Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 39 of 373
Found at i:11288991 original size:30 final size:30
Alignment explanation
Indices: 11288950--11289008 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
11288940 AGTGATTTCC
*
11288950 GTATAAAACCATATTTGGGATATGGCATCT
1 GTATAAAACCATATCTGGGATATGGCATCT
*
11288980 GTATAAGACCATATCTGGGATATGGCATC
1 GTATAAAACCATATCTGGGATATGGCATC
11289009 AGTGAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (30 bp):
GTATAAAACCATATCTGGGATATGGCATCT
Found at i:11289035 original size:46 final size:43
Alignment explanation
Indices: 11288983--11289142 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 43
11288973 GGCATCTGTA
* * * *
11288983 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATCA--GAGATATG-AATATGTG
* *
11289029 TAAGACCATAGCTAGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
* ** * * *
11289071 TAACACCATAGCTGGGCTATGGCATCA-TTATGTGAAGATGTA
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
* **
11289113 TAAGACCATAGTTGAACTATGGCATC-GAGA
1 TAAGACCATAGCTGGGCTATGGCATCAGAGA
11289143 AAACGAAGTA
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 64 0.68
43 7 0.07
46 23 0.24
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATGTG
Found at i:11289089 original size:42 final size:43
Alignment explanation
Indices: 11289025--11289140 Score: 146
Period size: 42 Copynumber: 2.7 Consensus size: 43
11289015 ATATGTGATT
* *
11289025 TGTGTAAGACCATAGCTAGGCTATGGCATCGA-TATATGAATA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
* *
11289067 TGTGTAACACCATAGCTGGGCTATGGCATC-ATTATGTGAAGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
* * **
11289109 TGTATAAGACCATAGTTGAACTATGGCATCGA
1 TGTGTAAGACCATAGCTGGGCTATGGCATCGA
11289141 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (43 bp):
TGTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGA
Found at i:11291314 original size:30 final size:30
Alignment explanation
Indices: 11291239--11291314 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
11291229 ATGTTGATGA
* *
11291239 TATTTTATAATTATTTAATTAGAAAATTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
* * *
11291269 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAATTAT
11291299 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
11291315 TATTTAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 37 0.95
31 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAATTAT
Found at i:11300215 original size:22 final size:24
Alignment explanation
Indices: 11300170--11300215 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
11300160 TAAAATTTTA
* *
11300170 TTAAGTTCTATAAAAATATGTAAT
1 TTAAGTTCTATAAAAAAATCTAAT
11300194 TTAA-TTC-ATAAAAAAATCTAAT
1 TTAAGTTCTATAAAAAAATCTAAT
11300216 AGTTAACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 3 0.15
24 4 0.20
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (24 bp):
TTAAGTTCTATAAAAAAATCTAAT
Found at i:11300631 original size:32 final size:32
Alignment explanation
Indices: 11300590--11300653 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
11300580 AGAAACAATC
11300590 ACATTACTATTTACTTGATAAGCCCAAATCCA
1 ACATTACTATTTACTTGATAAGCCCAAATCCA
11300622 ACATTACTATTTACTTGATAAGCCCAAATCCA
1 ACATTACTATTTACTTGATAAGCCCAAATCCA
11300654 TCCCAAGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ACATTACTATTTACTTGATAAGCCCAAATCCA
Found at i:11305920 original size:5 final size:5
Alignment explanation
Indices: 11305912--11305949 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
11305902 CTATGTGAAA
*
11305912 AAAAT AAAAT AAAAT AAAAT AAAGAA AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
11305950 CACACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:11310380 original size:5 final size:5
Alignment explanation
Indices: 11310370--11310394 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11310360 CCAATTTGTG
11310370 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
11310395 CACACAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:11313548 original size:46 final size:46
Alignment explanation
Indices: 11313489--11313664 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
11313479 TGGTTGAGCA
*
11313489 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
11313535 TCCGGACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
11313582 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
11313628 CCCGAGA-TCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11313665 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:11313645 original size:93 final size:93
Alignment explanation
Indices: 11313486--11313657 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
11313476 GGATGGTTGA
* * * *
11313486 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGGACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGACTCGTTGAGT
11313551 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
11313579 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGA-TCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCG-GACTCGTTGAG
11313643 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
11313658 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGGACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:11316349 original size:23 final size:23
Alignment explanation
Indices: 11316323--11316406 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
11316313 GGTATTACAG
* *
11316323 AATATGCCACAAGGGCATCACAT
1 AATATGCCACAAAGGCATCACAA
* * *
11316346 AATATGTCACAAAAGCATCACAG
1 AATATGCCACAAAGGCATCACAA
*
11316369 AATATGCCACAAAGGCTTCACAA
1 AATATGCCACAAAGGCATCACAA
*
11316392 AATATGCTACAAAGG
1 AATATGCCACAAAGG
11316407 TTTCACAGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (23 bp):
AATATGCCACAAAGGCATCACAA
Found at i:11319489 original size:47 final size:48
Alignment explanation
Indices: 11319404--11319500 Score: 110
Period size: 47 Copynumber: 2.0 Consensus size: 48
11319394 ATTAAATACA
* * * *
11319404 TATATTAGTAATTATTATTTACTTATAATATAAGTAAATATATTATAT
1 TATATTAGTAATTATTATTTACTTATAACATAAATAAATAAATTAAAT
*
11319452 TATATTA-TTATTATTA-TTA-TTATAAACATAAAATAAATAAATTAAAT
1 TATATTAGTAATTATTATTTACTTAT-AACAT-AAATAAATAAATTAAAT
11319499 TA
1 TA
11319501 ATACAATTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
45 4 0.10
46 7 0.17
47 24 0.57
48 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (48 bp):
TATATTAGTAATTATTATTTACTTATAACATAAATAAATAAATTAAAT
Found at i:11319538 original size:19 final size:22
Alignment explanation
Indices: 11319514--11319561 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
11319504 CAATTGTATG
11319514 GTAATAAA-A-ATG-TACAATT
1 GTAATAAATACATGATACAATT
11319533 GTAATAAATACATGCATACAATT
1 GTAATAAATACATG-ATACAATT
11319556 GTAATA
1 GTAATA
11319562 TATATGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 3 0.12
23 13 0.52
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (22 bp):
GTAATAAATACATGATACAATT
Found at i:11321081 original size:47 final size:47
Alignment explanation
Indices: 11321024--11321122 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
11321014 ATGTGTGTCA
* * * *
11321024 TACTGCTACTG-TTACATCGGCTTAATCTGATGAGGTACTGAGTACCG
1 TACTGCTACTGTTTACATCGGC-AAAGCCGATGAGGCACTGAGTACCG
* * *
11321071 TACTGTTACTGTTTACTTCGGCAAAGCCGATGAGGCACTGAGTGCCG
1 TACTGCTACTGTTTACATCGGCAAAGCCGATGAGGCACTGAGTACCG
11321118 TACTG
1 TACTG
11321123 GTGTGTTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 35 0.80
48 9 0.20
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (47 bp):
TACTGCTACTGTTTACATCGGCAAAGCCGATGAGGCACTGAGTACCG
Found at i:11324390 original size:21 final size:21
Alignment explanation
Indices: 11324365--11324404 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11324355 TCACGTCGCG
*
11324365 ACGTCGGGTACATGTCGTCAA
1 ACGTCAGGTACATGTCGTCAA
11324386 ACGTCAGGTACATGTCGTC
1 ACGTCAGGTACATGTCGTC
11324405 GTGATAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (21 bp):
ACGTCAGGTACATGTCGTCAA
Found at i:11327124 original size:30 final size:30
Alignment explanation
Indices: 11327090--11327149 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
11327080 ACTTAACAAG
11327090 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
11327120 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
11327150 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:11347311 original size:5 final size:5
Alignment explanation
Indices: 11347195--11347292 Score: 187
Period size: 5 Copynumber: 19.6 Consensus size: 5
11347185 ATATTTAAAA
*
11347195 ATAAT ATAAC ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
11347245 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
11347293 GGTCTAGTAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 91 1.00
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:11347446 original size:16 final size:16
Alignment explanation
Indices: 11347412--11347464 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
11347402 ATGACATCAG
11347412 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
11347428 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
11347444 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
11347460 TCATG
1 TCATG
11347465 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:11349412 original size:28 final size:29
Alignment explanation
Indices: 11349375--11349450 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 29
11349365 AATCATATTC
* * *
11349375 ATATGACCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAAACACATGT
*
11349404 AT-TGGCCCATTAGGCCCAAAACACATTT
1 ATATGGCCCATTAGGCCCAAAACACATGT
* *
11349432 ATATGGCTCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
11349451 GTCACATTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 24 0.60
29 16 0.40
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAAACACATGT
Found at i:11349436 original size:57 final size:57
Alignment explanation
Indices: 11349341--11349450 Score: 132
Period size: 57 Copynumber: 1.9 Consensus size: 57
11349331 AATTTCACAT
* * *
11349341 ACCTGTATCTGGCCCATTAAGCCTAATCATATTCATATGACCCATTAGGCCCAAATC
1 ACCTGTATCTGGCCCATTAAGCCAAAACACATTCATATGACCCATTAGGCCCAAATC
* * * * *
11349398 ACCTGTAT-TGGCCCATTAGGCCCAAAACACATTTATATGGCTCGTTAGGCCCA
1 ACCTGTATCTGGCCCATTAAG-CCAAAACACATTCATATGACCCATTAGGCCCA
