAAACATGTCTTACACTGGCCTACATCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACT-GAC-ACATCTCGTA-GCCGATG
23089317 CATGTCCCAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
23089339 TTAGCTCTTG
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
44 10 0.10
45 17 0.17
46 43 0.44
47 2 0.02
48 26 0.27
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
Found at i:23089362 original size:46 final size:46
Alignment explanation
Indices: 23089264--23089388 Score: 126
Period size: 46 Copynumber: 2.7 Consensus size: 46
23089254 ACATCTTGTA
* *
23089264 GCCGATGCATGTCCCAAACATGTCTTACACTGGCCTACATCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCCTACATCTCAAG
* * ** *
23089310 GCCGATGCATGTCCCAGACATGTCTTACATTAGCTCT-TGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC-CTACATCTCAAG
* * *
23089356 GTCGATGCCATGTCCCATATATGGTCTTACACT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACT
23089389 GGCTCTCAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 42 0.65
47 14 0.22
48 9 0.14
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCCTACATCTCAAG
Found at i:23089391 original size:94 final size:92
Alignment explanation
Indices: 23089266--23089437 Score: 222
Period size: 94 Copynumber: 1.8 Consensus size: 92
23089256 ATCTTGTAGC
** *
23089266 CGATGCATGTCCCAAACATGTCTTACACTGGC-CT-ACATCTCGAGGCCGATGCATGTCCCAGAC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCA-AAAT-GAGGCCAATGCATGTCCCAGAC
*
23089329 ATGTCTTACATTAGCTCTTGTCTCAATGT
64 ATGTCTTACACTAGCTCTTGTCTCAATGT
* * * *
23089358 CGATGCCATGTCCCATATATGGTCTTACACTGGCTCTCAAAATGTGGCCAATGCATGTCCCAGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCTCAAAATGAGGCCAATGCATGTCCCAGAC
23089423 ATGTCTTACACTAGC
64 ATGTCTTACACTAGC
23089438 ACACAAATAG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 5 0.07
93 12 0.18
94 46 0.68
95 4 0.06
96 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCAAAATGAGGCCAATGCATGTCCCAGACAT
GTCTTACACTAGCTCTTGTCTCAATGT
Found at i:23092557 original size:60 final size:60
Alignment explanation
Indices: 23092444--23092576 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 60
23092434 AACTGGACCT
* * ** *
23092444 TAGCCCATATCAATATTAATCTGGGCCGTAGCCCCATATAGTATCAAAGTATATTGGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCCATATACAATCAAAGTATATTCGGCC
* * *
23092504 TAGCCCATATCAGTATCAATCTGGGCCATAGCCCTAT-TACAAGTC-GAGATATATTCGGCC
1 TAGCCCATATCAATATCAATCTGGGCCATAGCCCCATATACAA-TCAAAG-TATATTCGGCC
*
23092564 TTGCCCATATCAA
1 TAGCCCATATCAA
23092577 CACAGTTGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
59 5 0.08
60 56 0.92
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (60 bp):
TAGCCCATATCAATATCAATCTGGGCCATAGCCCCATATACAATCAAAGTATATTCGGCC
Found at i:23094935 original size:12 final size:12
Alignment explanation
Indices: 23094915--23094965 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
23094905 TTTTCCTATC
*
23094915 TAATAATAATAA
1 TAATTATAATAA
23094927 TAATTATAATAA
1 TAATTATAATAA
*
23094939 TAATT-TTATAAA
1 TAATTATAAT-AA
* *
23094951 TAAATCTAATAA
1 TAATTATAATAA
23094963 TAA
1 TAA
23094966 AAATTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 3 0.09
12 27 0.82
13 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATTATAATAA
Found at i:23095075 original size:19 final size:18
Alignment explanation
Indices: 23095038--23095081 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
23095028 ACACATGCAG
23095038 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
23095055 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
23095074 TACTAATT
1 TAATAATT
23095082 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:23096388 original size:16 final size:17
Alignment explanation
Indices: 23096367--23096399 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23096357 CACATTGAAG
23096367 TGTTTT-TTGAAAACCA
1 TGTTTTATTGAAAACCA
23096383 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
23096400 CTTCTTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (17 bp):
TGTTTTATTGAAAACCA
Found at i:23097128 original size:28 final size:28
Alignment explanation
Indices: 23097030--23097128 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 28
23097020 AGCTTTACTA
* * *
23097030 GGCCTTAGCCCATATCAATATTAATCTG
1 GGCCATAGCCCATATCAGTATCAATCTG
* *
23097058 GGCCATAGCCCCT-TACAGTATCAGAGTATATTG
1 GGCCATAGCCCATAT-CAGTATC--A--AT-CTG
*
23097091 GG-CTTAGCCCATATCAGTATCAATCTG
1 GGCCATAGCCCATATCAGTATCAATCTG
23097118 GGCCATAGCCC
1 GGCCATAGCCC
23097129 TATTACAAGT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
27 5 0.09
28 25 0.46
30 2 0.04
32 17 0.31
33 5 0.09
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (28 bp):
GGCCATAGCCCATATCAGTATCAATCTG
Found at i:23097148 original size:60 final size:60
Alignment explanation
Indices: 23097031--23097167 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 60
23097021 GCTTTACTAG
* * *
23097031 GCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATATT-G
1 GCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATATTCA
* *
23097091 GGCTTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACA-AGTC-GAGATATATTCA
1 GCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATATTCA
23097152 GCCTT-GCCCATATCAA
1 GCCTTAGCCCATATCAA
23097168 CAGAGTTGGG
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
59 4 0.06
60 53 0.80
61 9 0.14
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (60 bp):
GCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATATTCA
Found at i:23099548 original size:12 final size:12
Alignment explanation
Indices: 23099528--23099578 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
23099518 TTTTCCTATC
*
23099528 TAATAATAATAA
1 TAATTATAATAA
23099540 TAATTATAATAA
1 TAATTATAATAA
*
23099552 TAATT-TTATAAA
1 TAATTATAAT-AA
* *
23099564 TAAATCTAATAA
1 TAATTATAATAA
23099576 TAA
1 TAA
23099579 AAATTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 3 0.09
12 27 0.82
13 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATTATAATAA
Found at i:23099686 original size:19 final size:20
Alignment explanation
Indices: 23099649--23099693 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
23099639 ACATACATGC
*
23099649 AATAATATTTTTCTAATAAT
1 AATAATATTTATCTAATAAT
*
23099669 AATAA-ATTTATCTCATAAT
1 AATAATATTTATCTAATAAT
*
23099688 ACTAAT
1 AATAAT
23099694 TAAAATTTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAATATTTATCTAATAAT
Found at i:23128391 original size:28 final size:28
Alignment explanation
Indices: 23128359--23128423 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
23128349 ATTTACTAGA
* *
23128359 ATACCCCTATGTATGGAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
23128387 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
*
23128415 ATATCCCTA
1 ATACCCCTA
23128424 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:23128560 original size:28 final size:26
Alignment explanation
Indices: 23128529--23128618 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 26
23128519 AGGAAGTGTC
23128529 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-ATGCCACAAA-TATCTGTT
* ** *
23128557 CTGGTGGCCCTGATACGTAA-ATCTGTT
1 CTGGTGG-CATGCCAC-AAATATCTGTT
23128584 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCA-TGCCAC-AAATATCTGT-T
23128613 CTGGTG
1 CTGGTG
23128619 ACTCTGTCAC
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
26 1 0.02
27 20 0.42
28 17 0.35
29 10 0.21
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (26 bp):
CTGGTGGCATGCCACAAATATCTGTT
Found at i:23136807 original size:42 final size:43
Alignment explanation
Indices: 23136743--23136860 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 43
23136733 GACTTATGAT
* * *
23136743 TTACGTGTAAGACCACATCTGGGACA-TAGGCATC-ATATTTGA
1 TTACATGTAAGATCACGTCTGGGACAGT-GGCATCGATATTTGA
* * *
23136785 TTTCATGTAAGA-CCCTGTCTGGGACAGTGGTATCGATATTTGA
1 TTACATGTAAGATCAC-GTCTGGGACAGTGGCATCGATATTTGA
23136828 TTACATGTAAGATCACGTCTGGGAC-GTTGGCAT
1 TTACATGTAAGATCACGTCTGGGACAG-TGGCAT
23136861 TGTATGAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.03
42 25 0.40
43 34 0.54
44 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGATCACGTCTGGGACAGTGGCATCGATATTTGA
Found at i:23141324 original size:28 final size:28
Alignment explanation
Indices: 23141292--23141352 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
23141282 ATTATCAAAT
*
23141292 ACTTTCAGAGTATGGAAT-ATATAATCCA
1 ACTTTCAAAGTATGGAATCA-ATAATCCA
*
23141320 ACTTTCAAATTATGGAATCAATAATCCA
1 ACTTTCAAAGTATGGAATCAATAATCCA
23141348 ACTTT
1 ACTTT
23141353 AAAATTGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (28 bp):
ACTTTCAAAGTATGGAATCAATAATCCA
Found at i:23141357 original size:28 final size:28
Alignment explanation
Indices: 23141302--23141358 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
23141292 ACTTTCAGAG
*
23141302 TATGGAATATATAATCCAACTTTCAAAT
1 TATGGAATATATAATCCAACTTTAAAAT
23141330 TATGGAATCA-ATAATCCAACTTTAAAAT
1 TATGGAAT-ATATAATCCAACTTTAAAAT
23141358 T
1 T
23141359 GTCATTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (28 bp):
TATGGAATATATAATCCAACTTTAAAAT
Found at i:23143117 original size:42 final size:42
Alignment explanation
Indices: 23143010--23143125 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
23143000 TTGGGTGTTA
* * *
23143010 CATAAACCTTCATCAACAACTTCTATACCATCTCCAACACCC
1 CATAAACCTTCATCAACAACTTTTAGACCATATCCAACACCC
* ** * * *
23143052 TATAAACCTTCA-CTAGTAGCTTTTAGACTATATCTAACACCC
1 CATAAACCTTCATC-AACAACTTTTAGACCATATCCAACACCC
23143094 CATAAACCTTCATCAACAACTTTTA-ACC-TATC
1 CATAAACCTTCATCAACAACTTTTAGACCATATC
23143126 TCTGTAACAC
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
40 4 0.07
41 3 0.05
42 50 0.86
43 1 0.02
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.29
Consensus pattern (42 bp):
CATAAACCTTCATCAACAACTTTTAGACCATATCCAACACCC
Found at i:23144707 original size:67 final size:69
Alignment explanation
Indices: 23144600--23144728 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 69
23144590 TCACACAAGC
* * *
23144600 TGTGAAATGGGCTTTTCTCACATGAGCTGTGGGTCTGAATGTTAGCT-CATGATGCTACTCATAT
