Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 301 of 410
Found at i:93142116 original size:16 final size:16
Alignment explanation
Indices: 93142095--93142137 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
93142085 GTAGCCAAAC
*
93142095 TTTCAGCTTTTCGGTA
1 TTTCAGCTTTTCGGCA
93142111 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
93142127 TTTCAGCTTTT
1 TTTCAGCTTTT
93142138 TGGGGTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:93144442 original size:93 final size:93
Alignment explanation
Indices: 93144328--93144498 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
93144318 GCCCCTAAGT
93144328 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
93144392 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* * *
93144421 GAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
93144486 CGAGTTCGGATGC
66 CGAGTTCGGATGC
93144499 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:93144494 original size:46 final size:46
Alignment explanation
Indices: 93144323--93144495 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
93144313 AACTCGCCCC
*
93144323 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CGTTCGCATCCA
* * * * *
93144369 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA
* * *
93144415 TTTCA-CGAACTTGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
*
93144462 TAAGTGAACTCGGACTCAACTCCACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
93144496 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.02
46 63 0.61
47 36 0.35
48 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:93144952 original size:30 final size:30
Alignment explanation
Indices: 93144918--93144977 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
93144908 ATTTAATACG
93144918 AACTTTGGAAAAATTACACTTTCGCCCCTA
1 AACTTTGGAAAAATTACACTTTCGCCCCTA
* * * *
93144948 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTCGCCCCTA
93144978 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTCGCCCCTA
Found at i:93151692 original size:16 final size:16
Alignment explanation
Indices: 93151671--93151703 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
93151661 CCTCGACAAG
93151671 TAACAAGCATTCATCA
1 TAACAAGCATTCATCA
93151687 TAACAAGCATTCATCA
1 TAACAAGCATTCATCA
93151703 T
1 T
93151704 TCACCATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (16 bp):
TAACAAGCATTCATCA
Found at i:93152482 original size:29 final size:29
Alignment explanation
Indices: 93152397--93152502 Score: 119
Period size: 28 Copynumber: 3.8 Consensus size: 29
93152387 CTGTATATCA
* *
93152397 CCCATTAGGCCC-AATCTCTTTCATATGG
1 CCCATTAGGCCCAAATCACATTCATATGG
* **
93152425 CCCATTAGGCCC-AATCACATTTAGGTGG
1 CCCATTAGGCCCAAATCACATTCATATGG
* *
93152453 CCCACTAGGCCCAAATCATATTCATATGG
1 CCCATTAGGCCCAAATCACATTCATATGG
*
93152482 -CCATTAGGCCCAAATTACATT
1 CCCATTAGGCCCAAATCACATT
93152503 TACAGTCATG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 52 0.81
29 12 0.19
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATTCATATGG
Found at i:93152598 original size:18 final size:19
Alignment explanation
Indices: 93152575--93152611 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
93152565 TGGGCCCAAC
*
93152575 AGCCCA-TCGGGCCCGTTT
1 AGCCCATTCCGGCCCGTTT
93152593 AGCCCATTCCGGCCCGTTT
1 AGCCCATTCCGGCCCGTTT
93152612 GGCCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.11, C:0.41, G:0.24, T:0.24
Consensus pattern (19 bp):
AGCCCATTCCGGCCCGTTT
Found at i:93152620 original size:19 final size:19
Alignment explanation
Indices: 93152584--93152620 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93152574 CAGCCCATCG
*
93152584 GGCCCGTTTAGCCCATTCC
1 GGCCCGTTTAGCCAATTCC
*
93152603 GGCCCGTTTGGCCAATTC
1 GGCCCGTTTAGCCAATTC
93152621 ACAATCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.38, G:0.24, T:0.27
Consensus pattern (19 bp):
GGCCCGTTTAGCCAATTCC
Found at i:93154006 original size:16 final size:16
Alignment explanation
Indices: 93153980--93154017 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
93153970 AAGAGAAAAA
93153980 TTTGAGATTTCGGGATT
1 TTTG-GATTTCGGGATT
93153997 TTTGGATTTCGGGATT
1 TTTGGATTTCGGGATT
93154013 TTTGG
1 TTTGG
93154018 GGCGTTACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.13, C:0.05, G:0.32, T:0.50
Consensus pattern (16 bp):
TTTGGATTTCGGGATT
Found at i:93158063 original size:2 final size:2
Alignment explanation
Indices: 93158056--93158100 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
93158046 AAGAGTACAA
*
93158056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93158098 AT A
1 AT A
93158101 ATTATTAGCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:93160814 original size:12 final size:12
Alignment explanation
Indices: 93160794--93160839 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
93160784 GTATTTTAGG
93160794 ATAGATAACAGC
1 ATAGATAACAGC
*
93160806 ATAGCTAACATG-
1 ATAGATAACA-GC
93160818 ATAGATAACAGC
1 ATAGATAACAGC
*
93160830 ATAGCTAACA
1 ATAGATAACA
93160840 TGATACTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.20
Consensus pattern (12 bp):
ATAGATAACAGC
Found at i:93160820 original size:24 final size:24
Alignment explanation
Indices: 93160793--93160844 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
93160783 GGTATTTTAG
93160793 GATAGATAACAGCATAGCTAACAT
1 GATAGATAACAGCATAGCTAACAT
93160817 GATAGATAACAGCATAGCTAACAT
1 GATAGATAACAGCATAGCTAACAT
93160841 GATA
1 GATA
93160845 CTCATAGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (24 bp):
GATAGATAACAGCATAGCTAACAT
Found at i:93166398 original size:40 final size:40
Alignment explanation
Indices: 93166286--93166494 Score: 312
Period size: 40 Copynumber: 5.2 Consensus size: 40
93166276 CGGGATTTAA
* * * * *
93166286 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
93166326 CCGGATTTGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
93166365 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
93166405 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
93166445 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
93166485 CCGGATATAT
1 CCGGATATAT
93166495 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 31 0.20
40 122 0.80
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:93177295 original size:46 final size:46
Alignment explanation
Indices: 93177245--93177417 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
93177235 TGGTTGAGCA
93177245 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
93177291 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
93177336 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
93177384 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93177418 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93177401 original size:93 final size:93
Alignment explanation
Indices: 93177242--93177412 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
93177232 GGATGGTTGA
* *
93177242 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93177307 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
93177335 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93177400 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
93177413 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93184750 original size:46 final size:46
Alignment explanation
Indices: 93184700--93184872 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
93184690 TGGTTGAGCA
93184700 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
93184746 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
93184791 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
93184839 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93184873 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93184856 original size:93 final size:93
Alignment explanation
Indices: 93184697--93184867 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
93184687 GGATGGTTGA
* *
93184697 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
93184762 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
93184790 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
*
93184855 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
93184868 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93197430 original size:93 final size:93
Alignment explanation
Indices: 93197271--93197452 Score: 238
Period size: 93 Copynumber: 2.0 Consensus size: 93
93197261 AAAGGCAACG
* * * * * *
93197271 TTTGTTCGTTGATTGCTGTAGAGGTGCTACTACTTTGATCATTGTGTTGGTGCATCCTAGGAGAC
1 TTTGTTCATTAATCGCTGCAGAGGTCCTACTACTTTGATCATTGTGTTGGTGCATCCTAAGAGAC
*
93197336 ATTCGATCAACGTTTCTCCAAGTACCAT
66 ATTCGACCAACGTTTCTCCAAGTACCAT
* * * * *
93197364 TTTGTTCATTAATCGCTGCAGAGGTCCTATTGCTTTGATCATTGTGTTGTTGTATCTTAAGAGAC
1 TTTGTTCATTAATCGCTGCAGAGGTCCTACTACTTTGATCATTGTGTTGGTGCATCCTAAGAGAC
**
93197429 ATTTTACCAACGTTTCTCCAAGTA
66 ATTCGACCAACGTTTCTCCAAGTA
93197453 TCGTAGGAGC
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (93 bp):
TTTGTTCATTAATCGCTGCAGAGGTCCTACTACTTTGATCATTGTGTTGGTGCATCCTAAGAGAC
ATTCGACCAACGTTTCTCCAAGTACCAT
Found at i:93198165 original size:88 final size:88
Alignment explanation
Indices: 93197961--93198233 Score: 258
Period size: 88 Copynumber: 3.1 Consensus size: 88
93197951 TCCGTTTCGA
* * ** * ***
93197961 GATTTATTCCCGCCTTTCAACGAA-TATTATTCCATTTTTTATTTTATTTCCAAATGGGAA--AT
