Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 418 of 770
Found at i:128686970 original size:40 final size:39
Alignment explanation
Indices: 128686879--128687029 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 39
128686869 ATAATCACGT
* * *
128686879 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
128686919 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
128686959 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
128686999 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
128687030 TCATTCAATT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:128687013 original size:80 final size:80
Alignment explanation
Indices: 128686879--128687028 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
128686869 ATAATCACGT
*
128686879 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
128686943 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * * *
128686959 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
128687022 CCCGGAT
64 CCCGGAT
128687029 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:128691010 original size:77 final size:79
Alignment explanation
Indices: 128690881--128691061 Score: 206
Period size: 77 Copynumber: 2.3 Consensus size: 79
128690871 ACGACTCGCT
** *** *
128690881 CAAATGCCTTCGGGACGAAGCCCGATTATAGCGACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGATT-TATTAACTCGCACGAATGCCTTC-GGATCCTAACCCG
* *
128690945 GGTTTAGTAACTT-GCA
63 GATATAGTAACTTAGCA
* **
128690961 CAATGCCTTCGGG-CTTAGCCCGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGGAT
*
128691025 ATAGTCACTTAGCA
66 ATAGTAACTTAGCA
128691039 CAAAGCCTTCGGGACTTAGCCCG
1 CAAAGCCTTCGGGACTTAGCCCG
128691062 GACATCATTC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
76 3 0.04
77 36 0.42
78 25 0.29
79 18 0.21
80 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGATTTATTAACTCGCACGAATGCCTTCGGATCCTAACCCGGAT
ATAGTAACTTAGCA
Found at i:128691063 original size:40 final size:39
Alignment explanation
Indices: 128690883--128691063 Score: 163
Period size: 40 Copynumber: 4.6 Consensus size: 39
128690873 GACTCGCTCA
** ** *
128690883 AATGCCTTCGGGACGAAGCCC-GATTATAGCGACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCAC
* *
128690922 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* *
128690962 AATGCCTTCGGG-CTTAGCCC-GATTTATTAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
* * * *
128690999 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCAC
*
128691040 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
128691064 CATCATTCGA
Statistics
Matches: 114, Mismatches: 20, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
37 16 0.14
38 16 0.14
39 18 0.16
40 54 0.47
41 10 0.09
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCAC
Found at i:128694475 original size:17 final size:18
Alignment explanation
Indices: 128694433--128694481 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
128694423 AGTTGAAAAG
128694433 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
128694452 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
128694469 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
128694482 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:128695368 original size:40 final size:40
Alignment explanation
Indices: 128695302--128695452 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
128695292 AAATTGAATG
* * *
128695302 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
128695341 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
128695381 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
128695421 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
128695453 ACTTGATTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:128695466 original size:40 final size:40
Alignment explanation
Indices: 128695338--128695468 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
128695328 TATGCTGGAA
* * * *
128695338 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
128695378 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
128695418 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
128695458 ATTATATCCGG
1 ATTATATCCGG
128695469 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:128703518 original size:40 final size:40
Alignment explanation
Indices: 128703452--128703618 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
128703442 AAATTGAATG
* * *
128703452 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
128703491 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
128703531 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
128703571 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
128703611 ATATCCGG
1 ATATCCGG
128703619 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:128711481 original size:40 final size:40
Alignment explanation
Indices: 128711415--128711565 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
128711405 AAATTGAATG
* * *
128711415 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
128711454 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
128711494 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
128711534 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
128711566 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:128711579 original size:40 final size:40
Alignment explanation
Indices: 128711452--128711581 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
128711442 ATGCTGGAAA
* * *
128711452 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
128711492 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
128711532 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
128711572 TTATATCCGG
1 TTATATCCGG
128711582 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:128713765 original size:42 final size:43
Alignment explanation
Indices: 128713658--128713766 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
128713648 TCGTACAATG
* * *
128713658 CCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACATCCTAGACGTGGTCTTACATGAAATCAAATATCGATA
128713701 CC-ACTATCCTAGACAG-GGTCTTACATGAAATCAAATA-CGATA
1 CCAAC-ATCCTAGAC-GTGGTCTTACATGAAATCAAATATCGATA
128713743 CCAACATCCTAGACGTGGTCTTAC
1 CCAACATCCTAGACGTGGTCTTAC
128713767 GCGTAAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
41 1 0.02
42 25 0.42
43 32 0.54
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
CCAACATCCTAGACGTGGTCTTACATGAAATCAAATATCGATA
Found at i:128717402 original size:44 final size:44
Alignment explanation
Indices: 128717339--128717427 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
128717329 ACTTAATTTA
**
128717339 AACCATTCAAAAAAAATTCATTGTAACAGCTGGATTTCGGGCCT
1 AACCATTCAAAAAAAATTCATTGTAACAGCCCGATTTCGGGCCT
* * * *
128717383 AACCATTTAAAAAACATTCATTGTAATAGCCCGATTTTGGGCCT
1 AACCATTCAAAAAAAATTCATTGTAACAGCCCGATTTCGGGCCT
128717427 A
1 A
128717428 GTCAGAACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (44 bp):
AACCATTCAAAAAAAATTCATTGTAACAGCCCGATTTCGGGCCT
Found at i:128721447 original size:42 final size:43
Alignment explanation
Indices: 128721349--128721495 Score: 156
Period size: 42 Copynumber: 3.4 Consensus size: 43
128721339 AGATATCGTA
* * * * * *
128721349 TAAGACCGTGTCTGGGAAACAGGCTTCGAT-TTGAGATTTATGTG
1 TAAGACCATGTCTGGGACAGAGGCATCGATACTGA-A-TTACGTG
**
128721393 TAAGACCATGTCTGGGACATCGGCATCG-TATCTGAATT-CGTG
1 TAAGACCATGTCTGGGACAGAGGCATCGATA-CTGAATTACGTG
* *
128721435 TAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTACGTG
128721478 TAAGACCATGTCTGGGAC
1 TAAGACCATGTCTGGGAC
128721496 GTCGACATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 35 0.40
43 25 0.29
44 24 0.28
45 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTACGTG
Found at i:128742959 original size:13 final size:13
Alignment explanation
Indices: 128742941--128742970 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
128742931 CTAAACCTTA
128742941 AAATTTCTTAACC
1 AAATTTCTTAACC
128742954 AAATTTCTTAACC
1 AAATTTCTTAACC
128742967 AAAT
1 AAAT
128742971 ATTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATTTCTTAACC
Found at i:128747901 original size:60 final size:60
Alignment explanation
Indices: 128747817--128747956 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 60
128747807 CAAAGTTAAC
*
128747817 TGGGCCTCAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGT-ATCAGAGTATAT
1 TGGGCCT-AGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACGAGTCA--AGA-TATAT
* ***
128747878 TGGGCCTAGCCCATATCAGTATTAATCTGGGTTGTAGCCCTATTACGAGTCAAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACGAGTCAAGATATAT
*
128747938 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
128747957 CACAGTTGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
60 51 0.74
61 14 0.20
62 3 0.04
63 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACGAGTCAAGATATAT
Found at i:128747989 original size:19 final size:20
Alignment explanation
Indices: 128747946--128748001 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
128747936 ATTGGGCCTT
128747946 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
128747966 GCCCATTTCAATACAGTT-G
1 GCCCATATCAACACAGTTGG
* *
128747985 GCCCATAACAAAACAGT
1 GCCCATATCAACACAGT
128748002 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:128753363 original size:30 final size:30
Alignment explanation
Indices: 128753329--128753389 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
128753319 TCCTTAACTC
128753329 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
128753359 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
128753389 A
1 A
128753390 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:128756575 original size:17 final size:18
Alignment explanation
Indices: 128756533--128756581 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
128756523 AGTTGAAAAG
128756533 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
128756552 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
