Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 142 of 325
Found at i:45843381 original size:29 final size:29
Alignment explanation
Indices: 45843347--45843420 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
45843337 TAATCAACCA
*
45843347 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
45843376 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
45843405 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
45843421 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:45852870 original size:27 final size:26
Alignment explanation
Indices: 45852853--45852922 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
45852843 ATATTAAGTC
45852853 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
45852880 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
45852908 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
45852923 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:45852916 original size:28 final size:28
Alignment explanation
Indices: 45852853--45852950 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
45852843 ATATTAAGTC
*
45852853 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45852880 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
45852908 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
45852937 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45852951 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45853414 original size:12 final size:12
Alignment explanation
Indices: 45853397--45853423 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45853387 TGGGCATACT
45853397 TATGTATATATA
1 TATGTATATATA
45853409 TATGTATATATA
1 TATGTATATATA
45853421 TAT
1 TAT
45853424 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:45862130 original size:16 final size:16
Alignment explanation
Indices: 45862109--45862141 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45862099 GGTTATTAGA
45862109 TGAGCCCTAAGCTTGT
1 TGAGCCCTAAGCTTGT
45862125 TGAGCCCTAAGCTTGT
1 TGAGCCCTAAGCTTGT
45862141 T
1 T
45862142 AATCTTTGTT
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:0.18, C:0.24, G:0.24, T:0.33
Consensus pattern (16 bp):
TGAGCCCTAAGCTTGT
Found at i:45863226 original size:44 final size:43
Alignment explanation
Indices: 45863168--45863315 Score: 131
Period size: 43 Copynumber: 3.4 Consensus size: 43
45863158 AATGTGATAT
* * *
45863168 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTAGTGA-ATAATATTA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGAT-A-A-TA
*
45863211 TCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGATAATA
* * * * * * *
45863254 TCAGGCTTCGAGCCTAGCAAGCTCTAATACCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGATAATA
**
45863297 TCGGGCTTCAAGCCTAGCA
1 TCGGGCTTCGGGCCTAGCA
45863316 GGCGAAATGC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
43 62 0.70
44 16 0.18
45 8 0.09
46 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGATAATA
Found at i:45863269 original size:43 final size:43
Alignment explanation
Indices: 45863204--45863332 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
45863194 GCTAGTGAAT
* * *
45863204 AATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
* * * * *
45863247 GATAATATCAGGCTTCGAGCCTAGCAAGCTCTAATACCGGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
45863290 AATGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGA
1 AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
45863332 A
1 A
45863333 TGAGTTCAGA
Statistics
Matches: 70, Mismatches: 16, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 11 0.16
43 59 0.84
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (43 bp):
AATAATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:45863413 original size:40 final size:40
Alignment explanation
Indices: 45863309--45863413 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
45863299 GGGCTTCAAG
* * *
45863309 CCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* * *** **
45863350 TCTAGCGGGCTTCGTGCCGGTGATGAATTCAGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
*
45863390 CCTAGCAGGCTAAATGCCAGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
45863414 TTGATAAAAG
Statistics
Matches: 48, Mismatches: 16, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
40 32 0.67
41 16 0.33
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:45871224 original size:3 final size:3
Alignment explanation
Indices: 45871216--45871243 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
45871206 GTTAATAAAT
45871216 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
45871244 AAGATGCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:45872419 original size:19 final size:18
Alignment explanation
Indices: 45872375--45872424 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
45872365 TCTGATTAAA
45872375 TATTTT-ATAAAT--TTT
1 TATTTTAATAAATAATTT
* *
45872390 TATTTTGATAATTAATTT
1 TATTTTAATAAATAATTT
45872408 TATTATTAATAAATAAT
1 TATT-TTAATAAATAAT
45872425 AAAATATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 6 0.21
16 5 0.18
18 7 0.25
19 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (18 bp):
TATTTTAATAAATAATTT
Found at i:45875047 original size:79 final size:80