1 TGTGAAATGGGCTTTGCTCACATGAGCTGTAGGTCAGAATGTTAGCTACATGATGCTACTCATAT
23144664 GAGT
66 GAGT
* *
23144668 TGTGAAATGGGC-TTGCTCATATGAGCTGTAGGTCAGAATGTTAGCTACATGATGCTGCTCA
1 TGTGAAATGGGCTTTGCTCACATGAGCTGTAGGTCAGAATGTTAGCTACATGATGCTACTCA
23144729 GACGAGATGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 30 0.55
68 25 0.45
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (69 bp):
TGTGAAATGGGCTTTGCTCACATGAGCTGTAGGTCAGAATGTTAGCTACATGATGCTACTCATAT
GAGT
Found at i:23146683 original size:17 final size:17
Alignment explanation
Indices: 23146658--23146691 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23146648 CCGTTTCGTC
* *
23146658 TGGCTGTGTGTTACACA
1 TGGCCGTGTGTCACACA
23146675 TGGCCGTGTGTCACACA
1 TGGCCGTGTGTCACACA
23146692 CGATTGAGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (17 bp):
TGGCCGTGTGTCACACA
Found at i:23148708 original size:25 final size:25
Alignment explanation
Indices: 23148680--23148749 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
23148670 CTGTACATGT
23148680 ATGCTCACACGAGCTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAGA
* *
23148705 ATGCTCAGACGAGCTGTGAATTAGA
1 ATGCTCACACGAGCTGTGAATCAGA
23148730 ATGCTCACACGAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
23148750 AATAGGCCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAGA
Found at i:23148769 original size:27 final size:25
Alignment explanation
Indices: 23148680--23148769 Score: 110
Period size: 25 Copynumber: 3.5 Consensus size: 25
23148670 CTGTACATGT
23148680 ATGCTCACACGAGCTGTG-AATCAGA
1 ATGCTCACACGAGCTGTGAAAT-AGA
* *
23148705 ATGCTCAGACGAGCTGTGAATTAGA
1 ATGCTCACACGAGCTGTGAAATAGA
*
23148730 ATGCTCACACGAGCTGTGAAAATAGGC
1 ATGCTCACACGAGCTGTG-AAATA-GA
*
23148757 CTGCTCACACGAG
1 ATGCTCACACGAG
23148770 TTCTGGGTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
25 37 0.66
26 6 0.11
27 13 0.23
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAAATAGA
Found at i:23155119 original size:48 final size:46
Alignment explanation
Indices: 23154988--23155199 Score: 173
Period size: 46 Copynumber: 4.5 Consensus size: 46
23154978 GATATGTGCT
* *
23154988 AGTGTAAGACATGTTTGGGACATGCATCGACC---ACATATTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATA-T-A-AGCC
* * * *
23155034 AGTGTAAGACATGTTTGGGACATGTATATG-CCCTGAGATATACCAGCC
1 AGTGTAAGACATGTCTGGGACATGCAT-CGACCTTGAGATATA--AGCC
* * * *
23155082 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAA-CT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGA-TATAAGCC
** *
23155128 AGTGTAAGACATGTCTGGGACATGCATCGACCTCAAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATAT--AAGCC
* *
23155176 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
23155200 GCGTCAGTTT
Statistics
Matches: 137, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 64 0.47
47 6 0.04
48 60 0.44
49 6 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCTTGAGATATAAGCC
Found at i:23155149 original size:94 final size:94
Alignment explanation
Indices: 23154988--23155199 Score: 241
Period size: 94 Copynumber: 2.3 Consensus size: 94
23154978 GATATGTGCT
* ** * *
23154988 AGTGTAAGACATGTTTGGGACATGCATCGACCACATATTGAGAGCCAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATAACGAGAACCAGTGTAAGACATGTCTGGG
* * * * *
23155053 ACATGTATATGCCCT-GAGATATACCAGCC
66 ACATGCAT-CGACCTCAAGATATACAAGCC
* *
23155082 AGTGTAAGACATGTCTGGGACATGCATCGA-CA-TTGAGACGAGAACTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACAT-A-ACGAGAACCAGTGTAAGACATGTCTG
*
23155145 GGACATGCATCGACCTCAAGATATACAAGCT
64 GGACATGCATCGACCTCAAGATATACAAGCC
* *
23155176 AGTGTAAGACCTATCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
23155200 GCGTCAGTTT
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
92 1 0.01
93 7 0.07
94 92 0.92
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATAACGAGAACCAGTGTAAGACATGTCTGGG
ACATGCATCGACCTCAAGATATACAAGCC
Found at i:23155279 original size:49 final size:49
Alignment explanation
Indices: 23155220--23155634 Score: 299
Period size: 49 Copynumber: 8.7 Consensus size: 49
23155210 GTTGTGTGTT
* * *
23155220 AGTGTAAGACCTGCT-TGGGACATGGCATCGACACCGATAAATGAGAGCC
1 AGTGTAAGACCTGATCTGGGACATGGCATCGAC-CCGATATATGAAAGCC
* **
23155269 AGTGTAAGACCT-ATCTGGG--A---CA-CG--TCGATATATGAAAGTT
1 AGTGTAAGACCTGATCTGGGACATGGCATCGACCCGATATATGAAAGCC
* * * *
23155309 AGTGTAAGACCTG-TTTGGGACATGGCATCGGCACTGATAGAT-AAGAGCC
1 AGTGTAAGACCTGATCTGGGACATGGCATCGAC-CCGATATATGAA-AGCC
* * * ***
23155358 AGTGTAAGAACT-ATCTGGGACACGGCATCGGCCTCGATATATGAAATTT
1 AGTGTAAGACCTGATCTGGGACATGGCATCGACC-CGATATATGAAAGCC
* * * *
23155407 AGTGTAAGACCTG-TCTAGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGATCTGGGACATGGCATCGAC-CCGATATATGAAAGCC
* *** * *
23155456 AGTGTAAGACTTG-TCTGGGACACAACATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGATCTGGGACATGGCATCGACC-CGATATATGAAAGCC
** * * * * *
23155505 AGCATAAGACATG-TCTGGGACATGGCATCGACACTGATAGATGAGAGCT
1 AGTGTAAGACCTGATCTGGGACATGGCATCGAC-CCGATATATGAAAGCC
* * *
23155554 AGTGTAAAACCT-ATCTGGGACACGGCATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGATCTGGGACATGGCATCGACC-CGATATATGAAAGCC
*
23155603 AGTGTAAGACCT-ATCTGGGACATGACATCGAC
1 AGTGTAAGACCTGATCTGGGACATGGCATCGAC
23155635 TTGATGTGTT
Statistics
Matches: 280, Mismatches: 65, Indels: 42
0.72 0.17 0.11
Matches are distributed among these distances:
40 28 0.10
42 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 6 0.02
49 232 0.83
50 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGATCTGGGACATGGCATCGACCCGATATATGAAAGCC
Found at i:23155462 original size:98 final size:98
Alignment explanation
Indices: 23155293--23155634 Score: 499
Period size: 98 Copynumber: 3.5 Consensus size: 98
23155283 CTGGGACACG
* * * *
23155293 TCGATATATGAAAGTTAGTGTAAGACCTGTTTGGGACATGGCATCGGCACTGATAGATAAGAGCC
1 TCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
23155358 AGTGTAAGAACTATCTGGGACACGGCATCGGCC
66 AGTGTAAGAACTATCTGGGACACGGCATCGGCC
* * *
23155391 TCGATATATGAAATTTAGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCC
1 TCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
* **
23155456 AGTGTAAG-ACTTGTCTGGGACACAACATCGGCC
66 AGTGTAAGAAC-TATCTGGGACACGGCATCGGCC
** * *
23155489 TCGATATATGAAAGTCAGCATAAGACATGTCTGGGACATGGCATCGACACTGATAGATGAGAGCT
1 TCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
*
23155554 AGTGTAA-AACCTATCTGGGACACGGCATCGACC
66 AGTGTAAGAA-CTATCTGGGACACGGCATCGGCC
* *
23155587 TCGATATATGAAAGTCAGTGTAAGACCTATCTGGGACATGACATCGAC
1 TCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
23155635 TTGATGTGTT
Statistics
Matches: 217, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
97 2 0.01
98 214 0.99
99 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (98 bp):
TCGATATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGAGCC
AGTGTAAGAACTATCTGGGACACGGCATCGGCC
Found at i:23155576 original size:196 final size:187
Alignment explanation
Indices: 23155217--23155634 Score: 561
Period size: 196 Copynumber: 2.2 Consensus size: 187
23155207 TTTGTTGTGT
23155217 GTTAGTGTAAGACCTG-CTTGGGACATGGCATCGACACCGATAAATGAGAGCCAGTGTAAGACCT
1 GTTAGTGTAAGACCTGTC-TGGGACATGGCATCGACACCGATAAATGAGAGCCAGTGTAAGACCT
* ** * * *
23155281 ATCTGGGACACGTCGATATATGAAAGTTAGTGTAAGACCTGTTTGGGACATGGCATCGGCACTGA
65 ATCTGGGACACGTCGATATATGAAAGTCAGCATAAGACATGTCTGGGACATGGCATCGACACTGA
*
23155346 TAGATAAGAGCCAGTGTAAGAACTATCTGGGACACGGCATCGGCCTCGATATATGAAA
130 TAGATAAGAGCCAGTGTAAGAACTATCTGGGACACGGCATCGACCTCGATATATGAAA
* * * * * *
23155404 TTTAGTGTAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCCAGTGTAAGACTTG
1 GTTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAGAGCCAGTGTAAGACCTA
23155469 TCTGGGACACAACATCGGCCTCGATATATGAAAGTCAGCATAAGACATGTCTGGGACATGGCATC
66 TCTGGG-----ACA-C-G--TCGATATATGAAAGTCAGCATAAGACATGTCTGGGACATGGCATC
* *
23155534 GACACTGATAGATGAGAGCTAGTGTAA-AACCTATCTGGGACACGGCATCGACCTCGATATATGA
122 GACACTGATAGATAAGAGCCAGTGTAAGAA-CTATCTGGGACACGGCATCGACCTCGATATATGA
23155598 AA
186 AA
* * *
23155600 GTCAGTGTAAGACCTATCTGGGACATGACATCGAC
1 GTTAGTGTAAGACCTGTCTGGGACATGGCATCGAC
23155635 TTGATGTGTT
Statistics
Matches: 200, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
187 63 0.31
188 1 0.00
192 3 0.01
193 1 0.00
194 1 0.00
195 2 0.01
196 129 0.64
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (187 bp):
GTTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAGAGCCAGTGTAAGACCTA
TCTGGGACACGTCGATATATGAAAGTCAGCATAAGACATGTCTGGGACATGGCATCGACACTGAT
AGATAAGAGCCAGTGTAAGAACTATCTGGGACACGGCATCGACCTCGATATATGAAA
Found at i:23158436 original size:24 final size:24
Alignment explanation
Indices: 23158404--23158461 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
23158394 CTGATGAGTG
*
23158404 TCCCGTTATAAGCCTTC-TCGAGCT
1 TCCCGTTATAAG-CTTCAGCGAGCT
* *
23158428 TCCCGTTATATGGTTCAGCGAGCT
1 TCCCGTTATAAGCTTCAGCGAGCT
23158452 TCCCGTTATA
1 TCCCGTTATA
23158462 GCTCTTCGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.34
Consensus pattern (24 bp):
TCCCGTTATAAGCTTCAGCGAGCT
Found at i:23158656 original size:24 final size:24
Alignment explanation
Indices: 23158629--23158694 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 24
23158619 TATCTGGAGA
23158629 TTCCCGATATGGTTCTTTGTGAAC
1 TTCCCGATATGGTTCTTTGTGAAC
*
23158653 TTCCTGAT-TAGGTTCTTTGTGAAC
1 TTCCCGATAT-GGTTCTTTGTGAAC
*
23158677 TTCCCGATTATGGCTCTT
1 TTCCCGA-TATGGTTCTT
23158695 ATGAGCTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.75
25 7 0.19
26 1 0.03
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (24 bp):
TTCCCGATATGGTTCTTTGTGAAC
Found at i:23165199 original size:21 final size:20
Alignment explanation
Indices: 23165175--23165213 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23165165 TGAATTGATT
23165175 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
23165196 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
23165214 ATCAACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:23169441 original size:18 final size:18
Alignment explanation
Indices: 23169406--23169443 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