1 GATTTATTCCCACCGTTCAACGAAGT-TTATTCCAAATTTGATTTTATTT-CAAA-AACAAGTAT
*
93198023 TAAAGTT-AAATAAAATTCATTTTAG
63 TAAAATTAAAATAAAATTCATTTTAG
* * * *
93198048 GATTTATTCCCACGGTTCAACGAATTTTATTCCAAATTTGGTTTTATTT-ATAAAACGAGTATTA
1 GATTTATTCCCACCGTTCAACGAAGTTTATTCCAAATTTGATTTTATTTCA-AAAACAAGTATTA
93198112 AAATTAAAATAAAA-T-ATGTTTCAG
65 AAATTAAAATAAAATTCAT-TTT-AG
**
93198136 GATTTATTCCTGCCGTTCAAC-AGAGTTTATTCCAAATTTGATTTTATTTCCAAAAACAAGTATT
1 GATTTATTCCCACCGTTCAACGA-AGTTTATTCCAAATTTGATTTTATTT-CAAAAACAAGTATT
*
93198200 AAAATTAAAAT-AAATTCTATTTTGG
64 AAAATTAAAATAAAATTC-ATTTTAG
93198225 GATTTATTC
1 GATTTATTC
93198234 TCGCTGTTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
85 2 0.01
86 4 0.03
87 53 0.34
88 56 0.36
89 33 0.21
90 4 0.03
91 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (88 bp):
GATTTATTCCCACCGTTCAACGAAGTTTATTCCAAATTTGATTTTATTTCAAAAACAAGTATTAA
AATTAAAATAAAATTCATTTTAG
Found at i:93198233 original size:89 final size:88
Alignment explanation
Indices: 93197961--93198296 Score: 290
Period size: 87 Copynumber: 3.8 Consensus size: 88
93197951 TCCGTTTCGA
* ** * ***
93197961 GATTTATTCCCGCCTTTCAACGAATATTATTCCATTTTTTATTTTATTTCCAAATGGGAA--ATT
1 GATTTATTCCCGCCGTTCAACGAAT-TTATTCCAAATTTGATTTTATTTCCAAA-AACAAGTATT
*
93198024 AAAGTT-AAATAAAATTC-ATTTTAG
64 AAAATTAAAAT-AAATTCTATTTTAG
* * * *
93198048 GATTTATTCCCACGGTTCAACGAATTTTATTCCAAATTTGGTTTTATTT--ATAAAACGAGTATT
1 GATTTATTCCCGCCGTTCAACGAA-TTTATTCCAAATTTGATTTTATTTCCA-AAAACAAGTATT
* * * *
93198111 AAAATTAAAATAAAATATGTTTCAG
64 AAAATTAAAATAAATTCTATTTTAG
* *
93198136 GATTTATTCCTGCCGTTCAACAGAGTTTATTCCAAATTTGATTTTATTTCCAAAAACAAGTATTA
1 GATTTATTCCCGCCGTTCAAC-GAATTTATTCCAAATTTGATTTTATTTCCAAAAACAAGTATTA
*
93198201 AAATTAAAATAAATTCTATTTTGG
65 AAATTAAAATAAATTCTATTTTAG
* * * * * * * * * * *
93198225 GATTTATTCTCGCTGTTTAATGGATTTATTAC-ATTTTTATTTTCTTTCCAAAAACGAGAAATTA
1 GATTTATTCCCGCCGTTCAACGAATTTATTCCAAATTTGATTTTATTTCCAAAAACAAG-TATTA
93198289 AAATTAAA
65 AAATTAAA
93198297 GACGTTTAAC
Statistics
Matches: 199, Mismatches: 40, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
85 2 0.01
86 2 0.01
87 74 0.37
88 71 0.36
89 49 0.25
90 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (88 bp):
GATTTATTCCCGCCGTTCAACGAATTTATTCCAAATTTGATTTTATTTCCAAAAACAAGTATTAA
AATTAAAATAAATTCTATTTTAG
Found at i:93201075 original size:21 final size:21
Alignment explanation
Indices: 93201051--93201130 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
93201041 GTCCTTGGTC
93201051 CACACGGGCGTGTGCCTCAAT
1 CACACGGGCGTGTGCCTCAAT
* * **
93201072 CACA-TGGCTGTATGCCTCTTTT
1 CACACGGGC-GTGTGCCTC-AAT
* * *
93201094 CACACAGGCGCGTGCCTCAGT
1 CACACGGGCGTGTGCCTCAAT
*
93201115 CACACGGCCGTGTGCC
1 CACACGGGCGTGTGCC
93201131 CCTCCTCATA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 3 0.07
21 26 0.59
22 12 0.27
23 3 0.07
ACGTcount: A:0.16, C:0.35, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTCAAT
Found at i:93215935 original size:13 final size:13
Alignment explanation
Indices: 93215917--93215941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93215907 TTAAATTAGT
93215917 TAATTAGTTTAAA
1 TAATTAGTTTAAA
93215930 TAATTAGTTTAA
1 TAATTAGTTTAA
93215942 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:93218966 original size:40 final size:40
Alignment explanation
Indices: 93218896--93219073 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
93218886 AAGCCAGGTA
* * * *
93218896 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
93218935 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
93218975 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * * *
93219015 CCTTCGGGACTTAATCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
93219055 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
93219074 TTATCATCTG
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 12 0.10
40 110 0.90
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:93224825 original size:40 final size:40
Alignment explanation
Indices: 93224770--93224979 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
93224760 AACATTGGAA
93224770 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
93224810 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
93224850 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
93224890 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
93224929 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
93224970 CTATATCCGG
1 ATATATCCGG
93224980 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:93232959 original size:40 final size:40
Alignment explanation
Indices: 93232904--93233113 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
93232894 AACATTGGAA
93232904 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
93232944 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
93232984 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
93233024 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
93233063 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
93233104 CTATATCCGG
1 ATATATCCGG
93233114 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:93238457 original size:40 final size:40
Alignment explanation
Indices: 93238401--93238603 Score: 266
Period size: 40 Copynumber: 5.1 Consensus size: 40
93238391 CAGGATTTAA
* * * *
93238401 CCGGATATAGCT-ACTCGCTCGAATGCTTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
93238441 CCGGATGTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
93238481 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
93238521 CCGAATATAGTAACTCACACAAATGCCTTCGGGACTTAGG
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
93238561 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
93238601 CCG
1 CCG
93238604 ATTATCATCC
Statistics
Matches: 144, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 142 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:93247641 original size:40 final size:39
Alignment explanation
Indices: 93247536--93247712 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 39
93247526 TGGATGATAA
*
93247536 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-T
93247576 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
*
93247615 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
* * *
93247655 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAT
* *
93247695 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
93247713 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
39 50 0.40
40 74 0.60
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAT
Found at i:93247701 original size:79 final size:79
Alignment explanation
Indices: 93247536--93247712 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 79
93247526 TGGATGATAA
* * *
93247536 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
*
93247601 GCGAGCTACTATAT
66 GCAAGCTACTATAT
*
93247615 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCATTT
*
93247679 GAGCAAG-TAGTTATAT
64 GAGCAAGCTA-CTATAT
* *
93247695 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
93247713 TACTTGGTTT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
78 2 0.02
79 60 0.69
80 25 0.29
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTTGA
GCAAGCTACTATAT
Found at i:93255637 original size:40 final size:40
Alignment explanation
Indices: 93255528--93255715 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
93255518 TATTTGGATG
* *
93255528 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* ** *
93255568 A-ATTCCAAGCTAAG-CCCGAAGGCATTTGTGCGAGCTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
93255607 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
93255647 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
93255687 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
93255716 AGCAAGTAGT
Statistics
Matches: 133, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.25
40 100 0.75
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:93264609 original size:19 final size:19
Alignment explanation
Indices: 93264581--93264617 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
93264571 ACGATTTTCC
*
93264581 CTTTTTCTTTCCACTAAAA
1 CTTTTACTTTCCACTAAAA
93264600 CTTTTACTTTCCACTAAA
1 CTTTTACTTTCCACTAAA
93264618 CCCTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (19 bp):
CTTTTACTTTCCACTAAAA
Found at i:93269025 original size:12 final size:11
Alignment explanation
Indices: 93268929--93269045 Score: 57
Period size: 10 Copynumber: 10.5 Consensus size: 11
93268919 TTTATCTTTG
*
93268929 TATATTATTTA
1 TATATTATCTA
93268940 TTATATTAT-TA
1 -TATATTATCTA
*
93268951 TACATTAT-TA
1 TATATTATCTA
*
93268961 TATATTATATTA
1 TATATTAT-CTA
* *
93268973 CATGCATTTTACTA
1 TAT--ATTAT-CTA
*
93268987 TATA-TATATA
1 TATATTATCTA
*
93268997 TATATTATTTTA
1 TATATTA-TCTA
93269009 TATATTATCTA
1 TATATTATCTA
*
93269020 TCATATTGT-T-
1 T-ATATTATCTA
93269030 TATATTAT-TA
1 TATATTATCTA
93269040 TATATT
1 TATATT
93269046 TTGTTTATGA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
9 7 0.08
10 29 0.34
11 11 0.13
12 29 0.34
14 9 0.11
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (11 bp):
TATATTATCTA
Found at i:93269025 original size:24 final size:23
Alignment explanation
Indices: 93268929--93269044 Score: 91