Alignment explanation
Indices: 45874948--45875168 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
45874938 CTCGTTCAAG
* * ** * *
45874948 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
45875011 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
45875027 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
45875092 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
45875107 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
45875169 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:45875099 original size:80 final size:80
Alignment explanation
Indices: 45874988--45875168 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
45874978 CTCATTCAAT
* * *
45874988 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
45875051 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
45875067 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
45875131 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
45875148 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
45875169 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:45875128 original size:40 final size:40
Alignment explanation
Indices: 45874985--45875168 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
45874975 TAACTCATTC
* *
45874985 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
45875025 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
45875065 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
45875105 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
45875146 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45875169 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:45877480 original size:39 final size:39
Alignment explanation
Indices: 45877421--45877499 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
45877411 CATTTTGCGT
45877421 TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCTGAA
1 TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCTGAA
*
45877460 TGGTCTTTTGGGGCTGCAACTATTTGGTTATGTCCTGAA
1 TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCTGAA
45877499 T
1 T
45877500 ATCCTTCTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (39 bp):
TGGTCTTTTGGGGCTACAACTATTTGGTTATGTCCTGAA
Found at i:45879915 original size:26 final size:26
Alignment explanation
Indices: 45879886--45879968 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
45879876 TGATACAAAT
45879886 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
45879912 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45879938 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45879964 TGATA
1 TGATA
45879969 GGAATTTCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45881599 original size:27 final size:27
Alignment explanation
Indices: 45881559--45881717 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
45881549 AGGAAGCGTC
*
45881559 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
45881586 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
45881612 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
45881640 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
45881667 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
45881694 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
45881718 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.09
27 102 0.87
28 4 0.03
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:45881638 original size:54 final size:54
Alignment explanation
Indices: 45881556--45881717 Score: 256
Period size: 54 Copynumber: 3.0 Consensus size: 54
45881546 TGGAGGAAGC
45881556 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
45881610 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * *
45881664 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTGACTCCGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
45881717 G
1 G
45881718 GCAGCCTCGC
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
53 13 0.13
54 89 0.87
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:45881711 original size:81 final size:80
Alignment explanation
Indices: 45881559--45881717 Score: 214
Period size: 81 Copynumber: 2.0 Consensus size: 80
45881549 AGGAAGCGTC
* *
45881559 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
45881624 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
45881640 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
* *
45881703 CCGTCACAATATCTG
64 ACGCCACAATATCTG
45881718 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.23
81 53 0.77
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAC
GCCACAATATCTGAT
Found at i:45892393 original size:40 final size:40
Alignment explanation
Indices: 45892331--45892548 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
45892321 AAGCCAAGTA
* * * *
45892331 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
45892370 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
45892410 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45892450 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
45892490 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45892530 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45892549 TTATCATCCA
Statistics