23169396 TAAATGATTA
23169406 ATTTTAAGTATTAGTTGTT
1 ATTTTAAGTATTA-TTGTT
23169425 ATTTATAAGTATT-TTGTT
1 ATTT-TAAGTATTATTGTT
23169443 A
1 A
23169444 AGTGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (18 bp):
ATTTTAAGTATTATTGTT
Found at i:23173141 original size:25 final size:25
Alignment explanation
Indices: 23173104--23173158 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
23173094 TCATGTGAGT
* * *
23173104 ATACCTATTTATAGCTCGCGAGAGC
1 ATACCGATCTATAGCTCGAGAGAGC
*
23173129 ATACCGATCTATAGCTCGAGTGAGC
1 ATACCGATCTATAGCTCGAGAGAGC
23173154 ATACC
1 ATACC
23173159 AATTCACAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (25 bp):
ATACCGATCTATAGCTCGAGAGAGC
Found at i:23182278 original size:40 final size:40
Alignment explanation
Indices: 23182218--23182401 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
23182208 CATTCGAATG
*
23182218 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
23182258 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
23182298 ATATCCGGGCTAAGACCCGAAAGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
23182338 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
*
23182378 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
23182402 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 118 0.95
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:23189904 original size:22 final size:22
Alignment explanation
Indices: 23189873--23189919 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23189863 TTTCCATGGA
23189873 AAATTAGAAAAAGAAAAGGACT
1 AAATTAGAAAAAGAAAAGGACT
* ** *
23189895 AAATTGGAAAGTGAAAAGGATT
1 AAATTAGAAAAAGAAAAGGACT
23189917 AAA
1 AAA
23189920 AGATGATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.17
Consensus pattern (22 bp):
AAATTAGAAAAAGAAAAGGACT
Found at i:23191100 original size:23 final size:23
Alignment explanation
Indices: 23191064--23191144 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
23191054 TTGCTTTTTG
**
23191064 TGAGCTTCTTGATA-GGCTCTTCA
1 TGAGCTTCCCGATATGGCTCTT-A
* *
23191087 TGAGCTTCCCGATATGGTTCTTTG
1 TGAGCTTCCCGATATGGCTC-TTA
*
23191111 TGAACTTCCCGATTATGGCTCTTA
1 TGAGCTTCCCGA-TATGGCTCTTA
23191135 TGAGCTTCCC
1 TGAGCTTCCC
23191145 ATTATATAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
23 12 0.26
24 26 0.55
25 9 0.19
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (23 bp):
TGAGCTTCCCGATATGGCTCTTA
Found at i:23191142 original size:24 final size:24
Alignment explanation
Indices: 23191078--23191149 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
23191068 CTTCTTGATA
23191078 GGCTCTTCATGAGCTTCCCGA-TAT
1 GGCTCTT-ATGAGCTTCCCGATTAT
* * *
23191102 GGTTCTTTGTGAACTTCCCGATTAT
1 GGCTC-TTATGAGCTTCCCGATTAT
23191127 GGCTCTTATGAGCTTCCC-ATTAT
1 GGCTCTTATGAGCTTCCCGATTAT
23191150 ATAGCCTGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
23 5 0.12
24 26 0.65
25 9 0.22
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (24 bp):
GGCTCTTATGAGCTTCCCGATTAT
Found at i:23191191 original size:23 final size:24
Alignment explanation
Indices: 23191162--23191216 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
23191152 AGCCTGGGTA
*
23191162 AGCTTCCTGAAA-GGCTCTTTATG
1 AGCTTCCTGAAATGGCTCTGTATG
*
23191185 AGCTTCCTGAAATGGCTCTGTGTG
1 AGCTTCCTGAAATGGCTCTGTATG
23191209 AGCTTCCT
1 AGCTTCCT
23191217 ATTACAAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 12 0.41
24 17 0.59
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (24 bp):
AGCTTCCTGAAATGGCTCTGTATG
Found at i:23191213 original size:47 final size:47
Alignment explanation
Indices: 23191062--23191216 Score: 134
Period size: 47 Copynumber: 3.3 Consensus size: 47
23191052 CATTGCTTTT
* * * * * *
23191062 TGTGAGCTTCTTGATAGGCTCTTCATGAGCTTCCCGATATGGTTCTT
1 TGTGAGCTTCCTGAAAGGCTCTTTATGAGCTTCCTGATATGGCTCTG
* * * * *
23191109 TGTGAACTTCCCGATTATGGCTC-TTATGAGCTTCCCATTATATAGC-CTG
1 TGTGAGCTTCCTGA--AAGGCTCTTTATGAGCTT-CC-TGATATGGCTCTG
* * *
23191158 GGTAAGCTTCCTGAAAGGCTCTTTATGAGCTTCCTGAAATGGCTCTG
1 TGTGAGCTTCCTGAAAGGCTCTTTATGAGCTTCCTGATATGGCTCTG
23191205 TGTGAGCTTCCT
1 TGTGAGCTTCCT
23191217 ATTACAAGAC
Statistics
Matches: 81, Mismatches: 21, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
46 6 0.07
47 32 0.40
48 19 0.23
49 19 0.23
50 5 0.06
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (47 bp):
TGTGAGCTTCCTGAAAGGCTCTTTATGAGCTTCCTGATATGGCTCTG
Found at i:23193078 original size:27 final size:28
Alignment explanation
Indices: 23193039--23193120 Score: 114
Period size: 27 Copynumber: 3.0 Consensus size: 28
23193029 TGAACACGCT
*
23193039 TGAAAATGGAAGCCTTTATGGCAATCTA
1 TGAAAATGGAAGCCTTTGTGGCAATCTA
* *
23193067 -GAAAATGGAAGCCTTTGGGGAAATCTA
1 TGAAAATGGAAGCCTTTGTGGCAATCTA
*
23193094 TG-AAATGGAAGCCTTTGTGGCGATCTA
1 TGAAAATGGAAGCCTTTGTGGCAATCTA
23193121 ACAACAGGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 46 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (28 bp):
TGAAAATGGAAGCCTTTGTGGCAATCTA
Found at i:23193416 original size:85 final size:86
Alignment explanation
Indices: 23193232--23193453 Score: 315
Period size: 85 Copynumber: 2.6 Consensus size: 86
23193222 GCGGACCTTG
* * *
23193232 AAAGAAAGAAATGATATT-TCTGACGAACTCTAAAGGGATAGTATGAATGGCAAACTATGAAGGA
1 AAAGAAAGAAATGGTATTCT-TGACGAACTCTGAAGGGATAGTATGAATGGCAAACTATGAAAGA
23193296 AACACCTTTGTGGTAAACCCTA
65 AACACCTTTGTGGTAAACCCTA
*
23193318 AAAGAAAGAAATGGTATTCTTGACGAACTCTGAAGGGATAGTATGAATGG-AAACTCTGAAAGAA
1 AAAGAAAGAAATGGTATTCTTGACGAACTCTGAAGGGATAGTATGAATGGCAAACTATGAAAGAA
* **
23193382 ACACCTTTGTGGTAGATTCTA
66 ACACCTTTGTGGTAAACCCTA
* * *
23193403 AAGGAAAGCAATGGTA-TCATTGACGAACTCTGAAAGGATAGTATGAATGGC
1 AAAGAAAGAAATGGTATTC-TTGACGAACTCTGAAGGGATAGTATGAATGGC
23193454 GAAGTCTAAA
Statistics
Matches: 123, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
84 2 0.02
85 74 0.60
86 46 0.37
87 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (86 bp):
AAAGAAAGAAATGGTATTCTTGACGAACTCTGAAGGGATAGTATGAATGGCAAACTATGAAAGAA
ACACCTTTGTGGTAAACCCTA
Found at i:23203139 original size:14 final size:14
Alignment explanation
Indices: 23203101--23203141 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
23203091 TATATATTTT
23203101 TAATTTTTTAA-TA
1 TAATTTTTTAATTA
23203114 TAATTTTCTTAATTA
1 TAATTTT-TTAATTA
23203129 T-ATATTTTTAATT
1 TAAT-TTTTTAATT
23203142 TTTAATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.28
14 12 0.48
15 6 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TAATTTTTTAATTA
Found at i:23203342 original size:19 final size:21
Alignment explanation
Indices: 23203315--23203353 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
23203305 TGGTAATTTC
23203315 AAAAAAAAT-AT-AATTTTAT
1 AAAAAAAATCATGAATTTTAT
*
23203334 AAAATAAATCATGAATTTTA
1 AAAAAAAATCATGAATTTTA
23203354 AGAGAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 2 0.12
21 7 0.41
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (21 bp):
AAAAAAAATCATGAATTTTAT
Found at i:23203460 original size:22 final size:23
Alignment explanation
Indices: 23203410--23203460 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
23203400 AGTAGTAAAA
*
23203410 TAATATTTTAGTTATAATTATAT
1 TAATATTTTACTTATAATTATAT
*
23203433 T-TTATTTTACTTATATATT-T-T
1 TAATATTTTACTTATA-ATTATAT
23203454 TAATATT
1 TAATATT
23203461 ATATTCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
21 2 0.09
22 17 0.74
23 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TAATATTTTACTTATAATTATAT
Found at i:23205226 original size:19 final size:19
Alignment explanation
Indices: 23205202--23205242 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
23205192 CGTATACCTA
23205202 AATAAAGAAGATGGAATAC
1 AATAAAGAAGATGGAATAC
*
23205221 AATAAAGAAGGTGGAATAC
1 AATAAAGAAGATGGAATAC
23205240 AAT
1 AAT
23205243 TGATATTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.05, G:0.22, T:0.17
Consensus pattern (19 bp):
AATAAAGAAGATGGAATAC
Found at i:23212868 original size:27 final size:27
Alignment explanation
Indices: 23212836--23212909 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
23212826 TTCCACACGA
*
23212836 CTTCCATTTCTTAAATCACCATAAAGG
1 CTTCCATTTCTTAAATCACCAAAAAGG
** *
23212863 CTTCCATTTCTTTTATCACTAAAAAGG
1 CTTCCATTTCTTAAATCACCAAAAAGG
* **
23212890 TTTTAATTTCTTAAATCACC
1 CTTCCATTTCTTAAATCACC
23212910 TTTAGGGTCT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (27 bp):
CTTCCATTTCTTAAATCACCAAAAAGG
Found at i:23213749 original size:28 final size:28
Alignment explanation
Indices: 23213718--23213816 Score: 180
Period size: 28 Copynumber: 3.5 Consensus size: 28
23213708 AAAACTCAAA
* *
23213718 CAAATAACCTTTACAATCATTTCAAACC
1 CAAATAACCTCTATAATCATTTCAAACC
23213746 CAAATAACCTCTATAATCATTTCAAACC
1 CAAATAACCTCTATAATCATTTCAAACC
23213774 CAAATAACCTCTATAATCATTTCAAACC
1 CAAATAACCTCTATAATCATTTCAAACC
23213802 CAAATAACCTCTATA
1 CAAATAACCTCTATA
23213817 CAAGGCCTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.28
Consensus pattern (28 bp):
CAAATAACCTCTATAATCATTTCAAACC
Found at i:23217308 original size:27 final size:27
Alignment explanation
Indices: 23217155--23217298 Score: 193
Period size: 27 Copynumber: 5.3 Consensus size: 27
23217145 TTAGTTTACC
* * *
23217155 AAATTACCAAAATA-CCCTCAATTAGAA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * *
23217182 AAATTACCAAAATACCCTTGATTAGCA
1 AAATTACCAAAATACCCCTGATTTGTA
23217209 AAATTACCAAAATACCCCT-ACTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
23217236 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
23217263 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
23217290 AAATTACCA
1 AAATTACCA
23217299 TTTTACCCCT
Statistics
Matches: 106, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.01
27 102 0.96
28 3 0.03
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:23217843 original size:31 final size:31
Alignment explanation
Indices: 23217808--23217911 Score: 154
Period size: 31 Copynumber: 3.4 Consensus size: 31
23217798 TTGCATTCAC
* * * * *
23217808 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
*
23217839 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
