Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 159 of 186
Found at i:52910360 original size:46 final size:45
Alignment explanation
Indices: 52910310--52910484 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
52910300 TGTTTGGGCA
52910310 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
52910356 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
52910403 TCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
52910449 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
52910485 CGCGGGTTAC
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:52910465 original size:93 final size:93
Alignment explanation
Indices: 52910306--52910477 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
52910296 AGGATGTTTG
* * *
52910306 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
52910371 TTGAGTTCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
52910399 GGCATCCGAGCTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52910464 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
52910478 ACTTATGCGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:52911826 original size:22 final size:22
Alignment explanation
Indices: 52911798--52911841 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52911788 TAGCAGGAAT
*
52911798 GAGGAGTATAAACTCCTCGAAC
1 GAGGAGTATAAACACCTCGAAC
52911820 GAGGAGTATAAACACCTCGAAC
1 GAGGAGTATAAACACCTCGAAC
52911842 CACCTTGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (22 bp):
GAGGAGTATAAACACCTCGAAC
Found at i:52913391 original size:7 final size:7
Alignment explanation
Indices: 52913379--52913419 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
52913369 TAACTTGTTC
52913379 TAAAAAA
1 TAAAAAA
52913386 TAAAAAA
1 TAAAAAA
52913393 TAAAAAA
1 TAAAAAA
52913400 TAAAAAA
1 TAAAAAA
52913407 TAAAAAA
1 TAAAAAA
52913414 TAAAAA
1 TAAAAA
52913420 CCTATGTAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:52917436 original size:39 final size:40
Alignment explanation
Indices: 52917391--52917562 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
52917381 GCTCCTCGTT
* * *
52917391 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
52917431 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
52917470 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
52917510 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
52917550 CAAATGCCTTCGG
1 CAAATGCCTTCGG
52917563 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:52917491 original size:40 final size:39
Alignment explanation
Indices: 52917393--52917615 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
52917383 TCCTCGTTCA
* * * *
52917393 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
52917432 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
52917471 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
52917511 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
52917551 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
52917592 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52917616 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:52917575 original size:80 final size:79
Alignment explanation
Indices: 52917391--52917615 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
52917381 GCTCCTCGTT
* * * * *
52917391 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
52917455 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
52917470 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
52917535 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
52917550 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
52917614 GA
63 GA
52917616 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:52917624 original size:41 final size:41
Alignment explanation
Indices: 52917547--52917624 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
52917537 TTTGTATCTC
* * *
52917547 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
52917588 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
52917625 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:52921686 original size:28 final size:28
Alignment explanation
Indices: 52921653--52921720 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
52921643 ATTGCATGAC
*
52921653 TATGAAAGTGATTGAGCCTGACGGTCCA
1 TATGAAAGTGATTGAGCCTGACGGGCCA
* *
52921681 TATGAAAGTGATTGGGCCTGATGGGCCA
1 TATGAAAGTGATTGAGCCTGACGGGCCA
*
52921709 TATGAATGTGAT
1 TATGAAAGTGAT
52921721 CAGGCCCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (28 bp):
TATGAAAGTGATTGAGCCTGACGGGCCA
Found at i:52921726 original size:28 final size:28
Alignment explanation
Indices: 52921668--52921744 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
52921658 AAGTGATTGA
* * * **
52921668 GCCTGACGGTCCATATGAAAGTGATTGG
1 GCCTGATGGGCCATATGAATGTGATCAG
52921696 GCCTGATGGGCCATATGAATGTGATCAG
1 GCCTGATGGGCCATATGAATGTGATCAG
** *
52921724 GCCCAATGAGCCATATGAATG
1 GCCTGATGGGCCATATGAATG
52921745 AGATTGGGCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (28 bp):
GCCTGATGGGCCATATGAATGTGATCAG
Found at i:52921754 original size:28 final size:28
Alignment explanation
Indices: 52921678--52921754 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
52921668 GCCTGACGGT
* ** *
52921678 CCATATGAAAGTGATTGGGCCTGATGGG
1 CCATATGAATGTGATTGGGCCCAATGAG
**
52921706 CCATATGAATGTGATCAGGCCCAATGAG
1 CCATATGAATGTGATTGGGCCCAATGAG
*
52921734 CCATATGAATGAGATTGGGCC
1 CCATATGAATGTGATTGGGCC
52921755 TAAAGCGGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (28 bp):
CCATATGAATGTGATTGGGCCCAATGAG
Found at i:52928727 original size:13 final size:13
Alignment explanation
Indices: 52928709--52928735 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52928699 TTTATCTATA
52928709 TATGTACCTTGAC
1 TATGTACCTTGAC
52928722 TATGTACCTTGAC
1 TATGTACCTTGAC
52928735 T
1 T
52928736 TAGACCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (13 bp):
TATGTACCTTGAC
Found at i:52934394 original size:39 final size:38
Alignment explanation
Indices: 52934331--52934459 Score: 177
Period size: 39 Copynumber: 3.3 Consensus size: 38
52934321 GGTCTTTAAC
** *
52934331 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATA-TTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
52934370 CCGAATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATAT-TTTCCAGCATATAGCCTGCGGACCTCATGT
52934409 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATA-TTTTCCAGCATATAGCCTGCGGACCTCATGT
52934448 CCGGATATTTTC
1 CCGGATATTTTC
52934460 AATCTCATAC
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
38 6 0.08
39 72 0.91
40 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (38 bp):
CCGGATATTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:52936254 original size:23 final size:23
Alignment explanation
Indices: 52936224--52936271 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
52936214 ATCACCTAAG
52936224 CTGAAAATTTAAGCAAAAATTTC
1 CTGAAAATTTAAGCAAAAATTTC
52936247 CTGAAAATTTAAGCAAAAATTTC
1 CTGAAAATTTAAGCAAAAATTTC
52936270 CT
1 CT
52936272 TCTTCCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (23 bp):
CTGAAAATTTAAGCAAAAATTTC
Found at i:52945370 original size:17 final size:18
Alignment explanation
Indices: 52945337--52945370 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52945327 ATCAAAGAAG
52945337 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
52945355 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
52945371 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:52951319 original size:23 final size:23
Alignment explanation
Indices: 52951293--52951341 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
52951283 TAATCATTTA
52951293 TGGTGTATT-TTGTATAGCCTATG
1 TGGTGTATTCTT-TATAGCCTATG
* *
52951316 TGGTGTATTCTTTATGGCCTTTG
1 TGGTGTATTCTTTATAGCCTATG
52951339 TGG
1 TGG
52951342 CAAATTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.12, C:0.10, G:0.29, T:0.49
Consensus pattern (23 bp):
TGGTGTATTCTTTATAGCCTATG
Found at i:52953591 original size:93 final size:93
Alignment explanation
Indices: 52953432--52953602 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52953422 GGATGGTTGA
* * *
52953432 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCGTTGAGT
52953497 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
52953525 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCGTTGAGT
52953590 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52953603 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52953605 original size:46 final size:46
Alignment explanation
Indices: 52953436--52953607 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
52953426 GGTTGAGCAT
* * * *
52953436 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATACGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
52953482 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
52953527 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
52953575 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52953608 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
45 2 0.02
46 59 0.57
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:52959362 original size:16 final size:16
Alignment explanation
Indices: 52959343--52959375 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
52959333 ATTCACATTG
52959343 TTGGTATGAAATGAGA
1 TTGGTATGAAATGAGA
52959359 TTGGTATGAAATGAGA
1 TTGGTATGAAATGAGA
52959375 T
1 T
52959376 GAACTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (16 bp):
TTGGTATGAAATGAGA
Found at i:52963092 original size:37 final size:37
Alignment explanation
Indices: 52963042--52963120 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52963032 TTATTACGAA
* * *
52963042 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52963079 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52963116 GTCTT
1 GTCTT
52963121 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52963632 original size:24 final size:23
Alignment explanation
Indices: 52963584--52963641 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
52963574 TAATCAAACA
52963584 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
52963608 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
52963632 TTATT-TTATA
1 TTATTATTATA
52963642 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:52967917 original size:40 final size:40
Alignment explanation
Indices: 52967891--52968156 Score: 372
Period size: 40 Copynumber: 6.7 Consensus size: 40
52967881 TGATTACTCT
* * * *
52967891 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * * *
52967931 TCGAGG-TTTAGCACGGATATATTACTAGCACGAATGCTCT
1 TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * * *
52967971 TTGGAACTTAGCCAGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
52968011 TCGAGACTTAGCCCGGATATATCATTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
52968051 TCGGGACTTAGCCCGGATATATCACTAGCACGAATACTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
52968091 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
52968131 TCGGGACTTAGCCCAGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
52968157 CTCAATTCTC
Statistics
Matches: 199, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 196 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:52974904 original size:40 final size:40
Alignment explanation
Indices: 52974821--52975038 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
52974811 AAGCCAAGTA
* * * * * *
52974821 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
52974860 CCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
52974900 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
52974940 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
52974980 CCTTCGGGACTTAGCCCGGA-ACTAGTCACT-AGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
52975020 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
52975039 TTATCATCCA