Period size: 24 Copynumber: 5.0 Consensus size: 23
93268919 TTTATCTTTG
93268929 TATATTA-TTTATTATATTAT-TA
1 TATATTATTTTA-TATATTATATA
*
93268951 TACATTA--TTATATATTATAT-
1 TATATTATTTTATATATTATATA
* *
93268971 TACATGCATTTTACTATATATATATA
1 TATAT-TATTTTA-TATAT-TATATA
*
93268997 TATATTATTTTATATATTATCTA
1 TATATTATTTTATATATTATATA
*
93269020 TCATATT-GTTTATATTATTATATA
1 T-ATATTATTTTATA-TATTATATA
93269044 T
1 T
93269045 TTTGTTTATG
Statistics
Matches: 78, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
20 13 0.17
21 5 0.06
22 6 0.08
23 15 0.19
24 24 0.31
25 11 0.14
26 4 0.05
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATTATTTTATATATTATATA
Found at i:93269049 original size:21 final size:22
Alignment explanation
Indices: 93268985--93269053 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 22
93268975 TGCATTTTAC
93268985 TATATATATATATATATTATT-TT
1 TATAT-TATATATATATT-TTGTT
*
93269008 ATATATTATCTATCATA--TTGTT
1 -TATATTATATAT-ATATTTTGTT
93269030 TATATTAT-TATATATTTTGTT
1 TATATTATATATATATTTTGTT
93269051 TAT
1 TAT
93269054 GAATTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 18 0.45
22 2 0.05
23 6 0.15
24 8 0.20
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (22 bp):
TATATTATATATATATTTTGTT
Found at i:93269372 original size:16 final size:16
Alignment explanation
Indices: 93269331--93269368 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
93269321 TAATATCTTT
* *
93269331 ATTTTTATTTTATTTG
1 ATTTATATTTTATATG
93269347 ATTTATATTTTATATG
1 ATTTATATTTTATATG
93269363 -TTTATA
1 ATTTATA
93269369 ATTTGCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
ATTTATATTTTATATG
Found at i:93272639 original size:36 final size:35
Alignment explanation
Indices: 93272582--93272649 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 35
93272572 TAAATTATTT
* **
93272582 GAATAAATTTAATTAAGGTTTTATTAAAATATAGA
1 GAATAAATTTAAATAAGGTTTTAAAAAAATATAGA
* *
93272617 GAATATATTATAAATAATGTTTTAAAAAAATAT
1 GAATAAATT-TAAATAAGGTTTTAAAAAAATAT
93272650 CTATCTTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 8 0.30
36 19 0.70
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (35 bp):
GAATAAATTTAAATAAGGTTTTAAAAAAATATAGA
Found at i:93279693 original size:27 final size:27
Alignment explanation
Indices: 93279663--93279716 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
93279653 GTGACCAAAA
93279663 TACCCCTAAAGGGTAAAATGACT-ATTT
1 TACCCCTAAAGGGT-AAATGACTGATTT
**
93279690 TACCCCTCGAGGGTAAATGACTGATTT
1 TACCCCTAAAGGGTAAATGACTGATTT
93279717 GTTGTAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (27 bp):
TACCCCTAAAGGGTAAATGACTGATTT
Found at i:93280592 original size:56 final size:56
Alignment explanation
Indices: 93280506--93280649 Score: 252
Period size: 56 Copynumber: 2.6 Consensus size: 56
93280496 AGTAAGACCA
* * *
93280506 TGGCATCGATTTCTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
*
93280562 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTATTACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
93280618 TGGCATCGATATGTGACTCTGATATATGTGTG
1 TGGCATCGATATGTGACTCTGATATATGTGTG
93280650 TAGAACCCAT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 84 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
Found at i:93280706 original size:17 final size:17
Alignment explanation
Indices: 93280684--93280718 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
93280674 TACAAAAATT
*
93280684 AAAAAATGAAATTAAAC
1 AAAAAATAAAATTAAAC
93280701 AAAAAATAAAATTAAAC
1 AAAAAATAAAATTAAAC
93280718 A
1 A
93280719 GTCCATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAAATAAAATTAAAC
Found at i:93286529 original size:50 final size:51
Alignment explanation
Indices: 93286452--93286580 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
93286442 GACTATGGCA
* *
93286452 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGATAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
* *
93286503 A-AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
* *
93286553 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
93286581 CTAATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 46 0.66
51 24 0.34
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATG
Found at i:93286594 original size:31 final size:31
Alignment explanation
Indices: 93286556--93286673 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
93286546 ACAAATGACA
*
93286556 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
93286587 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
93286618 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
93286649 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
93286674 AAGTGACAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:93297535 original size:44 final size:44
Alignment explanation
Indices: 93297487--93297854 Score: 472
Period size: 44 Copynumber: 8.3 Consensus size: 44
93297477 CGTTTACAAG
* * *
93297487 GAGCAGATCGAAGATAGCAAATTTGGCATCTTTGTATTATCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
93297531 GAGCAGATCGAAGATAGCAGATTTGACATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
93297575 AAGCAGATCAAAGATAGCAGATTTGGCATCTTTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
93297619 GAGCAGATCGAAGATAGAAGATTTGGCATCTCTATATTGCCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
93297663 GAACAGATCGAAGATAGCAGATTTGGCATCTCTATATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
93297707 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAAA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
93297751 GAGCAGATCGAAGATAGTAGATTTGGCATCT-TCGTATT-TAACGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCT-GTATTGTCA-GA
* * * * * *
93297795 GGAGCAAATCCAAGA-AGTAGATTTGGCATCTCCGTATTCGACAGG
1 -GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATT-GTCAGA
*
93297840 GAGCAGATCCAAGAT
1 GAGCAGATCGAAGAT
93297855 GATTTGGCAT
Statistics
Matches: 285, Mismatches: 32, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.01
44 268 0.94
45 13 0.05
46 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:93297583 original size:88 final size:88
Alignment explanation
Indices: 93297488--93297909 Score: 477
Period size: 88 Copynumber: 4.8 Consensus size: 88
93297478 GTTTACAAGG
* *
93297488 AGCAGATCGAAGATAGCAAATTTGGCATCTTTGTATTATCAGAGAGCAGATCGAAGATAGCAGAT
1 AGCAGATCGAAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATCGAAGATAGCAGAT
*
93297553 TTGACATCTCTGTATTGTCAGAA
66 TTGGCATCTCTGTATTGTCAGAA
* *
93297576 AGCAGATCAAAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATCGAAGATAGAAGAT
1 AGCAGATCGAAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATCGAAGATAGCAGAT
* *
93297641 TTGGCATCTCTATATTGCCAGAGA
66 TTGGCATCTCTGTATTGTCAGA-A
* * *
93297665 A-CAGATCGAAGATAGCAGATTTGGCATCTCTATATTGTTAGAGAGCAGATCGAAGATAGCAGAT
1 AGCAGATCGAAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATCGAAGATAGCAGAT
93297729 TTGGCATCTCTGTATTGTCA-AA
66 TTGGCATCTCTGTATTGTCAGAA
* * * * * *
93297751 GAGCAGATCGAAGATAGTAGATTTGGCATCTTCGTATT-TAACGAGGAGCAAATCCAAGA-AGTA
1 -AGCAGATCGAAGATAGCAGATTTGGCATCTTTGTATTGTCA-GA-GAGCAGATCGAAGATAGCA
* * **
93297814 GATTTGGCATCTCCGTATTCGACAGGG
63 GATTTGGCATCTCTGTATT-GTCAGAA
* * * * * *
93297841 AGCAGATCCAAGAT----GATTTGGCATCTTCGTATTCGAC-GAGGAGTAAATCCAAGA-AGCAG
1 AGCAGATCGAAGATAGCAGATTTGGCATCTTTGTATT-GTCAGA-GAGCAGATCGAAGATAGCAG
93297900 ATTTGGCATC
64 ATTTGGCATC
93297910 CCCGTAGGGG
Statistics
Matches: 294, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
85 49 0.17
86 1 0.00
87 4 0.01
88 210 0.71
89 30 0.10
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (88 bp):
AGCAGATCGAAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATCGAAGATAGCAGAT
TTGGCATCTCTGTATTGTCAGAA
Found at i:93297872 original size:41 final size:43
Alignment explanation
Indices: 93297766--93298021 Score: 192
Period size: 44 Copynumber: 6.0 Consensus size: 43
93297756 GATCGAAGAT
**
93297766 AGTAGATTTGGCATCTTCGTATTTAACGAGGAGCAAATCCAAG
1 AGTAGATTTGGCATCTTCGTATTCGACGAGGAGCAAATCCAAG
* *
93297809 AAGTAGATTTGGCATCTCCGTATTCGAC-AGGGAGCAGATCCAAG
1 -AGTAGATTTGGCATCTTCGTATTCGACGA-GGAGCAAATCCAAG
*
93297853 A-T-GATTTGGCATCTTCGTATTCGACGAGGAGTAAATCCAAG
1 AGTAGATTTGGCATCTTCGTATTCGACGAGGAGCAAATCCAAG
* ** * *
93297894 AAGCAGATTTGGCATCCCCGTA---G--G-GGGGCAGATCCAAG
1 -AGTAGATTTGGCATCTTCGTATTCGACGAGGAGCAAATCCAAG
* * * * *
93297932 ATGATAGATTTGGCATCTCCATATTCGATGGGGAGCAAAACCAAG
1 A-G-TAGATTTGGCATCTTCGTATTCGACGAGGAGCAAATCCAAG
* * * *
93297977 AAG-ATGATTTGGCTTC-TCTGTATTTGACGAAGAGCAAATCGAAG
1 -AGTA-GATTTGGCATCTTC-GTATTCGACGAGGAGCAAATCCAAG
93298021 A
1 A
93298022 CATAACAGAT
Statistics
Matches: 168, Mismatches: 28, Indels: 33
0.73 0.12 0.14
Matches are distributed among these distances:
37 1 0.01
38 12 0.07
39 17 0.10
41 35 0.21
42 4 0.02
43 5 0.03
44 81 0.48
45 12 0.07
46 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (43 bp):
AGTAGATTTGGCATCTTCGTATTCGACGAGGAGCAAATCCAAG
Found at i:93297873 original size:85 final size:87
Alignment explanation
Indices: 93297482--93298021 Score: 315
Period size: 88 Copynumber: 6.2 Consensus size: 87
93297472 CCTTGCGTTT
* * * * * * * *
93297482 ACAAGGAGCAGATCGAAGATAGCAAATTTGGCATCTTTGTATT-ATC-AGAGAGCAGATCGAAGA
1 ACAAAGAGCAGATCCAAGA-AGTAGATTTGGCATCTTCGTATTCAACGAG-GAGCAAATCCAAGA
* *