128756569 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
128756582 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:128757568 original size:40 final size:39
Alignment explanation
Indices: 128757400--128757570 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
128757390 AGAAATTGAA
* *
128757400 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
128757440 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
128757480 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
128757520 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
128757560 TGATATCCGGG
1 TGATATCCGGG
128757571 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:128772375 original size:40 final size:39
Alignment explanation
Indices: 128772237--128772418 Score: 163
Period size: 39 Copynumber: 4.6 Consensus size: 39
128772227 CCGCACCAAG
* * * * * * *
128772237 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATAT-ACTACTAGCACAATT
* *
128772277 GCCTTCGGGTCTTAGCCCGGATTTAACAACT-GCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATAT-ACTACTAGCAC-AATT
128772316 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATA-CTACTAGCACAATT
* ** *
128772356 GCCTTCGGGTCTTAACCCGGATATA-TTTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATACTACT-AGCACAATT
* *
128772395 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
128772419 CATTCAATTT
Statistics
Matches: 121, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
38 3 0.02
39 63 0.52
40 55 0.45
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATACTACTAGCACAATT
Found at i:128772414 original size:39 final size:40
Alignment explanation
Indices: 128772269--128772418 Score: 171
Period size: 39 Copynumber: 3.8 Consensus size: 40
128772259 ATCACGATTT
* * * *
128772269 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACT-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
128772308 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* ** *
128772348 GCACAATTGCCTTCGGGTCTTAACCCGGATATATTTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * *
128772387 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
128772419 CATTCAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 64 0.66
40 33 0.34
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:128777115 original size:49 final size:49
Alignment explanation
Indices: 128777060--128777281 Score: 248
Period size: 49 Copynumber: 4.5 Consensus size: 49
128777050 GTATGCATAT
128777060 TAGCCTGCACTTAGTACTACACATGCGACCAATTATAC-GGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTAT-CGGGTACACGTAG
* * ** * *
128777109 TAGCCTGCACCTAGTACTACACATGTGACCTAAGCATCTGATACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACC-AATTATCGGGTACACGTAG
* ** * * ** * *
128777159 TAGACTATACTTAGTACTACACACGTGATTGAAGTTATCGGGTACGCATAG
1 TAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGGGTACACGTAG
*
128777210 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACGTAG
*
128777259 TAGCCTACACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
128777282 CGTGACCTCA
Statistics
Matches: 140, Mismatches: 29, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
49 65 0.46
50 41 0.29
51 34 0.24
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACGTAG
Found at i:128777286 original size:100 final size:101
Alignment explanation
Indices: 128777106--128777286 Score: 283
Period size: 100 Copynumber: 1.8 Consensus size: 101
128777096 ACGGTACACG
* * *
128777106 TAGTAGCCTGCACCTAGTACTACACATGTGACCTAAGCATCTGATACACGTAGTAGACTATACTT
1 TAGTAGCCTGCACCTAGTACTACACATGCGACCTAAGCATCCGATACACGTAGTAGACTACACTT
128777171 AGTACTACACACGTGATTGAAGTTATCGGGTACGCA
66 AGTACTACACACGTGATTGAAGTTATCGGGTACGCA
* ** * *
128777207 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACCTAGTACTACACATGCGACCTAAGCATCCGATACACGTAGTAGACTACACTT
128777271 AGTACTACACACGTGA
66 AGTACTACACACGTGA
128777287 CCTCACAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 41 0.57
101 31 0.43
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACCTAGTACTACACATGCGACCTAAGCATCCGATACACGTAGTAGACTACACTT
AGTACTACACACGTGATTGAAGTTATCGGGTACGCA
Found at i:128784139 original size:42 final size:43
Alignment explanation
Indices: 128784024--128784140 Score: 116
Period size: 42 Copynumber: 2.7 Consensus size: 43
128784014 ATATCCTAAA
** *
128784024 TATGGTCTTACATGGGATCACATATCGATACCAATAGCCCAAC
1 TATGGTCTTACATGAAATCACATATCGATGCCAATAGCCCAAC
* ** *
128784067 TATGGTCTTACACGATGTCTCATAAT-GATGCC-AT-GTCCCAGAC
1 TATGGTCTTACATGAAATCACAT-ATCGATGCCAATAG-CCCA-AC
128784110 -ATGGTCTTACATGAAATCACATATCGATGCC
1 TATGGTCTTACATGAAATCACATATCGATGCC
128784141 GATGCCATGT
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.05
42 30 0.50
43 25 0.42
44 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TATGGTCTTACATGAAATCACATATCGATGCCAATAGCCCAAC
Found at i:128784256 original size:96 final size:96
Alignment explanation
Indices: 128784092--128784314 Score: 299
Period size: 96 Copynumber: 2.3 Consensus size: 96
128784082 TGTCTCATAA
* *
128784092 TGATGCCATGTCCCAGACATGGTCTTACATGAAATCACATATCGATGCCGATGCCATGTCCCAGA
1 TGATGCCATGTCCCAGACATGGTCTTACATGAAATCACATATCAATACCGATGCCATGTCCCAGA
* *
128784157 CATGGTCTTATACTGGCTCACA-CGTCGAGGC
66 CATGGTCTTATACAGGATCACATC-TCGAGGC
* * *
128784188 TGATGCCATGTCCCAAACATGGTCTTACACT-AGCA-CACATATCAATACCGATGCCATGTCCTA
1 TGATGCCATGTCCCAGACATGGTCTTACA-TGA-AATCACATATCAATACCGATGCCATGTCCCA
* *
128784251 GACATGGTCTTATACAGGATCTCATCTCGATGC
64 GACATGGTCTTATACAGGATCACATCTCGAGGC
**
128784284 CAATGCCATGTCCCAGACATGGTCTTACATG
1 TGATGCCATGTCCCAGACATGGTCTTACATG
128784315 GGATCTCACA
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
95 1 0.01
96 107 0.96
97 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (96 bp):
TGATGCCATGTCCCAGACATGGTCTTACATGAAATCACATATCAATACCGATGCCATGTCCCAGA
CATGGTCTTATACAGGATCACATCTCGAGGC
Found at i:128784322 original size:48 final size:48
Alignment explanation
Indices: 128784093--128784319 Score: 244
Period size: 48 Copynumber: 4.7 Consensus size: 48
128784083 GTCTCATAAT
*
128784093 GATGCCATGTCCCAGACATGGTCTTACAT-GAAATCACATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACATAG-GATCACATATCGATGCC
* * ** * *
128784141 GATGCCATGTCCCAGACATGGTCTTATACT-GGCTCACACGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACA-TAGGATCACATATCGATGCC
* * * *
128784189 GATGCCATGTCCCAAACATGGTCTTACACTAGCA-CACATATCAATACC
1 GATGCCATGTCCCAGACATGGTCTTACA-TAGGATCACATATCGATGCC
* * * * *
128784237 GATGCCATGTCCTAGACATGGTCTTATACAGGATCTCATCTCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCGATGCC
* *
128784285 AATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCATGTCCCAGACATGGTCTTACATAGGATC
128784320 TCACATTTAC
Statistics
Matches: 145, Mismatches: 31, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
47 3 0.02
48 139 0.96
49 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATCGATGCC
Found at i:128792174 original size:39 final size:39
Alignment explanation
Indices: 128792130--128792444 Score: 531
Period size: 39 Copynumber: 8.1 Consensus size: 39
128792120 ATTATATTAT
* * *
128792130 CAGCACAAAGCCTGCGGTACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
128792169 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
128792208 CAGCACGAAGCCTGCGGGGCTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
128792247 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
128792286 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
128792325 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
128792364 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
128792403 CAGCACGAAGCCTGCGAGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
128792442 CAG
1 CAG
128792445 TGTCTTGCAT
Statistics
Matches: 260, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 260 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:128797311 original size:50 final size:50
Alignment explanation
Indices: 128797218--128797356 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
128797208 TTTAATAAAG
*
128797218 TCATGCATTATGTAACTTTCA--TTAGTTAAGCA-TGCATCATAAATAATGA
1 TCATGCATTATGTAACTCTCATGTTAGTTAAG-ATTGCATCATAAATAAT-A
*
128797267 -CATGCATTATGTAACTCTCATGTTAGTTAAGATTGCATCATAAATTATA
1 TCATGCATTATGTAACTCTCATGTTAGTTAAGATTGCATCATAAATAATA
* * *
128797316 TCATGCATTATGTAACTCCCATGGTAGTTAAAGTTTGCATC
1 TCATGCATTATGTAACTCTCATGTTAGTT-AAGATTGCATC
128797357 TTTTAATGAA
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
48 19 0.24
49 2 0.03
50 49 0.61
51 10 0.12
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (50 bp):
TCATGCATTATGTAACTCTCATGTTAGTTAAGATTGCATCATAAATAATA
Found at i:128802259 original size:40 final size:40
Alignment explanation
Indices: 128802189--128802412 Score: 299
Period size: 40 Copynumber: 5.5 Consensus size: 40
128802179 AAACCAAGTA
* * * *
128802189 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
128802228 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
128802268 CCTTCGGGACATAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
128802308 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
*
128802351 CCTTCGGGACTTGGCCCGGTTATCATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
128802394 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
128802413 TTATCATCCG
Statistics
Matches: 168, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 77 0.46
42 2 0.01
43 76 0.45
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:128802350 original size:43 final size:43
Alignment explanation
Indices: 128802215--128802419 Score: 314
Period size: 43 Copynumber: 4.9 Consensus size: 43
128802205 GGATATAGCT
* *
128802215 ACTCGCTCAACTGCCTTCGGGACTTAGCCCGG--AT-ATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
*
128802255 ACTCGCACAAATGCCTTCGGGACATAGCCCGG--AT-ATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
*
128802295 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
* *
128802338 ACTCACACAAATGCCTTCGGGACTTGGCCCGGTTATCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