Statistics
Matches: 162, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.08
40 149 0.92
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:52976768 original size:25 final size:25
Alignment explanation
Indices: 52976740--52976789 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
52976730 GAGCTAGTGT
*
52976740 AAGACCATGTTTGGGACATGGCATC
1 AAGACCATGTTTGGAACATGGCATC
52976765 AAGACCATGTTTGGAACATGGCATC
1 AAGACCATGTTTGGAACATGGCATC
52976790 GGCATTGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (25 bp):
AAGACCATGTTTGGAACATGGCATC
Found at i:52976815 original size:73 final size:73
Alignment explanation
Indices: 52976692--52976848 Score: 244
Period size: 73 Copynumber: 2.1 Consensus size: 73
52976682 GAGCCAGTGT
* * * *
52976692 AAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAGACCATGTTTGGGAC
1 AAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCCAGAGTAAGACCATGTCTAGGAC
52976757 ATGGCATC
66 ATGGCATC
52976765 AAGACCATGTTTGGAACATGGCATCGGCATTGTTAT-ATGAGCCAGAGTAAGACCATGTCTAGGA
1 AAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA-GAGCCAGAGTAAGACCATGTCTAGGA
52976829 CATGGCATC
65 CATGGCATC
*
52976838 AAAACCGATGT
1 AAGACC-ATGT
52976849 ATGAGAGCTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
72 1 0.01
73 72 0.94
74 4 0.05
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (73 bp):
AAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCCAGAGTAAGACCATGTCTAGGAC
ATGGCATC
Found at i:52991399 original size:29 final size:29
Alignment explanation
Indices: 52991357--52991416 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
52991347 TCGATAAGAT
52991357 TTAATTTCATATTTTATTCAACCTCTAAA
1 TTAATTTCATATTTTATTCAACCTCTAAA
52991386 TTAATTTCATATTTTATTCAACCTCTAAA
1 TTAATTTCATATTTTATTCAACCTCTAAA
52991415 TT
1 TT
52991417 TAGACTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (29 bp):
TTAATTTCATATTTTATTCAACCTCTAAA
Found at i:53001665 original size:14 final size:15
Alignment explanation
Indices: 53001646--53001674 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53001636 TAAATATTAT
53001646 GTTAATTAA-TTAAA
1 GTTAATTAAGTTAAA
53001660 GTTAATTAAGTTAAA
1 GTTAATTAAGTTAAA
53001675 TCGTTGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
GTTAATTAAGTTAAA
Found at i:53003374 original size:20 final size:19
Alignment explanation
Indices: 53003322--53003374 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
53003312 AATTTGAAAG
53003322 GGAA-AAAATTAAAAAAAA
1 GGAATAAAATTAAAAAAAA
*
53003340 GTAATAAAATATAAAAAAAA
1 GGAATAAAAT-TAAAAAAAA
*
53003360 GGAATCCAAATTAAA
1 GGAAT-AAAATTAAA
53003375 GATTAGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 5 0.17
20 17 0.59
21 4 0.14
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (19 bp):
GGAATAAAATTAAAAAAAA
Found at i:53004826 original size:22 final size:21
Alignment explanation
Indices: 53004801--53004841 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
53004791 GGCACGTTAT
53004801 TTTTTGTTCTGTTTCTTCTTGG
1 TTTTTGTTCT-TTTCTTCTTGG
*
53004823 TTTTTGTTCTTTTGTTCTT
1 TTTTTGTTCTTTTCTTCTT
53004842 CTTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (21 bp):
TTTTTGTTCTTTTCTTCTTGG
Found at i:53004847 original size:21 final size:22
Alignment explanation
Indices: 53004800--53004848 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
53004790 GGGCACGTTA
*
53004800 TTTTTTGTTCTGTTTCTTCTTG
1 TTTTTTGTTCTGTTTCTTCTTC
* *
53004822 GTTTTTGTTCT-TTTGTTCTTC
1 TTTTTTGTTCTGTTTCTTCTTC
53004843 TTTTTT
1 TTTTTT
53004849 CTTTTCAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (22 bp):
TTTTTTGTTCTGTTTCTTCTTC
Found at i:53004848 original size:22 final size:20
Alignment explanation
Indices: 53004800--53004847 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
53004790 GGGCACGTTA
53004800 TTTTTTGTTCTGTTTCTTCT
1 TTTTTTGTTCTGTTTCTTCT
*
53004820 TGGTTTTTGTTCT-TTTGTTCT
1 T--TTTTTGTTCTGTTTCTTCT
53004841 TCTTTTT
1 T-TTTTT
53004848 TCTTTTCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 8 0.33
22 10 0.42
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.75
Consensus pattern (20 bp):
TTTTTTGTTCTGTTTCTTCT
Found at i:53005863 original size:28 final size:29
Alignment explanation
Indices: 53005831--53005903 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
53005821 ATTCTGTAAC
**
53005831 TGATTGACCGGA-TGTGTGTGTCTCCTTT
1 TGATTGACCGGACTGAATGTGTCTCCTTT
*
53005859 TGATTGA-CTGACTGAATGTGTCTCCTTT
1 TGATTGACCGGACTGAATGTGTCTCCTTT
*
53005887 TGATTGA-CTGACTGAAT
1 TGATTGACCGGACTGAAT
53005904 TTGTATTCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.41
Consensus pattern (29 bp):
TGATTGACCGGACTGAATGTGTCTCCTTT
Found at i:53008482 original size:16 final size:16
Alignment explanation
Indices: 53008457--53008487 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53008447 TTGTTTGTCT
53008457 TTACTGTTATTTTTAA
1 TTACTGTTATTTTTAA
*
53008473 TTACTTTTATTTTTA
1 TTACTGTTATTTTTA
53008488 TTTTTATTTG
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:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (16 bp):
TTACTGTTATTTTTAA
Found at i:53008560 original size:24 final size:22
Alignment explanation
Indices: 53008516--53008560 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
53008506 GGGCAAATTA
53008516 GTTTCTGTTTTGTTTCTTCTTG
1 GTTTCTGTTTTGTTTCTTCTTG
*
53008538 GTTTTTGTTCTTGTGTTCTTCTT
1 GTTTCTGTT-TTGT-TTCTTCTT
53008561 TTTGGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.00, C:0.13, G:0.18, T:0.69
Consensus pattern (22 bp):
GTTTCTGTTTTGTTTCTTCTTG
Found at i:53022439 original size:30 final size:30
Alignment explanation
Indices: 53022405--53022465 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
53022395 TCCTTAACTC
53022405 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
53022435 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
53022465 A
1 A
53022466 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:53024034 original size:35 final size:35
Alignment explanation
Indices: 53023988--53024162 Score: 350
Period size: 35 Copynumber: 5.0 Consensus size: 35
53023978 ATCCAACTTG
53023988 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
1 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
53024023 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
1 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
53024058 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
1 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
53024093 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
1 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
53024128 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
1 ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
53024163 CTCTCTCGAT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 140 1.00
ACGTcount: A:0.14, C:0.34, G:0.06, T:0.46
Consensus pattern (35 bp):
ATATTCTTGCTCCCCATCATCTCCTTGCTATCTTT
Found at i:53027036 original size:17 final size:17
Alignment explanation
Indices: 53027014--53027056 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
53027004 ATTTCATTTA
**
53027014 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
53027031 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
53027048 AAAT-TCAAT
1 AAATGTCAAT
53027057 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:53054653 original size:39 final size:39
Alignment explanation
Indices: 53054610--53054741 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
53054600 ATGATTGTGT
* *
53054610 GTATTGTGGTATATGCTTGAATGTTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* * *
53054649 GTATTGTGATGTATGCTTAAAAGCTATGTGATTATATGA
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* *
53054688 GTATTGTGATATATGCTTAAATGTTACGTGATTATATGT
1 GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
* *
53054727 GTAATGTAATATATG
1 GTATTGTGATATATG
53054742 TGTACAAGTA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (39 bp):
GTATTGTGATATATGCTTAAATGTTATGTGATTATATGA
Found at i:53054756 original size:16 final size:16
Alignment explanation
Indices: 53054720--53054757 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
53054710 GTTACGTGAT
*
53054720 TATATGTGTAATGTAA
1 TATATGTGTAAAGTAA
53054736 TATATGTGTACAAGTAA
1 TATATGTGTA-AAGTAA
53054753 -ATATG
1 TATATG
53054758 ATTACCATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (16 bp):
TATATGTGTAAAGTAA
Found at i:53057242 original size:42 final size:42
Alignment explanation
Indices: 53057189--53057399 Score: 260
Period size: 42 Copynumber: 5.0 Consensus size: 42
53057179 AGGAGCACAT
* * * **
53057189 TCACTCAAGCTCGTATGGGGAGCTTCGTTGATACACAGCTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* ** *
53057231 TCATTTAAGCTCATGTGGGGAGCTTCACCAATACACAACTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* ** *
53057273 TCACTTCAGCTCATGTGGGGAGCTTCGTTGATACACAGCTTA
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* * *
53057315 TCACTTAAGCTCATTTAGGGAGCTTCACTGATACATAGCTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
* *
53057357 TCATTTAAGCTCATGTGAGGAGCTTCACTGATACACAGCTTG
1 TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
53057399 T
1 T
53057400 AAAACCATTT
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 140 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (42 bp):
TCACTTAAGCTCATGTGGGGAGCTTCACTGATACACAGCTTG
Found at i:53059657 original size:26 final size:23
Alignment explanation
Indices: 53059600--53059647 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
53059590 TATGCTAAAT
*
53059600 CATCATTAATAATTGGTTGTTCC
1 CATCATTAATAATTGGTTATTCC
53059623 CATCATTAATAATTGGTTATTCC
1 CATCATTAATAATTGGTTATTCC
53059646 CA
1 CA
53059648 GTTTGATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (23 bp):
CATCATTAATAATTGGTTATTCC
Found at i:53060252 original size:17 final size:17
Alignment explanation
Indices: 53060232--53060272 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
53060222 CTATTTTTAG
53060232 TTAATTAAAATTTAAAT
1 TTAATTAAAATTTAAAT
**
53060249 TTAATTATGATTTAAAT
1 TTAATTAAAATTTAAAT
53060266 TCTAATT
1 T-TAATT
53060273 TATAATAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAATTAAAATTTAAAT
Found at i:53061240 original size:25 final size:25
Alignment explanation
Indices: 53061203--53061253 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
53061193 TAACGAATTC
53061203 TATCATTACAGATAGAAAATATTTA
1 TATCATTACAGATAGAAAATATTTA
*
53061228 TATCATTATAGATAGAAAATATTTA
1 TATCATTACAGATAGAAAATATTTA
53061253 T
1 T
53061254 CTTATTTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (25 bp):
TATCATTACAGATAGAAAATATTTA
Found at i:53066193 original size:56 final size:56
Alignment explanation
Indices: 53066107--53066221 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
53066097 TGATTGAGAT
53066107 TGATTGGAATGCCTATTTATGCTATGTTATATGCTATTTTGGGTTGTGTAGGTGAA
1 TGATTGGAATGCCTATTTATGCTATGTTATATGCTATTTTGGGTTGTGTAGGTGAA
53066163 TGATTGGAATGCCTATTTATGCTATGTTATATGCTATTTTGGGTTGTGTAGGTGAA
1 TGATTGGAATGCCTATTTATGCTATGTTATATGCTATTTTGGGTTGTGTAGGTGAA
53066219 TGA
1 TGA
53066222 AAGTTTGGGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (56 bp):
TGATTGGAATGCCTATTTATGCTATGTTATATGCTATTTTGGGTTGTGTAGGTGAA
Found at i:53068301 original size:3 final size:3
Alignment explanation
Indices: 53068293--53068350 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
53068283 AAACATAGCC
53068293 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
53068341 TAT TAT TAT T
1 TAT TAT TAT T
53068351 TAGCCCCATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:53071880 original size:464 final size:465
Alignment explanation
Indices: 53071096--53072023 Score: 1497
Period size: 464 Copynumber: 2.0 Consensus size: 465
53071086 CAGAGGCTCC
* * *
53071096 TCAGCTTCTGCAACAATAAAAATTCAACTTAATAAAGATTATTGACAATTAAACATCAAGTGCAC