93297545 TAGCAGATTTGACATCTCTGTATTG
64 -AGCAGATTTGGCATCTCCGTATTG
* * * * * *
93297570 TCAGAA-AGCAGATCAAAGATAGCAGATTTGGCATCTTTGTATTGTC-A-GA-GAGCAGATCGAA
1 ACA-AAGAGCAGATCCAAGA-AGTAGATTTGGCATCTTCGTA-T-TCAACGAGGAGCAAATCCAA
* **
93297631 GATAGAAGATTTGGCATCTCTATATTG
62 GA-AGCAGATTTGGCATCTCCGTATTG
* * * * * * ** * *
93297658 CCAGAGAACAGATCGAAGATAGCAGATTTGGCATC-TCTATATTGTTA-GA-GAGCAGATCGAAG
1 ACAAAGAGCAGATCCAAGA-AGTAGATTTGGCATCTTC-GTATT-CAACGAGGAGCAAATCCAAG
*
93297720 ATAGCAGATTTGGCATCTCTGTATTG
63 A-AGCAGATTTGGCATCTCCGTATTG
* * *
93297746 TCAAAGAGCAGATCGAAGATAGTAGATTTGGCATCTTCGTATTTAACGAGGAGCAAATCCAAGAA
1 ACAAAGAGCAGATCCAAGA-AGTAGATTTGGCATCTTCGTATTCAACGAGGAGCAAATCCAAGAA
*
93297811 GTAGATTTGGCATCTCCGTATTCG
65 GCAGATTTGGCATCTCCGTATT-G
** * *
93297835 ACAGGGAGCAGATCCAAG-A-T-GATTTGGCATCTTCGTATTCGACGAGGAGTAAATCCAAGAAG
1 ACAAAGAGCAGATCCAAGAAGTAGATTTGGCATCTTCGTATTCAACGAGGAGCAAATCCAAGAAG
*
93297897 CAGATTTGGCATCCCCGTA--G
66 CAGATTTGGCATCTCCGTATTG
** * * * * * * * *
93297917 ---GGGGGCAGATCCAAGATGATAGATTTGGCATCTCCATATTCGATGGGGAGCAAAACCAAGAA
1 ACAAAGAGCAGATCCAAGAAG-TAGATTTGGCATCTTCGTATTCAACGAGGAGCAAATCCAAGAA
* *
93297979 G-ATGATTTGGCTTCTCTGTATTTG
65 GCA-GATTTGGCATCTCCGTA-TTG
* * *
93298003 ACGAAGAGCAAATCGAAGA
1 ACAAAGAGCAGATCCAAGA
93298022 CATAACAGAT
Statistics
Matches: 376, Mismatches: 52, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
79 14 0.04
82 3 0.01
83 50 0.13
85 56 0.15
86 3 0.01
87 6 0.02
88 200 0.53
89 42 0.11
90 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (87 bp):
ACAAAGAGCAGATCCAAGAAGTAGATTTGGCATCTTCGTATTCAACGAGGAGCAAATCCAAGAAG
CAGATTTGGCATCTCCGTATTG
Found at i:93298171 original size:80 final size:79
Alignment explanation
Indices: 93297977--93298180 Score: 212
Period size: 80 Copynumber: 2.6 Consensus size: 79
93297967 CAAAACCAAG
* * *
93297977 AAGATGATTT-GGCTTCTCTGTATTTGACGAAGAGCAAATCGAAGACATAACAGATCTAACCTTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGAAGAGCAAATCGAAGACATAACAGATCTAACCTTC
* *
93298041 GTCGAGGCAGATCC
66 ATCAAGGCAGATCC
* * * * * ** *
93298055 AAGATGATTTGGACATCTCTGTAATGGACGCAGAGCAAATCAAAGACATTAGTAGATCTGACCTT
1 AAGATGATTTGGGCATCTCTGTATTCGACGAAGAGCAAATCGAAGACA-TAACAGATCTAACCTT
* *
93298120 CATCAAGGCTGATTC
65 CATCAAGGCAGATCC
* * ** *
93298135 AAGATGATTTGGGCGTCTCTGTATTCAACGGGGAGCAGATCGAAGA
1 AAGATGATTTGGGCATCTCTGTATTCGACGAAGAGCAAATCGAAGA
93298181 ACTCAAGACT
Statistics
Matches: 101, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 10 0.10
79 31 0.31
80 60 0.59
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (79 bp):
AAGATGATTTGGGCATCTCTGTATTCGACGAAGAGCAAATCGAAGACATAACAGATCTAACCTTC
ATCAAGGCAGATCC
Found at i:93298327 original size:17 final size:17
Alignment explanation
Indices: 93298305--93298337 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93298295 ACAAAAATTT
*
93298305 AAAAATGAAATTAAACG
1 AAAAATAAAATTAAACG
93298322 AAAAATAAAATTAAAC
1 AAAAATAAAATTAAAC
93298338 AGTCTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATTAAACG
Found at i:93299635 original size:21 final size:20
Alignment explanation
Indices: 93299609--93299657 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
93299599 ATTTTAATCC
*
93299609 TTTTTTATATATTTCTAAATT
1 TTTTTTATATATTT-TAAATA
*
93299630 TTTTTTATTTATTTTAAATA
1 TTTTTTATATATTTTAAATA
*
93299650 TTATTTAT
1 TTTTTTAT
93299658 TTTACTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTTATATATTTTAAATA
Found at i:93299656 original size:20 final size:21
Alignment explanation
Indices: 93299612--93299659 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
93299602 TTAATCCTTT
* * *
93299612 TTTATATATTTCTAAATTTTT
1 TTTATTTATTTCTAAATATTA
93299633 TTTATTTATTT-TAAATATTA
1 TTTATTTATTTCTAAATATTA
93299653 TTTATTT
1 TTTATTT
93299660 TACTATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTATTTATTTCTAAATATTA
Found at i:93299809 original size:32 final size:30
Alignment explanation
Indices: 93299743--93299819 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 30
93299733 ATGTTGTCTA
*
93299743 TTAT-ATATATTATCTATTATGTATTTATATT
1 TTATCATATATTATTTATTATGT-TTT-TATT
93299774 TTATCATATATTATTTATTATGTTGTTTATCT
1 TTATCATATATTATTTATTATGTT-TTTAT-T
*
93299806 TTATC-TTTATTATT
1 TTATCATATATTATT
93299820 ATAATTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
31 16 0.39
32 25 0.61
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (30 bp):
TTATCATATATTATTTATTATGTTTTTATT
Found at i:93305982 original size:6 final size:6
Alignment explanation
Indices: 93305971--93306030 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
93305961 AATGGAAAAG
* * * *
93305971 AATAAA AGTAAA AATAAA TAATAAT AATAAT AATAAT AATAAA AA-AAA
1 AATAAA AATAAA AATAAA -AATAAA AATAAA AATAAA AATAAA AATAAA
*
93306019 TAATAAT AATAA
1 -AATAAA AATAA
93306031 TAAACAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
5 3 0.07
6 36 0.78
7 7 0.15
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (6 bp):
AATAAA
Found at i:93305995 original size:3 final size:3
Alignment explanation
Indices: 93305987--93306033 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
93305977 AGTAAAAATA
* *
93305987 AAT AAT AAT AAT AAT AAT AAT AAT AAA AAA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
93306034 ACAAATAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:93307015 original size:37 final size:37
Alignment explanation
Indices: 93306951--93307024 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
93306941 TTACAAGCCA
93306951 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
93306988 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
93307025 GACGTCGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
36 4 0.12
37 28 0.85
38 1 0.03
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:93310888 original size:2 final size:2
Alignment explanation
Indices: 93310883--93310908 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
93310873 ATCTAATAAA
93310883 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
93310909 TTCTACTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93327832 original size:18 final size:20
Alignment explanation
Indices: 93327797--93327835 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
93327787 GCATGTAAGT
93327797 ATGATTTTATACTGTTTTTG
1 ATGATTTTATACTGTTTTTG
93327817 ATGATTTT-TA-TGTTTTTG
1 ATGATTTTATACTGTTTTTG
93327835 A
1 A
93327836 AGGCGTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (20 bp):
ATGATTTTATACTGTTTTTG
Found at i:93328576 original size:20 final size:20
Alignment explanation
Indices: 93328548--93328613 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
93328538 TTATACTTCG
93328548 GTACCCATGATTGCACATAC
1 GTACCCATGATTGCACATAC
* * * *
93328568 GTGCCCATGCTTGTAC-TTC
1 GTACCCATGATTGCACATAC
*
93328587 AGTACCCTTGATTGCACATAC
1 -GTACCCATGATTGCACATAC
93328608 GTACCC
1 GTACCC
93328614 CTGTTTATAC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.29
Consensus pattern (20 bp):
GTACCCATGATTGCACATAC
Found at i:93328592 original size:40 final size:40
Alignment explanation
Indices: 93328463--93328627 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
93328453 TGATTGCACA
**
93328463 TATACTTTGGTACCCCTGATTGCACATACGTGCCCCTG-T
1 TATACTTCAGTACCCCTGATTGCACATACGTGCCCCTGCT
* * **
93328502 T-T-GTTCGGTACCCCTGATCCCACATACGTG-CCCTGCT
1 TATACTTCAGTACCCCTGATTGCACATACGTGCCCCTGCT
* * *
93328539 TATACTTCGGTACCCATGATTGCACATACGTGCCCATGCT
1 TATACTTCAGTACCCCTGATTGCACATACGTGCCCCTGCT
* * * *
93328579 TGTACTTCAGTACCCTTGATTGCACATACGTACCCCTGTT
1 TATACTTCAGTACCCCTGATTGCACATACGTGCCCCTGCT
93328619 TATACTTCA
1 TATACTTCA
93328628 ATAATTTCAA
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
36 5 0.05
37 26 0.25
38 2 0.02
39 25 0.24
40 48 0.45
ACGTcount: A:0.19, C:0.32, G:0.16, T:0.33
Consensus pattern (40 bp):
TATACTTCAGTACCCCTGATTGCACATACGTGCCCCTGCT
Found at i:93328675 original size:21 final size:21
Alignment explanation
Indices: 93328651--93328701 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
93328641 AGTAAAATAA
93328651 AAGTTACATTCAATTGATGAT
1 AAGTTACATTCAATTGATGAT
* *
93328672 AAGTTAAAAGATTTAATTGATGAT
1 AAGTT---ACATTCAATTGATGAT
93328696 AAGTTA
1 AAGTTA
93328702 AAAGATTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 6 0.24
24 19 0.76
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (21 bp):
AAGTTACATTCAATTGATGAT
Found at i:93328691 original size:24 final size:24
Alignment explanation
Indices: 93328662--93328710 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
93328652 AGTTACATTC
93328662 AATTGATGATAAGTTAAAAGATTT
1 AATTGATGATAAGTTAAAAGATTT
93328686 AATTGATGATAAGTTAAAAGATTT
1 AATTGATGATAAGTTAAAAGATTT
93328710 A
1 A
93328711 CTATGTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (24 bp):
AATTGATGATAAGTTAAAAGATTT
Found at i:93329547 original size:65 final size:65
Alignment explanation
Indices: 93329446--93329629 Score: 244
Period size: 65 Copynumber: 2.8 Consensus size: 65
93329436 TAGGGCATAC
** ** * *
93329446 ATACTGACTTGCATCACACGGCCGAGGACACGCCCGTCTG-CTAGGCCGTGTGAAAATTAAAGAG
1 ATACTGACTTGGGTCACACGGCCGACCACACACCCGTATGTCTA-GCCGTGTGAAAATTAAAGAG
93329510 T
65 T
* * *
93329511 ATATTGACTTGGGTCACACGACCGACCACACACCCGTGTGTCTAGCCGTGTGAAAATTAAAGAGT
1 ATACTGACTTGGGTCACACGGCCGACCACACACCCGTATGTCTAGCCGTGTGAAAATTAAAGAGT
* *