23217870 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTCTAATTCTGTCACCTGATTCTG
23217901 ATTCTGATTCT
1 ATTCTGATTCT
23217912 CATTTTGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTGATTCTG
Found at i:23217873 original size:6 final size:6
Alignment explanation
Indices: 23217808--23217932 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
23217798 TTGCATTCAC
* * * *
23217808 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
23217857 -TCACCTA ATTCTG ATTCTG ATTCTA ATTCTG -TCACCTG ATTCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
23217907 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
23217933 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 71 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:23219501 original size:39 final size:39
Alignment explanation
Indices: 23219457--23219533 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
23219447 TAGGTGAATT
23219457 CCTCTCCACTCAACATATTTCTAACATATACACCAGACA
1 CCTCTCCACTCAACATATTTCTAACATATACACCAGACA
23219496 CCTCTCCACTCAACATATTTCTAACATATACACCAGAC
1 CCTCTCCACTCAACATATTTCTAACATATACACCAGAC
23219534 CTTGTGCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.36, G:0.03, T:0.26
Consensus pattern (39 bp):
CCTCTCCACTCAACATATTTCTAACATATACACCAGACA
Found at i:23223171 original size:41 final size:41
Alignment explanation
Indices: 23223114--23223236 Score: 158
Period size: 41 Copynumber: 3.0 Consensus size: 41
23223104 TAAAAGCCAC
* * *
23223114 CGGTGGATCCACGGTCGTCTAGTAACCATGTGATCCTTAAT
1 CGGTGGATCCACGGTCGTCTAGCAACCATGCGATCCTCAAT
* *
23223155 CGGTGGATCCATGGTCGT-TAAGCAACCATGCGATTCTCAAT
1 CGGTGGATCCACGGTCGTCT-AGCAACCATGCGATCCTCAAT
* * *
23223196 CGGTGGATCTACAGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTCTAGCAACCATGCGATCCTCAAT
23223237 TTCTTCCTCT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.01
41 69 0.99
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTCTAGCAACCATGCGATCCTCAAT
Found at i:23223525 original size:27 final size:27
Alignment explanation
Indices: 23223475--23224005 Score: 478
Period size: 27 Copynumber: 19.7 Consensus size: 27
23223465 TTTCACCCTA
* * * *
23223475 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
23223502 CAAGGGTATTTCGATAATTTTACAAAA
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
23223529 CAATGGTATTTCT-GTATTTTTA-AAAGT
1 CAAGGGTATTT-TGGTAATTTTACAAA-T
* *
23223556 CAAGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
23223583 CAAGAGTATTTTGATAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
23223610 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * * *
23223637 CTAGGGTATATCGATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * * **
23223664 TGAGGGTATTTCGATAATTTTATAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
23223691 CAAGGGTATTTTGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
23223718 CATGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
23223745 CATGAGTATTTTGGTAA-TTTACTAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
23223771 CGAGGGTATTTTGGTAATTTTACTAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
23223798 CGAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
23223825 CGAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * * *
23223852 TGAGCGTGTTTCGGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
23223879 CGGGGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
23223906 CAAGGGTATTTTAGTAATTTCAC-AAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
23223932 CGAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
23223959 C-GGGAGTGTTTTCGTAATTTTACAAAT
1 CAAGG-GTATTTTGGTAATTTTACAAAT
* *
23223986 CGAGGGTATTTTAGTAATTT
1 CAAGGGTATTTTGGTAATTT
23224006 CTCTTTATTA
Statistics
Matches: 416, Mismatches: 80, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
26 51 0.12
27 360 0.87
28 5 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:23223845 original size:161 final size:159
Alignment explanation
Indices: 23223495--23224005 Score: 542
Period size: 161 Copynumber: 3.2 Consensus size: 159
23223485 TTGGTAAATC
* * * * * * * *
23223495 TACAAACCAAGGGTATTTCGATAATTTTACAAAACAATG-GTATTTCTGTATTTTTA-AAAGTCA
1 TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAA-GCGTATTTCGGTAATTTCACAAA-TCA
* * * * * **
23223558 AGGGTATTTTTGTAATTTTCCAAATCAAGAGTATTTTGATAATTTTCCAAATTAGGGGTATTTTG
64 GGGGTATTTTAGTAATTTTACAAATCAAGAGTATTTTGGTAA-TTTACAAACGA-GGGTATTTTG
* *
23223623 GTAATTTTACAAATCTAGGGTATATCGATAATTT
127 GTAATTTTACAAATCGAGGGTATTTCG-TAATTT
* * * * * ** * * *
23223657 TACAAGTTGAGGGTATTTCGATAATTTTATAGGTCAAGGGTATTTTGGTAATTTCACAAATCATG
1 TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGCGTATTTCGGTAATTTCACAAATCAGG
* * * *
23223722 GGTATTTTGGTAATTTTACAAACCATGAGTATTTTGGTAATTTACTAACCGAGGGTATTTTGGTA
66 GGTATTTTAGTAATTTTACAAATCAAGAGTATTTTGGTAATTTAC-AAACGAGGGTATTTTGGTA
*
23223787 ATTTTACTAATCGAGGGTATTTCAGTAATTT
130 ATTTTACAAATCGAGGGTATTTC-GTAATTT
** * *
23223818 TACAAATCGAGGGTATTTTGGTAATTTTACAAATTGAGCGTGTTTCGGTAATTTCACAAATCGGG
1 TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGCGTATTTCGGTAATTTCACAAATCAGG
* * *
23223883 GGTATTTTAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTCACAATCGAGGGTATTTTGGTA
66 GGTATTTTAGTAATTTTACAAATCAAGAGTATTTTGGTAATTT-ACAAACGAGGGTATTTTGGTA
*
23223948 ATTTTACAAATCG-GGAGTGTTTTCGTAATTT
130 ATTTTACAAATCGAGG-GT-ATTTCGTAATTT
*
23223979 TACAAATCGAGGGTATTTTAGTAATTT
1 TACAAATCGAGGGTATTTTGGTAATTT
23224006 CTCTTTATTA
Statistics
Matches: 294, Mismatches: 48, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
160 2 0.01
161 198 0.67
162 91 0.31
163 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (159 bp):
TACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGCGTATTTCGGTAATTTCACAAATCAGG
GGTATTTTAGTAATTTTACAAATCAAGAGTATTTTGGTAATTTACAAACGAGGGTATTTTGGTAA
TTTTACAAATCGAGGGTATTTCGTAATTT
Found at i:23227433 original size:41 final size:40
Alignment explanation
Indices: 23227312--23227433 Score: 138
Period size: 41 Copynumber: 3.0 Consensus size: 40
23227302 AAAGCCACCA
* * * * * *
23227312 GTGGATCCACGGTCCTCTAGCAACCACGCGATCCTTAATCG
1 GTGGAT-CACAGTCGTCAAGCAACCATGCGATCCTCAATTG
*
23227353 GTGGATC-CATGATCGTCAAGCAACCATGAGATCCTCAATTG
1 GTGGATCACA-G-TCGTCAAGCAACCATGCGATCCTCAATTG
23227394 GTGGATACACAGTCGTCAAGCAACCATGCGATCCTCAATT
1 GTGGAT-CACAGTCGTCAAGCAACCATGCGATCCTCAATT
23227434 TCTTCATCCG
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
39 1 0.01
40 2 0.03
41 62 0.90
42 2 0.03
43 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GTGGATCACAGTCGTCAAGCAACCATGCGATCCTCAATTG
Found at i:23227722 original size:27 final size:27
Alignment explanation
Indices: 23227690--23228174 Score: 371
Period size: 27 Copynumber: 18.0 Consensus size: 27
23227680 TTGGTAAATC
**
23227690 TACAAATTAAGGGTATTTCAGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
* * * * * *
23227717 TGCAAACCAATGGTATTTCTGTATTTT
1 TACAAATCGAGGGTATTTCAGTAATTT
* * **
23227744 TGA-AAGTCAAGGGTATTTTTGTAATTT
1 T-ACAAATCGAGGGTATTTCAGTAATTT
* * *
23227771 TATAAAT-TAGGGGTATTTTTA-TAATTT
1 TACAAATCGA-GGGTA-TTTCAGTAATTT
* *
23227798 T-CTAAATCAAGAGTATTTC-GATAATTT
1 TAC-AAATCGAGGGTATTTCAG-TAATTT
* * **
23227825 TCCAAATCGAGCGTATTTTTGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
* *
23227852 TACAAGTCGAGGGTATTTC-GATAGTTT
1 TACAAATCGAGGGTATTTCAG-TAATTT
**
23227879 TACATGTCGAGGGTATTTCAGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
* **
23227906 CACAAATC-AGGAGTATTTTGGTAATTT
1 TACAAATCGAGG-GTATTTCAGTAATTT
* **
23227933 TACTAA-CAGAGGGTATTTTGGTAATTT
1 TACAAATC-GAGGGTATTTCAGTAATTT
*
23227960 TACAAATTGA-GGTATTTCAGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
*
23227986 TGCAAATCGAGGGTATTTCAGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
*
23228013 TACAAATCGAGGGTGTTTC-GATAATTT
1 TACAAATCGAGGGTATTTCAG-TAATTT
* * * *
23228040 CACAAATTGGGGGTATTTTAGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
*
23228067 TACAAATCGAGGGTATTTCAATAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
* * **
23228094 CAC-AATTGAGGGTATTTTGGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
* * *
23228120 TACAAATCGAGAGTTTTGTCCGTAATTT
1 TACAAATCGAGGGTATT-TCAGTAATTT
* *
23228148 TACAAATCAAGGGTATTTTAGTAATTT
1 TACAAATCGAGGGTATTTCAGTAATTT
23228175 CTCTTTATTA
Statistics
Matches: 367, Mismatches: 70, Indels: 42
0.77 0.15 0.09
Matches are distributed among these distances:
26 54 0.15
27 279 0.76
28 34 0.09
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
TACAAATCGAGGGTATTTCAGTAATTT
Found at i:23228535 original size:28 final size:28
Alignment explanation
Indices: 23228504--23228582 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
23228494 CCCAATGTCG
*
23228504 TTCACATGGCCCATCAAGCCCAATCACA
1 TTCATATGGCCCATCAAGCCCAATCACA
* * *
23228532 TTCATATGGCCTATTAGGCCCAATCACA
1 TTCATATGGCCCATCAAGCCCAATCACA
23228560 TTCATATGGCCCATCAAGCCCAA
1 TTCATATGGCCCATCAAGCCCAA
23228583 CTACTTCCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (28 bp):
TTCATATGGCCCATCAAGCCCAATCACA
Found at i:23232651 original size:16 final size:16
Alignment explanation
Indices: 23232632--23232662 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23232622 CTTCTTCACT
23232632 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
23232648 TACTTACTTACTTAA
1 TACTCACTTACTTAA
23232663 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:23232668 original size:20 final size:20
Alignment explanation
Indices: 23232629--23232668 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23232619 AAACTTCTTC
* *
23232629 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
23232649 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
23232669 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:23232975 original size:53 final size:54
Alignment explanation
Indices: 23232898--23233106 Score: 237
Period size: 55 Copynumber: 3.9 Consensus size: 54
23232888 TACGTTGTAT
* * *
23232898 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTGTCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCCTTG
* * *