1 TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTAAACATCAAGTACAC
* * *
53071161 AAGAGTAACGAAGTGCGAGGGGAAACCTTTACCTTTTACTTTCATTAACAAACTATTGTACGATG
66 AAGACTAACGAAGTGCGAGGGAAAACATTTACCTTTTACTTTCATTAACAAACTATTGTACGATG
* * * *
53071226 ACAAAAGTTCTGCCTCTTTTTCCTTCCATCTGTCTTCTTTGGCTTGATAATCCTCTATCTTAAGC
131 ACAAAAGTTCTGCCTCTTTTTCCTCCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTAAGC
*
53071291 CTCATTTCAGTGGCTGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCTCTG
196 CTCATTTCACTGGCTGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCTCTG
*
53071356 AGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTTCCA
261 AGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTCCCA
* ** * *
53071421 TCTCGTTTTTCTCTTCAGCAAGTAGAGACAAAGCATTTTTTGCAGTAGTTAATGTGTCTTCAAGT
326 TCTCGTTTTTCTCTCCAGCAAGTAGAGACAAAGCATTTTTCACAGTAGTCAATGCGTCTTCAAGT
* *
53071486 AATTTCATAGTTGCTTGGGCCACTGCTAACTTGCCAGCCAGGATGCTCA-CCTCTTCCTTCACTT
391 AATTTCATAGTTGCTCGGGCCACTGCTAACTTGCCAGCCAGGACGCT-AGCCTCTTCCTTCACTT
53071550 CCCTCAACTCG
455 CCCTCAACTCG
*
53071561 TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTGAACATCAAGTACAC
1 TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTAAACATCAAGTACAC
* * * *
53071626 AAGACTAATGAGGTGGGA-GGAAAACATTTACC-TTTATCTTTCATTAACAAACTATTGTATGAT
66 AAGACTAACGAAGTGCGAGGGAAAACATTTACCTTTTA-CTTTCATTAACAAACTATTGTACGAT
*
53071689 GACAAAAGTTCTGCCTTTTTTTACC-CCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTAA
130 GACAAAAGTTCTGCCTCTTTTT-CCTCCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTAA
*
53071753 GCCTCATTTCTCT-GCATGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCT
194 GCCTCATTTCACTGGC-TGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCT
*
53071817 TTGAGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTC
258 CTGAGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTC
* * * *
53071882 CCATCTCGTTTTTCTCTCCAGCAAGTTGAGCCAAATCATTTTTCACTGTAGTCAATGCGTCTTCA
323 CCATCTCGTTTTTCTCTCCAGCAAGTAGAGACAAAGCATTTTTCACAGTAGTCAATGCGTCTTCA
*
53071947 AGTAATTTCATAGTTGCTCGGGCCTCTGCTAACTTGCCAGCCAGGACGCTAGCCTCTTCCTTCAC
388 AGTAATTTCATAGTTGCTCGGGCCACTGCTAACTTGCCAGCCAGGACGCTAGCCTCTTCCTTCAC
53072012 TTCCCTCAACTC
453 TTCCCTCAACTC
53072024 TTGTTCAGTC
Statistics
Matches: 427, Mismatches: 32, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
463 7 0.02
464 343 0.80
465 77 0.18
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (465 bp):
TCAGATTCTGCAACAATAAAAATTCAACTTAATAAAGAGTATTGACAATTAAACATCAAGTACAC
AAGACTAACGAAGTGCGAGGGAAAACATTTACCTTTTACTTTCATTAACAAACTATTGTACGATG
ACAAAAGTTCTGCCTCTTTTTCCTCCCATCTGTCCTCTTTGGCTTGATAACCCGCTATCTTAAGC
CTCATTTCACTGGCTGAACCTTCCAATCCTTCTACATCACTCTCCAACTTGAAAACCCTGCTCTG
AGATTCATCTCTTTGTTCAATTGTTTTCTGCAACTCTATTTCTATATTCTTTTTACCAGTTCCCA
TCTCGTTTTTCTCTCCAGCAAGTAGAGACAAAGCATTTTTCACAGTAGTCAATGCGTCTTCAAGT
AATTTCATAGTTGCTCGGGCCACTGCTAACTTGCCAGCCAGGACGCTAGCCTCTTCCTTCACTTC
CCTCAACTCG
Found at i:53077670 original size:51 final size:50
Alignment explanation
Indices: 53077615--53077710 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 50
53077605 AAAAATCATA
* * *
53077615 AAAAATT-TATTAATATTATAAAATATTA-AAAATTTATATAAATTTTGCTTT
1 AAAAATTATA-TAAGATTATAAAA-A-TACAAAACTTATAAAAATTTTGCTTT
*
53077666 AAAAATTATATAAGCTTATAAAAATACAAAACTTATAAAAATTTT
1 AAAAATTATATAAGATTATAAAAATACAAAACTTATAAAAATTTT
53077711 AATAAATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
49 2 0.05
50 17 0.44
51 18 0.46
52 2 0.05
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (50 bp):
AAAAATTATATAAGATTATAAAAATACAAAACTTATAAAAATTTTGCTTT
Found at i:53077689 original size:19 final size:19
Alignment explanation
Indices: 53077661--53077728 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
53077651 TATAAATTTT
53077661 GCTT-TAAAAATTATATAA
1 GCTTATAAAAATTATATAA
*
53077679 GCTTATAAAAA-TACA-AA
1 GCTTATAAAAATTATATAA
* *
53077696 ACTTATAAAAATTTTAATAA
1 GCTTATAAAAATTAT-ATAA
*
53077716 -ATTATAAAAATTA
1 GCTTATAAAAATTA
53077729 AAAAATTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
17 12 0.30
18 8 0.20
19 18 0.45
20 2 0.05
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (19 bp):
GCTTATAAAAATTATATAA
Found at i:53077717 original size:10 final size:9
Alignment explanation
Indices: 53077665--53077838 Score: 88
Period size: 10 Copynumber: 18.7 Consensus size: 9
53077655 AATTTTGCTT
53077665 TAAAAATTA
1 TAAAAATTA
**
53077674 TATAAGCTTA
1 TA-AAAATTA
53077684 TAAAAA-TA
1 TAAAAATTA
* *
53077692 CAAAACTTA
1 TAAAAATTA
*
53077701 TAAAAATTT
1 TAAAAATTA
53077710 TAATAAATTA
1 TAA-AAATTA
53077720 TAAAAATTA
1 TAAAAATTA
53077729 -AAAAATTA
1 TAAAAATTA
**
53077737 -AAAAACCA
1 TAAAAATTA
*
53077745 -AACATATTA
1 TAA-AAATTA
* *
53077754 TAAATATTT
1 TAAAAATTA
53077763 TAAAAATTTA
1 TAAAAA-TTA
*
53077773 TAAAAACCTA
1 TAAAAA-TTA
* *
53077783 TAAATATTT
1 TAAAAATTA
53077792 TAAAAACTTA
1 TAAAAA-TTA
53077802 TAACAAATTCA
1 TAA-AAATT-A
*
53077813 -AGTAAATTA
1 TA-AAAATTA
53077822 TAAACAATTTA
1 TAAA-AA-TTA
53077833 TAAAAA
1 TAAAAA
53077839 AAAAGTTATT
Statistics
Matches: 125, Mismatches: 27, Indels: 25
0.71 0.15 0.14
Matches are distributed among these distances:
8 22 0.18
9 42 0.34
10 50 0.40
11 11 0.09
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:53077725 original size:29 final size:28
Alignment explanation
Indices: 53077693--53077810 Score: 93
Period size: 29 Copynumber: 4.2 Consensus size: 28
53077683 ATAAAAATAC
*
53077693 AAAACTTATAAAAATTTTAATAAA-TTAT
1 AAAAATTATAAAAATTTTAA-AAACTTAT
* *
53077721 AAAAATTA-AAAAA-TTAAAAAAC-CA-
1 AAAAATTATAAAAATTTTAAAAACTTAT
* * *
53077745 AACATATTATAAATATTTTAAAAATTTAT
1 AA-AAATTATAAAAATTTTAAAAACTTAT
* *
53077774 AAAAACCTATAAATATTTTAAAAACTTAT
1 AAAAA-TTATAAAAATTTTAAAAACTTAT
53077803 AACAAATT
1 AA-AAATT
53077811 CAAGTAAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
24 2 0.03
25 9 0.13
26 8 0.11
27 12 0.17
28 10 0.14
29 26 0.37
30 3 0.04
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAATTATAAAAATTTTAAAAACTTAT
Found at i:53077795 original size:19 final size:20
Alignment explanation
Indices: 53077763--53077810 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
53077753 ATAAATATTT
53077763 TAAAAATTTATAAAAACCTA
1 TAAAAATTTATAAAAACCTA
* *
53077783 TAAATATTT-TAAAAACTTA
1 TAAAAATTTATAAAAACCTA
53077802 TAACAAATT
1 TAA-AAATT
53077811 CAAGTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAATTTATAAAAACCTA
Found at i:53082040 original size:406 final size:406
Alignment explanation
Indices: 53081288--53082101 Score: 1601
Period size: 406 Copynumber: 2.0 Consensus size: 406
53081278 ACCGAGCCAA
53081288 AAAATAAATTTTTTTTCTTTTTTTTTTGTCCATATAATCAATCAACATTTTAATATCTCATTCGC
1 AAAATAAATTTTTTTTCTTTTTTTTTTGTCCATATAATCAATCAACATTTTAATATCTCATTCGC
53081353 ATAGTAAATAAACATAAACAGAGATCGAACTGAATTAGATATTGATATTCAAGTTATACGCCATT
66 ATAGTAAATAAACATAAACAGAGATCGAACTGAATTAGATATTGATATTCAAGTTATACGCCATT
53081418 TTCGTATGGCTAAAATATTTACAATACAAAACATAACCGTCACCGGCCTAACCTATACATGCCAT
131 TTCGTATGGCTAAAATATTTACAATACAAAACATAACCGTCACCGGCCTAACCTATACATGCCAT
*
53081483 ACCAAGGCCAAAATATAACTGTACCAAAAAGATCGATAGTATGATGAACTGTTGATGATCCCCGA
196 ACCAAGGCCAAAATATAACTGTACCAAAAAGATCGATAGTATGATGAACTGCTGATGATCCCCGA
53081548 GTCGGTGGCCAAAATTGACAATCTATAAAACAAAGAAATAAAATAAAACGGAGTAAGCTTTCGAG
261 GTCGGTGGCCAAAATTGACAATCTATAAAACAAAGAAATAAAATAAAACGGAGTAAGCTTTCGAG
*
53081613 GCTTAATCAGTTTTAAGTGTTTCAAACAATTAAAACGTATCATTTAAATTCTAACATTAAGTATC
326 GCTTAATAAGTTTTAAGTGTTTCAAACAATTAAAACGTATCATTTAAATTCTAACATTAAGTATC
53081678 ACAAGAACCCAAATTT
391 ACAAGAACCCAAATTT
53081694 AAAATAAATTTTTTTTCTTTTTTTTTTGTCCATATAATCAATCAACATTTTAATATCTCATTCGC
1 AAAATAAATTTTTTTTCTTTTTTTTTTGTCCATATAATCAATCAACATTTTAATATCTCATTCGC
53081759 ATAGTAAATAAACATAAACAGAGATCGAACTGAATTAGATATTGATATTCAAGTTATACGCCATT
66 ATAGTAAATAAACATAAACAGAGATCGAACTGAATTAGATATTGATATTCAAGTTATACGCCATT
53081824 TTCGTATGGCTAAAATATTTACAATACAAAACATAACCGTCACCGGCCTAACCTATACATGCCAT
131 TTCGTATGGCTAAAATATTTACAATACAAAACATAACCGTCACCGGCCTAACCTATACATGCCAT
53081889 ACCAAGGCCAAAATATAACTGTACCAAAAAGATCGATAGTATGATGAACTGCTGATGATCCCCGA
196 ACCAAGGCCAAAATATAACTGTACCAAAAAGATCGATAGTATGATGAACTGCTGATGATCCCCGA
53081954 GTCGGTGGCCAAAATTGACAATCTATAAAACAAAGAAATAAAATAAAACGGAGTAAGCTTTCGAG
261 GTCGGTGGCCAAAATTGACAATCTATAAAACAAAGAAATAAAATAAAACGGAGTAAGCTTTCGAG
*
53082019 GCTTAGTAAGTTTTAAGTGTTTCAAACAATTAAAACGTATCATTTAAATTCTAACATTAAGTATC
326 GCTTAATAAGTTTTAAGTGTTTCAAACAATTAAAACGTATCATTTAAATTCTAACATTAAGTATC
53082084 ACAAGAACCCAAATTT
391 ACAAGAACCCAAATTT
53082100 AA
1 AA
53082102 TTTGTAAATT
Statistics
Matches: 405, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
406 405 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (406 bp):
AAAATAAATTTTTTTTCTTTTTTTTTTGTCCATATAATCAATCAACATTTTAATATCTCATTCGC
ATAGTAAATAAACATAAACAGAGATCGAACTGAATTAGATATTGATATTCAAGTTATACGCCATT
TTCGTATGGCTAAAATATTTACAATACAAAACATAACCGTCACCGGCCTAACCTATACATGCCAT
ACCAAGGCCAAAATATAACTGTACCAAAAAGATCGATAGTATGATGAACTGCTGATGATCCCCGA
GTCGGTGGCCAAAATTGACAATCTATAAAACAAAGAAATAAAATAAAACGGAGTAAGCTTTCGAG
GCTTAATAAGTTTTAAGTGTTTCAAACAATTAAAACGTATCATTTAAATTCTAACATTAAGTATC
ACAAGAACCCAAATTT
Found at i:53082599 original size:40 final size:40
Alignment explanation
Indices: 53082523--53082702 Score: 274
Period size: 40 Copynumber: 4.5 Consensus size: 40
53082513 TATCTAGCAC
* * *
53082523 AGCCTGCAGGTTTTTAA-CCCGGATGTC-ATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGAT-ACGATTCCAGCACGA
* *
53082562 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCTAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
53082602 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
*
53082642 AGCTTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
*
53082682 AGCCTGCGAGTCTTTAAGCCC
1 AGCCTGCGGGTCTTTAAGCCC
53082703 AAATACCATT
Statistics
Matches: 130, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.12
40 114 0.88
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACGATTCCAGCACGA
Found at i:53086892 original size:40 final size:40
Alignment explanation
Indices: 53086848--53086925 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
53086838 TACGGTACCC
* * *
53086848 CTTGGTGTGTAAGGTTGAATGGGTTGATTTTATCCCCATA
1 CTTGGTATGTAAGGCTGAATGGGTTGATCTTATCCCCATA
* *
53086888 CTTGGTATGTAGGGCTGAGTGGGTTGATCTTATCCCCA
1 CTTGGTATGTAAGGCTGAATGGGTTGATCTTATCCCCA
53086926 CATGGTGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.15, G:0.29, T:0.37
Consensus pattern (40 bp):
CTTGGTATGTAAGGCTGAATGGGTTGATCTTATCCCCATA
Found at i:53094090 original size:40 final size:40
Alignment explanation
Indices: 53094019--53094094 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
53094009 CGGTACCTCA
* * * *
53094019 TGGTGTGTAGGGTTGAATGGGTTGATTTTATCCCCATACT
1 TGGTGTGTAGGGCTGAATAGGTCGATCTTATCCCCATACT
**
53094059 TGGTGTGTAGGGCTGGGTAGGTCGATCTTATCCCCA
1 TGGTGTGTAGGGCTGAATAGGTCGATCTTATCCCCA
53094095 CATAGTGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGCTGAATAGGTCGATCTTATCCCCATACT
Found at i:53095828 original size:10 final size:9
Alignment explanation
Indices: 53095815--53095975 Score: 76
Period size: 10 Copynumber: 16.6 Consensus size: 9
53095805 ATTTCAAAAA
53095815 TTTATAACTT
1 TTTATAA-TT
53095825 TTTATAACTT
1 TTTATAA-TT
* *
53095835 ATTATATTTT
1 TTTATA-ATT
53095845 TTTATAAGTT
1 TTTATAA-TT
*
53095855 TTTATGATTT
1 TTTAT-AATT
* *
53095865 TTTCTAAGT
1 TTTATAATT
53095874 TTTATAATT
1 TTTATAATT
53095883 TTTCAT-ATT
1 TTT-ATAATT
53095892 TTTATTATATT
1 TTTA-TA-ATT
53095903 TTT-TAGGATT
1 TTTATA--ATT
*
53095913 GTTAATAAGTT
1 -TTTATAA-TT
*
53095924 TTTATAATG
1 TTTATAATT
*
53095933 TTCATAATTT
1 TTTATAA-TT
*
53095943 TTTATTATT
1 TTTATAATT
53095952 TTT-TAAAGTT
1 TTTAT-AA-TT
*
53095962 TTTATAAAT
1 TTTATAATT
53095971 TTTAT
1 TTTAT
53095976 CTATGTTTTT
Statistics
Matches: 116, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
8 2 0.02
9 40 0.34
10 60 0.52
11 12 0.10