93329576 ATACTGACTTGGGTCACATGGCCGACCACAAACCCGTATGTCTAGCCTGTGTGA
1 ATACTGACTTGGGTCACACGGCCGACCACACACCCGTATGTCTAGCC-GTGTGA
93329630 CCTTCGAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
65 95 0.91
66 9 0.09
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.22
Consensus pattern (65 bp):
ATACTGACTTGGGTCACACGGCCGACCACACACCCGTATGTCTAGCCGTGTGAAAATTAAAGAGT
Found at i:93331854 original size:8 final size:8
Alignment explanation
Indices: 93331841--93331865 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
93331831 AAATTAGCCC
93331841 TCACATTT
1 TCACATTT
93331849 TCACATTT
1 TCACATTT
93331857 TCACATTT
1 TCACATTT
93331865 T
1 T
93331866 GTCAATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:93339132 original size:40 final size:40
Alignment explanation
Indices: 93339087--93339254 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
93339077 TCGGATACAA
93339087 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
93339127 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
93339167 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
93339207 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
93339247 CCGGATAT
1 CCGGATAT
93339255 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:93339227 original size:80 final size:80
Alignment explanation
Indices: 93339087--93339254 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
93339077 TCGGATACAA
* *
93339087 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
93339152 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
93339167 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
93339230 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
93339247 CCGGATAT
1 CCGGATAT
93339255 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:93347182 original size:40 final size:40
Alignment explanation
Indices: 93347137--93347304 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
93347127 TCGGATACAA
93347137 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
93347177 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
93347217 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
93347257 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
93347297 CCGGATAT
1 CCGGATAT
93347305 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:93347277 original size:80 final size:80
Alignment explanation
Indices: 93347137--93347304 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
93347127 TCGGATACAA
* *
93347137 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
93347202 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
93347217 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
93347280 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
93347297 CCGGATAT
1 CCGGATAT
93347305 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:93360054 original size:27 final size:27
Alignment explanation
Indices: 93360024--93360077 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
93360014 TCATACAACC
* *
93360024 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
93360051 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
93360078 TTACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:93363002 original size:40 final size:40
Alignment explanation
Indices: 93362946--93363113 Score: 166
Period size: 40 Copynumber: 4.2 Consensus size: 40
93362936 CAATTGAATG
* *
93362946 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
93362987 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * * *
93363026 ATATCCGGGTTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
* ** *
93363066 ATATCTGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
93363106 ATATCCGG
1 ATATCCGG
93363114 TTGTATCCGA
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
39 8 0.08
40 94 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:93363079 original size:80 final size:79
Alignment explanation
Indices: 93362946--93363113 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
93362936 CAATTGAATG
*
93362946 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
93363011 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
93363026 ATATCCGGGTTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
93363090 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
93363106 ATATCCGG
1 ATATCCGG
93363114 TTGTATCCGA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:93371114 original size:40 final size:40
Alignment explanation
Indices: 93371058--93371225 Score: 175
Period size: 40 Copynumber: 4.2 Consensus size: 40
93371048 CAATTGAATG
* *
93371058 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
93371099 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * * *
93371138 ATATCCGGGTTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
93371178 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
93371218 ATATCCGG
1 ATATCCGG
93371226 TTGTATCCGA
Statistics
Matches: 108, Mismatches: 11, Indels: 17
0.79 0.08 0.12
Matches are distributed among these distances:
39 8 0.07
40 96 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:93371191 original size:80 final size:79
Alignment explanation
Indices: 93371058--93371225 Score: 248
Period size: 80 Copynumber: 2.1 Consensus size: 79
93371048 CAATTGAATG
*
93371058 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
93371123 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
93371138 ATATCCGGGTTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
93371202 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
93371218 ATATCCGG
1 ATATCCGG
93371226 TTGTATCCGA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
79 2 0.03
80 77 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:93380359 original size:2 final size:2
Alignment explanation
Indices: 93380352--93380376 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93380342 TCATACGGAC
93380352 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
93380377 CACGTGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93380714 original size:43 final size:43
Alignment explanation
Indices: 93380653--93380735 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
93380643 ACATGAATCA
* * **
93380653 CATCCATTATGAACTCAGACTTCTCAATGAGCTCGGATGCTCG
1 CATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCTCG
93380696 CATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
1 CATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
93380736 CACACATCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCTCG
Found at i:93392838 original size:126 final size:126
Alignment explanation
Indices: 93392613--93392858 Score: 492
Period size: 126 Copynumber: 2.0 Consensus size: 126
93392603 GACTATGCCA
93392613 TTTGTTTCTCTTAAAACTAGACTCAATAAGAAATCTTTAAATATAAATAATGGCTTCTAAATATT
1 TTTGTTTCTCTTAAAACTAGACTCAATAAGAAATCTTTAAATATAAATAATGGCTTCTAAATATT
93392678 TTTTTACAGTTTTTTGTGAATTTCCAAAGTCAAAATAGCGGATTCAGAAATCGCTGCATAG
66 TTTTTACAGTTTTTTGTGAATTTCCAAAGTCAAAATAGCGGATTCAGAAATCGCTGCATAG
93392739 TTTGTTTCTCTTAAAACTAGACTCAATAAGAAATCTTTAAATATAAATAATGGCTTCTAAATATT
1 TTTGTTTCTCTTAAAACTAGACTCAATAAGAAATCTTTAAATATAAATAATGGCTTCTAAATATT
93392804 TTTTTACAGTTTTTTGTGAATTTCCAAAGTCAAAATAGCGGATTCAGAAATCGCT
66 TTTTTACAGTTTTTTGTGAATTTCCAAAGTCAAAATAGCGGATTCAGAAATCGCT
93392859 CTGGCCCTAT
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 120 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (126 bp):
TTTGTTTCTCTTAAAACTAGACTCAATAAGAAATCTTTAAATATAAATAATGGCTTCTAAATATT
TTTTTACAGTTTTTTGTGAATTTCCAAAGTCAAAATAGCGGATTCAGAAATCGCTGCATAG
Found at i:93409809 original size:29 final size:29
Alignment explanation
Indices: 93409711--93409841 Score: 113
Period size: 29 Copynumber: 4.5 Consensus size: 29
93409701 ACTCGATTTC
* * **
93409711 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
93409740 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
93409768 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
93409798 GCATACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
93409827 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
93409842 ATCTCGTCAC
Statistics
Matches: 80, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
28 2 0.03
29 77 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:93411163 original size:25 final size:23
Alignment explanation
Indices: 93411128--93411175 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
93411118 ATCCACACTC
93411128 TTTTTTTTTTCATCATTTTCCTT
1 TTTTTTTTTTCATCATTTTCCTT
* *
93411151 TTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTT--TTTCATCATTTTCCTT
93411176 CCATAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTTTTCATCATTTTCCTT
Found at i:93433685 original size:17 final size:17
Alignment explanation
Indices: 93433665--93433734 Score: 52
Period size: 17 Copynumber: 3.9 Consensus size: 17
93433655 TATATAGGAA
93433665 AATAATATATGATAAAT
1 AATAATATATGATAAAT
*
93433682 AATAATTTTAT-ATAAAT
1 AATAA-TATATGATAAAT
** *
93433699 ATATAAATAGTATTTTTAAT
1 A-AT-AATA-TATGATAAAT
93433719 AATAATATATGTATAA
1 AATAATATATG-ATAA
93433735 TTTTTTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
17 15 0.38
18 13 0.32
19 7 0.17
20 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
AATAATATATGATAAAT
Found at i:93433715 original size:25 final size:26