23232952 CCTTATG-AACTTACCAATGCCATGCCTTGGCATGGTATTACATGG-GACCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCC-TTG
* * * * *
23233005 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCCTTG
*
23233060 CCTTA-GAAACCTTACCAATTGCCATACCTT-AGCATGGTCTTACATGG
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGG
23233107 GATCCTTAAA
Statistics
Matches: 130, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
52 3 0.02
53 46 0.35
54 15 0.12
55 64 0.49
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCCTTG
Found at i:23233042 original size:108 final size:111
Alignment explanation
Indices: 23232906--23233113 Score: 316
Period size: 108 Copynumber: 1.9 Consensus size: 111
23232896 ATCCTTTTGA
* *
23232906 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTGTCCTTGCCTTATG-AA-CTTACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTA-GAAACCTTACCAA
* *
23232969 -TGCCATGCCTTGGCATGGTATTACATGGGA-CCTTTGCCTTATAGT
65 TTGCCATACCTTAGCATGGTATTACATGGGATCCTTTGCCTTATAGT
* *
23233014 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTAGAAACCTTACCAAT
*
23233079 TGCCATACCTTAGCATGGTCTTACATGGGATCCTT
66 TGCCATACCTTAGCATGGTATTACATGGGATCCTT
23233114 AAACCCTAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
107 1 0.01
108 49 0.55
109 8 0.09
110 27 0.30
111 4 0.04
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (111 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTAGAAACCTTACCAAT
TGCCATACCTTAGCATGGTATTACATGGGATCCTTTGCCTTATAGT
Found at i:23233113 original size:55 final size:53
Alignment explanation
Indices: 23232859--23233113 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
23232849 ACGCGGGTGC
* * * * * *
23232859 CTTACCATTGCCATGACTTGTCATGGTCTTACGTTGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAGAAA
* *
23232908 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTG-TCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGG-GATCCTTGCCTTA-GAAA
* * *
23232961 CTTACCAATGCCATGCCTTGGCATGGTATTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATCC-TTGCC-T-TAGAAA
* * ***
23233016 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAGAAA
*
23233069 CCTTACCAATTGCCATACCTT-AGCATGGTCTTACATGGGATCCTT
1 -CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGGATCCTT
23233114 AAACCCTAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 37 0.22
52 5 0.03
53 44 0.26
54 12 0.07
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTAGAAA
Found at i:23254219 original size:30 final size:30
Alignment explanation
Indices: 23254161--23254219 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
23254151 ATTTTCAGGC
* **
23254161 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTCCCAAAGT
23254191 CTAGGGGCAAAATGGTCATTTTCCCAAAG
1 CTAGGGGCAAAATGGTCATTTTCCCAAAG
23254220 ATATGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTCCCAAAGT
Found at i:23254701 original size:46 final size:44
Alignment explanation
Indices: 23254558--23254725 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 44
23254548 ATTGTGAGCT
* * * *
23254558 AGTGTAAGACATGTCTGGGACATGCACCGGGCA-CATTATGAGAG-CC
1 AGTGTAAGACATGTTTGGGACATGCATC-GGCATCA--A-GACAGTGC
* *
23254604 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAGTGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCATCAAGACAGTGC
* *
23254650 TAGTGTAAGACATGTTTGAGACATGCATCGGCCTCAAGACA-TAAGTC
1 -AGTGTAAGACATGTTTGGGACATGCATCGGCATCAAGACAGT--G-C
23254697 AGTGTAAGACATGTTTGGGACATGCATCG
1 AGTGTAAGACATGTTTGGGACATGCATCG
23254726 ACTACGAGAT
Statistics
Matches: 105, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
44 1 0.01
45 19 0.18
46 52 0.50
47 28 0.27
48 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCATCAAGACAGTGC
Found at i:23261323 original size:20 final size:20
Alignment explanation
Indices: 23261298--23261343 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
23261288 GACCCACAAG
23261298 GGCCCAGAATATGGGTTATA
1 GGCCCAGAATATGGGTTATA
*
23261318 GGCCCAGAATATGGGTTGTA
1 GGCCCAGAATATGGGTTATA
23261338 GGCCCA
1 GGCCCA
23261344 TTATCACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.22
Consensus pattern (20 bp):
GGCCCAGAATATGGGTTATA
Found at i:23261782 original size:34 final size:34
Alignment explanation
Indices: 23261744--23261815 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
23261734 CATACTGTAC
* *
23261744 TGAAATGGGCTAAGTCCCAAACTGCCACTGTTAA
1 TGAAACGGGCTAAGGCCCAAACTGCCACTGTTAA
* ** * *
23261778 TGAAACGGGCTCAGGCCCAGTCTGCTACTGTTAC
1 TGAAACGGGCTAAGGCCCAAACTGCCACTGTTAA
23261812 TGAA
1 TGAA
23261816 GAAGGGGATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (34 bp):
TGAAACGGGCTAAGGCCCAAACTGCCACTGTTAA
Found at i:23269510 original size:34 final size:34
Alignment explanation
Indices: 23269467--23269557 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 34
23269457 GTGCATACTG
23269467 TACTGAAATGGGCTAAGGCCCAGACTACCACTAT
1 TACTGAAATGGGCTAAGGCCCAGACTACCACTAT
*** * * * *
23269501 TACTGAAATGAATTTAGGCCCAGACTGCTACTGT
1 TACTGAAATGGGCTAAGGCCCAGACTACCACTAT
*
23269535 TACTGAAAGAGGGGCTAAGGCCC
1 TACTG-AA-ATGGGCTAAGGCCC
23269558 CTAACTAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
34 32 0.74
35 2 0.05
36 9 0.21
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (34 bp):
TACTGAAATGGGCTAAGGCCCAGACTACCACTAT
Found at i:23271328 original size:14 final size:15
Alignment explanation
Indices: 23271303--23271333 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
23271293 TTGGAATATC
23271303 AAAACATGAATTAAG
1 AAAACATGAATTAAG
23271318 AAAACAT-AATTAAG
1 AAAACATGAATTAAG
23271332 AA
1 AA
23271334 CTAGTCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
AAAACATGAATTAAG
Found at i:23280899 original size:13 final size:13
Alignment explanation
Indices: 23280883--23280922 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
23280873 GAAATAACCG
*
23280883 AAATTAATAATAA
1 AAATTAAAAATAA
*
23280896 AAATAAAAAATAA
1 AAATTAAAAATAA
*
23280909 AAAATAAAAATAA
1 AAATTAAAAATAA
23280922 A
1 A
23280923 CTTTCTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATTAAAAATAA
Found at i:23280906 original size:7 final size:7
Alignment explanation
Indices: 23280894--23280922 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23280884 AATTAATAAT
23280894 AAAAATA
1 AAAAATA
23280901 AAAAATA
1 AAAAATA
23280908 AAAAAT-
1 AAAAATA
23280914 AAAAATA
1 AAAAATA
23280921 AA
1 AA
23280923 CTTTCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:23285486 original size:40 final size:40
Alignment explanation
Indices: 23285440--23285664 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
23285430 CTTGCGCAAG
* * *
23285440 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
23285480 GCCTTCGGGACTTAGCCCGGATATTGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * *
23285520 GCCCTGGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
23285560 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
23285600 GCCTTCGGATCTTAGTCC-GATTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGA-TATAGTCA-CTAGCACAAAT
* *
23285641 GCCTTCGGGACTTAGCCTGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
23285665 CATTCGAATA
Statistics
Matches: 153, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.02
40 122 0.80
41 26 0.17
42 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:23285655 original size:41 final size:40
Alignment explanation
Indices: 23285404--23285664 Score: 194
Period size: 40 Copynumber: 6.5 Consensus size: 40
23285394 ATCAAGTAAT
* * * * * *
23285404 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * * *
23285442 CTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* *
23285482 CTTCGGGACTTAGCCCGGATATTGTC-GCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
* * ** * *
23285522 CCTGGGGTTTTAGCCCGGATATAATC-GCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAT-AGCAACTAGCACAAATGC
* * *
23285562 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * *
23285602 CTTC-GGATCTTAGTCC-GATTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGA-TATAG-CAACTAGCACAAATGC
*
23285643 CTTCGGGACTTAGCCTGGATAT
1 CTTCGGGACTTAGCCCGGATAT
23285665 CATTCGAATA
Statistics
Matches: 178, Mismatches: 35, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
38 11 0.06
39 18 0.10
40 119 0.67
41 25 0.14
42 5 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:23295175 original size:55 final size:54
Alignment explanation
Indices: 23295080--23295229 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
23295070 CTACTTTGTT
* ** * *
23295080 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
23295134 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
23295189 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
23295230 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:23295192 original size:27 final size:27
Alignment explanation
Indices: 23295052--23295229 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
23295042 TAAATTGTAC
23295052 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
23295079 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
23295105 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
23295133 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
23295161 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
23295188 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
23295215 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23295230 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:23295193 original size:82 final size:81
Alignment explanation
Indices: 23295053--23295208 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
23295043 AAATTGTACA
* * * *
23295053 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
23295118 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
23295134 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
23295197 TGTGCGAGTTGA
63 TGTGCGAATTGA
23295209 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:23303178 original size:55 final size:54
Alignment explanation
Indices: 23303083--23303232 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
23303073 CTACTTTGTT
* ** * *