12 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (9 bp):
TTTATAATT
Found at i:53095865 original size:19 final size:19
Alignment explanation
Indices: 53095815--53095975 Score: 87
Period size: 19 Copynumber: 8.3 Consensus size: 19
53095805 ATTTCAAAAA
* *
53095815 TTTATAACTTTTTATAACT
1 TTTATAATTTTTTATAAGT
*
53095834 TATTATATTTTTTTATAAGTT
1 T-TTATAATTTTTTATAAG-T
* *
53095855 TTTATGATTTTTTCTAAGT
1 TTTATAATTTTTTATAAGT
* *
53095874 TTTATAATTTTTCAT-ATT
1 TTTATAATTTTTTATAAGT
* *
53095892 TTTATTATATTTTT-TAGGAT
1 TTTATAAT-TTTTTATAAG-T
*
53095912 TGTTAATAAGTTTTTATAA-T
1 T-TT-ATAATTTTTTATAAGT
* *
53095932 GTTCATAATTTTTTATTA-T
1 -TTTATAATTTTTTATAAGT
* * *
53095951 TTTTTAAAGTTTTTATAAAT
1 TTTAT-AATTTTTTATAAGT
53095971 TTTAT
1 TTTAT
53095976 CTATGTTTTT
Statistics
Matches: 106, Mismatches: 25, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
18 13 0.12
19 41 0.39
20 37 0.35
21 10 0.09
22 5 0.05
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
TTTATAATTTTTTATAAGT
Found at i:53095906 original size:49 final size:49
Alignment explanation
Indices: 53095818--53095956 Score: 140
Period size: 49 Copynumber: 2.8 Consensus size: 49
53095808 TCAAAAATTT
* * * * *
53095818 ATAACTTTTTATAACTTATT-ATATTTTTTTATAAGTTTTTATGATTTTTT
1 ATAAGTTTTTATAA-TTATTCATATTTTTTTAT-ATTTTTTAGGATTGTTA
* *
53095868 CTAAG-TTTTATAATTTTTCATATTTTTATTATATTTTTTAGGATTGTTA
1 ATAAGTTTTTATAATTATTCATATTTTT-TTATATTTTTTAGGATTGTTA
* *
53095917 ATAAGTTTTTATAA-TGTTCATAATTTTTTATTATTTTTTA
1 ATAAGTTTTTATAATTATTCATATTTTTTTA-TATTTTTTA
53095957 AAGTTTTTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
48 7 0.09
49 53 0.71
50 15 0.20
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (49 bp):
ATAAGTTTTTATAATTATTCATATTTTTTTATATTTTTTAGGATTGTTA
Found at i:53096066 original size:10 final size:10
Alignment explanation
Indices: 53096046--53096168 Score: 74
Period size: 10 Copynumber: 12.1 Consensus size: 10
53096036 AAATAATATC
*
53096046 ATAAGTTTTT
1 ATAATTTTTT
*
53096056 ATGATTTTTT
1 ATAATTTTTT
53096066 ATAA-TTTTT
1 ATAATTTTTT
**
53096075 ATAA-CATTT
1 ATAATTTTTT
* *
53096084 GTGATTTTTT
1 ATAATTTTTT
53096094 ATAAGTTTTTGT
1 ATAA-TTTTT-T
*
53096106 AT-TTTTTTT
1 ATAATTTTTT
53096115 ATAATTTTGTCT
1 ATAATTTT-T-T
*
53096127 AAATATTTTTT
1 ATA-ATTTTTT
53096138 ATAA-TTTTT
1 ATAATTTTTT
*
53096147 ATAATACTTTT
1 ATAAT-TTTTT
*
53096158 ATAAATTTTT
1 ATAATTTTTT
53096168 A
1 A
53096169 ATATTTTAAT
Statistics
Matches: 86, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
9 26 0.30
10 31 0.36
11 17 0.20
12 7 0.08
13 5 0.06
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:53096083 original size:11 final size:9
Alignment explanation
Indices: 53096046--53096191 Score: 53
Period size: 9 Copynumber: 15.0 Consensus size: 9
53096036 AAATAATATC
53096046 ATAAGTTTTT
1 ATAA-TTTTT
*
53096056 ATGATTTTTT
1 AT-AATTTTT
53096066 ATAATTTTT
1 ATAATTTTT
**
53096075 ATAACATTT
1 ATAATTTTT
* *
53096084 GTGATTTTTT
1 AT-AATTTTT
53096094 ATAAGTTTTTGT
1 ATAA--TTTT-T
**
53096106 ATTTTTTTT
1 ATAATTTTT
53096115 ATAATTTTGTCT
1 ATAA-TTT-T-T
*
53096127 AAATATTTTTT
1 --ATAATTTTT
53096138 ATAATTTTT
1 ATAATTTTT
53096147 ATAATACTTTT
1 ATAAT--TTTT
*
53096158 ATAAATTTT
1 ATAATTTTT
*
53096167 -TAATATTT
1 ATAATTTTT
*
53096175 -TAATATTT
1 ATAATTTTT
*
53096183 ATGATTTTT
1 ATAATTTTT
53096192 TAAAAAATTT
Statistics
Matches: 102, Mismatches: 21, Indels: 27
0.68 0.14 0.18
Matches are distributed among these distances:
8 14 0.14
9 41 0.40
10 21 0.21
11 15 0.15
12 5 0.05
13 3 0.03
14 3 0.03
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:53096135 original size:21 final size:20
Alignment explanation
Indices: 53096051--53096175 Score: 78
Period size: 19 Copynumber: 6.2 Consensus size: 20
53096041 ATATCATAAG
*
53096051 TTTTTATGATTTTT-T-ATAA
1 TTTTTATAATTTTTATAAT-A
** * *
53096070 TTTTTATAACATTTGTGAT-
1 TTTTTATAATTTTTATAATA
* * *
53096089 TTTTTATAAGTTTTTGTATTT
1 TTTTTATAA-TTTTTATAATA
*
53096110 TTTTTATAATTTTGTCTAAATA
1 TTTTTATAATTTT-TAT-AATA
53096132 TTTTTTATAATTTTTATAATA
1 -TTTTTATAATTTTTATAATA
* *
53096153 CTTTTATAAATTTT-TAATA
1 TTTTTATAATTTTTATAATA
53096172 TTTT
1 TTTT
53096176 AATATTTATG
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
19 28 0.33
20 23 0.27
21 17 0.20
22 4 0.05
23 13 0.15
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTATAATTTTTATAATA
Found at i:53096513 original size:9 final size:9
Alignment explanation
Indices: 53096499--53096563 Score: 64
Period size: 9 Copynumber: 7.3 Consensus size: 9
53096489 TACGTTTGTG
53096499 ATTTTTATA
1 ATTTTTATA
53096508 ATTTTTATA
1 ATTTTTATA
53096517 ATATTTTATA
1 AT-TTTTATA
*
53096527 AATTTT-TA
1 ATTTTTATA
53096535 ATATTTT-TA
1 AT-TTTTATA
* *
53096544 ATATTTA-G
1 ATTTTTATA
53096552 ATTTTTATA
1 ATTTTTATA
53096561 ATT
1 ATT
53096564 CTATTTCTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
8 12 0.26
9 26 0.57
10 8 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:53100144 original size:18 final size:18
Alignment explanation
Indices: 53100123--53100164 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
53100113 CAAGTTCAGC
53100123 TTCTGGCTCATCTTCACA
1 TTCTGGCTCATCTTCACA
* *
53100141 TTCTAGTTCATCTTCACA
1 TTCTGGCTCATCTTCACA
53100159 TTCTGG
1 TTCTGG
53100165 ATCTTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.29, G:0.12, T:0.43
Consensus pattern (18 bp):
TTCTGGCTCATCTTCACA
Found at i:53100492 original size:18 final size:18
Alignment explanation
Indices: 53100471--53100510 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
53100461 ATTCCAAATC
53100471 TTCTAGCTCAT-TGTCACA
1 TTCTAGCTCATCT-TCACA
*
53100489 TTCTAGTTCATCTTCACA
1 TTCTAGCTCATCTTCACA
53100507 TTCT
1 TTCT
53100511 GGTTCTTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 19 0.95
19 1 0.05
ACGTcount: A:0.20, C:0.28, G:0.07, T:0.45
Consensus pattern (18 bp):
TTCTAGCTCATCTTCACA
Found at i:53100560 original size:165 final size:165
Alignment explanation
Indices: 53100236--53100568 Score: 594
Period size: 165 Copynumber: 2.0 Consensus size: 165
53100226 AAAGACTCCG
* * *
53100236 GTTTAGGTCATGGGGATTCTAGTTCCTCTACAACTTCTAGTTCTTTATCGGGTTCTAGCCATTCT
1 GTTTAGGTCATGGGGATTCTAGATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
53100301 AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
66 AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
* **
53100366 CTCATTCGGAGATTCTAACAATTCTAAGGATTCTA
131 CTCATTCGAAGATTCTAACAAGCCTAAGGATTCTA
*
53100401 GTTTAGGTCATGGGGATTCTAGATCCTCTGCAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
1 GTTTAGGTCATGGGGATTCTAGATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
*
53100466 AAATCTTCTAGCTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
66 AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
53100531 CTCATTCGAAGATTCTAACAAGCCTAAGGATTCTA
131 CTCATTCGAAGATTCTAACAAGCCTAAGGATTCTA
53100566 GTT
1 GTT
53100569 CTGCTATGAC
Statistics
Matches: 160, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 160 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (165 bp):
GTTTAGGTCATGGGGATTCTAGATCCTCTACAACTTCTAGTTCTTTATCAGGTTCTAGCCATTCC
AAATCTTCTAACTCATTGTCACATTCTAGTTCATCTTCACATTCTGGTTCTTGGAAGGGTTCTAG
CTCATTCGAAGATTCTAACAAGCCTAAGGATTCTA
Found at i:53100955 original size:18 final size:18
Alignment explanation
Indices: 53100934--53100989 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
53100924 AGCTTCAGGC
* *
53100934 TCATCTTCATATTCCAGT
1 TCATCTTCACATTCAAGT
* *
53100952 TCATATTCACATTCTAGT
1 TCATCTTCACATTCAAGT
*
53100970 TCTTCTTCACATTCAAGT
1 TCATCTTCACATTCAAGT
53100988 TC
1 TC
53100990 TTTTAAGCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.23, C:0.27, G:0.05, T:0.45
Consensus pattern (18 bp):
TCATCTTCACATTCAAGT
Found at i:53101000 original size:18 final size:18
Alignment explanation
Indices: 53100960--53101008 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
53100950 GTTCATATTC
* *
53100960 ACATTCTAGTTCTTCTTC
1 ACATTCAAGTTCTTCTTA
53100978 ACATTCAAGTTCTT-TTA
1 ACATTCAAGTTCTTCTTA
*
53100995 AGCATTCAAATTCT
1 A-CATTCAAGTTCT
53101009 GGTTCTTCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 3 0.11
18 24 0.89
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.45
Consensus pattern (18 bp):
ACATTCAAGTTCTTCTTA
Found at i:53101565 original size:192 final size:192
Alignment explanation
Indices: 53101207--53102031 Score: 810
Period size: 192 Copynumber: 4.2 Consensus size: 192
53101197 AACTTCTGGA
* * * * * *
53101207 TCATCCTCAAAATCTAGTTTATCTCCACATTCCGGTTCTAGTGCTACTAACTCATCCACAAACTT
1 TCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATCCACAAACTT
* * * *
53101272 GGGTTCTGACAATTCTAAGGATACTGATTCTACTACAACTTCTCAGTCTTCATTAAATCATAAGG
66 AGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGTCTTCATTAAATCATAAGG
* ** * *
53101337 CTTCTAGTTCCTCTGCAAGTTCT-AGTTCTCTATCAGGTACTAGCAATTATAAGGCTTCAGGC
131 CTTCTAATTCCTCCACAAGTTCTGA-TTCTTTATCAGGTTCTAGCAATTATAAGGCTTCAGGC
* ** * *
53101399 TTATCCAAAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATCCAAAAACTC
1 TCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATCCACAAACTT
* * * **
53101464 AGGTTCTAACCATTCTAAGGATTCTTATTCTACAACAGCTTCTCAGTCTTCATTAAATCATGGGG
66 AGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGTCTTCATTAAATCATAAGG
* * ** * * **
53101529 CTTCTAGTTCCTCCATAAGTTCTGATTCTTTATCAGGTTCTAATAGTTCTAAGGCTTTTGGC
131 CTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAGGCTTCAGGC
* * * * * * * * *
53101591 TCATCTTCAGACTCCAGTTC-TTTTAAGCATTCTGGTTCTGGTGCTTCTAACTCTTCCACAAACA
1 TCATCCTCAAATTCCAGTTCATCTTCA-CATTCTGGTTCTAGTGCTGCTAACTCATCCACAAACT
* * * * *** * **
53101655 TAGGTTCCAACAATTCTAATGATTCTGCTCCTACTGTGGCTTCTCAGTCTACATTAAATCATGGG
65 TAGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGTCTTCATTAAATCATAAG
** * * *
53101720 GCTTCTAATTCCTCTTCAAGTTCTGGTTCTTTATCAGGTTCTAGCAATTATAAGGCTTCCGGG
130 GCTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAGGCTTCAGGC
* * *
53101783 TCATCCTCAAATTCTATTTCATCTTCACATTCTGGTTCTTTTAATCACTTTGGTCCTATTGCTGG
1 TCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTC------T-A-----G------TGCTGC
* * * * *
53101848 TAACTCCTCCACAAACTTAGGTTCTAACAGTTCTAAGGGTTCTAATTCTACTACGGCTTCTCAGT
48 TAACTCATCCACAAACTTAGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGT
* * *
53101913 CTTCATTAAA-CTATAAGGCTTCTAATTCCTCTACAAGTTCTGGTTCTTTATCAGGTTCTAGAAA
113 CTTCATTAAATC-ATAAGGCTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAGCAA
*
53101977 TTATAAGGCTTCGGGC
177 TTATAAGGCTTCAGGC
*
53101993 TCATCCTCAAATTCTAGTTCATCTTCACATTCTGGTTCT
1 TCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCT
53102032 TTTAAGCATT
Statistics
Matches: 514, Mismatches: 97, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
191 4 0.01
192 335 0.65
193 5 0.01
198 1 0.00
204 2 0.00
209 1 0.00
210 166 0.32
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (192 bp):
TCATCCTCAAATTCCAGTTCATCTTCACATTCTGGTTCTAGTGCTGCTAACTCATCCACAAACTT
AGGTTCTAACAATTCTAAGGATTCTGATTCTACTACAGCTTCTCAGTCTTCATTAAATCATAAGG
CTTCTAATTCCTCCACAAGTTCTGATTCTTTATCAGGTTCTAGCAATTATAAGGCTTCAGGC
Found at i:53101953 original size:210 final size:211
Alignment explanation
Indices: 53101607--53102198 Score: 739
Period size: 210 Copynumber: 2.8 Consensus size: 211
53101597 TCAGACTCCA
* ** * * * * *
53101607 GTTCTTTTAAGCATTCTGGTTCTGGTGCTTCTAACTCTTCCACAAACATAGGTTCCAACAATTCT
1 GTTCTTTTAAGCATTCTGGTCCTACTACTGCTAACTCATCCACAAACTTAGGTTCTAACAATTCT
* ** ** * * *
53101672 AATGATTCTGCTCCTACTGTGGCTTCTCAGTCTACATTAAA-TCATGGGGCTTCTAATTCCTCTT
66 AAGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTAAACT-ATGAGGCTTCTAATTCCTCTA
* *
53101736 CAAGTTCTGGTTCTTTATCAGGTTCTAGCAATTATAAGGCTTCCGGG-TCATCCTCAAATTCTAT
130 CAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCCGGGCTCATCCTCAAATTCTAG
53101800 TTCATCTTCACATTCTG
195 TTCATCTTCACATTCTG
* * * * * *
53101817 GTTCTTTTAATCACTT-TGGTCCTATTGCTGGTAACTCCTCCACAAACTTAGGTTCTAACAGTTC