128802381 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCAT
128802420 CCGAATATTC
Statistics
Matches: 152, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 67 0.44
42 2 0.01
43 83 0.55
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (43 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
Found at i:128809065 original size:21 final size:21
Alignment explanation
Indices: 128809039--128809078 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
128809029 GTGTACTGTG
*
128809039 CTGGCAGCTTTGCTGCAATTA
1 CTGGCAGCTCTGCTGCAATTA
128809060 CTGGCAGCTCTGCTGCAAT
1 CTGGCAGCTCTGCTGCAAT
128809079 CACTAATTAG
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:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (21 bp):
CTGGCAGCTCTGCTGCAATTA
Found at i:128809288 original size:34 final size:34
Alignment explanation
Indices: 128809215--128809281 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
128809205 GCATTTTCTG
*
128809215 ATACTATTATTGTAATGGGCTAAAGCCCACACTA
1 ATACTGTTATTGTAATGGGCTAAAGCCCACACTA
*
128809249 ATACTGTTATTGTAATGGGCTAAGGCCCACACT
1 ATACTGTTATTGTAATGGGCTAAAGCCCACACT
128809282 GGTACTGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (34 bp):
ATACTGTTATTGTAATGGGCTAAAGCCCACACTA
Found at i:128811743 original size:28 final size:28
Alignment explanation
Indices: 128811678--128811778 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
128811668 ATAGTGAATC
*
128811678 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
128811707 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
128811735 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
128811765 CGCACACTTAGTGC
1 CGCACACTTAGTGC
128811779 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:128819667 original size:28 final size:28
Alignment explanation
Indices: 128819602--128819702 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
128819592 ATAGTGAATC
*
128819602 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
128819631 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
128819659 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
128819689 CGCACACTTAGTGC
1 CGCACACTTAGTGC
128819703 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:128822379 original size:21 final size:21
Alignment explanation
Indices: 128822355--128822401 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
128822345 CCACCCACCT
128822355 AGAGGTGTTCAGCAGCCACTG
1 AGAGGTGTTCAGCAGCCACTG
128822376 AGAGGTGTTCAGCAGCCACTG
1 AGAGGTGTTCAGCAGCCACTG
128822397 AGAGG
1 AGAGG
128822402 CCATGGTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.36, T:0.17
Consensus pattern (21 bp):
AGAGGTGTTCAGCAGCCACTG
Found at i:128825959 original size:30 final size:30
Alignment explanation
Indices: 128825911--128825967 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
128825901 TTTCCGAGCC
128825911 TAGGGGCAAAATCATAATTCTG-CAAAGGTT
1 TAGGGGCAAAATCATAATT-TGTCAAAGGTT
**
128825941 TAGGGGCAAAATTGTAATTTGTCAAAG
1 TAGGGGCAAAATCATAATTTGTCAAAG
128825968 TTTGAGTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATCATAATTTGTCAAAGGTT
Found at i:128826553 original size:43 final size:44
Alignment explanation
Indices: 128826501--128826584 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
128826491 TTGATGTCTC
* *
128826501 AAAGTCCATGGTTGTACCAT-GCAATTAAGGAAGAATTGACAGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACAGA
* * *
128826544 AAAGTCCATGTTTATAACATGGCATTTAAGGAGGAATTGAC
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGAC
128826585 GGTTAAGGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 17 0.49
44 18 0.51
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACAGA
Found at i:128828341 original size:40 final size:40
Alignment explanation
Indices: 128828264--128828534 Score: 427
Period size: 40 Copynumber: 6.8 Consensus size: 40
128828254 CCAGCATGAT
* *
128828264 TGCTCTTCGG-ACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
128828303 TGCTCTTCGGTACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
128828343 TGCTCTTCGGAACTTAGTCCGGTTGCATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
128828383 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
128828423 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
128828463 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
128828503 TGCTCTTCGGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
128828535 CTCAATTCTC
Statistics
Matches: 218, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 10 0.05
40 208 0.95
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:128830823 original size:49 final size:49
Alignment explanation
Indices: 128830649--128831020 Score: 502
Period size: 49 Copynumber: 7.7 Consensus size: 49
128830639 CCCTTCGGGA
* * * * * *
128830649 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
128830696 CCTATCACATAT--ATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
128830743 CTTGTCAACATATACATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATC-ACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
128830793 CTTATCCCATATAGATACACTTTCACATTCATCACATTGG-CATTCGGC
1 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
128830841 TTTGTCACATATACATACACTTTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
128830890 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
128830939 CTTATCACATATATATACACTTTCACATTCATCTCATCGGCCATTAGGC
1 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
*
128830988 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCACATATACATACACTTTCACATTCATC
128831021 GCGTAAAATC
Statistics
Matches: 291, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
47 44 0.15
48 48 0.16
49 163 0.56
50 36 0.12
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:128830851 original size:97 final size:97
Alignment explanation
Indices: 128830661--128831020 Score: 544
Period size: 97 Copynumber: 3.7 Consensus size: 97
128830651 TATCACATTT
* * * * *
128830661 ATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATAT-ATACACTTTCACATTCA
1 ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATAATACACTTTCACATTCA
*
128830725 TCACATTGGTCATTCGGCCTTGTCAACATATAC
66 TCACATTGGCCATTCGGCCTTGTC-ACATATAC
*
128830758 ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCCCATATAGATACACTTTCACATTC
1 ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA-ATACACTTTCACATTC
*
128830823 ATCACATTGG-CATTCGGCTTTGTCACATATAC
65 ATCACATTGGCCATTCGGCCTTGTCACATATAC
128830855 ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTC
1 ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA-ATACACTTTCACATTC
* * * *
128830920 ATCACATCGGCCATTAGGCCTTATCACATATAT
65 ATCACATTGGCCATTCGGCCTTGTCACATATAC
* *
128830953 ATACACTTTCACATTCATCTCATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTC
1 ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATA-ATACACTTTCACATTC
128831018 ATC
65 ATC
128831021 GCGTAAAATC
Statistics
Matches: 243, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
97 121 0.50
98 96 0.40
99 26 0.11
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (97 bp):
ATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATAATACACTTTCACATTCA
TCACATTGGCCATTCGGCCTTGTCACATATAC
Found at i:128830930 original size:146 final size:147
Alignment explanation
Indices: 128830649--128831020 Score: 529
Period size: 146 Copynumber: 2.6 Consensus size: 147
128830639 CCCTTCGGGA
* * * * *
128830649 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATAT-ATA
1 CTTATCACATATAGATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAATA
* * * *
128830711 CACTTTCACATTCATCACATTGGTCATTCGGCCTTGTCAACATATACATACACTTTCACATTCAT
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAACATATACATACACTTTCACATTCAT
*
128830776 CACGTCGGCCATTAGGC
131 CACATCGGCCATTAGGC
* * *
128830793 CTTATCCCATATAGATACACTTTCACATTCATCACATTGG-CATTCGGCTTTGTCACATATACAT
1 CTTATCACATATAGATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA-AT
*
128830857 ACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATC-ACATATACATACACTTTCACATTCA
65 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAACATATACATACACTTTCACATTCA
128830921 TCACATCGGCCATTAGGC
130 TCACATCGGCCATTAGGC
* * * *
128830939 CTTATCACATATATATACACTTTCACATTCATCTCATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATAGATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA-AT
128831004 ACACTTTCACATTCATC
65 ACACTTTCACATTCATC
128831021 GCGTAAAATC
Statistics
Matches: 201, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
144 9 0.04
145 17 0.08
146 102 0.51
147 73 0.36
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (147 bp):
CTTATCACATATAGATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAATA
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAACATATACATACACTTTCACATTCAT
CACATCGGCCATTAGGC
Found at i:128833718 original size:4 final size:4
Alignment explanation
Indices: 128833704--128833735 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
128833694 AGTGTAGGTG
128833704 TATT T-TT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TATT T
128833736 TTAGTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:128834780 original size:28 final size:29
Alignment explanation
Indices: 128834727--128834787 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
128834717 TGAGCATGAC
128834727 TATAAATGTGATTTGGGCCTAATGGGCAA
1 TATAAATGTGATTTGGGCCTAATGGGCAA
* *
128834756 TATAAATGTGA-TTGGGCCTAGTGGGCCA
1 TATAAATGTGATTTGGGCCTAATGGGCAA
128834784 TATA
1 TATA
128834788 CAGGTATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.31
Consensus pattern (29 bp):
TATAAATGTGATTTGGGCCTAATGGGCAA
Found at i:128840572 original size:15 final size:15
Alignment explanation
Indices: 128840552--128840588 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
128840542 GCCTCGATTT
128840552 TTGGGCCTGGAAGTA
1 TTGGGCCTGGAAGTA
128840567 TTGGG-CTGGAAGTA
1 TTGGGCCTGGAAGTA