23303083 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
23303137 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
23303192 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
23303233 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:23303195 original size:27 final size:27
Alignment explanation
Indices: 23303055--23303232 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
23303045 TAAATTGTAC
23303055 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
23303082 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
23303108 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
23303136 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
23303164 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
23303191 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
23303218 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23303233 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:23303196 original size:82 final size:81
Alignment explanation
Indices: 23303056--23303211 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
23303046 AAATTGTACA
* * * *
23303056 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
23303121 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
23303137 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
23303200 TGTGCGAGTTGA
63 TGTGCGAATTGA
23303212 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:23304907 original size:40 final size:40
Alignment explanation
Indices: 23304851--23305074 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
23304841 CTTGCGCAAG
* * * *
23304851 GCCTTC-GGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
23304890 GCCTTCGGGACTTAGCCCGGATATTGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * *
23304930 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
23304970 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAAT
* * *
23305010 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
23305051 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
23305075 CATTCGAATA
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 9 0.06
40 118 0.75
41 27 0.17
42 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:23304963 original size:80 final size:80
Alignment explanation
Indices: 23304851--23305074 Score: 274
Period size: 80 Copynumber: 2.8 Consensus size: 80
23304841 CTTGCGCAAG
* * * *
23304851 GCCTTC-GGTCTTAGCCCGGATGTGGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
23304915 GTC-GCT-AGCACAAAT
66 G-CAACTCA-CACAAAT
* * * *
23304930 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
*
23304995 GCAACTCACACGAAT
66 GCAACTCACACAAAT
* * * *
23305010 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
23305075 CATTCGAATA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
79 7 0.06
80 82 0.67
81 34 0.28
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
GCAACTCACACAAAT
Found at i:23313745 original size:38 final size:38
Alignment explanation
Indices: 23313700--23313878 Score: 157
Period size: 38 Copynumber: 4.7 Consensus size: 38
23313690 GGCTTAAAGA
*
23313700 CCCGCAGGCTAT-ATGCTGGAATTATATCTGGGTTAAAT
1 CCCGCAGGCT-TCATGCTGGTATTATATCTGGGTTAAAT
* *
23313738 CCCGCAGGCTTCACGTTGGTATTATAT-TCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTATTATATCT-GGGTTAAAT
* * * *
23313776 CCCGTAGGCTTCGTGCTGTTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAAT
* * * *
23313814 CTCGCAGGCCT-ACTGCTGGTATTATATCTAAGTTTAAAGT
1 CCCGCAGGCTTCA-TGCTGGTATTATATCT-GGGTTAAA-T
* * * *
23313854 CCCGTAAGCTTCGTGCTGGTGTTAT
1 CCCGCAGGCTTCATGCTGGTATTAT
23313879 GTTCGGGTTT
Statistics
Matches: 111, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
37 2 0.02
38 84 0.76
39 6 0.05
40 19 0.17
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTGGTATTATATCTGGGTTAAAT
Found at i:23313801 original size:76 final size:78
Alignment explanation
Indices: 23313720--23313871 Score: 202
Period size: 76 Copynumber: 2.0 Consensus size: 78
23313710 ATATGCTGGA
* * * **
23313720 ATTATATCTGGGTTAAATCCCGCAGGCTTCAC-GTTGGTATTATAT-TCGGGTTAAA-TCCCGTA
1 ATTATATCCGGGTTAAATCCCGCAGGCCT-ACTGCTGGTATTATATCTAAGGTTAAAGTCCCGTA
*
23313782 GGCTTCGTGCTGTT
65 AGCTTCGTGCTGTT
* *
23313796 ATTATATCCGGGTTAAATCTCGCAGGCCTACTGCTGGTATTATATCTAAGTTTAAAGTCCCGTAA
1 ATTATATCCGGGTTAAATCCCGCAGGCCTACTGCTGGTATTATATCTAAGGTTAAAGTCCCGTAA
23313861 GCTTCGTGCTG
66 GCTTCGTGCTG
23313872 GTGTTATGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
75 2 0.03
76 38 0.58
77 7 0.11
78 18 0.28
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (78 bp):
ATTATATCCGGGTTAAATCCCGCAGGCCTACTGCTGGTATTATATCTAAGGTTAAAGTCCCGTAA
GCTTCGTGCTGTT
Found at i:23315442 original size:13 final size:13
Alignment explanation
Indices: 23315424--23315449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23315414 TTAGTTTAGC
23315424 TAGTTAATTAGTT
1 TAGTTAATTAGTT
23315437 TAGTTAATTAGTT
1 TAGTTAATTAGTT
23315450 AATAAACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TAGTTAATTAGTT
Found at i:23330773 original size:37 final size:37
Alignment explanation
Indices: 23330720--23330859 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
23330710 CGAATAGTCC
* *
23330720 CCACACATAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
23330757 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
*
23330794 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
*
23330831 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACATAGTCATCGGGTCTTACCCGGA
23330860 ATATATTTCC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:23331059 original size:48 final size:48
Alignment explanation
Indices: 23331000--23331424 Score: 724
Period size: 48 Copynumber: 8.9 Consensus size: 48
23330990 ATATACACAC
*
23331000 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
23331048 ATCTCACACATATTTCACACTAGCCATGCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23331096 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23331144 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23331192 ATCTCAAACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23331240 ATCTCAAACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23331288 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23331336 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
23331384 ATCTCATATATATTTCACATTAGCTATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
23331425 CACATATGTA
Statistics
Matches: 359, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 359 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:23332614 original size:30 final size:30
Alignment explanation
Indices: 23332580--23332647 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
23332570 ACAACTTTTG
23332580 TTTCTCCCCCCATCAACTAGTATTTTATTA
1 TTTCTCCCCCCATCAACTAGTATTTTATTA
23332610 TTTCTCCCCCCATCAACTAGTATTTTATTA
1 TTTCTCCCCCCATCAACTAGTATTTTATTA
23332640 TTTCTCCC
1 TTTCTCCC
23332648 ACAACATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTCTCCCCCCATCAACTAGTATTTTATTA
Found at i:23334133 original size:40 final size:40
Alignment explanation
Indices: 23334089--23334369 Score: 357
Period size: 40 Copynumber: 7.0 Consensus size: 40
23334079 GAATACACAT
* * *
23334089 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
23334129 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATCTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
23334169 CTCTAGCACGAATGCTCTTCGAGACTTAG-CCGAGGTATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCG-GATATAA
* * *
23334209 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
23334249 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGTATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
23334289 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGCTATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATATAA
* *
23334331 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
23334370 TAACTCTCAA
Statistics
Matches: 214, Mismatches: 23, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
39 2 0.01
40 169 0.79
41 3 0.01
42 40 0.19
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:23335704 original size:37 final size:37
Alignment explanation
Indices: 23335651--23335790 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
23335641 CGAATAGTCC
* *
23335651 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
23335688 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
23335725 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
23335762 CCACACGTAGTCATCGTGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
23335791 ATATATTTCC
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:23335990 original size:48 final size:48
Alignment explanation
Indices: 23335931--23336499 Score: 994
Period size: 48 Copynumber: 11.9 Consensus size: 48
23335921 ATATACACAC
*
23335931 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
23335979 ATCTCACACATATTTCACACTAGCCATGCGGCTTTACCACATAGACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23336027 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23336075 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23336123 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23336171 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23336219 ATCTCAAACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
23336267 ATCTCAAACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23336315 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
23336363 ATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
23336411 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
23336459 ATCTCATATATATTTCACATTAGCTATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
23336500 CACATATATA
Statistics
Matches: 501, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 501 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:23337687 original size:30 final size:30
Alignment explanation
Indices: 23337653--23337720 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
23337643 ACAACTTTTG
23337653 TTTCTCCCCCCATCAACTAGTATTTTATTA
1 TTTCTCCCCCCATCAACTAGTATTTTATTA