11349451 GTCACATTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
56 11 0.25
57 33 0.75
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (57 bp):
ACCTGTATCTGGCCCATTAAGCCAAAACACATTCATATGACCCATTAGGCCCAAATC
Found at i:11349699 original size:16 final size:16
Alignment explanation
Indices: 11349678--11349724 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
11349668 CCAAACTTTT
11349678 GACTTTTCGGCATTTC
1 GACTTTTCGGCATTTC
* *
11349694 GACTTTTCAGCTTTTC
1 GACTTTTCGGCATTTC
*
11349710 G-GTATTTCGGCATTT
1 GACT-TTTCGGCATTT
11349725 TGGCTTTTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.47
Consensus pattern (16 bp):
GACTTTTCGGCATTTC
Found at i:11349730 original size:24 final size:23
Alignment explanation
Indices: 11349672--11349732 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
11349662 CCGTAGCCAA
*
11349672 ACTTTTGACTTTTCGGCATTTCG
1 ACTTTTGGCTTTTCGGCATTTCG
* *
11349695 ACTTTTCAGCTTTTCGGTATTTCG
1 ACTTTT-GGCTTTTCGGCATTTCG
*
11349719 GCATTTTGGCTTTT
1 AC-TTTTGGCTTTT
11349733 GCCGATACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 6 0.19
24 21 0.68
25 4 0.13
ACGTcount: A:0.11, C:0.20, G:0.18, T:0.51
Consensus pattern (23 bp):
ACTTTTGGCTTTTCGGCATTTCG
Found at i:11351548 original size:20 final size:21
Alignment explanation
Indices: 11351514--11351565 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
11351504 TGATGATATT
*
11351514 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
11351535 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
11351555 TTTTATTATTT
1 TTATATTATTT
11351566 ATTATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 14 0.52
21 9 0.33
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:11353753 original size:23 final size:23
Alignment explanation
Indices: 11353719--11353871 Score: 130
Period size: 23 Copynumber: 6.5 Consensus size: 23
11353709 CCTGATATAT
* *
11353719 GGCTCTTCGTGAGCTTCCTGATA
1 GGCTCTTTGTGAGCTTCCCGATA
11353742 GGCTCTTTGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
*
11353765 GGCTCTTTGTGAGCTTCTCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
** *
11353788 GTGCTCGCT-TGAACTTCCCGATATA
1 G-GCTCTTTGTGAGCTTCCCG--ATA
* * * *
11353813 TGGCTATTCG-AAGCTTCCTGATA
1 -GGCTCTTTGTGAGCTTCCCGATA
* *
11353836 GGTTCTTCGTGAGCTTCCCGATA
1 GGCTCTTTGTGAGCTTCCCGATA
*
11353859 TGGTTCTTTGTGA
1 -GGCTCTTTGTGA
11353872 AATACCTAAT
Statistics
Matches: 104, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
22 7 0.07
23 67 0.64
24 16 0.15
25 13 0.12
26 1 0.01
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.37
Consensus pattern (23 bp):
GGCTCTTTGTGAGCTTCCCGATA
Found at i:11353771 original size:46 final size:47
Alignment explanation
Indices: 11353715--11353871 Score: 160
Period size: 46 Copynumber: 3.3 Consensus size: 47
11353705 GCGTCCTGAT
11353715 ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
* ** *
11353762 ATA-GGCTCTTTGTGAGCTT-CTCGATAGTGCTCGCT-TGAACTTCCCG
1 ATATGGCTCTTCGTGAGCTTCCT-GATAG-GCTCTTTGTGAGCTTCCCG
* * * *
11353808 ATATATGGCTATTCG-AAGCTTCCTGATAGGTTCTTCGTGAGCTTCCCG
1 --ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
* *
11353856 ATATGGTTCTTTGTGA
1 ATATGGCTCTTCGTGA
11353872 AATACCTAAT
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
45 2 0.02
46 40 0.47
47 12 0.14
48 23 0.27
49 9 0.10
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (47 bp):
ATATGGCTCTTCGTGAGCTTCCTGATAGGCTCTTTGTGAGCTTCCCG
Found at i:11355333 original size:28 final size:30
Alignment explanation
Indices: 11355278--11355333 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
11355268 TTCCTAAATT
*
11355278 TCAAAATTCTCACAATTTAGTCCCTAATAC
1 TCAAAATTCTCACAATTTAGTCCATAATAC
*
11355308 TCAAAATT-T-ACAATTTATTCCATAAT
1 TCAAAATTCTCACAATTTAGTCCATAAT
11355334 TCAATACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 15 0.62
29 1 0.04
30 8 0.33
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (30 bp):
TCAAAATTCTCACAATTTAGTCCATAATAC
Found at i:11355578 original size:17 final size:18
Alignment explanation
Indices: 11355546--11355580 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
11355536 TGAACCCTAA
11355546 CTTTTTCTCCTTTCTTTCC
1 CTTTTTCT-CTTTCTTTCC
11355565 CTTTTTCT-TTTCTTTC
1 CTTTTTCTCTTTCTTTC
11355581 ATTTTGCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCC
Found at i:11355659 original size:16 final size:16
Alignment explanation
Indices: 11355625--11355659 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11355615 CTTTTATTTC
* *
11355625 ATTTCATTTATTTATT
1 ATTTCATTTACTTAGT
11355641 ATTTCATTTACTTAGT
1 ATTTCATTTACTTAGT
11355657 ATT
1 ATT
11355660 ATTATAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTTCATTTACTTAGT
Found at i:11355735 original size:19 final size:20
Alignment explanation
Indices: 11355713--11355755 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11355703 ATATTAAGTA
11355713 ATACATATAT-TATTATTTT
1 ATACATATATATATTATTTT
* *
11355732 ATACTTATGTATATTATTTT
1 ATACATATATATATTATTTT
11355752 -TACA
1 ATACA
11355756 CTTGTTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (20 bp):
ATACATATATATATTATTTT
Found at i:11361731 original size:17 final size:17
Alignment explanation
Indices: 11361709--11361749 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11361699 GTTGCGGGTT
*
11361709 AAAGACTCAAACGTGCC
1 AAAGACTCAAACGAGCC
*
11361726 AAAGACTCAGACGAGCC
1 AAAGACTCAAACGAGCC
*
11361743 GAAGACT
1 AAAGACT
11361750 ACTTTTCGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.27, G:0.22, T:0.10
Consensus pattern (17 bp):
AAAGACTCAAACGAGCC
Found at i:11382587 original size:5 final size:5
Alignment explanation
Indices: 11382574--11382781 Score: 317
Period size: 5 Copynumber: 41.2 Consensus size: 5
11382564 AATATTTAAA
* * *
11382574 ATAAT ATAAC ATAAT ATAAT ATAAT ATAGT ATGAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
11382624 ATAATAT ATAAT ATAAT ATAGT ATGAT ATAAT ATAAT ATAAT ATAAT ATGAT
1 AT-A-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * *
11382676 ATAAT ATAAT ATGAT ATAAT ATGAT ATAAT ATAAT ATGAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
11382726 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
11382776 ATAAT A
1 ATAAT A
11382782 GGCACAATTA
Statistics
Matches: 183, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
5 177 0.97
6 2 0.01
7 4 0.02
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:11382980 original size:32 final size:32
Alignment explanation
Indices: 11382938--11383022 Score: 125
Period size: 32 Copynumber: 2.7 Consensus size: 32
11382928 CAGTCATGCA
11382938 ATACTCAATTTATGAATATATCATTTCATACC
1 ATACTCAATTTATGAATATATCATTTCATACC
* * *
11382970 ATACTTAATTTATAAATACATCATTTCATACC
1 ATACTCAATTTATGAATATATCATTTCATACC
* *
11383002 ATACTCAATTCATGAGTATAT
1 ATACTCAATTTATGAATATAT
11383023 AACTCATATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.40
Consensus pattern (32 bp):
ATACTCAATTTATGAATATATCATTTCATACC
Found at i:11384239 original size:22 final size:21
Alignment explanation
Indices: 11384193--11384239 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
11384183 TTTGTTTCTT
*
11384193 TTATTTCATTTCTTTTATTTA
1 TTATTTCATTTCTTGTATTTA
11384214 TTATTTCATTTACTTAGTA-TTA
1 TTATTTCATTT-CTT-GTATTTA
11384236 TTAT
1 TTAT
11384240 AATAATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 11 0.48
22 10 0.43
23 2 0.09
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATTTCATTTCTTGTATTTA
Found at i:11391214 original size:27 final size:26
Alignment explanation
Indices: 11391137--11391215 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 26
11391127 AGCAGAAGTA
11391137 GGAAAGAAAAATGGAGAAGGAGAAGTAC
1 GGAAAGAAAAATGGAGAAGGAGAA--AC
* **
11391165 -GAAAGAAGAGAA--AAGAAAAAGAAAC
1 GGAAAGAA-A-AATGGAGAAGGAGAAAC
11391190 GGGAAAGAAAAATGGAGAAGGAGAAA
1 -GGAAAGAAAAATGGAGAAGGAGAAA
11391216 GGGCTGGATG
Statistics
Matches: 39, Mismatches: 6, Indels: 13
0.67 0.10 0.22
Matches are distributed among these distances:
25 4 0.10
26 1 0.03
27 31 0.79
28 1 0.03
29 2 0.05
ACGTcount: A:0.61, C:0.03, G:0.33, T:0.04
Consensus pattern (26 bp):
GGAAAGAAAAATGGAGAAGGAGAAAC
Found at i:11395648 original size:25 final size:27
Alignment explanation
Indices: 11395611--11395663 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
11395601 TCAAACATGC
11395611 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
11395637 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
11395663 A
1 A
11395664 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:11397178 original size:26 final size:26
Alignment explanation
Indices: 11397148--11397203 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
11397138 TGAAATTCCC
11397148 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11397174 ATCATGGACCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11397200 ATCA
1 ATCA
11397204 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11397231 original size:10 final size:10
Alignment explanation
Indices: 11397202--11397233 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11397192 AACCCATTAT
*
11397202 CAATTTGTAT
1 CAATTTGTAC
11397212 CAATTTGTAC
1 CAATTTGTAC
11397222 CAATTTGTAC
1 CAATTTGTAC
11397232 CA
1 CA
11397234 TAAATTATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (10 bp):
CAATTTGTAC
Found at i:11400854 original size:30 final size:30
Alignment explanation
Indices: 11400799--11400856 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11400789 CACGGCCATG
* **
11400799 ACACACGGGCGTGTGGACTGGCCGTGTGTC
1 ACACACGGGCGTGTGAACTACCCGTGTGTC
*
11400829 ACACACGGGCGTGTGAATTACCCGTGTG
1 ACACACGGGCGTGTGAACTACCCGTGTG
11400857 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.26, G:0.36, T:0.21
Consensus pattern (30 bp):
ACACACGGGCGTGTGAACTACCCGTGTGTC
Found at i:11404044 original size:11 final size:11
Alignment explanation
Indices: 11404028--11404057 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11404018 ATATATTATT
11404028 TTATTTGTGTA
1 TTATTTGTGTA
11404039 TTATTTGTGTA
1 TTATTTGTGTA
11404050 TTATTTGT
1 TTATTTGT
11404058 TATATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (11 bp):
TTATTTGTGTA
Found at i:11404076 original size:23 final size:22
Alignment explanation
Indices: 11404024--11404077 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