128840581 TTGGGCCT
1 TTGGGCCT
128840589 TGAGTCTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.16, C:0.14, G:0.41, T:0.30
Consensus pattern (15 bp):
TTGGGCCTGGAAGTA
Found at i:128845356 original size:33 final size:34
Alignment explanation
Indices: 128845284--128845356 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
128845274 TCAGTGGCAA
128845284 TATCAGTGCAGGCCTTAGCCCATTACAGTAACAG
1 TATCAGTGCAGGCCTTAGCCCATTACAGTAACAG
**
128845318 TATCAGTGTGGGCCTTAGCCCAATT-CAGT-ACAG
1 TATCAGTGCAGGCCTTAGCCC-ATTACAGTAACAG
128845351 TATCAG
1 TATCAG
128845357 AGATGCATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 10 0.28
34 23 0.64
35 3 0.08
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (34 bp):
TATCAGTGCAGGCCTTAGCCCATTACAGTAACAG
Found at i:128847116 original size:42 final size:43
Alignment explanation
Indices: 128847038--128847140 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
128847028 GTCCCGGACG
* * **
128847038 TGGTCTTACATGTAACTCAATATCGATGCCTCTGTCCTAGACAA
1 TGGTCTTACACGTAAATCAATATCGATGCCGATGTCCTAGA-AA
128847082 -GGTCTTACACG-AAATCAGATA-CGATGCCGATGTCCTAGAAA
1 TGGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCTAGAAA
*
128847123 TGGTCTTATACGTAAATC
1 TGGTCTTACACGTAAATC
128847141 TCAATCAAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.04
42 31 0.61
43 18 0.35
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (43 bp):
TGGTCTTACACGTAAATCAATATCGATGCCGATGTCCTAGAAA
Found at i:128851479 original size:19 final size:19
Alignment explanation
Indices: 128851452--128851501 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
128851442 TCCAATGATT
*
128851452 CACTATGTGTGCCAATATG
1 CACTATGTGTGCCAATATA
* * *
128851471 CATTATGTGTTCCATTATA
1 CACTATGTGTGCCAATATA
128851490 CACTATGTGTGC
1 CACTATGTGTGC
128851502 AAGCATTCAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (19 bp):
CACTATGTGTGCCAATATA
Found at i:128855237 original size:33 final size:34
Alignment explanation
Indices: 128855170--128855241 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
128855160 CCCACATTGC
128855170 TACTGAAAAAGGGCTAAGGCCCAGACTGTACTGA
1 TACTGAAAAAGGGCTAAGGCCCAGACTGTACTGA
** *
128855204 TACTGAAAAAGGGCTTTGG-CCAGGCTGTACTGA
1 TACTGAAAAAGGGCTAAGGCCCAGACTGTACTGA
128855237 TACTG
1 TACTG
128855242 TGTTATTCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (34 bp):
TACTGAAAAAGGGCTAAGGCCCAGACTGTACTGA
Found at i:128855945 original size:55 final size:54
Alignment explanation
Indices: 128855776--128856009 Score: 250
Period size: 55 Copynumber: 4.4 Consensus size: 54
128855766 TTACACTTAT
* * * *
128855776 CATGGTCTTACATGGTATCCTT---TT-GA-AACTTACCATTGTCATGTCTTGA
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGA
* * *
128855825 CATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCTATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGA
* * *
128855878 CATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATGCCATGTCTTGA
1 CATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTTACCAATGCCATGCCTTGA
* * * *
128855933 CATGGTCTTACATGATATCCTTGCCTTAGA-AACCTTACCAATATCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAA-CTTACCAAT-GCCATGCCTTGA
128855988 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
128856010 AAACCCTAAT
Statistics
Matches: 153, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
49 22 0.14
52 4 0.03
53 44 0.29
54 9 0.06
55 72 0.47
56 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTGA
Found at i:128856384 original size:75 final size:75
Alignment explanation
Indices: 128856289--128856443 Score: 292
Period size: 75 Copynumber: 2.1 Consensus size: 75
128856279 ATGACTAAAA
128856289 TGAATAAAATACAAACTATGTTTAATTGATGTGTTTTTCATGTGATTGTGTGAAAACTAATAGCA
1 TGAATAAAATACAAACTATGTTTAATTGATGTGTTTTTCATGTGATTGTGTGAAAACTAATAGCA
128856354 TTTCTATAAT
66 TTTCTATAAT
* *
128856364 TGAATAAAATACAAACTATGTTTTATTGATTTGTTTTTCATGTGATTGTGTGAAAACTAATAGCA
1 TGAATAAAATACAAACTATGTTTAATTGATGTGTTTTTCATGTGATTGTGTGAAAACTAATAGCA
128856429 TTTCTATAAT
66 TTTCTATAAT
128856439 TGAAT
1 TGAAT
128856444 TATCATACGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (75 bp):
TGAATAAAATACAAACTATGTTTAATTGATGTGTTTTTCATGTGATTGTGTGAAAACTAATAGCA
TTTCTATAAT
Found at i:128867811 original size:21 final size:21
Alignment explanation
Indices: 128867762--128867802 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
128867752 TATGAGATTT
*
128867762 AATGATTGATGATAGATTATG
1 AATGTTTGATGATAGATTATG
128867783 AATGTTTGATGATAG-TTATG
1 AATGTTTGATGATAGATTATG
128867803 CAAGTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATG
Found at i:128870590 original size:40 final size:39
Alignment explanation
Indices: 128870425--128870608 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
128870415 AAATTGAATG
* * *
128870425 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
128870465 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
128870505 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
128870545 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
128870584 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
128870609 CTTGGTGTGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:128880490 original size:29 final size:29
Alignment explanation
Indices: 128880399--128880552 Score: 144
Period size: 29 Copynumber: 5.6 Consensus size: 29
128880389 TACTCGATTT
** * *
128880399 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
128880428 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
128880457 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
128880486 TGCACAC----T---ATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
128880508 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
128880537 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
128880553 ATCTCGTCAC
Statistics
Matches: 102, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
22 20 0.20
25 1 0.01
26 1 0.01
28 2 0.02
29 78 0.76
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:128880499 original size:22 final size:22
Alignment explanation
Indices: 128880472--128880515 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
128880462 ACTTAGTGCC
*
128880472 ATATATTTCCAGCATGCACACT
1 ATATATTTCCAGCACGCACACT
128880494 ATATATTTCCAGCACGCACACT
1 ATATATTTCCAGCACGCACACT
128880516 TAGTGCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.30
Consensus pattern (22 bp):
ATATATTTCCAGCACGCACACT
Found at i:128887961 original size:28 final size:29
Alignment explanation
Indices: 128887892--128888051 Score: 184
Period size: 29 Copynumber: 5.6 Consensus size: 29
128887882 ATACTCGATT
** *
128887892 TCGCACACTTAGTGCCATGCGATTT-AAGC
1 TCGCACACTTAGTGCCAT-ATATTTCCAGC
* * ** *
128887921 CCGCACACATAGTGCCATA-CCTTCGAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
128887949 TCGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
128887978 AT-GCACACTTAGTG-CATATATTTCCAGC
1 -TCGCACACTTAGTGCCATATATTTCCAGC
*
128888006 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
128888035 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
128888052 ATCTCGTCAC
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.02
28 46 0.40
29 65 0.57
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATATTTCCAGC
Found at i:128887984 original size:57 final size:58
Alignment explanation
Indices: 128887892--128888051 Score: 200
Period size: 57 Copynumber: 2.8 Consensus size: 58
128887882 ATACTCGATT
** * * * * *
128887892 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACATAGTGCCATA-CCTTCGAGC
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCACGCACACTTAGTGCCATATACTTCCAGC
* *
128887949 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTG-CATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATACTTCCAGC
*
128888006 ACGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
128888052 ATCTCGTCAC
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
56 8 0.09
57 79 0.89
58 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.26
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATACTTCCAGC
Found at i:128890841 original size:42 final size:43
Alignment explanation
Indices: 128890782--128890867 Score: 165
Period size: 42 Copynumber: 2.0 Consensus size: 43
128890772 AGTTACATGG
128890782 TGAGCTCATCCTTATTTCTTGATA-TTACATGAAGTATATGAC
1 TGAGCTCATCCTTATTTCTTGATATTTACATGAAGTATATGAC
128890824 TGAGCTCATCCTTATTTCTTGATATTTACATGAAGTATATGAC
1 TGAGCTCATCCTTATTTCTTGATATTTACATGAAGTATATGAC
128890867 T
1 T
128890868 AACATGTTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 24 0.56
43 19 0.44
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (43 bp):
TGAGCTCATCCTTATTTCTTGATATTTACATGAAGTATATGAC
Found at i:128901151 original size:11 final size:11
Alignment explanation
Indices: 128901121--128901154 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
128901111 ATCAAGAATG
*
128901121 AAAGAATAAAT
1 AAAGAAAAAAT
128901132 AAA-AAAAAAT
1 AAAGAAAAAAT
128901142 AAAGAAAAAAT
1 AAAGAAAAAAT
128901153 AA
1 AA
128901155 CTAGTGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (11 bp):
AAAGAAAAAAT
Found at i:128905153 original size:122 final size:124
Alignment explanation
Indices: 128904918--128905194 Score: 409
Period size: 123 Copynumber: 2.2 Consensus size: 124
128904908 TCAGTTTTTT
* * *
128904918 AATCAGTTTTTAGTTTTAATTTATTTATAAAATCTTTTTTAAGATTTTTTTTCCCTTTTTGCCAA
1 AATCACTTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTTCCCTTTTTGCCAA
*** **
128904983 AAGTATTTAAGACTTTTAATAAATATCTATCACTACAAATAACCATTCAA-TGCAAAAA
66 AAGTATTTAAGACTCGCAATAAATATCTATCACTACAAATAACCATTCAATTAAAAAAA
*
128905041 AATCACTTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTT-CCTTTTTGCC-G
1 AATCACTTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTTCCCTTTTTGCCAA
*
128905104 AAGATATTTAAGAGTCGCAATAAATATCTATCACTACAAATAACCATTCAATTAAAAAAA
66 AAG-TATTTAAGACTCGCAATAAATATCTATCACTACAAATAACCATTCAATTAAAAAAA
*
128905164 AATCATTTTTTAGTTTTAATTTCA-TTATAAA