Alignment explanation
Indices: 93433665--93433722 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
93433655 TATATAGGAA
93433665 AATAATATATGATAAATAATAATTTT
1 AATAATATATGATAAATAATAATTTT
* *
93433691 ATATAA-ATAT-ATAAATAGTATTTTT
1 A-ATAATATATGATAAATAATAATTTT
93433716 AATAATA
1 AATAATA
93433723 ATATATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 15 0.54
26 5 0.18
27 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (26 bp):
AATAATATATGATAAATAATAATTTT
Found at i:93433720 original size:24 final size:24
Alignment explanation
Indices: 93433665--93433761 Score: 77
Period size: 26 Copynumber: 3.8 Consensus size: 24
93433655 TATATAGGAA
*
93433665 AATAATATATGATAAATAATAATTTT
1 AATAA-ATAT-ATAAATAATATTTTT
*
93433691 ATATAAATATATAAATAGTATTTTT
1 A-ATAAATATATAAATAATATTTTT
** *
93433716 AATAATAATATATGTATAATTTTTTT
1 AAT-A-AATATATAAATAATATTTTT
* * *
93433742 AAAAAATAAATAAATTATAT
1 AATAAATATATAAATAATAT
93433762 ATATAAAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
24 13 0.23
25 16 0.29
26 23 0.41
27 4 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (24 bp):
AATAAATATATAAATAATATTTTT
Found at i:93435512 original size:41 final size:41
Alignment explanation
Indices: 93435464--93435576 Score: 102
Period size: 46 Copynumber: 2.6 Consensus size: 41
93435454 ATACAGAGAT
**
93435464 GCCAAATCATCTTGGATTTGCTTCATCGTAAGCACGTGAAA
1 GCCAAATCATCTTGGATTTGCTTCATCGTAAGCACAAGAAA
* * * *
93435505 GCCAAATCAGCTATGTCTTCGATTTG-TTCCTTGTAAGCACAAGAAT
1 GCCAAAT---C-A--TCTTGGATTTGCTTCATCGTAAGCACAAGAAA
93435551 GCCAAATCATCTTGGATCTTGCTTCA
1 GCCAAATCATCTTGGAT-TTGCTTCA
93435577 GTGAAATTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
40 7 0.12
41 10 0.18
42 4 0.07
43 1 0.02
44 1 0.02
45 1 0.02
46 22 0.39
47 10 0.18
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (41 bp):
GCCAAATCATCTTGGATTTGCTTCATCGTAAGCACAAGAAA
Found at i:93435888 original size:205 final size:205
Alignment explanation
Indices: 93435434--93436017 Score: 945
Period size: 205 Copynumber: 2.8 Consensus size: 205
93435424 AAATCTGCTT
* *
93435434 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGATTTGCTTCATCGTAAGCAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
93435499 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGAATGCCAAATCATCTT
* ** *
93435564 GGATCTTGCTTCAGTGA-AATTATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCATCGAAGT
131 GGATC-TCCTTCAGT-ATAAACATCTGAAGGTGAGATCTGCTATGTATCTACTCCCCATCGAAGT
93435628 GGAGATGCCAGA
194 GGAGATGCCAGA
* * *
93435640 CTTCAATTTGTTCTCTGACAATATAGAGATGTCAAATCATCTTAGATTTTCTTCATCGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
*
93435705 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGAATGCCAAATCATCTT
* *
93435770 GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTACTCCCCGTTGAAGTGG
131 GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTACTCCCCATCGAAGTGG
*
93435835 AGATGCTAGA
196 AGATGCCAGA
*
93435845 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
1 CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
* *
93435910 GTGAAAGCCAAATAAGCTATGTCTTCGATTCACTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGAATGCCAAATCATCTT
* * * *
93435975 AGATCTTCTTCAGTATAAACATTTGAAGGTGAGCTCTGCTATG
131 GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATG
93436018 CTACGGCCTA
Statistics
Matches: 351, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
204 1 0.00
205 223 0.64
206 127 0.36
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (205 bp):
CTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTCGCTCCTTGTAAGCACAAGAATGCCAAATCATCTT
GGATCTCCTTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTACTCCCCATCGAAGTGG
AGATGCCAGA
Found at i:93444731 original size:46 final size:46
Alignment explanation
Indices: 93444661--93444831 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
93444651 GGATATTTGG
93444661 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
* * ** * * *
93444707 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTA-ACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATGGATGCGA
* *
93444753 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGA
1 -GCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
* * *
93444800 ACACCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
93444832 GCTTATGGGC
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
46 67 0.66
47 34 0.34
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGA
Found at i:93444819 original size:93 final size:93
Alignment explanation
Indices: 93444660--93444832 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
93444650 GGGATATTTG
* * **
93444660 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
93444725 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
93444753 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACACCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGA
93444817 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
93444833 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:93450907 original size:5 final size:5
Alignment explanation
Indices: 93450884--93450939 Score: 53
Period size: 5 Copynumber: 11.4 Consensus size: 5
93450874 AAAAGATAAG
* * * *
93450884 TAATA T-ATA TAATA AAATA TAATA -AATA TTATT TAATA AAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
93450932 TAAATA TA
1 T-AATA TA
93450940 TAGGAAAATA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
4 8 0.20
5 27 0.68
6 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:93450925 original size:24 final size:23
Alignment explanation
Indices: 93450872--93450941 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
93450862 TACATAACAT
*
93450872 ATAAAAGATAAGT-AATATATATA
1 ATAAAATATAA-TAAATATATATA
*
93450895 ATAAAATATAATAAATATTATTTA
1 ATAAAATATAATAAATA-TATATA
93450919 ATAAAATATAATATAA-ATATATA
1 ATAAAATATAATA-AATATATATA
93450942 GGAAAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.02
23 19 0.46
24 19 0.46
25 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (23 bp):
ATAAAATATAATAAATATATATA
Found at i:93451033 original size:27 final size:29
Alignment explanation
Indices: 93450977--93451034 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
93450967 ATTTTATATA
93450977 AATATATAAATAGTATTTTTAATAATAAT
1 AATATATAAATAGTATTTTTAATAATAAT
** *
93451006 AATATATGTATAGTTTTTTTAA-AA-AAT
1 AATATATAAATAGTATTTTTAATAATAAT
93451033 AA
1 AA
93451035 ATAAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 5 0.19
28 2 0.08
29 19 0.73
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (29 bp):
AATATATAAATAGTATTTTTAATAATAAT
Found at i:93451044 original size:27 final size:29
Alignment explanation
Indices: 93450986--93451044 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
93450976 AAATATATAA
*
93450986 ATAGTATTTTTAATAATAATAATATATGT
1 ATAGTATTTTTAATAATAATAATAAATGT
*
93451015 ATAGTTTTTTTAA-AA-AATAAATAAAT-T
1 ATAGTATTTTTAATAATAAT-AATAAATGT
93451042 ATA
1 ATA
93451045 TATATATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
28 8 0.30
29 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (29 bp):
ATAGTATTTTTAATAATAATAATAAATGT
Found at i:93453615 original size:28 final size:28
Alignment explanation
Indices: 93453543--93453634 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 28
93453533 TCTCTTGCGA
* * * *
93453543 TTCTTTCTCTCCTCTACCTTTTTTGTTT
1 TTCTTTCTCTCCTCTGCATCTTTTGTCT
* *
93453571 TTCTTTCACTTCC-CTGCATCTTTTGTGT
1 TTCTTTCTC-TCCTCTGCATCTTTTGTCT
* * *
93453599 TTCTTTCTCTCCTCTGCTTCTCTGGTCT
1 TTCTTTCTCTCCTCTGCATCTTTTGTCT
93453627 TTCTTTCT
1 TTCTTTCT
93453635 TTTCCCTCCT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 3 0.06
28 46 0.88
29 3 0.06
ACGTcount: A:0.03, C:0.30, G:0.08, T:0.59
Consensus pattern (28 bp):
TTCTTTCTCTCCTCTGCATCTTTTGTCT
Found at i:93456570 original size:43 final size:42
Alignment explanation
Indices: 93456505--93456628 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 42
93456495 AGCTCGTACA
* * * *
93456505 ATGCCATATCCCAAATATGGTCTTACATGTTATCACATATCG
1 ATGCCATGTCCCAGATATGGTCTTACATGTAATCACATAACG
* * * * *
93456547 ATGCCACTGTCCCAGATAGGGTCTTATACGAAATCATATAACG
1 ATGCCA-TGTCCCAGATATGGTCTTACATGTAATCACATAACG
* * *
93456590 ATGTCAATGTCCCAGACATGGTCTTACATGTGATCACAT
1 ATG-CCATGTCCCAGATATGGTCTTACATGTAATCACAT
93456629 CCCACTAATG
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
42 6 0.10
43 55 0.87
44 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATGTCCCAGATATGGTCTTACATGTAATCACATAACG
Found at i:93460486 original size:28 final size:27
Alignment explanation
Indices: 93460415--93460498 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
93460405 GGGATGTTAC
*
93460415 ACTTCTCTTGTTTTTCTTTCTCTTCTTT
1 ACTTCTCTTG-TTTTCTTTCTCTTCTCT
* * * *
93460443 GCTTTTTTTGTGTTTCTTTCTCTCCTCT
1 ACTTCTCTTGT-TTTCTTTCTCTTCTCT
*
93460471 ACTTCTCTTGCTTTTCTTTGTCTTCTCT
1 ACTTCTCTTG-TTTTCTTTCTCTTCTCT
93460499 CCTTTCATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.02
28 42 0.95
29 1 0.02
ACGTcount: A:0.02, C:0.26, G:0.07, T:0.64
Consensus pattern (27 bp):
ACTTCTCTTGTTTTCTTTCTCTTCTCT
Found at i:93460797 original size:15 final size:15
Alignment explanation
Indices: 93460777--93460827 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
93460767 TATTTATTTG