11404014 TTATATATAT
*
11404024 TATTTTATTTGTGTATTATTTG
1 TATTTTATTTGTGTATTATTTA
* *
11404046 TGTATTATTTGT-TATATCATTTA
1 TATTTTATTTGTGTAT-T-ATTTA
11404069 TATTTTATT
1 TATTTTATT
11404078 ATATATTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 11 0.44
23 11 0.44
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (22 bp):
TATTTTATTTGTGTATTATTTA
Found at i:11404113 original size:3 final size:3
Alignment explanation
Indices: 11404099--11404168 Score: 54
Period size: 3 Copynumber: 22.3 Consensus size: 3
11404089 TTTATACATT
* *
11404099 TTA TTA TATA TTA TTCA CTA -TA TTA TTG TTA TT- TTA TTA TATA TTA
1 TTA TTA T-TA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
11404145 TAA TTA TTCA TTA TTCA TTA TTA T
1 TTA TTA TT-A TTA TT-A TTA TTA T
11404169 ATAATTTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
2 4 0.07
3 37 0.67
4 14 0.25
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:11404120 original size:26 final size:26
Alignment explanation
Indices: 11404070--11404120 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11404060 TATCATTTAT
* *
11404070 ATTTTATTATATATTTTGATTTATAC
1 ATTTTATTATATATTTTCATCTATAC
11404096 ATTTTATTATATATTATTCA-CTATA
1 ATTTTATTATATATT-TTCATCTATA
11404121 TTATTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (26 bp):
ATTTTATTATATATTTTCATCTATAC
Found at i:11404143 original size:12 final size:12
Alignment explanation
Indices: 11404067--11404143 Score: 65
Period size: 12 Copynumber: 6.5 Consensus size: 12
11404057 TTATATCATT
11404067 TATATTTTATTA
1 TATATTTTATTA
11404079 TATATTTTGATTTA
1 TATATTTT-A-TTA
*
11404093 TACATTTTATTA
1 TATATTTTATTA
11404105 TATA--TTATTCA
1 TATATTTTATT-A
*
11404116 CTATA--TTATTG
1 -TATATTTTATTA
11404127 T-TATTTTATTA
1 TATATTTTATTA
11404138 TATATT
1 TATATT
11404144 ATAATTATTC
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
9 2 0.04
10 6 0.11
11 7 0.13
12 27 0.50
13 2 0.04
14 10 0.19
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:11404334 original size:109 final size:109
Alignment explanation
Indices: 11404221--11404445 Score: 441
Period size: 109 Copynumber: 2.1 Consensus size: 109
11404211 TTATATATCA
11404221 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11404286 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
*
11404330 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAAGTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11404395 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
11404439 TTATTAA
1 TTATTAA
11404446 TCATATATAA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 115 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (109 bp):
TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
Found at i:11404460 original size:22 final size:23
Alignment explanation
Indices: 11404416--11404461 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
11404406 ACATATTAAA
*
11404416 TTATTACATCATATAGTATATTT
1 TTATTACATCATATAGTAAATTT
*
11404439 TTATTA-ATCATATA-TAAAATT
1 TTATTACATCATATAGTAAATTT
11404460 TT
1 TT
11404462 CTTCTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTACATCATATAGTAAATTT
Found at i:11407876 original size:12 final size:12
Alignment explanation
Indices: 11407859--11408002 Score: 50
Period size: 12 Copynumber: 12.0 Consensus size: 12
11407849 TATATGAAAA
11407859 ATTATTATATAT
1 ATTATTATATAT
*
11407871 ATTATT-TTTATT
1 ATTATTATATA-T
* * *
11407883 TTTATT-TGTGT
1 ATTATTATATAT
*
11407894 ATTATT-TGTTAT
1 ATTATTAT-ATAT
*
11407906 ATCATT-TATAT
1 ATTATTATATAT
*
11407917 TTTATTATATAT
1 ATTATTATATAT
* * * *
11407929 TTTGTTTTATAC
1 ATTATTATATAT
11407941 ATT-TTATTATAT
1 ATTATTA-TATAT
11407953 ATTATTTTATTATAT
1 ATTA--TTA-TATAT
*
11407968 ATTATTCA-CTAT
1 ATTATT-ATATAT
*
11407980 ATTATTGT-TAT
1 ATTATTATATAT
*
11407991 TTTATTATATAT
1 ATTATTATATAT
11408003 TATAATTATT
Statistics
Matches: 101, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
11 28 0.28
12 57 0.56
13 2 0.02
14 1 0.01
15 13 0.13
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:11407930 original size:41 final size:39
Alignment explanation
Indices: 11407862--11407970 Score: 96
Period size: 40 Copynumber: 2.7 Consensus size: 39
11407852 ATGAAAAATT
* **
11407862 ATTATATATATTAT-TTTTATT-TTTATTTGTGTATTATTT
1 ATTATATAT-TTATATTTTATTATATATTT-TGTATTATAC
* *
11407901 GTTATATCATTTATATTTTATTATATATTTTGTTTTATAC
1 ATTATAT-ATTTATATTTTATTATATATTTTGTATTATAC
* *
11407941 ATTTTATTATATATTATTTTATTATATATT
1 ATTATA-TATTTA-TATTTTATTATATATT
11407971 ATTCACTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
39 10 0.18
40 24 0.42
41 23 0.40
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (39 bp):
ATTATATATTTATATTTTATTATATATTTTGTATTATAC
Found at i:11407958 original size:3 final size:3
Alignment explanation
Indices: 11407944--11408028 Score: 68
Period size: 3 Copynumber: 27.3 Consensus size: 3
11407934 TTTATACATT
* *
11407944 TTA TTA TATA TTA TT- TTA TTA TATA TTA TTCA CTA -TA TTA TTG TTA
1 TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA TTA
*
11407990 TT- TTA TTA TATA TTA TAA TTA TTCA TTA TTCA TTA TTA T
1 TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TT-A TTA TTA T
11408029 ATAATTTTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
2 6 0.09
3 45 0.66
4 17 0.25
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11408003 original size:12 final size:12
Alignment explanation
Indices: 11407912--11408003 Score: 66
Period size: 12 Copynumber: 7.5 Consensus size: 12
11407902 TTATATCATT
11407912 TATATTTTATTA
1 TATATTTTATTA
*
11407924 TATATTTTGTTTTA
1 TATA-TTT-TATTA
*
11407938 TACATTTTATTA
1 TATATTTTATTA
11407950 TATATTATT-TTA
1 TATATT-TTATTA
*
11407962 TTATATATTATTCA
1 -TATATTTTATT-A
*
11407976 CTATA--TTATTG
1 -TATATTTTATTA
11407987 T-TATTTTATTA
1 TATATTTTATTA
11407998 TATATT
1 TATATT
11408004 ATAATTATTC
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
9 2 0.03
10 1 0.02
11 6 0.10
12 27 0.43
13 15 0.24
14 12 0.19
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.64
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:11408186 original size:109 final size:109
Alignment explanation
Indices: 11408080--11408304 Score: 432
Period size: 109 Copynumber: 2.1 Consensus size: 109
11408070 TTATATATCA
11408080 TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11408145 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
* *
11408189 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAATTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11408254 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
11408298 TTATTAA
1 TTATTAA
11408305 TCATTTATAA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 114 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (109 bp):
TTATTAAAATTTAGTATGTAATACACCAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
Found at i:11419325 original size:8 final size:8
Alignment explanation
Indices: 11419307--11419345 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
11419297 AGATTTCTAA
11419307 AAAATAAAT
1 AAAA-AAAT
11419316 AAAAAAAT
1 AAAAAAAT
11419324 AAAAAATAT
1 AAAAAA-AT
*
11419333 ATAAAAAT
1 AAAAAAAT
11419341 AAAAA
1 AAAAA
11419346 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 16 0.59
9 11 0.41
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAAAAAT
Found at i:11419338 original size:17 final size:18
Alignment explanation
Indices: 11419304--11419345 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
11419294 TTGAGATTTC
11419304 TAAAAAATAAATAAAAAAA
1 TAAAAAAT-AATAAAAAAA
*
11419323 TAAAAAAT-ATATAAAAA
1 TAAAAAATAATAAAAAAA
11419340 TAAAAA
1 TAAAAA
11419346 TGGAGAGGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAAAATAATAAAAAAA
Found at i:11420261 original size:44 final size:42
Alignment explanation
Indices: 11420155--11420537 Score: 298
Period size: 44 Copynumber: 8.7 Consensus size: 42
11420145 ATCACCAGTC
* * ** * **
11420155 ACATCTGGCATCTCTGTATTGATAGAGAGAAGATTAAAGATAGA
1 ACATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-A-A
* * *
11420199 AGATTTGGCGTATCTGTATTAGACGGGGAGCAGATCGAAGGAAA
1 ACATTTGGCGTCTCTGTATT-GACGGAGAGCAGATCGAA-GAAA
* * * * * *
11420243 ATATTTAGCGTCTTTGTATTAACAGAGAGCAGATCAAAGAAA
1 ACATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGAAA
* * * *
11420285 GCACATCTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGA
1 --ACATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-A-A
* * * *
11420331 AAATTTGGTGTCTCTATATTAGACGGGGAGCAGATCGAAGAAAA
1 ACATTTGGCGTCTCTGTATT-GACGGAGAGCAGATCGAAG-AAA
* *
11420375 AGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAAA
1 ACATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGAAA
* * * *
11420417 GCACATCTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGA
1 --ACATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGA-A-A
* * *
11420463 AGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGAAA
1 ACATTTGGCGTCTCTGTATT-GACGGAGAGCAGATCGAAGAAA
* * *
11420506 ATGATTTGGTGTCTTTGTATTGACGGAGAGCA
1 A-CATTTGGCGTCTCTGTATTGACGGAGAGCA
11420538 AAGCATATCT
Statistics
Matches: 271, Mismatches: 54, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
42 7 0.03
43 43 0.16
44 167 0.62
45 49 0.18
46 5 0.02
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.26
Consensus pattern (42 bp):
ACATTTGGCGTCTCTGTATTGACGGAGAGCAGATCGAAGAAA
Found at i:11420393 original size:132 final size:131
Alignment explanation
Indices: 11420154--11420619 Score: 653
Period size: 132 Copynumber: 3.6 Consensus size: 131
11420144 GATCACCAGT
* * *
11420154 CACATCTGGCATCTCTGTATTGATAGAGAGAAGATTAAAGATAGAAGATTTGGCGTATCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
* * * *
11420219 AGACGGGGAGCAGATCGAAGGAAAATATTTAGCGTCTTTGTATTAACAGAGAGCAGATCAAAGAA
66 AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTTTGTATTGAC-GAGAGCAGATCAAAGAA
11420284 AG
130 AG
* * * *
11420286 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGAAAATTTGGTGTCTCTATATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
*
11420351 AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTCTGTATTGACGGAGAGCAGATCAAAGAA
66 AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTTTGTATTGAC-GAGAGCAGATCAAAGAA
11420416 AG
130 AG
* *
11420418 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGAAGATTTGGTGTCTCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