1 AATCACTTTTTAGTTTTAATTT-ATTTATAAA
128905195 TAATAAATTA
Statistics
Matches: 140, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
121 3 0.02
122 53 0.38
123 83 0.59
124 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (124 bp):
AATCACTTTTTAGTTTTAATTTATTTATAAAATCTTTTATAAGATTCTTTTTCCCTTTTTGCCAA
AAGTATTTAAGACTCGCAATAAATATCTATCACTACAAATAACCATTCAATTAAAAAAA
Found at i:128906214 original size:27 final size:27
Alignment explanation
Indices: 128906181--128906283 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
128906171 AGGGGGTGTG
*
128906181 GTGCCTATCTGATAGGCGACATTGGTT
1 GTGCCTATCTGATAGGCGGCATTGGTT
128906208 GTGCCTATCTGATAGGCGGCATTGGTT
1 GTGCCTATCTGATAGGCGGCATTGGTT
*
128906235 GTGCCTATCTGATAGGCGGCATTGATT
1 GTGCCTATCTGATAGGCGGCATTGGTT
* * *
128906262 GTGCTTATTTGATAGGCAGCAT
1 GTGCCTATCTGATAGGCGGCAT
128906284 ACCTAGTATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.34
Consensus pattern (27 bp):
GTGCCTATCTGATAGGCGGCATTGGTT
Found at i:128906493 original size:25 final size:23
Alignment explanation
Indices: 128906459--128906504 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
128906449 AAAATTATTT
128906459 TGTTAGTTTTATGTAGTTTGTTTAG
1 TGTTAGTTTTATGT--TTTGTTTAG
*
128906484 TGTTATTTTTATGTTTTGTTT
1 TGTTAGTTTTATGTTTTGTTT
128906505 TAAAGTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (23 bp):
TGTTAGTTTTATGTTTTGTTTAG
Found at i:128906506 original size:24 final size:24
Alignment explanation
Indices: 128906459--128906516 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
128906449 AAAATTATTT
* *
128906459 TGTTAGTTTTATGTAGTTTGTTTAG
1 TGTTATTTTTATGTA-TTTGTTTAA
128906484 TGTTATTTTTATGT-TTTGTTTTAA
1 TGTTATTTTTATGTATTTG-TTTAA
*
128906508 AGTTATTTT
1 TGTTATTTT
128906517 ATTTATTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 12 0.41
25 13 0.45
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (24 bp):
TGTTATTTTTATGTATTTGTTTAA
Found at i:128908415 original size:18 final size:18
Alignment explanation
Indices: 128908392--128908434 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
128908382 TAACAGTCAG
128908392 TTATTCACAAA-AGATAAA
1 TTATTCACAAATA-ATAAA
* *
128908410 TTATTCAGAAATAATCAA
1 TTATTCACAAATAATAAA
128908428 TTATTCA
1 TTATTCA
128908435 GTAACATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.35
Consensus pattern (18 bp):
TTATTCACAAATAATAAA
Found at i:128908476 original size:18 final size:18
Alignment explanation
Indices: 128908453--128908492 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
128908443 TTTTTTAAGT
*
128908453 AGTAGCAGTCAGTTATTC
1 AGTAGCAGTCAATTATTC
*
128908471 AGTAGCAGTTAATTATTC
1 AGTAGCAGTCAATTATTC
128908489 AGTA
1 AGTA
128908493 CCTTTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (18 bp):
AGTAGCAGTCAATTATTC
Found at i:128908627 original size:18 final size:18
Alignment explanation
Indices: 128908600--128908638 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
128908590 GGAATATACC
*
128908600 GTAATGGTAACAATAACA
1 GTAATAGTAACAATAACA
*
128908618 GTAATAGTAACAGTAACA
1 GTAATAGTAACAATAACA
128908636 GTA
1 GTA
128908639 GTGGTACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.23
Consensus pattern (18 bp):
GTAATAGTAACAATAACA
Found at i:128914416 original size:26 final size:26
Alignment explanation
Indices: 128914387--128914494 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
128914377 TGGTACAAAT
128914387 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
128914413 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
128914439 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
128914465 TGATAATGGTTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
128914491 TGAT
1 TGAT
128914495 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:128916526 original size:137 final size:137
Alignment explanation
Indices: 128916280--128916594 Score: 594
Period size: 137 Copynumber: 2.3 Consensus size: 137
128916270 AAGTAGTCTC
*
128916280 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTGTGAAATGGGCCTATGGGCCATAC
128916345 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTAAGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTAAGGCCCAGTACC
128916410 ACTGTTA
131 ACTGTTA
128916417 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTGTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTGTGAAATGGGCCTATGGGCCATAC
* **
128916482 TGTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTAAGGCCCAGTACC
128916547 ACTGTTA
131 ACTGTTA
128916554 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATT
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATT
128916595 TTGACAACTG
Statistics
Matches: 174, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 174 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTGTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTAAGGCCCAGTACC
ACTGTTA
Found at i:128918026 original size:18 final size:19
Alignment explanation
Indices: 128917997--128918032 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
128917987 AGTACCAGAA
128917997 CAGTAATCAGTAATAGTAG
1 CAGTAATCAGTAATAGTAG
128918016 CAGTAAT-AGTAATAGTA
1 CAGTAATCAGTAATAGTA
128918033 ACGGTAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.28
Consensus pattern (19 bp):
CAGTAATCAGTAATAGTAG
Found at i:128918039 original size:18 final size:18
Alignment explanation
Indices: 128917995--128918044 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
128917985 ATAGTACCAG
128917995 AACAGTAATCAGTAATAGT
1 AACAGTAAT-AGTAATAGT
*
128918014 AGCAGTAATAGTAATAGT
1 AACAGTAATAGTAATAGT
* *
128918032 AACGGTAACAGTA
1 AACAGTAATAGTA
128918045 TTCAACACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (18 bp):
AACAGTAATAGTAATAGT
Found at i:128918085 original size:45 final size:45
Alignment explanation
Indices: 128918024--128918308 Score: 360
Period size: 45 Copynumber: 6.3 Consensus size: 45
128918014 AGCAGTAATA
* * * *
128918024 GTAATAGTAACGGTAACAGTATTCAACACACAAAGTG-CTGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTC-GAATCG
* *
128918069 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGTCGCATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCG
*
128918114 GTAACGGTAACAGTAACAATATTCGACACACAAAGTG-CAGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTC-GAATCG
* * * * * *
128918159 GTAACAATATCAGTAACAATATTCGAGACATAAAGTG-CAGACTTG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTC-GAATCG
* * * *
128918204 ATAACGGCAACAGTAACAATATTCGACACACAAAGTGTCAAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCG
128918249 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCG
*
128918294 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
128918309 GTGGTAACAG
Statistics
Matches: 208, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.00
45 205 0.99
46 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCG
Found at i:128918741 original size:21 final size:21
Alignment explanation
Indices: 128918717--128918759 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
128918707 AATTAATCAT
* * *
128918717 AATTCCATTCCATTCAATTTC
1 AATTCAATTCAATTCAAATTC
128918738 AATTCAATTCAATTCAAATTC
1 AATTCAATTCAATTCAAATTC
128918759 A
1 A
128918760 CTTTTCCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTCAATTCAATTCAAATTC
Found at i:128918743 original size:5 final size:5
Alignment explanation
Indices: 128918717--128918759 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
128918707 AATTAATCAT
* *
128918717 AATTC CATTC CATTC AATTTC AATTC AATTC AATTC AAATTC A
1 AATTC AATTC AATTC AA-TTC AATTC AATTC AATTC -AATTC A
128918760 CTTTTCCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTC
Found at i:128918744 original size:11 final size:10
Alignment explanation
Indices: 128918717--128918759 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
128918707 AATTAATCAT
*
128918717 AATTCCATTC
1 AATTCAATTC
*
128918727 CATTCAATTTC
1 AATTCAA-TTC
128918738 AATTCAATTC
1 AATTCAATTC
128918748 AATTCAAATTC
1 AATTC-AATTC
128918759 A
1 A
128918760 CTTTTCCACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTCAATTC
Found at i:128918759 original size:16 final size:16
Alignment explanation
Indices: 128918702--128918751 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
128918692 ACCAATACAC
128918702 ATTTCAATT-AA-TCA
1 ATTTCAATTCAATTCA
* * *
128918716 TAATTCCATTCCATTCA
1 -ATTTCAATTCAATTCA
128918733 ATTTCAATTCAATTCA
1 ATTTCAATTCAATTCA
128918749 ATT
1 ATT
128918752 CAAATTCACT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 7 0.26
16 17 0.63
17 3 0.11
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTCAATTCAATTCA
Found at i:128919141 original size:18 final size:17
Alignment explanation
Indices: 128919120--128919159 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
128919110 ACTTTTCCAA
128919120 TCAATTT-ACATTTTAATT
1 TCAATTTCA-ATTTTAA-T
128919138 TCAATTTCAATTTTAAT
1 TCAATTTCAATTTTAAT
128919155 TCAAT
1 TCAAT
128919160 AACAATTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 14 0.67
19 1 0.05
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (17 bp):
TCAATTTCAATTTTAAT
Found at i:128919165 original size:17 final size:18
Alignment explanation
Indices: 128919129--128919166 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
128919119 ATCAATTTAC
**
128919129 ATTTTAATTTCAATTTCA
1 ATTTTAATTTCAATAACA
128919147 ATTTTAA-TTCAATAACA
1 ATTTTAATTTCAATAACA
128919164 ATT
1 ATT
128919167 CACTTCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTTTAATTTCAATAACA
Found at i:128919879 original size:38 final size:38
Alignment explanation
Indices: 128919796--128919872 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
128919786 CTCTTGTCAT
128919796 TTCTTCATAAACATAAATCAGGTAATTCATTATATCGA
1 TTCTTCATAAACATAAATCAGGTAATTCATTATATCGA
128919834 TTCTTCATAAACATAAATCAGGTAATTCATTATATCGA
1 TTCTTCATAAACATAAATCAGGTAATTCATTATATCGA
128919872 T
1 T
128919873 ATTTCATGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (38 bp):