1 GTTCTTTTAAGCA-TTCTGGTCCTACTACTGCTAACTCATCCACAAACTTAGGTTCTAACAATTC
* * *
53101881 TAAGGGTTCTAATTCTACTACGGCTTCTCAGTCTTCATTAAACTATAAGGCTTCTAATTCCTCTA
65 TAAGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTAAACTATGAGGCTTCTAATTCCTCTA
53101946 CAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTT-CGGGCTCATCCTCAAATTCTAG
130 CAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCCGGGCTCATCCTCAAATTCTAG
53102010 TTCATCTTCACATTCTG
195 TTCATCTTCACATTCTG
* * *
53102027 GTTCTTTTAAGCATTCTGGTTCTACTACTGCTAACTTATCCACAAA-TTCTGGTT-TGAACAATT
1 GTTCTTTTAAGCATTCTGGTCCTACTACTGCTAACTCATCCACAAACTT-AGGTTCT-AACAATT
* * * **
53102090 CTAAGGATTCTAGTCCTACTACGGCTTCTAAGTCTTCTTTAGAAC-ATGAGGCTTCTGGTTCCTC
64 CTAAGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTA-AACTATGAGGCTTCTAATTCCTC
* ** *
53102154 TACAAGTTCTGGTTCTTTGTCAGGTTCTAGTGATTCTAAGGCTTC
128 TACAAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTC
53102199 TGGCTTGTCA
Statistics
Matches: 330, Mismatches: 44, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
209 9 0.03
210 315 0.95
211 6 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.39
Consensus pattern (211 bp):
GTTCTTTTAAGCATTCTGGTCCTACTACTGCTAACTCATCCACAAACTTAGGTTCTAACAATTCT
AAGGATTCTAATCCTACTACGGCTTCTCAGTCTTCATTAAACTATGAGGCTTCTAATTCCTCTAC
AAGTTCTGGTTCTTTATCAGGTTCTAGAAATTATAAGGCTTCCGGGCTCATCCTCAAATTCTAGT
TCATCTTCACATTCTG
Found at i:53103085 original size:18 final size:18
Alignment explanation
Indices: 53103062--53103097 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
53103052 AAAGGATTTG
53103062 GTTCTGATAATTCTCAAA
1 GTTCTGATAATTCTCAAA
**
53103080 GTTCTGATTCTTCTCAAA
1 GTTCTGATAATTCTCAAA
53103098 CTTCACAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (18 bp):
GTTCTGATAATTCTCAAA
Found at i:53103507 original size:19 final size:19
Alignment explanation
Indices: 53103483--53103521 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
53103473 GAATTTTTAC
53103483 TTTATTTTTATTATTATGT
1 TTTATTTTTATTATTATGT
53103502 TTTATTTTTATTATTATGT
1 TTTATTTTTATTATTATGT
53103521 T
1 T
53103522 CTAACCGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTATTATGT
Found at i:53105957 original size:896 final size:899
Alignment explanation
Indices: 53103791--53106496 Score: 4325
Period size: 896 Copynumber: 3.0 Consensus size: 899
53103781 ATGGATATTC
* * * * *
53103791 TAAAGCATCAAGCTCATCATTAGGTTTAAATATTTTTGGTTATTTTATGATGTTGGGTTTTTTAT
1 TAAAGCTTCAGGCTCCTCATTAGGTTCAACTATTTTTGGTTATTTTATGATGTTGGGTTTTTTAT
* * *
53103856 AAGGTTATAACCATTTTAAATATTTTAACATTTATATGAC-TTTGACTTTTTATTAGGTTCTGAA
66 AAGGTTATAACAATTCTAAATTTTTTAACATTTATATGACTTTTGACTTTTTATTAGGTTCTGAA
*
53103920 GGATCTAAGTCTTCTACAAGTGACTTTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCA-C
131 GGATCTAAGTCTTCTACAAGTGACTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATC
* *
53103984 TCATTTGACATGCTTATACATACTTTATAATCAAGTTTTATAAATTTTGTGGGTCTTGACATATC
196 -CATTTGACATGCTTATATATACTTTATAATCAAGTTTTAGAAATTTTGTGGGTCTTGACATATC
* * *
53104049 TATCTATTCTTTATTAGTTTCTGGTAATTCTAAGGCTTCAAGTGCTAAAAATGAAAGTGCTTCCA
260 TATCTATTCTTTATCAGTTTCTGGTAATTCAAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCA
*
53104114 CT-GGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCCCAGG
325 -TGGGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGG
*
53104178 TGCTGGACCTGCTAAAACTTCAAGATCGTCAACTAGTTCAACTATTTATGGTTATTTTATGATGT
389 TGCTGGACCTGCTAAAACTTCAAGATCGTCATCTAGTTCAACTATTTATGGTTATTTTATGATGT
53104243 TGAGTTCTTAATAATGTTATAAAGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTTTTTA
454 TGAGTTCTTAATAATGTTATAAAGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTTTTTA
*
53104308 TTAGGTTCTGACGGACCTAAGTCTTCTACAAGTAACCCTTCAGGTTTAAATTTTCTATCTTTTTT
519 TTAGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTTAAATTTTCTATC-TTTTT
* *
53104373 TGTATTGTTTTATCTATTTAACATGCTTTTACATATTTTATAATAATTTTGTGGGTTTTGACTTG
583 TGTATTATTTTATCTATTTAACATGCTTTTACATATTTTATAATAATTTTGTGGGTTTTTACTTG
* * * *
53104438 TCTAGTTGTTCTTTTTCACATTCTTATAATTCTAAAGCAACTAGCACTAAAGATATGGGTGCTTT
648 TCTACTTGTTCTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAGATATGGATGCTTT
* ** *
53104503 CACAGGCGCTAGTACAACAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCTAGCCCTTCCA
713 CACAGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCAAGCCCTTCCA
* * *
53104568 CAGGCGTTAATTCTTTCATAACTAATAGCCATAAGGGATCTGGTCATACAAGTTCAAGCAATTTT
778 CAGGCGTTAGTTCTTTCAAAACTAATAGCCATAAGGGATTTGGTCATACAAGTTCAAGCAATTTT
*
53104633 GCTCACTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTCTGGTTT
843 GCTCACTCTGGTTCGTTTACAGCTTCTGGTCACTCTT-C-CAAGTCATAGTTCTAGTTT
* *
53104692 TAAAGCTTTAGGCTCCTCATCAGGTTCAACTATTTTTGGTTATTTTATGATGTTGGGGGTTTTTT
1 TAAAGCTTCAGGCTCCTCATTAGGTTCAACTATTTTTGGTTATTTTATGATGTT--GGGTTTTTT
* * * * *
53104757 ATTTAAGGTTACAGCAATTCT-AATGTTTTTAACATATATATGACTTTTAAATTTTTATTAGGTT
64 A--TAAGGTTATAACAATTCTAAAT-TTTTTAACATTTATATGACTTTTGACTTTTTATTAGGTT
* * ** * *
53104821 CTGAAGGGTCTAAGACCGCTACAAGTGACTCCTCGGGTTTGGATTCCCTATCATTTTCTATTATT
126 CTGAAGGATCTAAGTCTTCTACAAGTGACTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATT
* *
53104886 TCATCCATTTGACATGCTTAT-TCATACTTTATGATCAAGTTTTAGAAATTTTGTGGGTCTTGAT
191 TCATCCATTTGACATGCTTATAT-ATACTTTATAATCAAGTTTTAGAAATTTTGTGGGTCTTGAC
53104950 ATATCTATCTATTCTTTATCAGTTTCTGGTAATTCAAAGGCTTCAAGTACTAAAAATGAAAGTGC
255 ATATCTATCTATTCTTTATCAGTTTCTGGTAATTCAAAGGCTTCAAGTACTAAAAATGAAAGTGC
* *
53105015 TTCCATGGGTTCCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAACCCTTCCA
320 TTCCATGGGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCA
* * * *
53105080 CAGGTGCTGAACATGCTAAAACTTCATGATTGTCATCTAGTTCAACTATTTATGGTTATTTTATG
385 CAGGTGCTGGACCTGCTAAAACTTCAAGATCGTCATCTAGTTCAACTATTTATGGTTATTTTATG
* *
53105145 ATGTTGAGTTCTTAATAATGTTATAATGATTTTAAGGTTTTTAACCATTAT-TGAATGTTGACTT
450 ATGTTGAGTTCTTAATAATGTTATAAAGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTT
* * *
53105209 TTTATTAGGTTCTGACGGATCTATGTCTTCAATAAGTAACCCTTCAGGTTTAAATTTTCTATCTT
515 TTTATTAGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTTAAATTTTCTATCTT
*
53105274 TTTTGTATTATTTTATCTATTTAACATGCTTTTACATATTTTATAATAATTTTGTGAGTTTTTAC
580 TTTTGTATTATTTTATCTATTTAACATGCTTTTACATATTTTATAATAATTTTGTGGGTTTTTAC
* * *
53105339 TTGTATACTTGTTCTTTTTCACATTCTTGTAATTCTAAAGAAACTAGTACTAAAGATATAGATGC
645 TTGTCTACTTGTTCTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAGATATGGATGC
*
53105404 TTCCACAGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCAAGCCCTT
710 TTTCACAGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCAAGCCCTT
* * *
53105469 CCACAGGTGTTAGTTCTTTCACAACTAATAGCCATAAGGGATTTGGTTATACAAGTTCAAGCAAT
775 CCACAGGCGTTAGTTCTTTCAAAACTAATAGCCATAAGGGATTTGGTCATACAAGTTCAAGCAAT
* * * * * *
53105534 TTTGCTCACTTTAGTTCGTTTACAGCTTTTGGTCGCTCTT-CNAGTCATGGTTCTAGTTT
840 TTTGCTCACTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCAAGTCATAGTTCTAGTTT
53105593 TAAAGCTTCAGGCTCCTCATTAGGTTCAACTATTTTTGGTTATTTTATG-TGTTGGGTTTTTTAT
1 TAAAGCTTCAGGCTCCTCATTAGGTTCAACTATTTTTGGTTATTTTATGATGTTGGGTTTTTTAT
**
53105657 AAGGTTATAATGATTCTAAATTTTTTAACATTTATATGACTTTTGACTTTTTATTAGGTTCTGAA
66 AAGGTTATAACAATTCTAAATTTTTTAACATTTATATGACTTTTGACTTTTTATTAGGTTCTGAA
* *
53105722 GGATCTAAGTCTTCTACGAA-TGACTCTTCAGGTTTGGATTCCATATCATTTTCTTTTATTTCAT
131 GGATCTAAGTCTTCTAC-AAGTGACTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCAT
* * * * *
53105786 CCATTTAACATGCTTATATAGACTTTATAAT-AATGTTCTAGAAATTTTGTGTGTCGTGACATAT
195 CCATTTGACATGCTTATATATACTTTATAATCAA-GTTTTAGAAATTTTGTGGGTCTTGACATAT
*
53105850 CTATCTATTCTTTATCAGTTTCTGGTAATTCCAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCC
259 CTATCTATTCTTTATCAGTTTCTGGTAATTCAAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCC
*
53105915 ATGGGTACCAATGCTTCAACGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGG
324 ATGGGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGG
*
53105980 TGCTGGACCTGCTAAAAGTTCAAGATCGTCATCTAGTTCAACTATTTATGGTTATTTTATGATGT
389 TGCTGGACCTGCTAAAACTTCAAGATCGTCATCTAGTTCAACTATTTATGGTTATTTTATGATGT
53106045 TGAGTTCTTAATAATGTTATAAAGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTTTTTA
454 TGAGTTCTTAATAATGTTATAAAGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTTTTTA
* *
53106110 TTAGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTCAAATTTTCTGTCTTTTTT
519 TTAGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTTAAATTTTCTATCTTTTTT
* * *
53106175 GTATTACTTTATTTATTTAACATGCTTTTACATATTTTATAATAAATTTGTGGGTTTTTACTTGT
584 GTATTATTTTATCTATTTAACATGCTTTTACATATTTTATAATAATTTTGTGGGTTTTTACTTGT
*
53106240 CTACTTGTTCTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAGATACGGATGCTTTC
649 CTACTTGTTCTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAGATATGGATGCTTTC
* * * * *
53106305 ACAGGCACTAGTACTTCAATAACAAATGGTCCTACAGCTTTTACTCCTCCTTCGAGCCCTTCCAC
714 ACAGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCAAGCCCTTCCAC
* * *
53106370 AGGCGTTAGTTATTTCAAAACTAATAGCCATAAGGGATTTGGTCATACAAGTTCAAGCAATGTCG
779 AGGCGTTAGTTCTTTCAAAACTAATAGCCATAAGGGATTTGGTCATACAAGTTCAAGCAATTTTG
*
53106435 CTCACTCTGGTTTGTTTACAGCTTCTGGTCACTCTTCCGCAAGTCATAGTTCTAGTTT
844 CTCACTCTGGTTCGTTTACAGCTTCTGGTCACTCTT-C-CAAGTCATAGTTCTAGTTT
53106493 TAAA
1 TAAA
53106497 ACTCCAGGTT
Statistics
Matches: 1651, Mismatches: 137, Indels: 35
0.91 0.08 0.02
Matches are distributed among these distances:
895 2 0.00
896 391 0.24
897 354 0.21
898 10 0.01
900 25 0.02
901 110 0.07
903 10 0.01
904 281 0.17
905 104 0.06
906 363 0.22
907 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (899 bp):
TAAAGCTTCAGGCTCCTCATTAGGTTCAACTATTTTTGGTTATTTTATGATGTTGGGTTTTTTAT
AAGGTTATAACAATTCTAAATTTTTTAACATTTATATGACTTTTGACTTTTTATTAGGTTCTGAA
GGATCTAAGTCTTCTACAAGTGACTCTTCAGGTTTGGATTCCCTATCATTTTCTATTATTTCATC
CATTTGACATGCTTATATATACTTTATAATCAAGTTTTAGAAATTTTGTGGGTCTTGACATATCT
ATCTATTCTTTATCAGTTTCTGGTAATTCAAAGGCTTCAAGTACTAAAAATGAAAGTGCTTCCAT
GGGTACCAATGCTTCAGCGACTAATGGTTCTACGACTTTTATTCCTACGAGCCCTTCCACAGGTG
CTGGACCTGCTAAAACTTCAAGATCGTCATCTAGTTCAACTATTTATGGTTATTTTATGATGTTG
AGTTCTTAATAATGTTATAAAGATTCTAAGGTTTTTAACCATTATATGAATGTTGACTTTTTATT
AGGTTCTGACGGATCTAAGTCTTCTACAAGTAACCCTTCAGGTTTAAATTTTCTATCTTTTTTGT
ATTATTTTATCTATTTAACATGCTTTTACATATTTTATAATAATTTTGTGGGTTTTTACTTGTCT
ACTTGTTCTTTTTCACATTCTTGTAATTCTAAAGCAACTAGTACTAAAGATATGGATGCTTTCAC
AGGCACTAGTACTTCAGTGACAAATGGTCCTACAGCTTCTACTCCTTCTTCAAGCCCTTCCACAG
GCGTTAGTTCTTTCAAAACTAATAGCCATAAGGGATTTGGTCATACAAGTTCAAGCAATTTTGCT
CACTCTGGTTCGTTTACAGCTTCTGGTCACTCTTCCAAGTCATAGTTCTAGTTT
Found at i:53107522 original size:198 final size:197
Alignment explanation
Indices: 53107060--53107525 Score: 666
Period size: 198 Copynumber: 2.4 Consensus size: 197
53107050 GCAATAGTTT
* *
53107060 TGGTTCCAAAACTTCAAGCTCTTCCACAAACATTGGTTCTACTTCGACTGATGGCCATACAACTA
1 TGGTTCCAAAACTTCAAGCTCTTCCAC-AACACTGGTTCTACTACGACTGATGGCCATACAACTA
* * *
53107125 CCGGTTCTACTTTGAGTGCCTCTTCAGGTTCTAGTTCTCGTAAGACTAATAGTCACATGACTTCT
65 CTGGTTCTACTTTGAGTCCCTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTCT
* * * * *
53107190 AGTCATACAAAATCTAGTTCTTCCACACACACCGGTTCTTCCAATCACGCTGGTTCTTTGACAAC
130 AGTCATACAAAATCTAGCTCTTCCACACACACAGGTTCTTCCAAACACACTGGTTCTTTCACAAC
53107255 ATC
195 ATC
* * ** *
53107258 TGGTTCCAAAACTTCAGGCTCTTCTACTAACACTGGTTCCGCTACGACTGATGGCAATACAACTA
1 TGGTTCCAAAACTTCAAGCTCTTCCAC-AACACTGGTTCTACTACGACTGATGGCCATACAACTA
* * *
53107323 CTGGTTCTATTTTGAG-CCACTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGAGTTT
65 CTGGTTCTACTTTGAGTCC-CTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTC
* *
53107387 TGGTCATACAAAATC-AGGCTCTTCTACACACACAGGTTCTTCCAAACACACTGGTTCTTTCACA
129 TAGTCATACAAAATCTA-GCTCTTCCACACACACAGGTTCTTCCAAACACACTGGTTCTTTCACA
53107451 ACATC
193 ACATC
* * *
53107456 TGGTTCCAAAACTTCAAGCTCTTCCACAAGCCCTGGTTCTACTACGACTAATGGCCATGCAACTA