* *
11420483 AGACGGGGAGCAGATCGAAGAAAATGATTTGGTGTCTTTGTATTGACG-GAG-AG--C----AAA
66 AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTTTGTATTGACGAGAGCAGATCAAAGAAA
11420540 G
131 G
* * * ** *
11420541 CATATCTGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCGTCTTTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
11420606 -GACGGGGAGCAGAT
66 AGACGGGGAGCAGAT
11420620 AAAAAATAGT
Statistics
Matches: 308, Mismatches: 26, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
122 14 0.05
123 61 0.20
127 1 0.00
129 2 0.01
130 3 0.01
131 1 0.00
132 226 0.73
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (131 bp):
CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTAAAGATAGAAGATTTGGCGTCTCTGTATT
AGACGGGGAGCAGATCGAAGAAAAAGATTTGGCGTCTTTGTATTGACGAGAGCAGATCAAAGAAA
G
Found at i:11420433 original size:88 final size:89
Alignment explanation
Indices: 11420154--11420832 Score: 318
Period size: 88 Copynumber: 7.8 Consensus size: 89
11420144 GATCACCAGT
* * * * *
11420154 CACATCTGGCATCTCTGTATTGATAGAGAGAAGATTAAAGATAGAAGATTTGGCGTATCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAAAAGATTTGGCGTCTCTGTATT
* *
11420219 AGACGGGGAGCAGATCGAAGGAAA-
66 AGACGGAGAGCAGATC-AAAGAAAG
* * * * * * * * * *
11420243 -ATATTTAGCGTCTTTGTATTAACAGAGAGCAGATCAAAGA-AAGCACATCTGGCATCTCTGTAT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAA-AAGATTTGGCGTCTCTGTAT
* ** *
11420306 T-GACAGAGAGCAGATTGAAGATAG
65 TAGACGGAGAGCAGATCAAAGAAAG
* * * ** * * * *
11420330 AAAATTTGGTGTCTCTATATTAGACGGGGAGCAGATCGAAGA-AAAAGATTTGGCGTCTCTGTAT
1 CACATCTGGCATCTCTGTATT-GACAGAGAGCAGATCAAAGATAAAAGATTTGGCGTCTCTGTAT
11420394 T-GACGGAGAGCAGATCAAAGAAAG
65 TAGACGGAGAGCAGATCAAAGAAAG
** * *
11420418 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGAAGATTTGGTGTCTCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAAAAGATTTGGCGTCTCTGTATT
* *
11420483 AGACGGGGAGCAGATCGAAGAAA-
66 AGACGGAGAGCAGATCAAAGAAAG
* * ** * * * *
11420506 -ATGATTTGGTGTCTTTGTATTGAC-G-GAG-AG--CAAAGCAT-----ATCTGGCATTTCTGTA
1 CA-CATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAG-ATAAAAGATTTGGCGTCTCTGTA
* *
11420560 TT-GACAGAGAGCAGATCAAAGATAG
64 TTAGACGGAGAGCAGATCAAAGAAAG
** * * * * * * * ** * * *
11420585 CTGATTTGGCGTCTTTGTATTGACGGGGAGCAGATAAAAAATAGTAGATCTGACAT-TCGTGTAT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAAAAGATTTGGCGTCTC-TGTAT
* *
11420649 TCACATC-GA-AGCAGATCAAAG-ATG
65 T-AGA-CGGAGAGCAGATCAAAGAAAG
* * * * * **
11420673 ACAGATTTGGCGTCTCTGTATTAGAC-GAGGAACAGAGCAAAGATAGCCA-ATTTGGCGTCTCTG
1 -CACATCTGGCATCTCTGTATT-GACAGA-GAGCAGATCAAAGATA-AAAGATTTGGCGTCTCTG
* * *
11420736 TATT-GACGGGGAGCAGATCGAAGATAG
62 TATTAGACGGAGAGCAGATCAAAGAAAG
* * * * * *
11420763 CAGATCTGACAT-TCGTGTATT-ACATCGA-AGCAAATCAAAGATGACAGATTTGGCGTTTCTGT
1 CACATCTGGCATCTC-TGTATTGACA--GAGAGCAGATCAAAGATAAAAGATTTGGCGTCTCTGT
11420825 ATTAGACG
63 ATTAGACG
11420833 AGGAACAGAT
Statistics
Matches: 452, Mismatches: 100, Indels: 76
0.72 0.16 0.12
Matches are distributed among these distances:
78 18 0.04
79 35 0.08
80 1 0.00
81 3 0.01
82 2 0.00
83 5 0.01
84 5 0.01
85 2 0.00
86 7 0.02
87 39 0.09
88 198 0.44
89 100 0.22
90 33 0.07
91 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (89 bp):
CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAAAAGATTTGGCGTCTCTGTATT
AGACGGAGAGCAGATCAAAGAAAG
Found at i:11420606 original size:44 final size:44
Alignment explanation
Indices: 11420554--11420849 Score: 171
Period size: 44 Copynumber: 6.7 Consensus size: 44
11420544 ATCTGGCATT
11420554 TCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCGTC
1 TCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCGTC
* * * * * * * *
11420598 TTTGTATTGACGGGGAGCAGATAAAAAATAG-TAGATCTGACAT-
1 TCTGTATTGACAGAGAGCAGATCAAAGATAGCT-GATTTGGCGTC
* *
11420641 TCGTGTATTCACATCGA-AGCAGATCAAAGAT-GACAGATTTGGCGTC
1 TC-TGTATTGACA--GAGAGCAGATCAAAGATAG-CTGATTTGGCGTC
* * **
11420687 TCTGTATTAGAC-GAGGAACAGAGCAAAGATAGCCAATTTGGCGTC
1 TCTGTATT-GACAGA-GAGCAGATCAAAGATAGCTGATTTGGCGTC
* * * * * * *
11420732 TCTGTATTGACGGGGAGCAGATCGAAGATAGCAGATCTGACAT-
1 TCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCGTC
* * *
11420775 TCGTGTATT-ACATCGA-AGCAAATCAAAGAT-GACAGATTTGGCGTT
1 TC-TGTATTGACA--GAGAGCAGATCAAAGATAG-CTGATTTGGCGTC
* *
11420820 TCTGTATTAGAC-GAGGAACAGATCGAAGAT
1 TCTGTATT-GACAGA-GAGCAGATCAAAGAT
11420850 GGCAAATTTG
Statistics
Matches: 189, Mismatches: 42, Indels: 41
0.69 0.15 0.15
Matches are distributed among these distances:
43 11 0.06
44 99 0.52
45 71 0.38
46 8 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (44 bp):
TCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCGTC
Found at i:11420648 original size:123 final size:128
Alignment explanation
Indices: 11420154--11420790 Score: 418
Period size: 132 Copynumber: 4.9 Consensus size: 128
11420144 GATCACCAGT
* * * * *
11420154 CACATCTGGCATCTCTGTATTGATAGAGAGAAGATTAAAGATAGAAGATTTGGCGTATCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * ** *
11420219 AGACGGGGAGCAGATCGAAGGAAAATATTTAG--C-GTC-TT--TGTATTAACAGAGAGCAGATC
66 -GACGGGGAGCAGAT--AA--AAAATA-GTAGATCTGACATTCGTGTATT-ACATCGAGCAGAGC
11420278 AAAGAAAG
124 --A-AAAG
** * * * *
11420286 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGAAAATTTGGTGTCTCTATATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * * * *** *
11420351 AGACGGGGAGCAGATCGAAGAAA-A--AGATTTGGCGTCTC-TGTATTGACGGAGAGCAGATCAA
66 -GACGGGGAGCAGAT--AAAAAATAGTAGATCTGACAT-TCGTGTATT-ACATCGAGCAGAGC--
11420412 AGAAAG
124 A-AAAG
** * *
11420418 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATTGAAGATAGAAGATTTGGTGTCTCTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * * * *
11420483 AGACGGGGAGCAGATCGAAGAAA-A-T-GATTTG--GTGTCTTTGTATT-GA-CG-G-AGAGC-A
66 -GACGGGGAGCAGAT--AAAAAATAGTAGATCTGACAT-TC-GTGTATTACATCGAGCAGAGCAA
11420538 AAG
126 AAG
* * * *
11420541 CATATCTGGCATTTCTGTATTGACAGAGAGCAGATCAAAGATAGCTGATTTGGCGTCTTTGTATT
1 CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
*
11420606 GACGGGGAGCAGATAAAAAATAGTAGATCTGACATTCGTGTATTCACATCGAAGCAGATCAAAGA
66 GACGGGGAGCAGATAAAAAATAGTAGATCTGACATTCGTGTATT-ACATCG-AGCAGAGCAAA-A
11420671 TG
128 -G
* * * * *
11420673 ACAGATTTGGCGTCTCTGTATTAGAC-GAGGAACAGAGCAAAGATAGCCA-ATTTGGCGTCTCTG
1 -CACATCTGGCATCTCTGTATT-GACAGA-GAGCAGATCAAAGATAG-CAGATTTGGCGTCTCTG
** * *
11420736 TATTGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTATTACATCGA
62 TATTGACGGGGAGCAGATAAAAAATAGTAGATCTGACATTCGTGTATTACATCGA
11420791 AGCAAATCAA
Statistics
Matches: 433, Mismatches: 45, Indels: 54
0.81 0.08 0.10
Matches are distributed among these distances:
120 5 0.01
121 1 0.00
122 15 0.03
123 72 0.17
124 2 0.00
125 2 0.00
126 4 0.01
127 4 0.01
128 2 0.00
129 8 0.02
130 10 0.02
131 2 0.00
132 205 0.47
133 25 0.06
134 75 0.17
135 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (128 bp):
CACATCTGGCATCTCTGTATTGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
GACGGGGAGCAGATAAAAAATAGTAGATCTGACATTCGTGTATTACATCGAGCAGAGCAAAAG
Found at i:11420767 original size:89 final size:88
Alignment explanation
Indices: 11420658--11420864 Score: 206
Period size: 89 Copynumber: 2.3 Consensus size: 88
11420648 TTCACATCGA
* * * * *
11420658 AGCAGATCAAAGATGACAGATTTGGCGTCTC-TGTATTAGA-CGAGGAACAGAGCAAAGATAGCC
1 AGCAGATCGAAGATG-CAGATTTGGCAT-TCGTGTATTACATCGA--AACAAAGCAAAGAT-GAC
*
11420721 A-ATTTGGCGTCTCTGTATT-GACGGGG
61 AGATTTGGCGTCTCTGTATTAGACGAGG
* * * *
11420747 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTATTACATCGAAGCAAATCAAAGATGACAGAT
1 AGCAGATCGAAGAT-GCAGATTTGGCATTCGTGTATTACATCGAAACAAAGCAAAGATGACAGAT
*
11420812 TTGGCGTTTCTGTATTAGACGAGG
65 TTGGCGTCTCTGTATTAGACGAGG
* *
11420836 AACAGATCGAAGATGGCAAATTTGGCATT
1 AGCAGATCGAAGAT-GCAGATTTGGCATT
11420865 TCTAATGAAG
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
87 3 0.03
88 30 0.31
89 60 0.62
90 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.25
Consensus pattern (88 bp):
AGCAGATCGAAGATGCAGATTTGGCATTCGTGTATTACATCGAAACAAAGCAAAGATGACAGATT
TGGCGTCTCTGTATTAGACGAGG
Found at i:11420849 original size:133 final size:134
Alignment explanation
Indices: 11420547--11420861 Score: 465
Period size: 133 Copynumber: 2.4 Consensus size: 134
11420537 AAAGCATATC
* * ** *
11420547 TGGCATTTCTGTATT-GAC-AGAGAGCAGATCAAAGATAGCTGATTTGGCGTCTTTGTATTGACG
1 TGGCGTTTCTGTATTAGACGAG-GAACAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTGACG
* *
11420610 GGGAGCAGATAAAAAATAGTAGATCTGACATTCGTGTATTCACATCGAAGCAGATCAAAGATGAC
65 GGGAGCAGATAAAAAATAGCAGATCTGACATTCGTGTATTCACATCGAAGCAAATCAAAGATGAC
11420675 AGATT
130 AGATT
* * *
11420680 TGGCGTCTCTGTATTAGACGAGGAACAGAGCAAAGATAGCCAATTTGGCGTCTCTGTATTGACGG
1 TGGCGTTTCTGTATTAGACGAGGAACAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTGACGG
** *
11420745 GGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTATT-ACATCGAAGCAAATCAAAGATGACA
66 GGAGCAGATAAAAAATAGCAGATCTGACATTCGTGTATTCACATCGAAGCAAATCAAAGATGACA
11420809 GATT
131 GATT
* *
11420813 TGGCGTTTCTGTATTAGACGAGGAACAGATCGAAGATGGCAAATTTGGC
1 TGGCGTTTCTGTATTAGACGAGGAACAGATCAAAGATAGCAAATTTGGC
11420862 ATTTCTAATG
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
133 85 0.52
134 76 0.47
135 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (134 bp):
TGGCGTTTCTGTATTAGACGAGGAACAGATCAAAGATAGCAAATTTGGCGTCTCTGTATTGACGG
GGAGCAGATAAAAAATAGCAGATCTGACATTCGTGTATTCACATCGAAGCAAATCAAAGATGACA
GATT
Found at i:11420859 original size:45 final size:45
Alignment explanation
Indices: 11420660--11420867 Score: 183
Period size: 45 Copynumber: 4.7 Consensus size: 45
11420650 CACATCGAAG
* *
11420660 CAGATCAAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAA
1 CAGATCAAAGATGGCAGATTTGGCGTTTCTGTATTAGACGAGGAA
* * * * *
11420705 CAGAGCAAAGATAGCCA-ATTTGGCGTCTCTGTATT-GACGGGGAG
1 CAGATCAAAGAT-GGCAGATTTGGCGTTTCTGTATTAGACGAGGAA
* * * * * * *
11420749 CAGATCGAAGATAGCAGATCTGAC-ATTCGTGTATTACATCGA--AG
1 CAGATCAAAGATGGCAGATTTGGCGTTTC-TGTATTAGA-CGAGGAA
* *
11420793 CAAATCAAAGATGACAGATTTGGCGTTTCTGTATTAGACGAGGAA
1 CAGATCAAAGATGGCAGATTTGGCGTTTCTGTATTAGACGAGGAA
* * *
11420838 CAGATCGAAGATGGCAAATTTGGCATTTCT
1 CAGATCAAAGATGGCAGATTTGGCGTTTCT
11420868 AATGAAGCAG
Statistics
Matches: 127, Mismatches: 28, Indels: 16
0.74 0.16 0.09