TTCTTCATAAACATAAATCAGGTAATTCATTATATCGA
Found at i:128923913 original size:43 final size:41
Alignment explanation
Indices: 128923861--128924041 Score: 156
Period size: 42 Copynumber: 4.3 Consensus size: 41
128923851 AATACCCAAT
*
128923861 AAAAGAAAATAATAAGAGAATAGTTTTAAATATAAACCTAAAA
1 AAAATAAAATAATAAGAGAATAGTTTTAAA-A-AAACCTAAAA
* * *
128923904 AAAATAAAATAATAAGAGAATAGTTTTAAAAAGGA-GTAATA
1 AAAATAAAATAATAAGAGAATAGTTTTAAAAA-AACCTAAAA
* * ** * *
128923945 AAAGTAAAAATAATAA-AGCAA-AATGAATAAAAATACC-CAAA
1 AAAAT-AAAATAATAAGAG-AATAGT-TTTAAAAAAACCTAAAA
*
128923986 AAAAGAAAATAATAAGAGAATAGTTTTAAATATAAACCT-AAA
1 AAAATAAAATAATAAGAGAATAGTTTTAAA-A-AAACCTAAAA
128924028 AAAATAAAATAATA
1 AAAATAAAATAATA
128924042 CAAAATAAGC
Statistics
Matches: 109, Mismatches: 19, Indels: 21
0.73 0.13 0.14
Matches are distributed among these distances:
40 16 0.15
41 24 0.22
42 40 0.37
43 29 0.27
ACGTcount: A:0.65, C:0.04, G:0.09, T:0.22
Consensus pattern (41 bp):
AAAATAAAATAATAAGAGAATAGTTTTAAAAAAACCTAAAA
Found at i:128923941 original size:125 final size:124
Alignment explanation
Indices: 128923805--128924041 Score: 456
Period size: 125 Copynumber: 1.9 Consensus size: 124
128923795 TAAGCACATA
*
128923805 TAAAAAGGAGTAATAAAAGTAAAAATAATAAAGCAAAATGAATAAAAATACCCAATAAAAGAAAA
1 TAAAAAGGAGTAATAAAAGTAAAAATAATAAAGCAAAATGAATAAAAATACCCAAAAAAAGAAAA
128923870 TAATAAGAGAATAGTTTTAAATATAAACCTAAAAAAAATAAAATAATAAGAGAATAGTTT
66 TAATAAGAGAATAGTTTTAAATATAAACCT-AAAAAAATAAAATAATAAGAGAATAGTTT
128923930 TAAAAAGGAGTAATAAAAGTAAAAATAATAAAGCAAAATGAATAAAAATACCCAAAAAAAGAAAA
1 TAAAAAGGAGTAATAAAAGTAAAAATAATAAAGCAAAATGAATAAAAATACCCAAAAAAAGAAAA
128923995 TAATAAGAGAATAGTTTTAAATATAAACCTAAAAAAATAAAATAATA
66 TAATAAGAGAATAGTTTTAAATATAAACCTAAAAAAATAAAATAATA
128924042 CAAAATAAGC
Statistics
Matches: 111, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
124 17 0.15
125 94 0.85
ACGTcount: A:0.65, C:0.05, G:0.10, T:0.21
Consensus pattern (124 bp):
TAAAAAGGAGTAATAAAAGTAAAAATAATAAAGCAAAATGAATAAAAATACCCAAAAAAAGAAAA
TAATAAGAGAATAGTTTTAAATATAAACCTAAAAAAATAAAATAATAAGAGAATAGTTT
Found at i:128926970 original size:23 final size:23
Alignment explanation
Indices: 128926942--128926987 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
128926932 TAGTGGAAAG
128926942 AAAGTGTCCTTAATTAAATTGGA
1 AAAGTGTCCTTAATTAAATTGGA
128926965 AAAGTGTCCTTAATTAAATTGGA
1 AAAGTGTCCTTAATTAAATTGGA
128926988 CTATTGTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
AAAGTGTCCTTAATTAAATTGGA
Found at i:128928928 original size:24 final size:23
Alignment explanation
Indices: 128928807--128928955 Score: 68
Period size: 22 Copynumber: 6.6 Consensus size: 23
128928797 ATAGTATTTG
128928807 AAATATATACATAAA-ATA-GTAA
1 AAATATATACATAAATATATG-AA
* *
128928829 AAATATATA-ACT-AGTA-ATGTTA
1 AAATATATACA-TAAATATATG-AA
*
128928851 AAATATATACAT-AATA-AT-AT
1 AAATATATACATAAATATATGAA
* * *
128928871 ATATA-AAAAATAAATAT-TGAA
1 AAATATATACATAAATATATGAA
*
128928892 AAATGTATGTACATAACATATATGAA
1 AAA--TATATACATAA-ATATATGAA
*
128928918 AAATATATACAT-AATATAGTAGTA
1 AAATATATACATAAATATA-T-GAA
*
128928942 AAATATTTACATAA
1 AAATATATACATAA
128928956 TGTGTACATA
Statistics
Matches: 96, Mismatches: 16, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
19 4 0.04
20 9 0.09
21 6 0.06
22 34 0.35
23 5 0.05
24 26 0.27
25 5 0.05
26 7 0.07
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.32
Consensus pattern (23 bp):
AAATATATACATAAATATATGAA
Found at i:128929177 original size:15 final size:17
Alignment explanation
Indices: 128929143--128929181 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
128929133 AAACATAATG
128929143 ATATATAAAATAATACT
1 ATATATAAAATAATACT
*
128929160 ATATATAAAA-AGTA-T
1 ATATATAAAATAATACT
128929175 ATATATA
1 ATATATA
128929182 CACGTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATATATAAAATAATACT
Found at i:128929311 original size:25 final size:26
Alignment explanation
Indices: 128929254--128929311 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
128929244 TAATAATAAC
* * *
128929254 ATGTACATAATACGGTATTTAAAAAT
1 ATGTATATAATACAGTATTTAAAAAA
* *
128929280 ATATATATAATATAGTA-TTAAAAAA
1 ATGTATATAATACAGTATTTAAAAAA
128929305 ATGTATA
1 ATGTATA
128929312 CATAGTATGT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (26 bp):
ATGTATATAATACAGTATTTAAAAAA
Found at i:128929490 original size:38 final size:38
Alignment explanation
Indices: 128929448--128929532 Score: 95
Period size: 36 Copynumber: 2.3 Consensus size: 38
128929438 AAATAAAAAA
* * *
128929448 ATATATAAATAATATAGTATTAAA-GATGTATACATAAC
1 ATATATAAA-AATACAATATTAAATGATATATACATAAC
* *
128929486 --ATATAAAAATACAATATTAAATGATATATACGTAAT
1 ATATATAAAAATACAATATTAAATGATATATACATAAC
128929522 ATATATAAAAA
1 ATATATAAAAA
128929533 ATGTATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 12 0.31
36 18 0.46
38 9 0.23
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (38 bp):
ATATATAAAAATACAATATTAAATGATATATACATAAC
Found at i:128929539 original size:24 final size:25
Alignment explanation
Indices: 128929512--128929573 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
128929502 TTAAATGATA
*
128929512 TATACGTAATAT-ATATAAAAAATG
1 TATACATAATATAATATAAAAAATG
* * *
128929536 TATATATAATATAATATTAAAAATA
1 TATACATAATATAATATAAAAAATG
* *
128929561 TTTACATAGTATA
1 TATACATAATATA
128929574 TACATATTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (25 bp):
TATACATAATATAATATAAAAAATG
Found at i:128929539 original size:26 final size:26
Alignment explanation
Indices: 128929504--128929559 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
128929494 ATACAATATT
128929504 AAATGATATATACGTAATAT-ATATAAA
1 AAATGATATATA--TAATATAATATAAA
*
128929531 AAATG-TATATATAATATAATATTAA
1 AAATGATATATATAATATAATATAAA
128929556 AAAT
1 AAAT
128929560 ATTTACATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 6 0.22
25 10 0.37
26 6 0.22
27 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (26 bp):
AAATGATATATATAATATAATATAAA
Found at i:128929912 original size:20 final size:20
Alignment explanation
Indices: 128929887--128929950 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
128929877 TAAATACATA
128929887 ATAATATTAAAAGTATGTAC
1 ATAATATTAAAAGTATGTAC
* *
128929907 ATAATA-TATATA-TATATA-
1 ATAATATTA-AAAGTATGTAC
128929925 AT-ATATT-AAAGATATGTAC
1 ATAATATTAAAAG-TATGTAC
128929944 ATAATAT
1 ATAATAT
128929951 AATAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 8 0.24
19 9 0.26
20 12 0.35
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (20 bp):
ATAATATTAAAAGTATGTAC
Found at i:128929914 original size:57 final size:57
Alignment explanation
Indices: 128929834--128929960 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 57
128929824 AAAAAACAAT
128929834 TATTAATAATATTACATAA-ATATATACATAT-ATATATTAAAGATAAATACATAATAA
1 TATTAA-AATATTACATAATATATATACATATAATATATTAAAGATAAATACATAAT-A
* **
128929891 TATTAAAAGTATGTACATAATATATATATATATAATATATTAAAGATATGTACATAATA
1 TATTAAAA-TAT-TACATAATATATATACATATAATATATTAAAGATAAATACATAATA
*
128929950 TAATAAAATAT
1 TATTAAAATAT
128929961 ATGAATAATA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
56 2 0.03
57 9 0.15
58 10 0.16
59 19 0.31
60 22 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (57 bp):
TATTAAAATATTACATAATATATATACATATAATATATTAAAGATAAATACATAATA
Found at i:128929939 original size:22 final size:20
Alignment explanation
Indices: 128929837--128930037 Score: 80
Period size: 23 Copynumber: 9.6 Consensus size: 20
128929827 AAACAATTAT
128929837 TAATAATATTACAT-AAATATA
1 TAATAATA-TA-ATAAAATATA
* *
128929858 TACATATATATATTAAAGATAAA
1 TA-ATA-ATATAATAAA-ATATA
* *
128929881 TACATAATAATATTAAAAGTATG
1 TA-ATAAT-ATAATAAAA-TATA
128929904 TACATAATAT-AT---ATATA
1 TA-ATAATATAATAAAATATA
* *
128929921 T-ATAATATATTAAAGATATG
1 TAATAATATAATAAA-ATATA
128929941 TACATAATATAATAAAATATATGAA
1 TA-ATAATATAAT-AAA-ATAT--A
*
128929966 TAATAGGATATAAAAAAATATA
1 TAATA--ATATAATAAAATATA
128929988 TACATAATAT-ATAAAA-ATA
1 TA-ATAATATAATAAAATATA
*
128930007 TAAT-ATTTAA-AAAATAATA
1 TAATAATATAATAAAAT-ATA
128930026 TACATAATATAA
1 TA-ATAATATAA
128930038 GAGTATTTAA
Statistics
Matches: 141, Mismatches: 15, Indels: 48
0.69 0.07 0.24
Matches are distributed among these distances:
15 7 0.05
16 1 0.01
17 11 0.08
18 4 0.03
19 10 0.07
20 12 0.09
21 13 0.09
22 24 0.17
23 41 0.29
24 7 0.05
25 5 0.04
26 6 0.04
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
TAATAATATAATAAAATATA
Found at i:128929960 original size:47 final size:45
Alignment explanation
Indices: 128929909--128930012 Score: 115
Period size: 47 Copynumber: 2.3 Consensus size: 45
128929899 GTATGTACAT
* * *
128929909 AATATATATATATATA-ATATATTAAAGATATGTACATAATATAATAA
1 AATATATA-ATATATAGATATA-AAAAAATATATACATAATAT-ATAA
128929956 AATATATGAATA-ATAGGATATAAAAAAATATATACATAATATATAA
1 AATATAT-AATATATA-GATATAAAAAAATATATACATAATATATAA
128930002 AA-ATATAATAT
1 AATATATAATAT
128930013 TTAAAAAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
44 4 0.08
45 4 0.08
46 9 0.18
47 27 0.54
48 6 0.12
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (45 bp):
AATATATAATATATAGATATAAAAAAATATATACATAATATATAA
Found at i:128929976 original size:37 final size:37
Alignment explanation
Indices: 128929876--128930036 Score: 119
Period size: 37 Copynumber: 4.0 Consensus size: 37
128929866 TATATTAAAG
*
128929876 ATAAATACATAATAATATTAAA-AGTATGTACATAATAT
1 ATAAATATATAAT-ATATTAAAGA-TATGTACATAATAT
*
128929914 ATATATATATAATATATTAAAGATATGTACATAATAT
1 ATAAATATATAATATATTAAAGATATGTACATAATAT
* *
128929951 AATAAAATATATGAATAATAGGATATAAAAAAATATATACATAATAT
1 -AT-AAATATAT-AAT-AT---AT-T--AAAGATATGTACATAATAT
* * *
128929998 ATAAAAATATAATAT-TTAAAAAATAATATACATAATAT
1 ATAAATATATAATATATT-AAAGAT-ATGTACATAATAT
128930036 A
1 A
128930037 AGAGTATTTA
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
37 29 0.28
38 29 0.28
39 8 0.08
40 3 0.03
41 2 0.02
43 2 0.02
44 5 0.05
45 8 0.08
46 2 0.02
47 17 0.16