*
93460777 TTTCTCTTGCTTTTC
1 TTTCTCTTACTTTTC
* *
93460792 TTTCTC-TACTCTAC
1 TTTCTCTTACTTTTC
93460806 -TTCTCTTACTTTTC
1 TTTCTCTTACTTTTC
93460820 TTTCTCTT
1 TTTCTCTT
93460828 CTCTACTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 5 0.17
14 11 0.38
15 13 0.45
ACGTcount: A:0.06, C:0.29, G:0.02, T:0.63
Consensus pattern (15 bp):
TTTCTCTTACTTTTC
Found at i:93460818 original size:28 final size:28
Alignment explanation
Indices: 93460778--93460835 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
93460768 ATTTATTTGT
*
93460778 TTCTCTTGCTTTTCTTTCTCTACTCTAC
1 TTCTCTTACTTTTCTTTCTCTACTCTAC
*
93460806 TTCTCTTACTTTTCTTTCTCTTCTCTAC
1 TTCTCTTACTTTTCTTTCTCTACTCTAC
93460834 TT
1 TT
93460836 TCACATTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.07, C:0.31, G:0.02, T:0.60
Consensus pattern (28 bp):
TTCTCTTACTTTTCTTTCTCTACTCTAC
Found at i:93461858 original size:28 final size:28
Alignment explanation
Indices: 93461826--93461909 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
93461816 CTTTATCAAC
*
93461826 CTCTTGTTTTACTTTCTCTTCTCTGCTT
1 CTCTTGTTTTACTTTCTCTTCTCTACTT
* *
93461854 CTCTTGCTTTTA-TTTTTCTCCTCTACTT
1 CTCTTG-TTTTACTTTCTCTTCTCTACTT
*
93461882 CTCTTGTATTT-CTTTCTTTTCTCTACTT
1 CTCTTGT-TTTACTTTCTCTTCTCTACTT
93461910 TTACCTTTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 1 0.02
28 41 0.87
29 5 0.11
ACGTcount: A:0.06, C:0.27, G:0.05, T:0.62
Consensus pattern (28 bp):
CTCTTGTTTTACTTTCTCTTCTCTACTT
Found at i:93464398 original size:29 final size:29
Alignment explanation
Indices: 93464323--93464398 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
93464313 CATGCATATA
*
93464323 GCCCACTAGGCCCAA-TCTTATTCAAATG
1 GCCCACTAGGCCCAATTCATATTCAAATG
* **
93464351 GCCCATCT-GGCCCAGTTCATATTCTTATG
1 GCCCA-CTAGGCCCAATTCATATTCAAATG
*
93464380 GCCCACTAGGCCAAATTCA
1 GCCCACTAGGCCCAATTCA
93464399 CCTTCATGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.33
29 26 0.67
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
GCCCACTAGGCCCAATTCATATTCAAATG
Found at i:93465950 original size:16 final size:16
Alignment explanation
Indices: 93465926--93465956 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
93465916 AATTCAAGAA
93465926 TTCGAGATTTTTGGGT
1 TTCGAGATTTTTGGGT
*
93465942 TTCGGGATTTTTGGG
1 TTCGAGATTTTTGGG
93465957 GCGTTACAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.35, T:0.48
Consensus pattern (16 bp):
TTCGAGATTTTTGGGT
Found at i:93471517 original size:29 final size:30
Alignment explanation
Indices: 93471436--93471550 Score: 80
Period size: 29 Copynumber: 4.0 Consensus size: 30
93471426 TAGATACATG
* *
93471436 CATATAGCCCACTAGGCCC-AA-TCTTATT
1 CATATGGCCCACTAGGCCCAAATTCATATT
* * * *
93471464 CAAATGGCCAATCT-GGCTC-AGTTCATATT
1 CATATGGCCCA-CTAGGCCCAAATTCATATT
* **
93471493 CTTATGGCCCACTAGG-CCAAATTCACCTT
1 CATATGGCCCACTAGGCCCAAATTCATATT
* *
93471522 CATGTGGCCCATTAGGCCCAAA-TCATATT
1 CATATGGCCCACTAGGCCCAAATTCATATT
93471551 ATACTCATGC
Statistics
Matches: 64, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
28 16 0.25
29 43 0.67
30 5 0.08
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.29
Consensus pattern (30 bp):
CATATGGCCCACTAGGCCCAAATTCATATT
Found at i:93471805 original size:16 final size:16
Alignment explanation
Indices: 93471765--93471807 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
93471755 GTAGGCCAAC
93471765 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
* *
93471781 TTTTAGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
*
93471797 TTTCGGCTTTT
1 TTTCAGCTTTT
93471808 GTCGACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:93473067 original size:16 final size:17
Alignment explanation
Indices: 93473036--93473074 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
93473026 ACAAATAAAG
93473036 TTTGGGATTTCAGGATT
1 TTTGGGATTTCAGGATT
*
93473053 TTTGGG-TTTCGGGATT
1 TTTGGGATTTCAGGATT
93473069 TTTGGG
1 TTTGGG
93473075 GAGTTACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.10, C:0.05, G:0.36, T:0.49
Consensus pattern (17 bp):
TTTGGGATTTCAGGATT
Found at i:93473529 original size:42 final size:41
Alignment explanation
Indices: 93473422--93473529 Score: 101
Period size: 43 Copynumber: 2.6 Consensus size: 41
93473412 ATACCAATGT
**
93473422 CATATCCCAGATATGGTCTTACATGGGAACTCATATCGATGC
1 CATATCCCAGATATGGTCTTACA-GAAAACTCATATCGATGC
* * * * * *
93473464 CAATAGCCCAGCTACGGTCTTACA-AAAAGTTTCATATTGATTC
1 C-ATATCCCAGATATGGTCTTACAGAAAA--CTCATATCGATGC
93473507 CATATCCCAGATATGGTCTTACA
1 CATATCCCAGATATGGTCTTACA
93473530 CGTAATCTCA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.04
42 20 0.38
43 30 0.58
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACAGAAAACTCATATCGATGC
Found at i:93480997 original size:42 final size:42
Alignment explanation
Indices: 93480950--93481071 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 42
93480940 TACCATACCA
* *
93480950 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* ** * *
93480992 ATGCCAATAGCGTAGCTATGGTCTTACACGAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
*
93481035 ATGCCATATCCCAGAAATGGTCTTACACGTAA-TCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
93481072 ACTAACCCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 29 0.45
43 35 0.54
44 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:93483306 original size:28 final size:27
Alignment explanation
Indices: 93483270--93483366 Score: 122
Period size: 28 Copynumber: 3.5 Consensus size: 27
93483260 AACCTCTTGT
*
93483270 TTTTCTTTCTCTTATTTGCTTTTTTTGC
1 TTTTCTTTCTCTTATTT-CTTCTTTTGC
* * *
93483298 TTTTATTTCTCTTCTCTACTTCTTTTGC
1 TTTTCTTTCTCTTAT-TTCTTCTTTTGC
*
93483326 TTTTCTTTCTCTTATCTTCTTCTCTTGC
1 TTTTCTTTCTCTTAT-TTCTTCTTTTGC
93483354 TTTTCTTTCTCTT
1 TTTTCTTTCTCTT
93483367 CTCCGCTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 59 0.98
29 1 0.02
ACGTcount: A:0.04, C:0.24, G:0.04, T:0.68
Consensus pattern (27 bp):
TTTTCTTTCTCTTATTTCTTCTTTTGC
Found at i:93483907 original size:20 final size:20
Alignment explanation
Indices: 93483872--93483924 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 20
93483862 CCGAACCTTG
93483872 AGGTTCGGGATTTAAGGTTCA
1 AGGTTCGGG-TTTAAGGTTCA
93483893 AGGTTCGGGTTTAAGGTTCA
1 AGGTTCGGGTTTAAGGTTCA
*
93483913 AGTGTTTGGGTT
1 AG-GTTCGGGTT
93483925 ATAGGTTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.19, C:0.08, G:0.36, T:0.38
Consensus pattern (20 bp):
AGGTTCGGGTTTAAGGTTCA
Found at i:93486199 original size:43 final size:42
Alignment explanation
Indices: 93486133--93486253 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
93486123 TACTCAACCA
*
93486133 ATGCCATATCCCAGA-TATGGTCTTACATGTAATCTTGTATCG
1 ATGCCATACCCCA-ACTATGGTCTTACATGTAATCTTGTATCG
* *
93486175 ATGCCAATAGCCCAACTATGGTCTTACATG-AAGTCTCGTATCG
1 ATGCC-ATACCCCAACTATGGTCTTACATGTAA-TCTTGTATCG
* ** *
93486218 ATGTCATACCCCAGGTATGGTCTTACACGTAATCTT
1 ATGCCATACCCCAACTATGGTCTTACATGTAATCTT
93486254 AGTAATCCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATACCCCAACTATGGTCTTACATGTAATCTTGTATCG
Found at i:93489193 original size:17 final size:17
Alignment explanation
Indices: 93489166--93489201 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
93489156 GATCCCTATT
93489166 CATGAGTCTATATATACA
1 CATGAGTCTATATAT-CA
93489184 CATG-GTCTATATATCA
1 CATGAGTCTATATATCA
93489200 CA
1 CA
93489202 ATTTAAGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 10 0.56
18 4 0.22
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (17 bp):
CATGAGTCTATATATCA
Found at i:93490029 original size:11 final size:11
Alignment explanation
Indices: 93490013--93490039 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
93490003 TAACATATAC
93490013 CATATAATTCA
1 CATATAATTCA
93490024 CATATAATTCA
1 CATATAATTCA
93490035 CATAT
1 CATAT
93490040 TTCCAAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (11 bp):
CATATAATTCA
Found at i:93490393 original size:44 final size:42
Alignment explanation
Indices: 93490250--93490411 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 42
93490240 AGCTCGTACA
* * * * * *
93490250 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCAAATATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATAT-G
* *
93490293 ATGGC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATATG
*
93490335 ATGCCAACGTCCCAGACATGGTCTTATACGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCA-AA-TATG
*
93490379 ATGCCAACGTCCCAGACCTGGTCTTACACGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAA
93490412 ACACATATCG
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
42 26 0.26
43 42 0.42
44 32 0.32
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCAAATATG
Found at i:93497808 original size:15 final size:15
Alignment explanation
Indices: 93497788--93497819 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
93497778 AATTAGGGCA
93497788 CACGGCTATGTGCCC
1 CACGGCTATGTGCCC
*
93497803 CACGGCTGTGTGCCC
1 CACGGCTATGTGCCC
93497818 CA
1 CA
93497820 AAATCTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.41, G:0.28, T:0.19
Consensus pattern (15 bp):
CACGGCTATGTGCCC
Found at i:93499824 original size:28 final size:28
Alignment explanation
Indices: 93499792--93499847 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
93499782 GAGATAGGGT
* * *