Matches are distributed among these distances:
43 7 0.06
44 56 0.44
45 59 0.46
46 5 0.04
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (45 bp):
CAGATCAAAGATGGCAGATTTGGCGTTTCTGTATTAGACGAGGAA
Found at i:11422318 original size:11 final size:11
Alignment explanation
Indices: 11422302--11422331 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11422292 TATATTATTT
11422302 TTATTTGTGTA
1 TTATTTGTGTA
11422313 TTATTTGTGTA
1 TTATTTGTGTA
11422324 TTATTTGT
1 TTATTTGT
11422332 TATATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (11 bp):
TTATTTGTGTA
Found at i:11422356 original size:12 final size:12
Alignment explanation
Indices: 11422341--11422434 Score: 68
Period size: 12 Copynumber: 7.5 Consensus size: 12
11422331 TTATATCATT
11422341 TATATTTTATTA
1 TATATTTTATTA
*
11422353 TATATTTTGTTTTA
1 TATA-TTT-TATTA
*
11422367 TACATTTTATTATA
1 TATATTTTA-T-TA
11422381 TATTATTTTATTA
1 TA-TATTTTATTA
*
11422394 TATATATTATTCA
1 TATATTTTATT-A
*
11422407 CTATA--TTATTG
1 -TATATTTTATTA
11422418 T-TATTTTATTA
1 TATATTTTATTA
11422429 TATATT
1 TATATT
11422435 ATAATTATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
9 2 0.03
10 1 0.02
11 6 0.09
12 22 0.34
13 12 0.18
14 16 0.25
15 6 0.09
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:11422363 original size:31 final size:29
Alignment explanation
Indices: 11422322--11422397 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
11422312 ATTATTTGTG
*
11422322 TATTA-TTTGTTATAT-CATTTATATTTTA
1 TATTATTTTGTTATATACATTT-TATTATA
*
11422350 TTATATATTTTGTTTTATACATTTTATTATA
1 -TAT-TATTTTGTTATATACATTTTATTATA
*
11422381 TATTATTTTATTATATA
1 TATTATTTTGTTATATA
11422398 TATTATTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
29 15 0.38
30 5 0.12
31 15 0.38
32 5 0.12
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TATTATTTTGTTATATACATTTTATTATA
Found at i:11422368 original size:24 final size:25
Alignment explanation
Indices: 11422339--11422436 Score: 91
Period size: 26 Copynumber: 3.9 Consensus size: 25
11422329 TGTTATATCA
11422339 TTTATATTTTATTATATATT-TTGT
1 TTTATATTTTATTATATATTATTGT
11422363 TTTATACATTTTATTATATATTATT-T
1 TTTAT--ATTTTATTATATATTATTGT
11422389 TATTATATATATTATTCACTATATTATTG-
1 T-TTATAT-T-TTATT-A-TATATTATTGT
11422418 --T-TATTTTATTATATATTAT
1 TTTATATTTTATTATATATTAT
11422437 AATTATTCAT
Statistics
Matches: 65, Mismatches: 0, Indels: 21
0.76 0.00 0.24
Matches are distributed among these distances:
21 8 0.12
22 1 0.02
23 5 0.08
24 6 0.09
25 5 0.08
26 19 0.29
27 11 0.17
28 1 0.02
29 9 0.14
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTATATTTTATTATATATTATTGT
Found at i:11422387 original size:3 final size:3
Alignment explanation
Indices: 11422373--11422459 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
11422363 TTTATACATT
* *
11422373 TTA TTA TATA TTA TT- TTA TTA -TA TATA TTA TTCA CTA -TA TTA TTG
1 TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA
*
11422418 TTA TT- TTA TTA TATA TTA TAA TTA TTCA TTA TTCA TTA TTA T
1 TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TTA TT-A TTA TTA T
11422460 ATAATTTTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
2 8 0.12
3 44 0.64
4 17 0.25
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:11422397 original size:29 final size:26
Alignment explanation
Indices: 11422338--11422443 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 26
11422328 TTGTTATATC
11422338 ATTTATATTTTATTATATATT-TTGTT
1 ATTTATATTTTATTATATATTATT-TT
*
11422364 -TTATACATTTTATTATATATTATTTT
1 ATT-TATATTTTATTATATATTATTTT
*
11422390 ATTATATATATTATTCACTATATTATTGTT
1 ATT-TATATTTTATT-A-TATATTATT-TT
11422420 ATTT-TATTATATATTATA-ATTATT
1 ATTTATATT-T-TATTATATATTATT
11422444 CATTATTCAT
Statistics
Matches: 68, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
25 2 0.03
26 19 0.28
27 20 0.29
28 6 0.09
29 12 0.18
30 9 0.13
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTATATTTTATTATATATTATTTT
Found at i:11422401 original size:14 final size:14
Alignment explanation
Indices: 11422341--11422401 Score: 74
Period size: 15 Copynumber: 4.4 Consensus size: 14
11422331 TTATATCATT
11422341 TATATTTTATTATA
1 TATATTTTATTATA
11422355 TAT-TTTGT-TT-TA
1 TATATTT-TATTATA
*
11422367 TACATTTTATTATA
1 TATATTTTATTATA
11422381 TATTATTTTATTATA
1 TA-TATTTTATTATA
11422396 TATATT
1 TATATT
11422402 ATTCACTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
12 5 0.12
13 10 0.25
14 12 0.30
15 13 0.32
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
TATATTTTATTATA
Found at i:11422625 original size:109 final size:109
Alignment explanation
Indices: 11422512--11422736 Score: 441
Period size: 109 Copynumber: 2.1 Consensus size: 109
11422502 TTATATATCA
11422512 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11422577 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
*
11422621 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAAGTTTTATTCCTATTATATAATAT
1 TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
11422686 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
66 TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
11422730 TTATTAA
1 TTATTAA
11422737 TCATATATAA
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 115 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (109 bp):
TTATTAAAATTTAGTATGTAATACACTAAAATTTATGATAAACTTTTATTCCTATTATATAATAT
TATTCTATAAAACATATTAAATTATTACATCATATAGTATATTT
Found at i:11422751 original size:22 final size:23
Alignment explanation
Indices: 11422707--11422752 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
11422697 ACATATTAAA
*
11422707 TTATTACATCATATAGTATATTT
1 TTATTACATCATATAGTAAATTT
*
11422730 TTATTA-ATCATATA-TAAAATT
1 TTATTACATCATATAGTAAATTT
11422751 TT
1 TT
11422753 CTTCTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 8 0.38
23 6 0.29
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTACATCATATAGTAAATTT
Found at i:11428479 original size:15 final size:15
Alignment explanation
Indices: 11428452--11428507 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
11428442 AGTTCATATG
11428452 TAGGGTTCGCACATC
1 TAGGGTTCGCACATC
* *
11428467 TAGAGTTCACACATC
1 TAGGGTTCGCACATC
*
11428482 TAGGGTTTGCACATC
1 TAGGGTTCGCACATC
11428497 TAGGGTTCGCA
1 TAGGGTTCGCA
11428508 TGTATAAGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (15 bp):
TAGGGTTCGCACATC
Found at i:11428541 original size:24 final size:24
Alignment explanation
Indices: 11428513--11428576 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
11428503 TCGCATGTAT
*
11428513 AAGGTTCACATACTAATTCATATA
1 AAGGTTCACATACTAAATCATATA
** *
11428537 AAGGTTTGCATACCAAATCATATA
1 AAGGTTCACATACTAAATCATATA
**
11428561 GGGGTTCACATACTAA
1 AAGGTTCACATACTAA
11428577 GCCCATAGGT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (24 bp):
AAGGTTCACATACTAAATCATATA
Found at i:11428655 original size:15 final size:15
Alignment explanation
Indices: 11428627--11428683 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
11428617 GTTTTCACAT
11428627 ACATC-AGGGTTCAC
1 ACATCTAGGGTTCAC
*
11428641 ACATCTAGAGTTCAC
1 ACATCTAGGGTTCAC
* * *
11428656 ATATAT-GGGTTCGC
1 ACATCTAGGGTTCAC
11428670 ACATCTAGGGTTCA
1 ACATCTAGGGTTCA
11428684 TATACTAAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (15 bp):
ACATCTAGGGTTCAC
Found at i:11428655 original size:31 final size:29
Alignment explanation
Indices: 11428620--11428688 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
11428610 CACGTAAGTT
11428620 TTCACATACATCAGGGTTCACACATCTAGAG
1 TTCACATACAT--GGGTTCACACATCTAGAG
* * *
11428651 TTCACATATATGGGTTCGCACATCTAGGG
1 TTCACATACATGGGTTCACACATCTAGAG
*
11428680 TTCATATAC
1 TTCACATAC
11428689 TAAGTTATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 23 0.70
31 10 0.30
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (29 bp):
TTCACATACATGGGTTCACACATCTAGAG
Found at i:11428834 original size:34 final size:34
Alignment explanation
Indices: 11428787--11429104 Score: 411
Period size: 34 Copynumber: 9.4 Consensus size: 34
11428777 TATTAAATCA
* * *
11428787 CATATTATATAACATGGGGGTTTGCATACTACAT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* * * * *
11428821 CATACTGTATAACATAGAGGTTCGTATACCACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* * *
11428855 CATACTATATAACATAGGGGTTCACATACTATGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
11428889 CATACTATATAACATGGGGGTTCGCATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* *
11428923 TATACTATATAACATAGGGGTTCGCATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
*
11428957 CATACTATATATCATGGGGGTTCGCATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* * *
11428991 CATACTATATAACATTGGGGTTCACATACTACAT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* ** *
11429025 CATACTATATAACATGGGGGTTTGCATGTTATGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* *
11429059 CATACTATATAACATGGGGATTCACATACTACGT
1 CATACTATATAACATGGGGGTTCGCATACTACGT
* *
11429093 TATACTACATAA
1 CATACTATATAA
11429105 AATAAGGGGT
Statistics
Matches: 243, Mismatches: 41, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 243 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (34 bp):
CATACTATATAACATGGGGGTTCGCATACTACGT
Found at i:11429138 original size:24 final size:23
Alignment explanation
Indices: 11429111--11429195 Score: 64
Period size: 24 Copynumber: 3.7 Consensus size: 23
11429101 ATAAAATAAG
*
11429111 GGGTTTGCATATATAAGACTTATA
1 GGGTTCGCATATATAA-ACTTATA
* *
11429135 GGGTTCGCATATA-AAAGTTGTA
1 GGGTTCGCATATATAAACTTATA
* ** * *
11429157 GAGTTTACATGTATAAAACGTATA
1 GGGTTCGCATATAT-AAACTTATA
*
11429181 GGGTTCGCATCTATA
1 GGGTTCGCATATATA
11429196 CACTAAAGGA
Statistics
Matches: 45, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
22 14 0.31
23 3 0.07
24 28 0.62
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (23 bp):
GGGTTCGCATATATAAACTTATA
Found at i:11430898 original size:43 final size:43
Alignment explanation
Indices: 11430850--11430955 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
11430840 TCCTAGATAT
* * *
11430850 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAG
* * * * *
11430893 GGTCTTACACGAAATTGA-ATAACGATGTCAATGTCCCAGACAT
1 GGTCTTACATGTAA-TCACATAACGATGCCAATGTCCCAGACAG
11430936 GGTCTTACATGTAATCACAT
1 GGTCTTACATGTAATCACAT
11430956 CTTGTAACTT