1 TGGTTCCAAAACTTCAAGCTCTTCCACAA-CACTGGTTCTACTACGACTGATGGCCATACAACTA
53107521 CTGGT
65 CTGGT
53107526 CCTGCTATGA
Statistics
Matches: 236, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
197 4 0.02
198 232 0.98
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (197 bp):
TGGTTCCAAAACTTCAAGCTCTTCCACAACACTGGTTCTACTACGACTGATGGCCATACAACTAC
TGGTTCTACTTTGAGTCCCTCTTCAGGTTCTAGTTCTCATAAGACTAATAGTCACATGACTTCTA
GTCATACAAAATCTAGCTCTTCCACACACACAGGTTCTTCCAAACACACTGGTTCTTTCACAACA
TC
Found at i:53107814 original size:18 final size:18
Alignment explanation
Indices: 53107793--53107827 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53107783 ATCTGGCTCT
*
53107793 TCTACACACACAAGTTCC
1 TCTAAACACACAAGTTCC
*
53107811 TCTAAACACACAGGTTC
1 TCTAAACACACAAGTTC
53107828 TTTCACAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23
Consensus pattern (18 bp):
TCTAAACACACAAGTTCC
Found at i:53107998 original size:198 final size:198
Alignment explanation
Indices: 53107671--53108041 Score: 616
Period size: 198 Copynumber: 1.9 Consensus size: 198
53107661 TCTTCCAATC
*
53107671 ACACTGGTTCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
1 ACACTGGTGCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
* * *
53107736 TCTAGTTCTCATAAGACTAATAGTCACACGACATCTGCTCATACAAAATCTGGCTCTTCTACACA
66 TCTACTTCTCATAACACTAATAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
*
53107801 CACAAGTTCCTCTAAACACACAGGTTCTTTCACAACCTCTGGTTCTAAAATTTCGGGCTCTTCCA
131 CACAAGTTCCTCCAAACACACAGGTTCTTTCACAACCTCTGGTTCTAAAATTTCGGGCTCTTCCA
53107866 CAA
196 CAA
* * * *
53107869 ACACTGGTGCTGCTACGATTGGTGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTTAGGT
1 ACACTGGTGCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
* *
53107934 TCTACTTCTCATAACAGTAATAGTCACACGACTTCTACTCATACAAAATCTGGCTCTTCTACACA
66 TCTACTTCTCATAACACTAATAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
* * *
53107999 CACAGGTTCTTCCAAACACACTGGTTCTTTCACAACCTCTGGT
131 CACAAGTTCCTCCAAACACACAGGTTCTTTCACAACCTCTGGT
53108042 CACTCTTCCA
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
198 159 1.00
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (198 bp):
ACACTGGTGCTGCTACAACTGATGGCCATACAACTACTGGTTCTATTTCGAGCCACTCTTCAGGT
TCTACTTCTCATAACACTAATAGTCACACGACATCTACTCATACAAAATCTGGCTCTTCTACACA
CACAAGTTCCTCCAAACACACAGGTTCTTTCACAACCTCTGGTTCTAAAATTTCGGGCTCTTCCA
CAA
Found at i:53122189 original size:33 final size:33
Alignment explanation
Indices: 53122149--53122214 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
53122139 TTTGTACAGG
53122149 AATTAAATCATAAAAGTTGGACTAAATTGAATA
1 AATTAAATCATAAAAGTTGGACTAAATTGAATA
53122182 AATTAAATCATAAAAGTTGGACTAAATTGAATA
1 AATTAAATCATAAAAGTTGGACTAAATTGAATA
53122215 GACTCCAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.30
Consensus pattern (33 bp):
AATTAAATCATAAAAGTTGGACTAAATTGAATA
Found at i:53132124 original size:38 final size:38
Alignment explanation
Indices: 53132070--53132154 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 38
53132060 GCATGATAAT
* * *
53132070 TCATGCC-ACTGTTTCTGTTGCTGATCGAATGTTTAAA
1 TCATGCCTACTGTTTCTGCTACTGATCAAATGTTTAAA
* * *
53132107 TCATGCCTATTGTTTCTGCTACTGATTAAATGTTTCAA
1 TCATGCCTACTGTTTCTGCTACTGATCAAATGTTTAAA
53132145 TCATGCCTAC
1 TCATGCCTAC
53132155 CCTATTATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 7 0.17
38 33 0.82
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.41
Consensus pattern (38 bp):
TCATGCCTACTGTTTCTGCTACTGATCAAATGTTTAAA
Found at i:53132308 original size:20 final size:20
Alignment explanation
Indices: 53132248--53132309 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
53132238 ATTAAAATTT
53132248 TGGTGGCTTGTCCACATTAC
1 TGGTGGCTTGTCCACATTAC
**** * *
53132268 TGGCAATTTATCTACATTAC
1 TGGTGGCTTGTCCACATTAC
*
53132288 TGGTGGCTTGTCCACAATAC
1 TGGTGGCTTGTCCACATTAC
53132308 TG
1 TG
53132310 TCATGTTGTC
Statistics
Matches: 29, Mismatches: 13, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (20 bp):
TGGTGGCTTGTCCACATTAC
Found at i:53133750 original size:27 final size:26
Alignment explanation
Indices: 53133673--53133755 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
53133663 AGGCATCCCT
* *
53133673 TTTCACAGACTGCCACAGAGGCTTCCA
1 TTTCAGAGA-TGCCACAAAGGCTTCCA
* *
53133700 TTTCAGATATGCCACAAAGACTTCCA
1 TTTCAGAGATGCCACAAAGGCTTCCA
*
53133726 TTTCATAGATGGCCACAAAGGCTTCCA
1 TTTCAGAGAT-GCCACAAAGGCTTCCA
53133753 TTT
1 TTT
53133756 TCTGACATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.48
27 25 0.52
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (26 bp):
TTTCAGAGATGCCACAAAGGCTTCCA
Found at i:53133951 original size:50 final size:51
Alignment explanation
Indices: 53133866--53133964 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 51
53133856 CCTTTAGTTC
* * *
53133866 TTCCTATATGATGCCATAACCCACTAGTTATGGTCTTATAAGATATGGTGT
1 TTCCTATATGACGCCATAACCCACTAGTTACGGTCTTACAAGATATGGTGT
* * *
53133917 TTCC-ATATGACGCCATAGCTCACTAGTTACGGTCTTACACGATATGGT
1 TTCCTATATGACGCCATAACCCACTAGTTACGGTCTTACAAGATATGGT
53133965 CCTTTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 38 0.90
51 4 0.10
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (51 bp):
TTCCTATATGACGCCATAACCCACTAGTTACGGTCTTACAAGATATGGTGT
Found at i:53136925 original size:344 final size:344
Alignment explanation
Indices: 53136298--53136985 Score: 1286
Period size: 344 Copynumber: 2.0 Consensus size: 344
53136288 AAGTTCACAT
53136298 GCAAATAGCAAGTAACATAACCATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAG
1 GCAAATAGCAAGTAACATAACCATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAG
53136363 ACATTCATATCACATTTTCATTTATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGA
66 ACATTCATATCACATTTTCATTTATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGA
*
53136428 GGGTTAAGTACATACCTGTTCAAAGTATTCATTTCACAACACTTACCAATACGTCCCTTTCATCT
131 GGGTTAAGTACATACCTGTTCAAAGTATCCATTTCACAACACTTACCAATACGTCCCTTTCATCT
* *
53136493 CGAGTATTCCTCCATTTTAGTAGAATTTTACCCGTTGAACACATCGGAATATAATTCAGATACAT
196 CGAGTATTCCTCCATTTGAGTAGAACTTTACCCGTTGAACACATCGGAATATAATTCAGATACAT
53136558 GGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAAC
261 GGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAAC
53136623 TCGAACTCAACTCAACGAG
326 TCGAACTCAACTCAACGAG
*** *
53136642 GCAAATAGCAAGTAACATAACCATATGCTCAAACATAAAACATCATTTGCATAATCATCACCGAG
1 GCAAATAGCAAGTAACATAACCATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAG
53136707 ACATTCATATCACATTTTCATTTATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGA
66 ACATTCATATCACATTTTCATTTATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGA
53136772 GGGTTAAGTACATACCTGTTCAAAGTATCCATTTCACAACACTTACCAATACGTCCCTTTCATCT
131 GGGTTAAGTACATACCTGTTCAAAGTATCCATTTCACAACACTTACCAATACGTCCCTTTCATCT
* *
53136837 TGAGTATTCCTCCATTTGAGTAGAACTTTACCCGTTGAACACATCGGAATATAATTCGGATACAT
196 CGAGTATTCCTCCATTTGAGTAGAACTTTACCCGTTGAACACATCGGAATATAATTCAGATACAT
53136902 GGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAAC
261 GGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAAC
*
53136967 TCGGACTCAACTCAACGAG
326 TCGAACTCAACTCAACGAG
53136986 CTCGGGCGTT
Statistics
Matches: 334, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
344 334 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (344 bp):
GCAAATAGCAAGTAACATAACCATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAG
ACATTCATATCACATTTTCATTTATCATCTTACCATATTGTTGTTATATCGAGTTTTCAACCCGA
GGGTTAAGTACATACCTGTTCAAAGTATCCATTTCACAACACTTACCAATACGTCCCTTTCATCT
CGAGTATTCCTCCATTTGAGTAGAACTTTACCCGTTGAACACATCGGAATATAATTCAGATACAT
GGAAAGTTTGCACATAAGTGCCACATATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAAC
TCGAACTCAACTCAACGAG
Found at i:53137075 original size:93 final size:93
Alignment explanation
Indices: 53136963--53137133 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
53136953 GCCCATAAGT
* *
53136963 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53137028 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
53137056 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
53137121 CGAGTTCGGATGC
66 CGAGCTCGGATGC
53137134 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:53137130 original size:46 final size:46
Alignment explanation
Indices: 53136955--53137130 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
53136945 TGTAACCCGC
* *
53136955 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
53137001 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
53137047 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
53137094 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
53137131 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:53140448 original size:49 final size:49
Alignment explanation
Indices: 53140377--53140476 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
53140367 TGTAACTCTC
53140377 GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCGCATGGCCGTGT
1 GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCGCATGGCCGTGT
* * *
53140426 GTAATGTAACCTTTAAAGACCTACAGGGGACTGTGTCGCATGGCCGTGT
1 GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCGCATGGCCGTGT
53140475 GT
1 GT
53140477 CACACACGGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (49 bp):
GTAATGTAACCTTTAAAGACCTACAGGGAACCGTGCCGCATGGCCGTGT
Found at i:53146439 original size:10 final size:11
Alignment explanation
Indices: 53146422--53146449 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
53146412 CCCATTTTCT
53146422 CTGTTTTTGGC
1 CTGTTTTTGGC
53146433 CTGTTTTTGGC
1 CTGTTTTTGGC
53146444 CTGTTT
1 CTGTTT
53146450 CTTGTTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.18, G:0.25, T:0.57
Consensus pattern (11 bp):
CTGTTTTTGGC
Found at i:53154209 original size:344 final size:344
Alignment explanation
Indices: 53153438--53154799 Score: 2591
Period size: 344 Copynumber: 4.0 Consensus size: 344
53153428 CTACCTTTTC
53153438 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
1 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
*
53153503 TATTTTTAATGAAGGGTCGATCGAGACCATTCTAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
66 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
*
53153568 GTACGGGTGATTATTTATAAGATTAAGTTCTAAACGGATGATTTAAATTAAGTGATTAATCACAA
131 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
* *
53153633 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGAT-AGTATTCCATTAGCT
196 AAAGTATTTAAAGACTATTAATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
* * *
53153697 AAGATTTGGGTGTAGATATTCTTTAGAGTGGAGTTTCACACCGAATTTACTATCAGGTGTGGGTC
261 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
*
53153762 TAATACAAGTTATATATAT
326 TAATGCAAGTTATATATAT
*
53153781 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTTGTGTATTAACATATCATACTC
1 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
*
53153846 TATTTTTAATGAAGGGTCGATTGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
66 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
53153911 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
131 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
53153976 AAAGTATTTAAAGACTATTAATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
196 AAAGTATTTAAAGACTATTAATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
53154041 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
261 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
53154106 TAATGCAAGTTATATATAT
326 TAATGCAAGTTATATATAT
53154125 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
1 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
53154190 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
66 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
53154255 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
131 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
53154320 AAAGTATTTAAAGACTATTAATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
196 AAAGTATTTAAAGACTATTAATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
53154385 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
261 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
53154450 TAATGCAAGTTATATATAT
326 TAATGCAAGTTATATATAT
*
53154469 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTTGTGTATTAACATATCATACTC
1 CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
*
53154534 TATTTTTAATGAAGGGTCGATTGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
66 TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
53154599 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
131 GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
* *
53154664 AAAGTATTTAAAGACTATTCATTAATAAAAAGTCACCTTGATAACAGATTGGTATTCCATTAGCT
196 AAAGTATTTAAAGACTATTAATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
53154729 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
261 AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
53154794 TAATGC
326 TAATGC
53154800 TTGATTTATG
Statistics
Matches: 1002, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
343 239 0.24
344 763 0.76
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (344 bp):
CTTTTAATCGAATGTCTACAAAGACTTATAATGTATTTTTCCTCGTGTATTAACATATCATACTC
TATTTTTAATGAAGGGTCGATCGAGACCATTCCAAAAAGCTCCTAGTTTTGGGAATGAAACCATT
GTACGGGTGATTATTTATAAGATTAAGTTCTAAATGGATGATTTAAATTAAGTGATTAATCACAA
AAAGTATTTAAAGACTATTAATTAATAAAAAGTCACCTTGATAACAGATCGGTATTCCATTAGCT
AAGATTTGAGTGTAGACATTCTTTAGAGTGGAGTTTCACACCGGATTTACTATCAGGTGTGGGTC
TAATGCAAGTTATATATAT
Found at i:53154950 original size:37 final size:37
Alignment explanation
Indices: 53154903--53154988 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
53154893 CTATTTTGTG
*
53154903 AAAGCATGTTGTGTGGTAATGTTTATTACTGATTTGA
1 AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
*
53154940 AAAGCATGTTGTATGGTTATGTTTATTACTGATTTGA
1 AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
*
53154977 AAAACATGTTGT
1 AAAGCATGTTGT
53154989 TCTCATTCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (37 bp):
AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
Found at i:53155388 original size:20 final size:20
Alignment explanation
Indices: 53155273--53155389 Score: 51
Period size: 20 Copynumber: 5.8 Consensus size: 20
53155263 CATATTACTA
*
53155273 GAAGCTTGTCTATATTATTG
1 GAAGCTTGTCTACATTATTG
* * * * *
53155293 GTAGCTTATTTGCAATATT-
1 GAAGCTTGTCTACATTATTG
* *
53155312 GACAGCTTGTCTACACTACTG
1 GA-AGCTTGTCTACATTATTG
* * *
53155333 GCAA-TTTATCTGCATTATTG
1 G-AAGCTTGTCTACATTATTG
* * *
53155353 G-TGACTTGACCACATTATTG
1 GAAG-CTTGTCTACATTATTG
*
53155373 GAAGCTTGTCTGCATTA
1 GAAGCTTGTCTACATTA
53155390 CTGGTGGCTT
Statistics
Matches: 64, Mismatches: 27, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
19 1 0.02
20 59 0.92
21 3 0.05
22 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (20 bp):
GAAGCTTGTCTACATTATTG
Found at i:53156659 original size:37 final size:37
Alignment explanation
Indices: 53156612--53156697 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
53156602 CTATTTTGTG
*
53156612 AAAGCATGTTGTGTGGTAATGTTTATTACTGATTTGA
1 AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
*
53156649 AAAGCATGTTGTATGGTTATGTTTATTACTGATTTGA
1 AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
*
53156686 AAAACATGTTGT
1 AAAGCATGTTGT
53156698 TCTCATTCTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (37 bp):
AAAGCATGTTGTATGGTAATGTTTATTACTGATTTGA
Found at i:53157097 original size:20 final size:20
Alignment explanation
Indices: 53156982--53157098 Score: 51
Period size: 20 Copynumber: 5.8 Consensus size: 20
53156972 CATATTACTA
*
53156982 GAAGCTTGTCTATATTATTG
1 GAAGCTTGTCTACATTATTG
* * * * *
53157002 GTAGCTTATTTGCAATATT-
1 GAAGCTTGTCTACATTATTG
* *
53157021 GACAGCTTGTCTACACTACTG
1 GA-AGCTTGTCTACATTATTG
* * *
53157042 GCAA-TTTATCTGCATTATTG
1 G-AAGCTTGTCTACATTATTG
* * *
53157062 G-TGACTTGACCACATTATTG
1 GAAG-CTTGTCTACATTATTG
*
53157082 GAAGCTTGTCTGCATTA
1 GAAGCTTGTCTACATTA
53157099 CTGGTGGCTT
Statistics
Matches: 64, Mismatches: 27, Indels: 12
0.62 0.26 0.12
Matches are distributed among these distances:
19 1 0.02
20 59 0.92
21 3 0.05
22 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (20 bp):
GAAGCTTGTCTACATTATTG
Found at i:53160692 original size:21 final size:21
Alignment explanation
Indices: 53160668--53160709 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
53160658 GTTTAGATCA
53160668 AGAACCAAAGAAATCAGATTT
1 AGAACCAAAGAAATCAGATTT
53160689 AGAACCAAAGAAATCAGATTT
1 AGAACCAAAGAAATCAGATTT
53160710 GGATTGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (21 bp):
AGAACCAAAGAAATCAGATTT
Found at i:53162825 original size:47 final size:47
Alignment explanation
Indices: 53162772--53162903 Score: 255
Period size: 47 Copynumber: 2.8 Consensus size: 47
53162762 TTGGCCACTC
53162772 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
*
53162819 GGCCTTATCACATATATACACTTTCACATTCATCAGATCGGCTATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
53162866 GGCCTTATCACATATATACACTTTCACATTCATCACAT
1 GGCCTTATCACATATATACACTTTCACATTCATCACAT
53162904 TATCTCATAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (47 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
Found at i:53162894 original size:16 final size:16
Alignment explanation
Indices: 53162873--53162927 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
53162863 TTAGGCCTTA
53162873 TCACATATATACACTT
1 TCACATATATACACTT
53162889 TCACAT-TCAT-CACATT
1 TCACATAT-ATACAC-TT
*
53162905 ATCTCATATATACACTT
1 -TCACATATATACACTT
53162922 TCACAT
1 TCACAT
53162928 TCATCACATC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
15 4 0.12
16 15 0.47
17 9 0.28
18 4 0.12
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (16 bp):
TCACATATATACACTT
Found at i:53162913 original size:33 final size:33
Alignment explanation
Indices: 53162870--53162936 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
53162860 CTATTAGGCC
53162870 TTATCACATATATACACTTTCACATTCATCACA
1 TTATCACATATATACACTTTCACATTCATCACA
*
53162903 TTATCTCATATATACACTTTCACATTCATCACA
1 TTATCACATATATACACTTTCACATTCATCACA
53162936 T
1 T
53162937 CGGCTATTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (33 bp):
TTATCACATATATACACTTTCACATTCATCACA
Found at i:53162917 original size:80 final size:80
Alignment explanation
Indices: 53162823--53162983 Score: 304
Period size: 80 Copynumber: 2.0 Consensus size: 80
53162813 CTATTAGGCC
*
53162823 TTATCACATATATACACTTTCACATTCATCAGATCGGCTATTAGGCCTTATCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
53162888 TTCACATTCATCACA
66 TTCACATTCATCACA
*
53162903 TTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
1 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
53162968 TTCACATTCATCACA
66 TTCACATTCATCACA
53162983 T
1 T
53162984 CGGCCATTAG
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.36
Consensus pattern (80 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
TTCACATTCATCACA
Found at i:53162960 original size:47 final size:47
Alignment explanation
Indices: 53162903--53163233 Score: 565
Period size: 47 Copynumber: 7.0 Consensus size: 47
53162893 ATTCATCACA
* *
53162903 TTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
53162950 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
53162997 TTATCACATATATACACTTTCACATTCATCACATTGGCCATTCA-GCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATT-AGGCC
* *
53163044 TTATCACATATATACACTTTCACATTCATCAAATCGGACATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
53163091 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
53163140 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
53163187 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
53163234 ATACTATCAT
Statistics
Matches: 268, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 223 0.83
48 1 0.00
49 43 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:53163002 original size:127 final size:127
Alignment explanation
Indices: 53162776--53163173 Score: 582
Period size: 127 Copynumber: 3.0 Consensus size: 127
53162766 CCACTCGGCC
*
53162776 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
1 TTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
* *
53162841 TTCACATTCATCAGATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
53162903 TTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
1 TTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
53162968 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
53163030 TTGGCCATTCAGCCTTATCACATATATACACTTTCACATTCATCAAATCGGAC-ATTAGGCCTTA
1 TT----A-T----C---T--CATATATACACTTTCACATTCATCACATCGG-CTATTAGGCCTTA
* *
53163094 TCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTT
51 TCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
53163159 TCACATTCATCACA
114 TCACATTCATCACA
53163173 T
1 T
53163174 CGGCCATTAG
Statistics
Matches: 248, Mismatches: 6, Indels: 18
0.91 0.02 0.07
Matches are distributed among these distances:
127 126 0.51
131 1 0.00
132 1 0.00
136 1 0.00
139 1 0.00
141 45 0.18
142 1 0.00
143 72 0.29
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (127 bp):
TTATCTCATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
Found at i:53167049 original size:20 final size:20
Alignment explanation
Indices: 53167024--53167062 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53167014 TTAAATTAAA
53167024 TTTAATATTAAAATAATAAC
1 TTTAATATTAAAATAATAAC
*
53167044 TTTAATATTAAATTAATAA
1 TTTAATATTAAAATAATAA
53167063 AATACTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAATATTAAAATAATAAC
Found at i:53167066 original size:25 final size:26
Alignment explanation
Indices: 53167025--53167074 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
53167015 TAAATTAAAT
53167025 TTAATATTAAAATAATAACT-TTAATA
1 TTAATATTAAAATAAT-ACTATTAATA
53167051 TTAA-ATTAATAA-AATACTATTAAT
1 TTAATATTAA-AATAATACTATTAAT
53167075 CTAAGTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
TTAATATTAAAATAATACTATTAATA
Found at i:53167107 original size:37 final size:35
Alignment explanation
Indices: 53167013--53167110 Score: 100
Period size: 37 Copynumber: 2.9 Consensus size: 35
53167003 CGAGATAAAC
*
53167013 ATTAAATTAAATTTAATATTAAA--A-TAATAACT
1 ATTAAATTAAATTTAATATAAAACTATTAATAACT
*
53167045 -TTAATATTAAA-TTAATA-AAATACTATTAATCTAAGT
1 ATTAA-ATTAAATTTAATATAAA-ACTATTAA--TAACT
53167081 ATTAAATTAAATTTAATATAAAACTATTAA
1 ATTAAATTAAATTTAATATAAAACTATTAA
53167111 AATGATATTC
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
30 2 0.04
31 11 0.20
32 6 0.11
33 1 0.02
34 3 0.06
36 10 0.19
37 18 0.33
38 3 0.06
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (35 bp):
ATTAAATTAAATTTAATATAAAACTATTAATAACT
Found at i:53177089 original size:23 final size:23
Alignment explanation
Indices: 53177054--53177186 Score: 114
Period size: 23 Copynumber: 5.8 Consensus size: 23
53177044 GACTCACCAT
*
53177054 AGCTCATATGAGCTTACTGATTC
1 AGCTCATAAGAGCTTACTGATTC
*
53177077 AGCTCGTAAGAGCTTACT-ATTTC
1 AGCTCATAAGAGCTTACTGA-TTC
** *
53177100 AGCTCATTGGAGCTTATTGATTC
1 AGCTCATAAGAGCTTACTGATTC
*
53177123 AGCTGA-AAGAGCTTACTG-TTC
1 AGCTCATAAGAGCTTACTGATTC
* * *
53177144 AGCTTA-ATAGAGCTTACCGTTTTC
1 AGCTCATA-AGAGCTTACTG-ATTC
53177168 AGCTCA-ATAGAGCTTACTG
1 AGCTCATA-AGAGCTTACTG
53177187 TTTATCAGCT
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
21 9 0.10
22 20 0.22
23 41 0.45
24 21 0.23
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (23 bp):
AGCTCATAAGAGCTTACTGATTC
Found at i:53177121 original size:46 final size:44
Alignment explanation
Indices: 53177054--53177188 Score: 139
Period size: 46 Copynumber: 3.0 Consensus size: 44
53177044 GACTCACCAT
* *
53177054 AGCTCATATGAGCTTACTGATTCAGCTCGTAAGAGCTTACTATTTC
1 AGCTCATATGAGCTTACTGATTCAGCT-GAAAGAGCTTACT-GTTC
*