93499792 GACAAGATTTCGTTGGATTAGGGTGAAA
1 GACAAGATTTCGCTAGAATAGGGTGAAA
*
93499820 GACAAGATTTTGCTAGAATAGGGTGAAA
1 GACAAGATTTCGCTAGAATAGGGTGAAA
93499848 CCTAATAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.27
Consensus pattern (28 bp):
GACAAGATTTCGCTAGAATAGGGTGAAA
Found at i:93524238 original size:2 final size:2
Alignment explanation
Indices: 93524231--93524276 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
93524221 AATGTTGATG
* *
93524231 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93524273 AT AT
1 AT AT
93524277 GTGTGTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93531781 original size:18 final size:18
Alignment explanation
Indices: 93531750--93531792 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
93531740 TTACATACAA
* *
93531750 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
93531768 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
93531786 TTT-TATA
1 TTTATATA
93531793 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Found at i:93531869 original size:12 final size:12
Alignment explanation
Indices: 93531854--93531914 Score: 68
Period size: 12 Copynumber: 4.8 Consensus size: 12
93531844 AAGTTATTTG
93531854 TATTTTATTATA
1 TATTTTATTATA
93531866 TATTTTATTTATA
1 TATTTTA-TTATA
93531879 TATTTTATTATATTA
1 TATTTTA-T-TA-TA
*
93531894 TATTTTGTTATA
1 TATTTTATTATA
*
93531906 TATATTATT
1 TATTTTATT
93531915 CCCTATATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
12 16 0.37
13 16 0.37
14 3 0.07
15 8 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:93531879 original size:13 final size:14
Alignment explanation
Indices: 93531854--93531911 Score: 77
Period size: 13 Copynumber: 4.3 Consensus size: 14
93531844 AAGTTATTTG
93531854 TATTTTA-T-TATA
1 TATTTTATTATATA
93531866 TATTTTATT-TATA
1 TATTTTATTATATA
93531879 TATTTTATTATATTA
1 TATTTTATTATA-TA
*
93531894 TATTTTGTTATATA
1 TATTTTATTATATA
93531908 TATT
1 TATT
93531912 ATTCCCTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
12 7 0.17
13 14 0.33
14 8 0.19
15 13 0.31
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TATTTTATTATATA
Found at i:93531894 original size:17 final size:17
Alignment explanation
Indices: 93531848--93531913 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
93531838 TTTATCAAGT
*
93531848 TATTTGTATTTTATTATA
1 TATTT-TATTATATTATA
93531866 TA--TT-TTAT-TTATA
1 TATTTTATTATATTATA
93531879 TATTTTATTATATTATA
1 TATTTTATTATATTATA
*
93531896 TTTTGTTATATATATTAT
1 TATT-TTAT-TATATTAT
93531914 TCCCTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 7 0.17
14 3 0.08
15 3 0.08
16 5 0.12
17 8 0.20
18 6 0.15
19 8 0.20
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTTATTATATTATA
Found at i:93531895 original size:15 final size:15
Alignment explanation
Indices: 93531864--93531967 Score: 67
Period size: 15 Copynumber: 7.1 Consensus size: 15
93531854 TATTTTATTA
93531864 TATATTTTATT-TA-
1 TATATTTTATTATAT
93531877 TATATTTTATTATAT
1 TATATTTTATTATAT
*
93531892 TATATTTTGTTATA-
1 TATATTTTATTATAT
**
93531906 TATATTATTCCCTATAT
1 TATATT-TT-ATTATAT
* * *
93531923 TAT-CTTCATTTTAT
1 TATATTTTATTATAT
* *
93531937 TATATATTATTCTAT
1 TATATTTTATTATAT
93531952 TAT-TTATTATT-TAT
1 TATATT-TTATTATAT
93531966 TA
1 TA
93531968 GTACATATAA
Statistics
Matches: 71, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
13 11 0.15
14 21 0.30
15 31 0.44
16 5 0.07
17 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (15 bp):
TATATTTTATTATAT
Found at i:93531898 original size:40 final size:41
Alignment explanation
Indices: 93531816--93531914 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 41
93531806 CATGTAAAAA
*
93531816 TTATTATATATTATT-TTTATTATTTATCAAGTTATTTGTATT
1 TTATTATATATT-TTATTTATTATTTAT-AAGTTATTTATATT
93531858 TTATTATATATTTTATTTATATATTT-T-A-TTATATTATATT
1 TTATTATATATTTTATTTAT-TATTTATAAGTTAT-TTATATT
* *
93531898 TTGTTATATATATTATT
1 TTATTATATATTTTATT
93531915 CCCTATATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
39 4 0.08
40 22 0.43
41 2 0.04
42 18 0.35
43 5 0.10
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (41 bp):
TTATTATATATTTTATTTATTATTTATAAGTTATTTATATT
Found at i:93531914 original size:17 final size:16
Alignment explanation
Indices: 93531816--93531910 Score: 65
Period size: 15 Copynumber: 5.8 Consensus size: 16
93531806 CATGTAAAAA
93531816 TTATTATATAT-TATTT
1 TTATTATATATATA-TT
*
93531832 TTATTATTTATCAAGTTATT
1 TTATTATATAT--A--TATT
*
93531852 TGTATTTTATTATATATT
1 T-TATTATA-TATATATT
93531870 TTA-T-T-TATATATT
1 TTATTATATATATATT
93531883 TTATTATAT-TATATT
1 TTATTATATATATATT
*
93531898 TTGTTATATATAT
1 TTATTATATATAT
93531911 TATTCCCTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
13 11 0.17
14 1 0.02
15 16 0.25
16 15 0.23
17 2 0.03
18 5 0.08
20 4 0.06
21 7 0.11
22 3 0.05
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (16 bp):
TTATTATATATATATT
Found at i:93531946 original size:7 final size:7
Alignment explanation
Indices: 93531932--93531967 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
93531922 TTATCTTCAT
93531932 TTTATTA
1 TTTATTA
*
93531939 TATATTA
1 TTTATTA
93531946 TTCTATTA
1 TT-TATTA
93531954 TTTATTA
1 TTTATTA
93531961 TTTATTA
1 TTTATTA
93531968 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:93532298 original size:19 final size:19
Alignment explanation
Indices: 93532253--93532299 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
93532243 TATGTTCATA
*
93532253 ATTTGTTTATTTATTTTTGT
1 ATTT-TTTATTTATTTTAGT
93532273 ATTTTTTATTTA-TTTAGT
1 ATTTTTTATTTATTTTAGT
93532291 ATTGTTTTA
1 ATT-TTTTA
93532300 GTAGGTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.32
19 13 0.52
20 4 0.16
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (19 bp):
ATTTTTTATTTATTTTAGT
Found at i:93532382 original size:36 final size:39
Alignment explanation
Indices: 93532342--93532421 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
93532332 TATTTTTATG
93532342 TTATTTAT-TGGTTTT-A-TATATTCGCATGAAA-ATTGA
1 TTATTTATGTGGTTTTAAGTATATTCGCATGAAATATT-A
* *
93532378 TTATTTATGTTGTTTTAAGTTATATTTGCATGAAATATTA
1 TTATTTATGTGGTTTTAAG-TATATTCGCATGAAATATTA
93532418 TTAT
1 TTAT
93532422 ATGTAATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
36 8 0.22
37 6 0.16
38 1 0.03
40 19 0.51
41 3 0.08
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (39 bp):
TTATTTATGTGGTTTTAAGTATATTCGCATGAAATATTA
Found at i:93535787 original size:15 final size:15
Alignment explanation
Indices: 93535767--93535797 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93535757 GAGGTCTAGA
93535767 GTTAGCTTAGTTATT
1 GTTAGCTTAGTTATT
*
93535782 GTTAGCTTTGTTATT
1 GTTAGCTTAGTTATT
93535797 G
1 G
93535798 GATAGGGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.23, T:0.55
Consensus pattern (15 bp):
GTTAGCTTAGTTATT
Found at i:93543971 original size:44 final size:44
Alignment explanation
Indices: 93543924--93544544 Score: 661
Period size: 44 Copynumber: 14.1 Consensus size: 44
93543914 TCTAGAAAGT
* * * *
93543924 AGATTTAGTGTCTCTGTATTGACAGGGAGCAGATCAAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* *
93543968 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAGA
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
** *
93544012 AGATTTGGCGTCTCTGTATTGACAAAGAGCAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
93544056 AGATTTGGCGTCTCTGTATTGACAGAGG-GCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAGC
* * **
93544100 AGATTTGGCATCTCTATATTGACAAAGAGCAGATCGAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * * *
93544144 GGATTTGGCGTTTCTGTATCGACAGGGAGCAGATCAAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * * * *
93544188 AGATTTGGCCTCTCTGTATTGATAAGAGG-GCAAATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGA-CAG-GGAGCAGATCGAAGATAGC
* * *
93544233 AGATTTGGCGTCTCTGTATTGATAGAGAGCAGATCG-AGATACC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
* * * *
93544276 AGATTTGGCATCTCTGTATCGACGGGGAGCAGATCAAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
*
93544320 AGATTTGGCGTCTCTGTATTGACAGAGG-GCAGATCAAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAG-C
* * * **
93544364 AGATTTAGCATCTCTATATTGACAGAAAGCAGATCGAAGAT-GAC
1 AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAG-C
* * *
93544408 AGATTTGGCATCTCTGTATTGACAGAGG-GAAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATAGC
* * *
93544452 GGATTTGGCATCTCTGTATTGACAGAGG-GCAGATC-AA-ATATGAT
1 AGATTTGGCGTCTCTGTATTGACAG-GGAGCAGATCGAAGATA-G-C
* * *
93544496 AGATTTGGCGTCTCTGTATTAGCCGGGGAGCAGATCGAAGATTGC
1 AGATTTGGCGTCTCTGTATT-GACAGGGAGCAGATCGAAGATAGC
93544541 AGAT
1 AGAT
93544545 CTGACATTCG
Statistics
Matches: 493, Mismatches: 65, Indels: 37
0.83 0.11 0.06
Matches are distributed among these distances:
42 3 0.01
43 43 0.09
44 386 0.78
45 54 0.11
46 5 0.01
47 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGGGAGCAGATCGAAGATAGC
Found at i:93546056 original size:18 final size:18
Alignment explanation
Indices: 93546025--93546067 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
93546015 TTACATACAA
* *
93546025 TTTATTTATTTTAAATAT
1 TTTATATATATTAAATAT
*
93546043 TTTATATATATTAATTAT
1 TTTATATATATTAAATAT
93546061 TTT-TATA
1 TTTATATA
93546068 AACATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTATATATATTAAATAT
Done.