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.04
43 46 0.92
44 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGACAG
Found at i:11431767 original size:10 final size:10
Alignment explanation
Indices: 11431738--11431772 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
11431728 GAGCTTCAAG
11431738 CTTTTATTTT
1 CTTTTATTTT
11431748 CTTTTGATTTT
1 CTTTT-ATTTT
11431759 CTTTTATTTT
1 CTTTTATTTT
11431769 CTTT
1 CTTT
11431773 AATTAACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.09, C:0.11, G:0.03, T:0.77
Consensus pattern (10 bp):
CTTTTATTTT
Found at i:11433673 original size:15 final size:16
Alignment explanation
Indices: 11433655--11433688 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11433645 AGATTATATC
11433655 AAATTAAAATATAA-A
1 AAATTAAAATATAATA
*
11433670 AAATTTAAATATAATA
1 AAATTAAAATATAATA
11433686 AAA
1 AAA
11433689 AGACTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATTAAAATATAATA
Found at i:11433783 original size:7 final size:7
Alignment explanation
Indices: 11433773--11433811 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
11433763 ATATTTTTAG
11433773 TTTTCAT
1 TTTTCAT
11433780 TTTTCAT
1 TTTTCAT
11433787 TTTTCAT
1 TTTTCAT
11433794 TTTTCAT
1 TTTTCAT
11433801 TTTTCAT
1 TTTTCAT
11433808 TTTT
1 TTTT
11433812 GAAATTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCAT
Found at i:11433995 original size:9 final size:9
Alignment explanation
Indices: 11433983--11434099 Score: 69
Period size: 10 Copynumber: 12.4 Consensus size: 9
11433973 TATGAATATG
11433983 TTATAAAAA
1 TTATAAAAA
*
11433992 TTAT-ACAA
1 TTATAAAAA
11434000 TTATAGAAAA
1 TTATA-AAAA
* * *
11434010 TCAGAAATA
1 TTATAAAAA
*
11434019 TTATTAAATA
1 TTA-TAAAAA
*
11434029 TTACTAAAATT
1 TTA-TAAAA-A
11434040 TTATGAAAAA
1 TTAT-AAAAA
*
11434050 -TATGAAATTA
1 TTAT-AAA-AA
11434060 TTATAAAAA
1 TTATAAAAA
*
11434069 TT-TAGAAA
1 TTATAAAAA
11434077 TTATAGAAAA
1 TTATA-AAAA
11434087 TTATAAAAA
1 TTATAAAAA
11434096 TTAT
1 TTAT
11434100 TACAGCGAAA
Statistics
Matches: 84, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
8 14 0.17
9 29 0.35
10 31 0.37
11 10 0.12
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (9 bp):
TTATAAAAA
Found at i:11434067 original size:19 final size:21
Alignment explanation
Indices: 11434035--11434101 Score: 72
Period size: 19 Copynumber: 3.4 Consensus size: 21
11434025 AATATTACTA
11434035 AAATT-TTATGAAAAATAT-G
1 AAATTATTATGAAAAATATAG
*
11434054 AAATTATTAT-AAAAATTTAG
1 AAATTATTATGAAAAATATAG
* *
11434074 AAATTA-TA-GAAAATTATAA
1 AAATTATTATGAAAAATATAG
11434093 AAATTATTA
1 AAATTATTA
11434102 CAGCGAAACC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (21 bp):
AAATTATTATGAAAAATATAG
Found at i:11440860 original size:49 final size:49
Alignment explanation
Indices: 11440788--11440885 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
11440778 TCAGTCACAG
*
11440788 AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTTAACATTGTGTC
1 AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
*
11440837 AGTTAGGACATGAATCTAAACCCAAAGCATCAAAATTCAACATTGTGTC
1 AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
11440886 TCGAGACATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (49 bp):
AGTTAGGACATGAATCCAAACCCAAAGCATCAAAATTCAACATTGTGTC
Found at i:11443684 original size:27 final size:26
Alignment explanation
Indices: 11443654--11443716 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11443644 AGACAATTAG
11443654 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
11443681 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
11443708 AATATAAAT
1 AATA-AAAT
11443717 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:11443703 original size:15 final size:15
Alignment explanation
Indices: 11443683--11443712 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11443673 ATAATCCTAA
*
11443683 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11443698 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11443713 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11445304 original size:5 final size:5
Alignment explanation
Indices: 11445294--11445339 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
11445284 TTAATATCTG
*
11445294 AATAA AATAA AAT-- AATAA GATAA AAT-A AATAA AATAAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AATAA AAT
11445340 TTGGGTTGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.09
4 4 0.11
5 23 0.66
6 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:11445310 original size:13 final size:14
Alignment explanation
Indices: 11445294--11445337 Score: 63
Period size: 13 Copynumber: 3.1 Consensus size: 14
11445284 TTAATATCTG
11445294 AATAAAATAAAAT-
1 AATAAAATAAAATA
*
11445307 AATAAGATAAAATA
1 AATAAAATAAAATA
11445321 AATAAAATAAAAATA
1 AATAAAAT-AAAATA
11445336 AA
1 AA
11445338 ATTTGGGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 12 0.44
14 7 0.26
15 8 0.30
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:11445325 original size:22 final size:20
Alignment explanation
Indices: 11445298--11445339 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
11445288 TATCTGAATA
11445298 AAATAAAATAATAAGATAAAAT
1 AAATAAAATAA-AA-ATAAAAT
11445320 AAATAAAATAAAAATAAAAT
1 AAATAAAATAAAAATAAAAT
11445340 TTGGGTTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (20 bp):
AAATAAAATAAAAATAAAAT
Found at i:11453449 original size:20 final size:20
Alignment explanation
Indices: 11453411--11453451 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11453401 TAAATTTTAA
* **
11453411 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
11453431 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
11453451 A
1 A
11453452 GAATAAAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:11453483 original size:27 final size:26
Alignment explanation
Indices: 11453453--11453515 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11453443 AGATAATTAG
11453453 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
11453480 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
11453507 AATATAAAT
1 AATA-AAAT
11453516 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:11453502 original size:15 final size:15
Alignment explanation
Indices: 11453482--11453511 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11453472 ATAATCCTAA
*
11453482 TAATTATCTTAATAT
1 TAATTATCCTAATAT
11453497 TAATTATCCTAATAT
1 TAATTATCCTAATAT
11453512 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:11454153 original size:34 final size:34
Alignment explanation
Indices: 11454115--11454181 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
11454105 ATATATGTAT
11454115 ATATATG-TT-TATGAAATTATGACACTCTGATATG
1 ATATATGCTTCTA-GAAA-TATGACACTCTGATATG
* *
11454149 ATATATGCTTCTAGATATATGACATTCTGATAT
1 ATATATGCTTCTAGAAATATGACACTCTGATAT
11454182 TTTATTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 22 0.76
35 5 0.17
36 2 0.07
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (34 bp):
ATATATGCTTCTAGAAATATGACACTCTGATATG
Found at i:11457384 original size:22 final size:22
Alignment explanation
Indices: 11457358--11457407 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
11457348 TGGGAAGACT
11457358 ACTCCAACCC-ACCAACCACTAC
1 ACTCCAACCCGACCAACCA-TAC
*
11457380 ACTCC-ACCCGTACCAGCCATAC
1 ACTCCAACCCG-ACCAACCATAC
11457402 ACTCCA
1 ACTCCA
11457408 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 13 0.54
23 7 0.29
ACGTcount: A:0.32, C:0.52, G:0.04, T:0.12
Consensus pattern (22 bp):
ACTCCAACCCGACCAACCATAC
Found at i:11459172 original size:26 final size:26
Alignment explanation
Indices: 11459136--11459192 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
11459126 ATGAAATTTC
11459136 TATCATAGAACATTTACCTAACCCAT
1 TATCATAGAACATTTACCTAACCCAT
*
11459162 TATCATGGAACATTTACCTAACCCAT
1 TATCATAGAACATTTACCTAACCCAT
11459188 TATCA
1 TATCA
11459193 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TATCATAGAACATTTACCTAACCCAT
Found at i:11463256 original size:8 final size:8
Alignment explanation
Indices: 11463243--11463268 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11463233 AATAATATAT
11463243 TTATTTTC
1 TTATTTTC
11463251 TTATTTTC
1 TTATTTTC
11463259 TTATTTTC
1 TTATTTTC
11463267 TT
1 TT
11463269 TTAAAACGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTC
Found at i:11465005 original size:27 final size:26
Alignment explanation
Indices: 11464973--11465028 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
11464963 AACAAATTTA
11464973 AAATAA-ATTAAAAAAATATGTATACTT
1 AAATAACATTAAAAAAA-ATGTA-ACTT
* *
11465000 AAATAACATTAAGATAAATGTAACTT
1 AAATAACATTAAAAAAAATGTAACTT
11465026 AAA
1 AAA
11465029 AGCAAATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 11 0.42
28 8 0.31
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (26 bp):
AAATAACATTAAAAAAAATGTAACTT
Found at i:11467526 original size:21 final size:19
Alignment explanation
Indices: 11467493--11467533 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11467483 TATAAAAATC
11467493 AAATTATATTAAAAATTAA
1 AAATTATATTAAAAATTAA
*
11467512 AAATTAATGATTAAAATTTAA
1 AAATT-AT-ATTAAAAATTAA
11467533 A
1 A
11467534 TTGAAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATTATATTAAAAATTAA
Found at i:11468272 original size:31 final size:31
Alignment explanation
Indices: 11468196--11468271 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
11468186 GTTATTAAAT
*
11468196 TATTTAAA-CATTTTCATTTAAGTCACTGAAC
1 TATTTAAATC-TTTTTATTTAAGTCACTGAAC
* **
11468227 TATTTGAATCTTTTTATTTAAGTCACTGGGC
1 TATTTAAATCTTTTTATTTAAGTCACTGAAC
*
11468258 TA-TTAAATATTTTT
1 TATTTAAATCTTTTT
11468272 TTAAAAAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 10 0.26
31 27 0.71
32 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (31 bp):
TATTTAAATCTTTTTATTTAAGTCACTGAAC
Found at i:11469072 original size:19 final size:19
Alignment explanation
Indices: 11469048--11469084 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11469038 GAAAATCCCA
11469048 AAAAAAAAAAGAAAAAAGG
1 AAAAAAAAAAGAAAAAAGG
* *
11469067 AAAAAAAAGAGAAGAAAG
1 AAAAAAAAAAGAAAAAAG
11469085 TTACATGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAGG
Found at i:11479740 original size:20 final size:20
Alignment explanation
Indices: 11479724--11479923 Score: 111