23337683 TTTCTCCCCCCATCAACTAGTATTTTATTA
1 TTTCTCCCCCCATCAACTAGTATTTTATTA
23337713 TTTCTCCC
1 TTTCTCCC
23337721 ACAACATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTCTCCCCCCATCAACTAGTATTTTATTA
Found at i:23353190 original size:61 final size:61
Alignment explanation
Indices: 23353095--23353216 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
23353085 AGTCAGAGTT
*
23353095 TACTTGCATCTCAAATACCTGGATGTCAGGATCATGGTACCTTCTTCCAAATTATGAATGA
1 TACTTGCATCTCAAATACCTGGATGTAAGGATCATGGTACCTTCTTCCAAATTATGAATGA
23353156 TACTTGCATCTCAAATACCTGGATGTAAGGATCATGGTACCTTCTTCCAAATTATGAATGA
1 TACTTGCATCTCAAATACCTGGATGTAAGGATCATGGTACCTTCTTCCAAATTATGAATGA
23353217 GTGCTTGACT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (61 bp):
TACTTGCATCTCAAATACCTGGATGTAAGGATCATGGTACCTTCTTCCAAATTATGAATGA
Found at i:23354051 original size:18 final size:18
Alignment explanation
Indices: 23353996--23354051 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
23353986 TACATTCTGA
23353996 CAAGCTCCTTCGAAGACT
1 CAAGCTCCTTCGAAGACT
* *
23354014 CAGGCTACTTCCG--G---
1 CAAGCTCCTT-CGAAGACT
23354028 CAAGCTCCTTCGAAGACT
1 CAAGCTCCTTCGAAGACT
23354046 CAAGCT
1 CAAGCT
23354052 ACTTTAGTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
13 2 0.07
14 8 0.29
15 1 0.04
17 1 0.04
18 14 0.50
19 2 0.07
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (18 bp):
CAAGCTCCTTCGAAGACT
Found at i:23366166 original size:31 final size:27
Alignment explanation
Indices: 23366128--23366206 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 27
23366118 TCCAATGATT
23366128 GCCACAAAGGTGTCATTTTTATTAAGTACTC
1 GCCACAAAGGTGTC-TTTTTA-TAA-T-CTC
* *
23366159 GCCACAAAGGCTTTCCTTTTATAATCTC
1 GCCACAAAGG-TGTCTTTTTATAATCTC
*
23366187 GCCACAAAGGTGTCCTTTTA
1 GCCACAAAGGTGTCTTTTTA
23366207 AAGGTTTTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
27 9 0.20
28 13 0.30
29 1 0.02
30 3 0.07
31 15 0.34
32 3 0.07
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (27 bp):
GCCACAAAGGTGTCTTTTTATAATCTC
Found at i:23366457 original size:54 final size:54
Alignment explanation
Indices: 23366372--23366479 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
23366362 CTTTTTAAAA
* * * *
23366372 TTTTTCCATATGATGCCATAACCTACTAGTTACGGTCTTACATGATATAGTCTT
1 TTTTTCCATATGATGCCATAACCCACCAGTTACGATCTTACACGATATAGTCTT
* *
23366426 TTTTTCCATATGATGCCATAACCCACCAGTTATGATCTTACACGATATGGTCTT
1 TTTTTCCATATGATGCCATAACCCACCAGTTACGATCTTACACGATATAGTCTT
23366480 CTTTAGAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (54 bp):
TTTTTCCATATGATGCCATAACCCACCAGTTACGATCTTACACGATATAGTCTT
Found at i:23377291 original size:18 final size:18
Alignment explanation
Indices: 23377254--23377292 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23377244 TAAAAATAAT
*
23377254 AATAAATAAAAGTAAGGA
1 AATAAATAAAAGTAAAGA
23377272 AATAAATAAAA-TACAAGA
1 AATAAATAAAAGTA-AAGA
23377290 AAT
1 AAT
23377293 CAAAGAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (18 bp):
AATAAATAAAAGTAAAGA
Found at i:23385409 original size:7 final size:7
Alignment explanation
Indices: 23385397--23385586 Score: 102
Period size: 7 Copynumber: 28.1 Consensus size: 7
23385387 ACCTTATTTT
23385397 TATATTA
1 TATATTA
23385404 TATATTA
1 TATATTA
*
23385411 TAAAATTA
1 T-ATATTA
*
23385419 TTTTATTA
1 -TATATTA
23385427 TATATTA
1 TATATTA
23385434 TTTATATTA
1 --TATATTA
23385443 T-TATTA
1 TATATTA
*
23385449 TTTATTA
1 TATATTA
23385456 TATATTA
1 TATATTA
*
23385463 T-TTTTCA
1 TATATT-A
* *
23385470 CAAATTA
1 TATATTA
*
23385477 T-TATTT
1 TATATTA
* *
23385483 TACATCA
1 TATATTA
23385490 T-TATTTA
1 TATA-TTA
23385497 TATATTA
1 TATATTA
23385504 TTATATTA
1 -TATATTA
*
23385512 TAT-GT-
1 TATATTA
23385517 T-TATTA
1 TATATTA
23385523 TATATTA
1 TATATTA
23385530 TATATTA
1 TATATTA
*
23385537 T-TTTTA
1 TATATTA
23385543 TATATT-
1 TATATTA
**
23385549 GCT-TT-
1 TATATTA
23385554 TATATTA
1 TATATTA
23385561 TATATTA
1 TATATTA
23385568 TA-ATTA
1 TATATTA
23385574 T-T-TTA
1 TATATTA
23385579 TATATTA
1 TATATTA
23385586 T
1 T
23385587 TAAGTCATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
4 1 0.01
5 9 0.07
6 30 0.22
7 70 0.51
8 20 0.14
9 8 0.06
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (7 bp):
TATATTA
Found at i:23385411 original size:18 final size:18
Alignment explanation
Indices: 23385390--23385630 Score: 98
Period size: 18 Copynumber: 13.3 Consensus size: 18
23385380 ATTTTTAACC
23385390 TTATTTTTATATTATATA
1 TTATTTTTATATTATATA
*
23385408 TTATAAAATTATTTTATTATATA
1 TTAT----TT-TTATATTATATA
23385431 TTA--TTTATATTAT-TA
1 TTATTTTTATATTATATA
23385446 TTA---TT-TATTATATA
1 TTATTTTTATATTATATA
* *
23385460 TTATTTTTCACA-AAT-TA
1 TTATTTTT-ATATTATATA
* *
23385477 TTATTTTACATCATTATTTA
1 TTATTTT-TAT-ATTATATA
* *
23385497 TATATTATTATATTATATG
1 T-TATTTTTATATTATATA
*
23385516 TT-TATTATATATTATATA
1 TTAT-TTTTATATTATATA
* *
23385534 TTATTTTTATA-TATTGCTT
1 TTATTTTTATATTA-T-ATA
*
23385553 TTATATTATATATTATA-A
1 TTAT-TTTTATATTATATA
23385571 TTATTTTATATATTAT-TAA
1 TTATTTT-TATATTATAT-A
*
23385590 GTCATTTTTATATTAT-TA
1 -TTATTTTTATATTATATA
* *
23385608 TACATTTTTAT-CTATATA
1 T-TATTTTTATATTATATA
23385626 TTATT
1 TTATT
23385631 ATCATTAAAG
Statistics
Matches: 171, Mismatches: 24, Indels: 57
0.68 0.10 0.23
Matches are distributed among these distances:
13 6 0.04
14 7 0.04
15 5 0.03
16 8 0.05
17 25 0.15
18 53 0.31
19 26 0.15
20 18 0.11
21 7 0.04
22 2 0.01
23 14 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (18 bp):
TTATTTTTATATTATATA
Found at i:23385435 original size:3 final size:3
Alignment explanation
Indices: 23385415--23385637 Score: 72
Period size: 3 Copynumber: 71.3 Consensus size: 3
23385405 ATATTATAAA
23385415 ATT ATT -TT ATT ATAT ATT ATT -TAT ATT ATT ATT ATTT ATT ATAT ATT
1 ATT ATT ATT ATT AT-T ATT ATT AT-T ATT ATT ATT A-TT ATT AT-T ATT
* ** * *
23385462 ATT TTT CACAA ATT ATT ATT -TT A-C ATC ATT ATTT ATAT ATT ATT A-T
1 ATT ATT -A-TT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT
* *
23385508 ATT A-T ATGT -TT ATT ATAT ATT ATAT ATT ATT TTT ATAT ATT GCTT
1 ATT ATT AT-T ATT ATT AT-T ATT AT-T ATT ATT ATT AT-T ATT -ATT
* * *
23385553 -TT A-T ATT ATAT ATT ATA ATT ATT -TT ATAT ATT ATT AAGTC ATT TTT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT -A-TT ATT ATT
* * *
23385599 A-T ATT ATT ATAC ATT TTT ATCT ATAT ATT ATT ATC ATT A
1 ATT ATT ATT AT-T ATT ATT AT-T AT-T ATT ATT ATT ATT A
23385638 AAGGTTTTAA
Statistics
Matches: 166, Mismatches: 24, Indels: 60
0.66 0.10 0.24
Matches are distributed among these distances:
2 19 0.11
3 101 0.61
4 45 0.27
5 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:23385544 original size:31 final size:33
Alignment explanation
Indices: 23385400--23385568 Score: 118
Period size: 31 Copynumber: 5.6 Consensus size: 33
23385390 TTATTTTTAT
* *
23385400 ATTATATATTATAAAATTATTTTATTATATATT-
1 ATTATATATTAT-ATATTATTATATTATATATTG
23385433 ATT-TATATTAT-TATTATT-TATTATATATT-
1 ATTATATATTATATATTATTATATTATATATTG
* * * * *
23385462 ATT-T-T-TCACAAATTATTAT-TT-TACA-TC
1 ATTATATATTATATATTATTATATTATATATTG
* *
23385489 A-T-TAT-TTATATATTATTATATTATATGTTT
1 ATTATATATTATATATTATTATATTATATATTG
23385519 ATTATATATTATATATTATT-T-TTATATATTG
1 ATTATATATTATATATTATTATATTATATATTG
* *
23385550 CTTTTATATTATATATTAT
1 ATTATATATTATATATTAT
23385569 AATTATTTTA
Statistics
Matches: 111, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
26 3 0.03
27 18 0.16
28 11 0.10
29 18 0.16
30 8 0.07
31 26 0.23
32 12 0.11
33 15 0.14
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (33 bp):
ATTATATATTATATATTATTATATTATATATTG
Found at i:23385588 original size:85 final size:83
Alignment explanation
Indices: 23385415--23385588 Score: 196
Period size: 87 Copynumber: 2.1 Consensus size: 83
23385405 ATATTATAAA
* *
23385415 ATTATTTTATTATATATTATTTATATTATTATTATTTATTATATATTATTTTTCACAAATTATTA
1 ATTATTATATTATATATTATTTATATTATTATTATTTATTATATATTACTTTT--CAAATTATTA
*
23385480 TTTTACATCATTATTTATAT
64 TTATACATCATTATTTATAT
* * *
23385500 ATTATTATATTATATGTTTATTATATATTATATATTATTT-TTATATATTGCTTTT-ATATTATA
1 ATTATTATATTATAT-ATTATT-TATATTAT-TATTATTTATTATATATTACTTTTCAAATTAT-
*
23385563 TATTATA-ATTA-T-TTTATAT
62 TATTATACATCATTATTTATAT
23385582 ATTATTA
1 ATTATTA
23385589 AGTCATTTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
82 14 0.18
83 1 0.01
84 9 0.12
85 20 0.26
86 5 0.06
87 21 0.27
88 8 0.10
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (83 bp):
ATTATTATATTATATATTATTTATATTATTATTATTTATTATATATTACTTTTCAAATTATTATT
ATACATCATTATTTATAT
Found at i:23385603 original size:19 final size:19
Alignment explanation
Indices: 23385558--23385607 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
23385548 TGCTTTTATA
*
23385558 TTATATATTA-TAATTATT
1 TTATATATTATTAATCATT
23385576 TTATATATTATTAAGTCATT
1 TTATATATTATTAA-TCATT
23385596 TT-TATATTATTA
1 TTATATATTATTA
23385608 TACATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATATTATTAATCATT
Found at i:23385930 original size:26 final size:25
Alignment explanation
Indices: 23385883--23385931 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
23385873 TTATAAATAC
* * *
23385883 ATTTTTATTATATATTATATTTTAA
1 ATTTTTATTAAATATCACATTTTAA
23385908 ATTTATTATTAAATATCACATTTT
1 ATTT-TTATTAAATATCACATTTT
23385932 TATTATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTTTTATTAAATATCACATTTTAA
Found at i:23410566 original size:38 final size:40
Alignment explanation
Indices: 23410424--23410624 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
23410414 CGGATGATAA
* * * *
23410424 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTA-TGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
23410463 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
23410503 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
23410543 CC-GGCTCGGT-CCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
23410581 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
23410621 CCGG
1 CCGG
23410625 AAAAATCCCG
Statistics
Matches: 145, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
38 29 0.20
39 41 0.28
40 74 0.51