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (37 bp):
ATAAATATATAATATATTAAAGATATGTACATAATAT
Found at i:128929983 original size:26 final size:26
Alignment explanation
Indices: 128929947--128929996 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
128929937 TATGTACATA
*
128929947 ATATAATAAAATATATGA-ATAATAGG
1 ATATAAAAAAATATAT-ACATAATAGG
128929973 ATATAAAAAAATATATACATAATA
1 ATATAAAAAAATATATACATAATA
128929997 TATAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (26 bp):
ATATAAAAAAATATATACATAATAGG
Found at i:128929989 original size:60 final size:61
Alignment explanation
Indices: 128929863--128929989 Score: 136
Period size: 60 Copynumber: 2.1 Consensus size: 61
128929853 ATATATACAT
* * * * * *
128929863 ATATATATTAAAGATAAATACATAATAATATTAAAAGTATGTACATAATATATATATATAT
1 ATATATATTAAAGATAAATACATAATAATAATAAAAATATGTACATAATAGATATAAAAAA
**
128929924 A-ATATATTAAAGATATGTACATAAT-ATAATAAAATATATG-A-ATAATAGGATATAAAAAA
1 ATATATATTAAAGATAAATACATAATAATAATAAAA-ATATGTACATAATA-GATATAAAAAA
128929983 ATATATA
1 ATATATA
128929990 CATAATATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
58 6 0.11
59 17 0.31
60 31 0.56
61 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (61 bp):
ATATATATTAAAGATAAATACATAATAATAATAAAAATATGTACATAATAGATATAAAAAA
Found at i:128930011 original size:15 final size:14
Alignment explanation
Indices: 128929991--128930068 Score: 57
Period size: 15 Copynumber: 5.4 Consensus size: 14
128929981 AAATATATAC
128929991 ATAATATATAAAAA
1 ATAATATATAAAAA
*
128930005 TATAATATTTAAAAA
1 -ATAATATATAAAAA
* * *
128930020 ATAATATACATAAT
1 ATAATATATAAAAA
* **
128930034 ATAAGAGTATTTAAA
1 ATAATA-TATAAAAA
*
128930049 ATAATAAATAAAAAA
1 ATAATATAT-AAAAA
128930064 ATAAT
1 ATAAT
128930069 GAAGAAATGA
Statistics
Matches: 48, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
14 17 0.35
15 31 0.65
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (14 bp):
ATAATATATAAAAA
Found at i:128930052 original size:84 final size:81
Alignment explanation
Indices: 128929837--128930066 Score: 196
Period size: 84 Copynumber: 2.7 Consensus size: 81
128929827 AAACAATTAT
** * * * *
128929837 TAATAATATTACATAAATATATACATATATATATTAAAGATAAATACATAAT-AATATTAAAAGT
1 TAAT-ATATTA-A-AAATATATACATA-ATATAAGAAA-ATATATAAATAATAAATA-AAAAAAT
* * *
128929901 ATGTACATAATATATATATATA
60 ATATACATAATATATAAAAATA
* * * *
128929923 TAATATATTAAAGATATGTACATAATATAATAAAATATATGAATAATAGGATATAAAAAAATATA
1 TAATATATTAAAAATATATACATAATATAAGAAAATATATAAATAATA--A-ATAAAAAAATATA
128929988 TACATAATATATAAAAATA
63 TACATAATATATAAAAATA
** *
128930007 TAATAT-TTAAAAAATAATATACATAATATAAGAGTATTTA-AAATAATAAATAAAAAAATA
1 TAATATATT-AAAAAT-ATATACATAATATAAGAAAATATATAAATAATAAATAAAAAAATA
128930067 ATGAAGAAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
81 21 0.17
82 10 0.08
83 13 0.11
84 44 0.37
85 28 0.23
86 4 0.03
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (81 bp):
TAATATATTAAAAATATATACATAATATAAGAAAATATATAAATAATAAATAAAAAAATATATAC
ATAATATATAAAAATA
Found at i:128932108 original size:20 final size:20
Alignment explanation
Indices: 128932072--128932113 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
128932062 AAGAAAAAAA
* *
128932072 AAAAGGAAGAGGAGGGAGAG
1 AAAAGAAAGAGGAGGGAAAG
128932092 AAAAGAAAGAGCG-GGGAAAG
1 AAAAGAAAGAG-GAGGGAAAG
128932112 AA
1 AA
128932114 GAGAGGGGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.55, C:0.02, G:0.43, T:0.00
Consensus pattern (20 bp):
AAAAGAAAGAGGAGGGAAAG
Found at i:128933661 original size:144 final size:148
Alignment explanation
Indices: 128933394--128934389 Score: 561
Period size: 160 Copynumber: 6.4 Consensus size: 148
128933384 TTAAAAACAA
* ** *
128933394 AAATTGAAAATACCTCAGCAGGTGAACAGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCA--ACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
** *
128933459 -TTTTTGACAACGGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCCATA
64 AGATTTGACAACGGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCCATA
128933523 TGAGTTGA-AATT-AAAAAT
129 TGAGTTGATAATTGAAAAAT
** **
128933541 GAAAATTGAAAATACCTCGTCGTGCCCCGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
* * *
128933605 AGATTT-A-ATA-GG-AATTGAAATTACCTCAGCGTGCCCCT-AGGTTCAACTCACTTCTCGCGA
64 AGATTTGACA-ACGGAAATTGAAATTACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCCA
** *
128933665 TATGAGTTGATTTTTGAAACAT
127 TATGAGTTGATAATTGAAAAAT
* * ** *
128933687 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGCTGATTTTAT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTA-
* * * * * *
128933752 TGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACT
65 --G-----AT---TTGACAA-CGGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACC
** * ** *
128933817 TCTCGTAATACGAGTTGATTTTTGAAACAT
119 TCTCGCCATATGAGTTGATAATTGAAAAAT
* * ** * * *
128933847 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCACAATATGAGCTGATTCTCT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-T-T-T
* * * * * *
128933912 TGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACT
63 T-------A-GATTTGACAA-CGGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACC
* ** *
128933977 TCTCGCAATATGAGTTGATTTTTGAAACAT
119 TCTCGCCATATGAGTTGATAATTGAAAAAT
* * ** **
128934007 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TT-T
* * * * * * *
128934072 TGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACT
63 T-------A-GATTTGACAA-CGGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACC
*** * ** *
128934137 TCTCATAATACGAGTTGATTTTTGAAACAT
119 TCTCGCCATATGAGTTGATAATTGAAAAAT
* * * ** ** *
128934167 AAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TT-T
* * * * * * *
128934232 TGGAAAACATGAATTAAAAAGCAGAAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACT
63 T-------A-GATTTGACAA-CGGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACC
* * ** *
128934297 TCTCGCAATACGAGTTGATTTTTGAAACAT
119 TCTCGCCATATGAGTTGATAATTGAAAAAT
* * ** ** *
128934327 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
128934390 CTTGGAAAAC
Statistics
Matches: 761, Mismatches: 52, Indels: 60
0.87 0.06 0.07
Matches are distributed among these distances:
144 72 0.09
145 40 0.05
146 39 0.05
147 9 0.01
148 1 0.00
149 16 0.02
153 2 0.00
156 2 0.00
157 4 0.01
158 3 0.00
159 5 0.01
160 559 0.73
161 3 0.00
162 1 0.00
163 3 0.00
168 1 0.00
170 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (148 bp):
AAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTAG
ATTTGACAACGGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCCATATG
AGTTGATAATTGAAAAAT
Found at i:128933731 original size:71 final size:72
Alignment explanation
Indices: 128933543--128933749 Score: 226
Period size: 71 Copynumber: 2.9 Consensus size: 72
128933533 TTAAAAATGA
* * * *
128933543 AAATTGAAAATACCTC-GTCGTGCCCCGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTA
1 AAATTGAAATTACCTCAG-CGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
*
128933606 GATTTA-AT
65 GA-TAACAT
* *
128933614 AGGAATTGAAATTACCTCAGCGTGCCCCT-AGGTTCAACTCACTTCTCGCGATATGAGTTGATTT
1 A--AATTGAAATTACCTCAGCGTG-CCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTT
128933678 TTGA-AACAT
63 TTGATAACAT
* * * * *
128933687 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGCTGATTTT
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT
128933750 ATTGGAAAAC
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
70 2 0.02
71 53 0.46
72 1 0.01
73 22 0.19
74 37 0.32
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (72 bp):
AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
ATAACAT
Found at i:128933813 original size:160 final size:160
Alignment explanation
Indices: 128933617--128934480 Score: 1541
Period size: 160 Copynumber: 5.4 Consensus size: 160
128933607 ATTTAATAGG
* * * * *
128933617 AATTGAAATTACCTCAGCGTGCCCCT-AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGT-ACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTG
**
128933681 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGCTGA
65 AAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
*
128933746 TTTTATTGGAAAACATGAATTAAAAAGCAGA
130 TTTTCTTGGAAAACATGAATTAAAAAGCAGA
*
128933777 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGTAATACGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGA
* *
128933842 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCACAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
*
128933907 TCTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
* *
128933937 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGA
*
128934002 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
128934067 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
**
128934097 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCATAATACGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGA
*
128934162 AACATAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
128934227 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
128934257 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGA
128934322 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
128934387 TTTCTTGGAAAACATGAATTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGCAGA
*
128934417 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTG
128934481 GAAAAAACAA
Statistics
Matches: 676, Mismatches: 27, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
159 4 0.01
160 672 0.99
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGCAGA
Found at i:128933907 original size:71 final size:71
Alignment explanation
Indices: 128933776--128933907 Score: 183
Period size: 71 Copynumber: 1.9 Consensus size: 71
128933766 TAAAAAGCAG
* ** *
128933776 AAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGTAATACGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACTTCTCACAATACGAGCTGATTTTTG
128933841 AAACAT
66 AAACAT
* ** * *
128933847 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACTTCTCACAATATGAGCTGATT
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACTTCTCACAATACGAGCTGATT
128933908 CTCTTGGAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 52 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACTTCTCACAATACGAGCTGATTTTTG
AAACAT
Found at i:128934052 original size:71 final size:71
Alignment explanation
Indices: 128933936--128934069 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 71
128933926 TAAAAAGCAG
* *
128933936 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
128934001 AAACAT
66 AAACAT
* * *
128934007 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
128934070 CTTGGAAAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:128934372 original size:71 final size:71
Alignment explanation
Indices: 128934256--128934389 Score: 196
Period size: 71 Copynumber: 1.9 Consensus size: 71
128934246 TAAAAAGCAG
* * *
128934256 AAATTGAAAATACCTCAGCGTACCCTGAGGCTCAACTCACTTCTCGCAATACGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTTTG
128934321 AAACAT
66 AAACAT
* ** * *
128934327 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTT
128934390 CTTGGAAAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTACCCTGAGGCTCAACTCACCTCTCGCAATACGAGCTGATTTTTG
AAACAT
Found at i:128941913 original size:6 final size:6
Alignment explanation
Indices: 128941902--128941961 Score: 86
Period size: 6 Copynumber: 9.7 Consensus size: 6
128941892 CCAATCTTTC
128941902 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTATTA TTTTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA --TTTTTA TTTTTA
128941953 -TTTTA TTTT
1 TTTTTA TTTT
128941962 AGTTAAATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.10
6 36 0.72
7 3 0.06
8 3 0.06
9 3 0.06
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:128943030 original size:118 final size:118
Alignment explanation
Indices: 128942822--128943052 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
128942812 TGTTTTCCAT
* *
128942822 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
128942887 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
**
128942940 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
****
128943005 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTA
128943053 ACCGGAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCCGCTAGCCGA
Found at i:128943184 original size:1 final size:1
Alignment explanation
Indices: 128943178--128943230 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
128943168 AATAAAATTT
* * * * *
128943178 AAAAAAAAAAAAAAAAAAAAGAAAAAAAGAAAAAAAAAGAAGAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
128943231 TAAGTACTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (1 bp):
A
Found at i:128943202 original size:17 final size:17
Alignment explanation
Indices: 128943178--128943230 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
128943168 AATAAAATTT
128943178 AAAAAAAAAAAA-AAAA
1 AAAAAAAAAAAAGAAAA
*
128943194 AAAAGAAAAAAAGAAAA
1 AAAAAAAAAAAAGAAAA
* *
128943211 AAAAAGAAGAAAGAAAA
1 AAAAAAAAAAAAGAAAA
128943228 AAA
1 AAA
128943231 TAAGTACTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAGAAAA
Found at i:128943202 original size:18 final size:18
Alignment explanation
Indices: 128943181--128943230 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
128943171 AAAATTTAAA
128943181 AAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAG
*
128943199 AAAAAAAGAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAG
128943217 AAGAAAGAAAAAAA
1 AA-AAA-AAAAAAA
128943231 TAAGTACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 19 0.68
19 3 0.11
20 6 0.21
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAAAG
Found at i:128943220 original size:21 final size:21
Alignment explanation
Indices: 128943178--128943230 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
128943168 AATAAAATTT
128943178 AAAAAAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAAAAAG
* *
128943199 AAAAAAAGAAAAAAAAAGAAG
1 AAAAAAAAAAAAAAAAAAAAG
*
128943220 AAAGAAAAAAA
1 AAAAAAAAAAA
128943231 TAAGTACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAAAAG
Found at i:128943223 original size:25 final size:22
Alignment explanation
Indices: 128943178--128943230 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 22
128943168 AATAAAATTT
128943178 AAAAAAAAAAAAAAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAGA
128943200 AAAAAAGAAAAAAAAAGAAGAAAGA
1 AAAAAA-AAAAAAAAA-AA-AAAGA
128943225 AAAAAA
1 AAAAAA
128943231 TAAGTACTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 6 0.21
23 9 0.32
24 2 0.07
25 11 0.39
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAAAAAAGA
Found at i:128955120 original size:29 final size:29
Alignment explanation
Indices: 128955026--128955098 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
128955016 GTGACGAGAT
128955026 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
128955055 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
128955084 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
128955099 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:128963048 original size:29 final size:29
Alignment explanation
Indices: 128962954--128963026 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
128962944 GTGACGAGAT
128962954 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
128962983 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
128963012 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
128963027 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:128963122 original size:2 final size:2
Alignment explanation
Indices: 128963117--128963147 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
128963107 GTGTGCGTAC
128963117 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128963148 TCCATCGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:128966348 original size:8 final size:8
Alignment explanation
Indices: 128966335--128966361 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
128966325 TTTTTTGACA
128966335 TTTCGGCT
1 TTTCGGCT
128966343 TTTCGGCT
1 TTTCGGCT
128966351 TTTCGGCT
1 TTTCGGCT
128966359 TTT
1 TTT
128966362 GCCGATCTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:128969373 original size:2 final size:2
Alignment explanation
Indices: 128969366--128969393 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
128969356 ATGTGTCTTA
128969366 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128969394 CGAATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128971668 original size:27 final size:26
Alignment explanation
Indices: 128971620--128971679 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
128971610 GCGAAGCTGC
*
128971620 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
128971647 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
128971673 TAGATAT
1 CAGATAT
128971680 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:128976106 original size:46 final size:43
Alignment explanation
Indices: 128976052--128976228 Score: 165
Period size: 46 Copynumber: 3.9 Consensus size: 43
128976042 ATATTTGGGC
*
128976052 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GA
*** * *
128976096 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGA
*
128976145 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-G-A
* * * *
128976190 CACCCGAGCTCATTGAGTTGAGTCCAAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
128976229 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (43 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGA
Found at i:128976208 original size:93 final size:93
Alignment explanation
Indices: 128976049--128976220 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
128976039 AGGATATTTG
* *** *
128976049 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
*
128976114 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * *
128976142 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
128976207 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
128976221 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCATTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:128981851 original size:2 final size:2
Alignment explanation
Indices: 128981844--128981873 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
128981834 ACTAGAACAG
128981844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128981874 GTGGCGAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128985730 original size:29 final size:29
Alignment explanation
Indices: 128985697--128985857 Score: 250
Period size: 29 Copynumber: 5.6 Consensus size: 29
128985687 GTGACGAGAT
128985697 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
128985726 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
128985755 TGGCACTAAGTGTGCGTGCTGGAAACATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
128985784 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
128985813 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
128985842 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
128985858 AGTTCGGAGG
Statistics
Matches: 121, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 121 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:128988200 original size:29 final size:29
Alignment explanation
Indices: 128988139--128988266 Score: 208
Period size: 29 Copynumber: 4.5 Consensus size: 29
128988129 GCTGATTTTG
**
128988139 GCACTAAGCATGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
128988167 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
128988196 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
128988225 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
128988253 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
128988267 GACTTACTGT
Statistics
Matches: 96, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
28 32 0.33
29 63 0.66
30 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Done.