Period size: 20 Copynumber: 9.9 Consensus size: 20
11479714 TTTCTCATTT
11479724 TTTTTGGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
* **
11479744 TTTTTAGTACATT--CTCATTT
1 TTTTTGGT--ATTCCCTCATAA
*
11479764 TTTTTGGCACTT-CCTCATAA
1 TTTTTGGTA-TTCCCTCATAA
*
11479784 TTGTTGGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
** * *
11479804 TTTTTGGTATTTTCTAAGAA
1 TTTTTGGTATTCCCTCATAA
* **
11479824 TTTTTAGTACTT-CCTCATGTTC
1 TTTTTGGTA-TTCCCTCA--TAA
*
11479846 TTTTTTGTATTCCCTCATAA
1 TTTTTGGTATTCCCTCATAA
* * *
11479866 TTTTTTGTACTCCCTCATAT
1 TTTTTGGTATTCCCTCATAA
* ** *
11479886 TTTTTGATACACCCTCATTA
1 TTTTTGGTATTCCCTCATAA
* * *
11479906 CTTTTGATAATCCCTCAT
1 TTTTTGGTATTCCCTCAT
11479924 GCTTTTTTTT
Statistics
Matches: 138, Mismatches: 33, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.01
19 4 0.03
20 113 0.82
21 4 0.03
22 16 0.12
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.51
Consensus pattern (20 bp):
TTTTTGGTATTCCCTCATAA
Found at i:11479759 original size:40 final size:41
Alignment explanation
Indices: 11479705--11479891 Score: 156
Period size: 40 Copynumber: 4.7 Consensus size: 41
11479695 TTTCATATTT
*
11479705 TTTTTA-TAC-TTTCTCATTTTTTTTGGTATTCCCTCATAA
1 TTTTTAGTACATTCCTCATTTTTTTTGGTATTCCCTCATAA
*
11479744 TTTTTAGTACATT-CTCATTTTTTTTGGCACTT-CCTCATAA
1 TTTTTAGTACATTCCTCATTTTTTTTGGTA-TTCCCTCATAA
* * ** ** * *
11479784 TTGTTGGT--ATTCCCTCATAATTTTTGGTATTTTCTAAGAA
1 TTTTTAGTACATT-CCTCATTTTTTTTGGTATTCCCTCATAA
*
11479824 TTTTTAGTAC-TTCCTCATGTTCTTTTTTGTATTCCCTCATAA
1 TTTTTAGTACATTCCTCAT-TT-TTTTTGGTATTCCCTCATAA
* * *
11479866 TTTTTTGTAC-TCCCTCATATTTTTTG
1 TTTTTAGTACATTCCTCATTTTTTTTG
11479892 ATACACCCTC
Statistics
Matches: 116, Mismatches: 22, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
38 3 0.03
39 8 0.07
40 67 0.58
41 7 0.06
42 31 0.27
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (41 bp):
TTTTTAGTACATTCCTCATTTTTTTTGGTATTCCCTCATAA
Found at i:11479828 original size:60 final size:61
Alignment explanation
Indices: 11479727--11479875 Score: 156
Period size: 60 Copynumber: 2.4 Consensus size: 61
11479717 CTCATTTTTT
* *** *
11479727 TTGGTATTCCCTCATAATTTTTAGTACATTCTCATTTTTTTTGGCACTTCCTCA-TAATTG
1 TTGGTATTCCCTCATAATTTTTAGTACATTCTAAGAATTTTTAGCACTTCCTCAGTAATTG
* ** * ** *
11479787 TTGGTATTCCCTCATAATTTTTGGTATTTTCTAAGAATTTTTAGTACTTCCTCATGTTCTTT
1 TTGGTATTCCCTCATAATTTTTAGTACATTCTAAGAATTTTTAGCACTTCCTCA-GTAATTG
* *
11479849 TTTGTATTCCCTCATAATTTTTTGTAC
1 TTGGTATTCCCTCATAATTTTTAGTAC
11479876 TCCCTCATAT
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
60 45 0.62
62 27 0.38
ACGTcount: A:0.19, C:0.18, G:0.10, T:0.52
Consensus pattern (61 bp):
TTGGTATTCCCTCATAATTTTTAGTACATTCTAAGAATTTTTAGCACTTCCTCAGTAATTG
Found at i:11480392 original size:20 final size:20
Alignment explanation
Indices: 11480361--11480430 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 20
11480351 TGGTATCCCT
11480361 TCATATTTTTTTGATACTTCC
1 TCATATTTTTTTG-TACTTCC
11480382 TCATATTTTTTTGGTA-TTCCC
1 TCATATTTTTTT-GTACTT-CC
* *
11480403 ACATAATTTTTTGTACTTCC
1 TCATATTTTTTTGTACTTCC
11480423 TCATATTT
1 TCATATTT
11480431 ATTGGTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 13 0.31
21 28 0.67
22 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.06, T:0.56
Consensus pattern (20 bp):
TCATATTTTTTTGTACTTCC
Found at i:11480424 original size:41 final size:41
Alignment explanation
Indices: 11480349--11480440 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 41
11480339 ACAAACCAAA
* *
11480349 ATTGGTA-TCCCTTCATATTTTTTTGATACTTCCTCATATTTT
1 ATTGGTATTCCC-ACATAATTTTTTGATACTTCCTCATA-TTT
*
11480391 TTTGGTATTCCCACATAATTTTTTG-TACTTCCTCATATTT
1 ATTGGTATTCCCACATAATTTTTTGATACTTCCTCATATTT
11480431 ATTGGTATTC
1 ATTGGTATTC
11480441 TCTTAGAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 12 0.27
41 12 0.27
42 17 0.38
43 4 0.09
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.53
Consensus pattern (41 bp):
ATTGGTATTCCCACATAATTTTTTGATACTTCCTCATATTT
Found at i:11481026 original size:35 final size:35
Alignment explanation
Indices: 11480980--11481049 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
11480970 TTTATAGTGT
11480980 GACATACCTAAATCCTGAGTGGATGACAGACTATG
1 GACATACCTAAATCCTGAGTGGATGACAGACTATG
11481015 GACATACCTAAATCCTGAGTGGATGACAGACTATG
1 GACATACCTAAATCCTGAGTGGATGACAGACTATG
11481050 TATGCGTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (35 bp):
GACATACCTAAATCCTGAGTGGATGACAGACTATG
Found at i:11481686 original size:9 final size:9
Alignment explanation
Indices: 11481674--11481712 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
11481664 CACTCAAATC
*
11481674 CAATTCTAT
1 CAATTCTCT
*
11481683 CAATTCTTT
1 CAATTCTCT
*
11481692 CTATTCTCT
1 CAATTCTCT
11481701 CAATTCTCT
1 CAATTCTCT
11481710 CAA
1 CAA
11481713 GATTAGTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (9 bp):
CAATTCTCT
Found at i:11484707 original size:50 final size:50
Alignment explanation
Indices: 11484598--11484712 Score: 189
Period size: 48 Copynumber: 2.3 Consensus size: 50
11484588 ATGTCACCTT
* * *
11484598 ACTTTTATATATAAGTGTATAGATATGGCTTAGTATTTGATATCAATGAA
1 ACTTTTATATATAAGTGTATAGATACGGCTTAGTATTTGATATAAATAAA
11484648 ACTTTTATATAT--GTGTATAGATACGGCTTAGTATTTGATATAAATAAA
1 ACTTTTATATATAAGTGTATAGATACGGCTTAGTATTTGATATAAATAAA
11484696 ACTTTTATATATAAGTG
1 ACTTTTATATATAAGTG
11484713 CATGAAAGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
48 45 0.75
50 15 0.25
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.43
Consensus pattern (50 bp):
ACTTTTATATATAAGTGTATAGATACGGCTTAGTATTTGATATAAATAAA
Found at i:11485850 original size:138 final size:139
Alignment explanation
Indices: 11485592--11485898 Score: 438
Period size: 138 Copynumber: 2.2 Consensus size: 139
11485582 CAAAAACTCA
* * * *
11485592 AGAGAGCTGAACAGAAGCTCGTAACAACTG-TCCACCTAAATCACACCAAACAGAAAGTAAAAGA
1 AGAGAGCTGAACAGAAGCTCGTAAGAGCTGATCCACCCAAATCACACCAAACAGAAAGTAAAACA
* *
11485656 CGAGAGTTTGCAACAAATGCTAAACCCCGATTTACTTGGGTAATATGCCGACAGAACACGCCAAT
66 CGAAAGTTTGCAACAAATGCTAAACCCCGATTTACTTGGGTAATATGCCGACAGAACACGCCAAC
11485721 AGAAGCTCG
131 AGAAGCTCG
* * * *
11485730 AGGGAGCTGAACAAAAGCTCGTAAGAGCTGATCTACCCAAATCAC-GCAAACAGAAAGTAAAACA
1 AGAGAGCTGAACAGAAGCTCGTAAGAGCTGATCCACCCAAATCACACCAAACAGAAAGTAAAACA
* * * * *
11485794 CGAAAGTTTGCAACAAATGCTAAACCCTGGTTTACTTGGGTAATATGCTGATAGAACACGCCAGC
66 CGAAAGTTTGCAACAAATGCTAAACCCCGATTTACTTGGGTAATATGCCGACAGAACACGCCAAC
11485859 AGAAGCTCG
131 AGAAGCTCG
* * *
11485868 AGAGAGCTTAACAGAAGCTCATGAGAGCTGA
1 AGAGAGCTGAACAGAAGCTCGTAAGAGCTGA
11485899 ATAGAAGCTC
Statistics
Matches: 148, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
138 136 0.92
139 12 0.08
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.17
Consensus pattern (139 bp):
AGAGAGCTGAACAGAAGCTCGTAAGAGCTGATCCACCCAAATCACACCAAACAGAAAGTAAAACA
CGAAAGTTTGCAACAAATGCTAAACCCCGATTTACTTGGGTAATATGCCGACAGAACACGCCAAC
AGAAGCTCG
Found at i:11485884 original size:21 final size:21
Alignment explanation
Indices: 11485858--11485919 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
11485848 AACACGCCAG
*
11485858 CAGAAGCTCGAGAGAGCTTAA
1 CAGAAGCTCGAGAGAGCTGAA
11485879 CAGAAGCTC-ATGAGAGCTGAA
1 CAGAAGCTCGA-GAGAGCTGAA
*
11485900 TAGAAGCTCGTA-AGAGCTGA
1 CAGAAGCTCG-AGAGAGCTGA
11485920 TCCACCCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
23 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (21 bp):
CAGAAGCTCGAGAGAGCTGAA
Found at i:11488570 original size:16 final size:15
Alignment explanation
Indices: 11488537--11488578 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
11488527 AAAATAGTAA
*
11488537 AAAACCTTAACCCAT
1 AAAACCTTAAACCAT
11488552 AAAATCCTTAAACC-T
1 AAAA-CCTTAAACCAT
*
11488567 TAAACCTTAAAC
1 AAAACCTTAAAC
11488579 TGTAAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 8 0.33
15 8 0.33
16 8 0.33
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAACCTTAAACCAT
Found at i:11489522 original size:26 final size:26
Alignment explanation
Indices: 11489493--11489548 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
11489483 CTTAAACCAA
11489493 ACTTTTCAAAAATA-TTTCTCAAAATC
1 ACTTTTCAAAAATACTTT-TCAAAATC
* * *
11489519 ACTTTTCCAAAGTACTTTTTAAAATC
1 ACTTTTCAAAAATACTTTTCAAAATC
11489545 ACTT
1 ACTT
11489549 CTAAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.41
Consensus pattern (26 bp):
ACTTTTCAAAAATACTTTTCAAAATC
Found at i:11490025 original size:17 final size:18
Alignment explanation
Indices: 11490003--11490038 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11489993 TTAGGGATAT
*
11490003 AATTAAAAT-ATTTTAAA
1 AATTAAAATCAATTTAAA
11490020 AATTAAAATCAATTTAAA
1 AATTAAAATCAATTTAAA
11490038 A
1 A
11490039 TAAGAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAAAATCAATTTAAA
Found at i:11493661 original size:3 final size:3
Alignment explanation
Indices: 11493648--11493689 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
11493638 TAAATACCTG
* *
11493648 AAT AA- AAT AAT AAT AAT GAT GAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11493690 GACAAGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11495333 original size:13 final size:13
Alignment explanation
Indices: 11495315--11495339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11495305 TATGTGATAT
11495315 GTGTGAAAATTTC
1 GTGTGAAAATTTC
11495328 GTGTGAAAATTT
1 GTGTGAAAATTT
11495340 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:11495994 original size:43 final size:43
Alignment explanation
Indices: 11495946--11496100 Score: 172
Period size: 43 Copynumber: 3.7 Consensus size: 43
11495936 TGTGATATCA
* *
11495946 TGTAAGACCATGTCTGGGACATTGGCATTGATCTAAGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATAAGATTACG
* * *
11495989 TGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATAAGATTACG
* * * * *
11496031 TGTAAGACCCTGTCTGGGACAATGGCATCGATATTTA-ATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATA-TAAGATTACG
* *
11496074 TGTAAGACCATATCTGGGATA-TGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
11496101 TGTACGAGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
42 42 0.45
43 51 0.54
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATAAGATTACG
Found at i:11499907 original size:6 final size:6
Alignment explanation