41 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:23410579 original size:78 final size:79
Alignment explanation
Indices: 23410424--23410638 Score: 276
Period size: 78 Copynumber: 2.7 Consensus size: 79
23410414 CGGATGATAA
* * *
23410424 CCGGGCTAGGTCCCGAAGGCCTTTGTGCTA-TGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TCC-GGCTAAGTCCCGAAGGCATTT
23410487 GTGCGAGTTACTATAT
64 GTGCGAGTTACTATAT
* **
23410503 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTCGGT-CCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGT
*
23410567 GTGAGTTACTATAT
66 GCGAGTTACTATAT
* ** *
23410581 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TAGCTATATCCGGAAAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATATCCGGCTAAGTCCCGAAGG
23410639 TACTTGGTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
77 2 0.02
78 67 0.57
79 40 0.34
80 8 0.07
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:23416620 original size:20 final size:18
Alignment explanation
Indices: 23416586--23416632 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
23416576 TTCCTCAAGC
23416586 AAACGAAAAATAAAATAA
1 AAACGAAAAATAAAATAA
*
23416604 AAACGAAGAAGATAAAATTA
1 AAACGAA-AA-ATAAAATAA
*
23416624 AAACTAAAA
1 AAACGAAAA
23416633 GAAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.28
19 4 0.16
20 14 0.56
ACGTcount: A:0.72, C:0.06, G:0.09, T:0.13
Consensus pattern (18 bp):
AAACGAAAAATAAAATAA
Found at i:23421304 original size:46 final size:48
Alignment explanation
Indices: 23421191--23421315 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 48
23421181 ACATCAAAGT
* * * * *
23421191 CGATGCTATGTCCCGGATAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGC-ATGTCCCAGACATGTCTTACACTGACTCTCATAAATCGAGGC
* * *
23421240 CGATGCCGTGTCCCAGACATGTCTTACACTGGCTCTCA-AAAT-GTGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGACTCTCATAAATCGAGGC
23421287 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
23421316 AGCACACATA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
46 23 0.35
47 9 0.14
48 3 0.05
49 30 0.45
50 1 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTGACTCTCATAAATCGAGGC
Found at i:23423600 original size:11 final size:12
Alignment explanation
Indices: 23423584--23423620 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
23423574 AGGTTTCTAG
23423584 AAGAGTTTGAA-
1 AAGAGTTTGAAT
23423595 AAGAGTTTGAAT
1 AAGAGTTTGAAT
23423607 AAG-GTTTGAAT
1 AAGAGTTTGAAT
23423618 AAG
1 AAG
23423621 TTGTTGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 22 0.88
12 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (12 bp):
AAGAGTTTGAAT
Found at i:23425123 original size:27 final size:27
Alignment explanation
Indices: 23425074--23425132 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
23425064 CCCTATTTGA
* *
23425074 AAAATTACCCAAATAACATTGTAGTGT
1 AAAATTACCCAAATAACACTGTAGGGT
* * *
23425101 AAAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCCAAATAACACTGTAGGGT
23425128 AAAAT
1 AAAAT
23425133 GACTGTTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (27 bp):
AAAATTACCCAAATAACACTGTAGGGT
Found at i:23425514 original size:22 final size:22
Alignment explanation
Indices: 23425480--23425559 Score: 79
Period size: 22 Copynumber: 3.6 Consensus size: 22
23425470 GCCGCTTAAT
*
23425480 CTGATTATGGCTCTGTGCCAAC
1 CTGAATATGGCTCTGTGCCAAC
* * **
23425502 CTGAATATTGCTCTGTGCTATG
1 CTGAATATGGCTCTGTGCCAAC
* * *
23425524 CTGATTATGACTCTGTACCAAC
1 CTGAATATGGCTCTGTGCCAAC
*
23425546 CTAAATATGGCTCT
1 CTGAATATGGCTCT
23425560 ATGCTATGTT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGCCAAC
Found at i:23425530 original size:44 final size:44
Alignment explanation
Indices: 23425480--23425585 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 44
23425470 GCCGCTTAAT
* * * *
23425480 CTGATTATGGCTCTGTGCCAACCTGAATATTGCTCTGTGCTATG
1 CTGATTATGGCTCTGTACCAACCTAAATATGGCTCTATGCTATG
*
23425524 CTGATTATGACTCTGTACCAACCTAAATATGGCTCTATGCTATG
1 CTGATTATGGCTCTGTACCAACCTAAATATGGCTCTATGCTATG
* * *
23425568 TTAATTATGGCTTTGTAC
1 CTGATTATGGCTCTGTAC
23425586 AAATCGTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (44 bp):
CTGATTATGGCTCTGTACCAACCTAAATATGGCTCTATGCTATG
Found at i:23432046 original size:68 final size:68
Alignment explanation
Indices: 23431973--23432156 Score: 250
Period size: 68 Copynumber: 2.7 Consensus size: 68
23431963 CATCACGTGT
* *
23431973 ACAAGAAG-GCTAC-AAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
1 ACAAGAAGAGCTACGAAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
23432036 TGTAG
64 TGTAG
*
23432041 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAAGAGCTACG-AAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
23432105 GTAG
65 GTAG
* * *
23432109 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAAGAGCTACG-AAGAGATAAATGTAGCTAGGTCACATGTGTGAT
23432157 TCCAAGTGAA
Statistics
Matches: 108, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
67 2 0.02
68 98 0.91
69 4 0.04
70 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (68 bp):
ACAAGAAGAGCTACGAAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:23432230 original size:66 final size:67
Alignment explanation
Indices: 23432033--23432230 Score: 192
Period size: 68 Copynumber: 2.9 Consensus size: 67
23432023 GGGATGTATC
* * *
23432033 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
23432095 TGTATC-
62 AGGA-CA
*
23432101 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
23432166 AGGACA
62 AGGACA
* *
23432172 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
23432231 TTCACCTGTG
Statistics
Matches: 116, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 24 0.21
67 9 0.08
68 55 0.47
69 1 0.01
70 1 0.01
71 26 0.22
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:23461213 original size:46 final size:47
Alignment explanation
Indices: 23461021--23461239 Score: 184
Period size: 46 Copynumber: 4.7 Consensus size: 47
23461011 GGCTGTTACA
* * * *
23461021 GATGTCATGTCCCAAACATGGTCTTACACTGGCT-CATCCATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT-C-TCGAGGCC
* * ** *
23461068 GATGCCATGTCCCAGACATGGTCTTACATTGACTATCAAAATTGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTA-C-ATCTCGAGGCC
* * * * *
23461117 GACGCCATGTCCTAGACATGGTCTTAGACTGAC-ACATCTTGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCG-AGGCC
23461163 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCGAGGCC
* *
23461209 GATG-CATGTCCCAGACAT-ATCTTATACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
23461240 ACACAAATAA
Statistics
Matches: 142, Mismatches: 22, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 49 0.35
47 32 0.23
48 2 0.01
49 33 0.23
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCGAGGCC
Found at i:23467229 original size:7 final size:7
Alignment explanation
Indices: 23467217--23467246 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
23467207 GTCCTAGAAA
23467217 ACTTCAG
1 ACTTCAG
23467224 ACTTCAG
1 ACTTCAG
23467231 ACTTCAG
1 ACTTCAG
23467238 ACTTCAG
1 ACTTCAG
23467245 AC
1 AC
23467247 ACATTCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (7 bp):
ACTTCAG
Found at i:23468976 original size:46 final size:48
Alignment explanation
Indices: 23468921--23469010 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
23468911 GGTTTACATC
23468921 TCAAGGCCGATGC-ATGTCCCAGACAT-GTCATACACTAGCTCTTGTT
1 TCAAGGCCGATGCTATGTCCCAGACATGGTCATACACTAGCTCTTGTT
* * *
23468967 TCAATGCCGATGCTATGTCCCAGACATGGTCTTACACTGGCTCT
1 TCAAGGCCGATGCTATGTCCCAGACATGGTCATACACTAGCTCT
23469011 CATAATGTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 12 0.31
47 13 0.33
48 14 0.36
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
TCAAGGCCGATGCTATGTCCCAGACATGGTCATACACTAGCTCTTGTT
Found at i:23472507 original size:27 final size:26
Alignment explanation
Indices: 23472463--23472513 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23472453 CTCGCTGCAA
*
23472463 TCTGGTGGCCTCGCCACATATATCTTT
1 TCTGGTGACCTCGCCACA-ATATCTTT
* *
23472490 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
23472514 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTTT
Found at i:23479716 original size:26 final size:27
Alignment explanation
Indices: 23479687--23479745 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
23479677 CCACATATAT
*
23479687 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
23479713 ATATCT-TATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
23479739 ATATCTG
1 ATATCTG
23479746 GCAGCCTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:23485857 original size:46 final size:48
Alignment explanation
Indices: 23485798--23485906 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 48
23485788 TTACACAGAC
* * *
23485798 ACATCTTATAGCCGATGGC-TATCCAAGACACGTCCTACACTTGCT-T
1 ACATCTCAAAGCCGATGGCATATCCAAGACACGTCCTACACTAGCTCT
* * * *
23485844 ACATCTCAAAGCCGAT-GCATGTCCTAGACATGTCTTACACTAGCTCT
1 ACATCTCAAAGCCGATGGCATATCCAAGACACGTCCTACACTAGCTCT
*
23485891 -CATCTCAATGCCGATG
1 ACATCTCAAAGCCGATG
23485907 CAATGTCCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.04
46 49 0.94
47 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (48 bp):
ACATCTCAAAGCCGATGGCATATCCAAGACACGTCCTACACTAGCTCT
Found at i:23485907 original size:46 final size:46
Alignment explanation
Indices: 23485823--23485976 Score: 154
Period size: 46 Copynumber: 3.3 Consensus size: 46
23485813 TGGCTATCCA
* * * *
23485823 AGACACGTCCTACACTTGCT-TACATCTCAAAGCCGATGCATGTCCT
1 AGACATGTCTTACACTAGCTCT-CATCTCAATGCCGATGCATGTCCT
*
23485869 AGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCAATGTCCC
1 AGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGC-ATGTCCT
* *
23485916 AAACATGGTCTTACACTGGCTCTCA--T-AATGTGGCCGATGCATGTCCT
1 AGACAT-GTCTTACACTAGCTCTCATCTCAA--T-GCCGATGCATGTCCT
*
23485963 AGATATGTCTTACA
1 AGACATGTCTTACA
23485977 TTAGTACACA
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
45 2 0.02
46 42 0.46
47 23 0.25
48 25 0.27
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (46 bp):
AGACATGTCTTACACTAGCTCTCATCTCAATGCCGATGCATGTCCT
Done.