53177100 AGCTCAT-TGGAGCTTATTGATTCAGCTGAAAGAGCTTACTGTTC
1 AGCTCATAT-GAGCTTACTGATTCAGCTGAAAGAGCTTACTGTTC
* * * *
53177144 AGCTTA-ATAGAGCTTACCGTTTTCAGCTCAATAGAGCTTACTGTT
1 AGCTCATAT-GAGCTTACTG-ATTCAGCTGAA-AGAGCTTACTGTT
53177189 TATCAGCTCA
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
44 17 0.22
45 22 0.29
46 37 0.49
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (44 bp):
AGCTCATATGAGCTTACTGATTCAGCTGAAAGAGCTTACTGTTC
Found at i:53177176 original size:24 final size:24
Alignment explanation
Indices: 53177120--53177211 Score: 100
Period size: 24 Copynumber: 3.9 Consensus size: 24
53177110 AGCTTATTGA
* *
53177120 TTCAGCTGAA-AGAGCTTA-C-TG
1 TTCAGCTCAATAGAGCTTACCGTT
*
53177141 TTCAGCTTAATAGAGCTTACCGTT
1 TTCAGCTCAATAGAGCTTACCGTT
*
53177165 TTCAGCTCAATAGAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACCGTT
*
53177189 TATCAGCTCAAGAGAAGCTTACC
1 T-TCAGCTCAATAG-AGCTTACC
53177212 AACCATGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
21 9 0.15
22 8 0.13
23 1 0.02
24 24 0.40
25 11 0.18
26 7 0.12
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACCGTT
Found at i:53182299 original size:12 final size:12
Alignment explanation
Indices: 53182284--53182316 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
53182274 GCCTAGCACA
*
53182284 CGCCTGTGTGTG
1 CGCCCGTGTGTG
53182296 CGCCCGTGTGTG
1 CGCCCGTGTGTG
53182308 CGCCCGTGT
1 CGCCCGTGT
53182317 CCCTGCCCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.00, C:0.33, G:0.39, T:0.27
Consensus pattern (12 bp):
CGCCCGTGTGTG
Found at i:53183034 original size:20 final size:20
Alignment explanation
Indices: 53183009--53183055 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
53182999 TATCTCAAAC
*
53183009 CACATATTTCATATACATTT-
1 CACATATTCCA-ATACATTTA
*
53183029 CACATATTCCAATTCATTTA
1 CACATATTCCAATACATTTA
53183049 CACATAT
1 CACATAT
53183056 AGCATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
CACATATTCCAATACATTTA
Found at i:53183349 original size:43 final size:42
Alignment explanation
Indices: 53183225--53183386 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 42
53183215 GGAAAGCTCT
* * *
53183225 TACAATGACAACGTCCCAGATGTGATCTTACA-TGTAATCAAA
1 TACAATGCCAACGTCCCAGATGTGGTCTTACACT-AAATCAAA
* * *
53183267 TATCAAT-CCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGA-TGTGGTCTTACACTAAATCAAA
*
53183310 TACAATGCCAACGTCCTAGATGTGGTCTTACACATAAATCATAA
1 TACAATGCCAACGTCCCAGATGTGGTCTTACAC-TAAATCA-AA
** **
53183354 GT-TGATGCCAACGTCCCAGACATGGTCTTACAC
1 -TACAATGCCAACGTCCCAGATGTGGTCTTACAC
53183387 GAGAACACAT
Statistics
Matches: 96, Mismatches: 15, Indels: 16
0.76 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 26 0.27
43 39 0.41
44 29 0.30
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGATGTGGTCTTACACTAAATCAAA
Found at i:53190369 original size:13 final size:13
Alignment explanation
Indices: 53190333--53190369 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
53190323 ATGGGTACAC
53190333 ACGGCCGTGTCGT
1 ACGGCCGTGTCGT
*
53190346 ACGACCGTGTCGT
1 ACGGCCGTGTCGT
*
53190359 ACGGCCATGTC
1 ACGGCCGTGTC
53190370 TGTCTTCGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.32, G:0.32, T:0.22
Consensus pattern (13 bp):
ACGGCCGTGTCGT
Found at i:53195496 original size:20 final size:20
Alignment explanation
Indices: 53195471--53195510 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53195461 CCGAATGGTA
53195471 ATCAATATCAAGCTCATAGT
1 ATCAATATCAAGCTCATAGT
*
53195491 ATCAATATCAAGCTCGTAGT
1 ATCAATATCAAGCTCATAGT
53195511 CTTTTAGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (20 bp):
ATCAATATCAAGCTCATAGT
Found at i:53200182 original size:43 final size:42
Alignment explanation
Indices: 53200115--53200230 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 42
53200105 AGCTCGTACA
* ** *
53200115 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACATCCCAGACATGGTCTTACATGAAATCAAATAT-G
**
53200158 ATGCC-ACAGTCCCAGACA-GAGTCTTACACAAAATCAAATATG
1 ATGCCAACA-TCCCAGACATG-GTCTTACATGAAATCAAATATG
*
53200200 ATGCCAACATTCCAGACATGGTCTTACATGA
1 ATGCCAACATCCCAGACATGGTCTTACATGA
53200231 GAACACATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (42 bp):
ATGCCAACATCCCAGACATGGTCTTACATGAAATCAAATATG
Found at i:53204261 original size:29 final size:29
Alignment explanation
Indices: 53204198--53204265 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
53204188 TAATCAACCG
53204198 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
53204227 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
53204256 CGCACACTTA
1 CGCACACTTA
53204266 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:53204377 original size:174 final size:174
Alignment explanation
Indices: 53204087--53204414 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
53204077 AACTCAAGGT
* *
53204087 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
53204152 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
53204217 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
53204261 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
53204326 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
53204391 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
53204415 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:53204406 original size:29 final size:30
Alignment explanation
Indices: 53204367--53204445 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
53204357 CTTAATAATC
53204367 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
53204397 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
53204426 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53204446 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:53216254 original size:34 final size:34
Alignment explanation
Indices: 53216184--53216254 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
53216174 CCTCATTCGT
* *
53216184 TTATAAGCATGATATTCGTATATGTTTTGTTCTG
1 TTATAAGCATGATATTCGTATATATTTTATTCTG
* * * *
53216218 TTATAAGTATGATATTTGTATCTATTTTATTTTG
1 TTATAAGCATGATATTCGTATATATTTTATTCTG
53216252 TTA
1 TTA
53216255 GATGCACGAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (34 bp):
TTATAAGCATGATATTCGTATATATTTTATTCTG
Found at i:53216746 original size:17 final size:17
Alignment explanation
Indices: 53216724--53216756 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
53216714 TGCAAGTTAC
53216724 TATATG-TAATGTGATTT
1 TATATGCTAAT-TGATTT
53216741 TATATGCTAATTGATT
1 TATATGCTAATTGATT
53216757 GCACTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (17 bp):
TATATGCTAATTGATTT
Found at i:53225736 original size:14 final size:14
Alignment explanation
Indices: 53225706--53225745 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
53225696 TACTTACTAT
53225706 AAAATAAATAAATTTA
1 AAAATAAAT--ATTTA
53225722 AAAATAAATATTTA
1 AAAATAAATATTTA
*
53225736 ATAATAAATA
1 AAAATAAATA
53225746 ACTTGAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
16 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAATAAATATTTA
Found at i:53228964 original size:39 final size:38
Alignment explanation
Indices: 53228905--53228978 Score: 130
Period size: 39 Copynumber: 1.9 Consensus size: 38
53228895 CCAAATAGGC
*
53228905 CTCACTTGCAATTCTGCTAACAGACTTCCATCATCAGGT
1 CTCACTTGCAATTCTACTAACAGACTTCCA-CATCAGGT
53228944 CTCACTTGCAATTCTACTAACAGACTTCCACATCA
1 CTCACTTGCAATTCTACTAACAGACTTCCACATCA
53228979 AATAGACTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 5 0.15
39 29 0.85
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.30
Consensus pattern (38 bp):
CTCACTTGCAATTCTACTAACAGACTTCCACATCAGGT
Found at i:53231936 original size:13 final size:13
Alignment explanation
Indices: 53231918--53231949 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
53231908 TCATCCCCCG
53231918 CGGCCCGATCATA
1 CGGCCCGATCATA
53231931 CGGCCCGATCATA
1 CGGCCCGATCATA
53231944 CGGCCC
1 CGGCCC
53231950 ATTCTCATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.44, G:0.25, T:0.12
Consensus pattern (13 bp):
CGGCCCGATCATA
Found at i:53235697 original size:19 final size:20
Alignment explanation
Indices: 53235655--53235703 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
53235645 TCATGCTTTT
* *
53235655 TATTTACATTTTCATATTCA
1 TATTCACATTTTCATAATCA
53235675 -ATTCACATTTTCA-AATCA
1 TATTCACATTTTCATAATCA
53235693 TATTCCACATT
1 TATT-CACATT
53235704 CACAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 6 0.24
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTCACATTTTCATAATCA
Found at i:53237292 original size:50 final size:48
Alignment explanation
Indices: 53237047--53237364 Score: 178
Period size: 46 Copynumber: 6.7 Consensus size: 48
53237037 TGTGTAAGCT
* * ** *
53237047 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CGCATTATGAAAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACACG-AAGATGAGAGCC
* * * * * *
53237093 GGTGTAAGACCATGTCTGGGACATGGCATCGACATTG-AGACGAGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACA-CGAAGATGAGAGCC
* * * * * *
53237141 AGTGTAAGA-CATGCCTGGGACAT-GCATCAGCCTCGGGACAT-A-AGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATC-GACAC-GAAGATGAGAGCC
* * * * * * *
53237187 AGTATAAGA-CATGTCTGGGATAT-GTATCGGCTACG-AGAT--GTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGAC-ACGAAGATGAGAGCC
* * * *
53237231 AGTGTAAGACCATGTCTAGGATATGGCATCAACACGGCTATG-TGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACAC-G--AAGATGAGAGCC
* * *
53237281 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGATAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACA-CGAAGATGAGAGCC
53237330 AGTGTAAGACCATGTCTAGGACATGGCATCGACAC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACAC
53237365 TTTACCCATG
Statistics
Matches: 208, Mismatches: 45, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
44 13 0.06
45 18 0.09
46 46 0.22
47 31 0.15
48 26 0.12
49 39 0.19
50 34 0.16
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGACACGAAGATGAGAGCC
Found at i:53242017 original size:40 final size:40
Alignment explanation
Indices: 53241017--53242006 Score: 1926
Period size: 40 Copynumber: 24.8 Consensus size: 40
53241007 ATTTGAATAC
*
53241017 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241057 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241097 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241137 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241177 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241217 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241257 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241297 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241337 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241377 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241417 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241457 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241497 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241537 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241577 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241617 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241657 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241697 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241737 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241777 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241817 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241857 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
53241897 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
53241937 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
53241977 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
53242007 TTGTGGTTAT
Statistics
Matches: 943, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 943 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Done.