Indices: 11499896--11499922 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11499886 AATAATTAAT
11499896 TTTATA TTTATA TTTATA TTTATA TTT
1 TTTATA TTTATA TTTATA TTTATA TTT
11499923 TTTAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:11501207 original size:81 final size:81
Alignment explanation
Indices: 11501059--11502316 Score: 1248
Period size: 81 Copynumber: 15.5 Consensus size: 81
11501049 TCCATCGCCG
** * * * ** * * * *
11501059 TCTTACATTAAACGCCTTGAAAGCAAGTACAAACCTGGTTACATAATGGATGAAGAAGACGACAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
**
11501124 GAGTTCTTCCTTGTCT
66 GAGTTCTTCCTCATCT
* * * *
11501140 TCTTACATTTTACGCCTTCAAAGCAAATACAAACCAGGTTATGTAGTGGAT-AGAGCAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGA-AGTAGAGGAAA
*
11501204 AGAGTTCTTCCTCGTCT
65 AGAGTTCTTCCTCATCT
* *
11501221 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
* * *
11501286 GAATTCTT-CTCCCTCA
66 GAGTTCTTCCT-CATCT
* * * * * * * *
11501302 TCTCATATTGCACGCCTTGAGAGCAAATACAAACCCGGTTATGTAGTGGATGGAGTAGAGAAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
*
11501367 GTGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* * * *
11501383 TCTTACATTTCACGTCTTAAAAGCAAATACAAGTCGGGTTATGTAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
*
11501448 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * * *
11501466 TCGT--ATTGCACTCCTTGAGAGCAAATACAAAGCC-GGTTATGTAGTGGATGGAGCAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATAC-AAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAA
11501528 AGAGTTCTTCCTCATCT
65 AGAGTTCTTCCTCATCT
* * *
11501545 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAAGTTACGTAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
*
11501610 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * * * *
11501628 TCGT--ATTGCACGCCTTGAGAGCAAGTACAAACCCA-GTTATGTAGTGGATGGAGCAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATAC-AAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAA
*
11501690 AGAGTTCTTCCTTATCT
65 AGAGTTCTTCCTCATCT
* *
11501707 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTACGTAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
*
11501772 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * * * * * *
11501790 TCGT--ATTGCACGCCTTGAGAGCAAGTACAAGCCAAGCTATAG-AGTGGATGGAGCAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTAT-GTAGTGGATGAAGTAGAGGAAA
11501852 AGAGTTCTTCCTCATCT
65 AGAGTTCTTCCTCATCT
* * *
11501869 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
* * *
11501934 GAATTCTT-CTCCCTCA
66 GAGTTCTTCCT-CATCT
* * * * * * * *
11501950 TCTCATATTGCACGCCTTGAGAGCAAGTACAAGCC-GGATTATGGAGTGGATGGAGCAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGG-TTATGTAGTGGATGAAGTAGAGGAAA
11502014 AGAGTTCTTCCTCATCT
65 AGAGTTCTTCCTCATCT
** *
11502031 TCTTACATTTCACATCTTGAAAGCAAATACAAGCC-GAGTTATGGAGTGGATGAAGTAGAGGAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAG-GTTATGTAGTGGATGAAGTAGAGGAAA
*
11502095 AGAATTCTTCTCCCTCATC-
65 AGAGTTC-T-T-CCTCATCT
* * * * * * * * *
11502114 TCGT--ATTGCAAGCCTTGAGAGCAAGTACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
11502177 GAGTTCTTCCTCATCT
66 GAGTTCTTCCTCATCT
* *
11502193 TCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGGAGTGGATGAAGTAGAGGAAAA
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
*
11502258 GAATTCTTCTCCCTCATC-
66 GAGTTC-T-T-CCTCATCT
* * * *
11502276 TCGT--ATTGCACGCCTTGAAAGCAAATATAAGCCGGGTTATG
1 TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATG
11502317 GAGTTGACAA
Statistics
Matches: 976, Mismatches: 159, Indels: 84
0.80 0.13 0.07
Matches are distributed among these distances:
78 27 0.03
79 16 0.02
80 22 0.02
81 835 0.86
82 22 0.02
83 20 0.02
84 34 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (81 bp):
TCTTACATTTCACGCCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAGGAAAA
GAGTTCTTCCTCATCT
Found at i:11502317 original size:162 final size:162
Alignment explanation
Indices: 11501151--11502320 Score: 1894
Period size: 162 Copynumber: 7.2 Consensus size: 162
11501141 CTTACATTTT
* * * * * *
11501151 ACGCCTTCAAAGCAAATACAAACCAGGTTATGTAGTGGATAGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* *
11501216 CGTCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGTAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAG
*
11501281 GAAAAGAATTCTTCTCCCTCATCTCATATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* * * * * *
11501313 ACGCCTTGAGAGCAAATACAAACCCGGTTATGTAGTGGATGGAGTAGAGAAAAAGTGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* * *
11501378 CATCTTCTTACATTTCACGTCTTAAAAGCAAATACAAGTCGGGTTATGTAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAG
11501443 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* *
11501475 ACTCCTTGAGAGCAAATACAAAGCC-GGTTATGTAGTGGATGGAGCAGAGGAAAAGAGTTCTTCC
1 ACGCCTTGAGAGCAAATAC-AAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCC
* *
11501539 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAAGTTACGTAGTGGATGAAGTAGA
65 TCATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGA
11501604 GGAAAAGAATTCTTCTCCCTCATCTCGTATTGC
130 GGAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* * ** *
11501637 ACGCCTTGAGAGCAAGTACAAACCCAGTTATGTAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* *
11501702 TATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTACGTAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAG
11501767 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* ** * *
11501799 ACGCCTTGAGAGCAAGTACAAGCCAAGCTATAGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* *
11501864 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCGGGTTATGGAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAG
*
11501929 GAAAAGAATTCTTCTCCCTCATCTCATATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* *
11501961 ACGCCTTGAGAGCAAGTACAAGCCGGATTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
* *
11502026 CATCTTCTTACATTTCACATCTTGAAAGCAAATACAAGCC-GAGTTATGGAGTGGATGAAGTAGA
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAG-GTTATGTAGTGGATGAAGTAGA
11502090 GGAAAAGAATTCTTCTCCCTCATCTCGTATTGC
130 GGAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* *
11502123 AAGCCTTGAGAGCAAGTACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
1 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
*
11502188 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGGAGTGGATGAAGTAGAG
66 CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAG
11502253 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
131 GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
* *
11502285 ACGCCTTGAAAGCAAATATAAGCCGGGTTATGGAGT
1 ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGT
11502321 TGACAAAGAT
Statistics
Matches: 953, Mismatches: 51, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
161 5 0.01
162 943 0.99
163 5 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (162 bp):
ACGCCTTGAGAGCAAATACAAGCCGGGTTATGGAGTGGATGGAGCAGAGGAAAAGAGTTCTTCCT
CATCTTCTTACATTTCACGTCTTGAAAGCAAATACAAGCCAGGTTATGTAGTGGATGAAGTAGAG
GAAAAGAATTCTTCTCCCTCATCTCGTATTGC
Found at i:11511863 original size:99 final size:99
Alignment explanation
Indices: 11511684--11512175 Score: 858
Period size: 99 Copynumber: 5.0 Consensus size: 99
11511674 CCATTCTTCA
* * * *
11511684 CCAGAAACTTGGGTGGTCTCCCACGCTTGCATTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
*
11511749 TTCACTTCACTATGAGACTGATCATTCCCCATAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
11511783 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
* *
11511848 TTCACTTTACCATGAGACTGATCATTCCCCTTAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
* *
11511882 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCTATCTTTCCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
11511947 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
11511981 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
11512046 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
66 TTCACTTCACTATGAGACTGATCATTCCCCTTAT
* * * *
11512080 CCACCAACTTGGGCGGTCTCCCACGCTTACGCTTTCCCATCTTACCCACCTTTCTCTGCACATCA
1 CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
*
11512145 TTCACTTCAGTATGAGACTGATCATTCCCCT
66 TTCACTTCACTATGAGACTGATCATTCCCCT
11512176 CCTTAACCAC
Statistics
Matches: 375, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 375 1.00
ACGTcount: A:0.19, C:0.37, G:0.12, T:0.32
Consensus pattern (99 bp):
CCAGCAACTTGGGCGGTCTCCCACGCTTACGTTTTCCCATCTTACCCACCTTACTCTGCACATCC
TTCACTTCACTATGAGACTGATCATTCCCCTTAT
Found at i:11520512 original size:177 final size:177
Alignment explanation
Indices: 11520216--11520571 Score: 712
Period size: 177 Copynumber: 2.0 Consensus size: 177
11520206 AAATTCTTAT
11520216 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
1 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
11520281 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
66 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
11520346 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
131 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
11520393 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
1 AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
11520458 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
66 TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
11520523 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
131 TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
11520570 AA
1 AA
11520572 TGTCTTACTA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 179 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (177 bp):
AAATATACAAATTATTTTAATTGAAGTGTAGCATATTTGGATTGAATTCTTATATTGATTATGCT
TATTTTGTGACTTAAAATATGAAAATTACCATTGAGTGTAACGGCTTGGTGTACGGATTGTTTTC
TCCGTGCGTAGATGTGGTAGATTCTAGATAGTTTGAGCAGTTGATCC
Found at i:11520990 original size:21 final size:22
Alignment explanation
Indices: 11520948--11520990 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
11520938 GCGACGCGAT
*
11520948 GAGGAACCTCCGACATCGCAAC
1 GAGGAACCTCCGACATCACAAC
**
11520970 GAGGAACC-CCGATGTCACAAC
1 GAGGAACCTCCGACATCACAAC
11520991 ATCAACCTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.35, G:0.23, T:0.09
Consensus pattern (22 bp):
GAGGAACCTCCGACATCACAAC
Done.