Matches: 164, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 151 0.92
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45901891 original size:29 final size:29
Alignment explanation
Indices: 45901858--45901916 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
45901848 GATCATCATG
45901858 TAAGAATTCAGTTTAAGGAGCCCATTTAA
1 TAAGAATTCAGTTTAAGGAGCCCATTTAA
45901887 TAAGAATTCAGTTTAAGGAGCCCATTTAA
1 TAAGAATTCAGTTTAAGGAGCCCATTTAA
45901916 T
1 T
45901917 TCCTTTGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (29 bp):
TAAGAATTCAGTTTAAGGAGCCCATTTAA
Found at i:45903804 original size:29 final size:29
Alignment explanation
Indices: 45903744--45903839 Score: 93
Period size: 31 Copynumber: 3.2 Consensus size: 29
45903734 AAGTTTCAAT
* * *
45903744 TATATATTTAAACCACAATTAAAGTTTTATA
1 TATATAATTATACCA-AATTAAA-ATTTATA
* *
45903775 TGTATAATTGTACCAAATTAAAATTTATA
1 TATATAATTATACCAAATTAAAATTTATA
* *
45903804 TATATAATTATACATTAAATCAAAATTTATA
1 TATATAATTATAC--CAAATTAAAATTTATA
45903835 TATAT
1 TATAT
45903840 TTTTTTAGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 17 0.31
30 7 0.13
31 30 0.56
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (29 bp):
TATATAATTATACCAAATTAAAATTTATA
Found at i:45909250 original size:28 final size:28
Alignment explanation
Indices: 45909210--45909264 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
45909200 TCATTATCAA
*
45909210 CCCCATAAATTATAAAACTTTTTCTATG
1 CCCCATAAATTATAAAACTTTTCCTATG
* * *
45909238 CCCCATAAGTTATGAGACTTTTCCTAT
1 CCCCATAAATTATAAAACTTTTCCTAT
45909265 ATCCCATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (28 bp):
CCCCATAAATTATAAAACTTTTCCTATG
Found at i:45909270 original size:28 final size:28
Alignment explanation
Indices: 45909209--45909271 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
45909199 ATCATTATCA
*
45909209 ACCCCATAAATTATAAAACTTTTTCTAT
1 ACCCCATAAATTATAAAACTTTTCCTAT
* * * *
45909237 GCCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAATTATAAAACTTTTCCTAT
*
45909265 ATCCCAT
1 ACCCCAT
45909272 TAATATTGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (28 bp):
ACCCCATAAATTATAAAACTTTTCCTAT
Found at i:45917979 original size:47 final size:47
Alignment explanation
Indices: 45917920--45918595 Score: 1073
Period size: 47 Copynumber: 14.4 Consensus size: 47
45917910 GATGTACAAG
* * *
45917920 GTGTGTATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
*
45917967 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* *
45918014 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
*
45918061 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* * *
45918108 GTGTGTATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
45918155 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* *
45918202 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* * *
45918249 GTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
*
45918296 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* *
45918343 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
*
45918390 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* * *
45918437 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* * * * * *
45918484 GTTTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
* *
45918531 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
*
45918578 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
45918596 TCCCGAAGGG
Statistics
Matches: 581, Mismatches: 48, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 581 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
Found at i:45927388 original size:48 final size:48
Alignment explanation
Indices: 45927304--45927593 Score: 255
Period size: 48 Copynumber: 6.0 Consensus size: 48
45927294 ATGCTAGGGT
* * *
45927304 TATGTGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
* * **
45927352 TATGAGAGCTAGTGTAAGACCTTGTCTGGGACATGGCATCAAC-TTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATT-GA
* * * * *
45927400 TAT-ATGAGCCAGTATAATACCATGTTTGGAACATGGCATCGGCATTTATA
1 TATGA-GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCA-TT-GA
* * ** *
45927450 TATGAGAGCTAGAGTAAGACCATGTCTAGAACATGGTTTCGGCCTTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
* * * **
45927498 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTG--A
* * *
45927548 TATGAGAG-TCAGTGCAAAACCATGTCTAGG-ACATGGCATAGGCATT
1 TATGAGAGCT-AGTGTAAGACCATGTCT-GGAACATGGCATCGGCATT
45927594 TTACCCTTTT
Statistics
Matches: 188, Mismatches: 45, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
47 3 0.02
48 109 0.58
49 3 0.02
50 70 0.37
51 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGA
Found at i:45927485 original size:98 final size:97
Alignment explanation
Indices: 45927308--45927586 Score: 330
Period size: 98 Copynumber: 2.9 Consensus size: 97
45927298 TAGGGTTATG
* *
45927308 TGAGCTAGTGTAAGACCATGTTTGGAATATGGCATCGGCATT-GATATGAGAGCTAGTGTAAGAC
1 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTAAGAC
* * *
45927372 CTTGTCTGGGACATGGCATC-AACTTCGATATA
66 CATGTCTAGGACATGGCATCGAACTT-GACATA
* * * *
45927404 TGAGCCAGTATAATACCATGTTTGGAACATGGCATCGGCATTTATATATGAGAGCTAGAGTAAGA
1 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCTAGTGTAAGA
* ** ** *
45927469 CCATGTCTAGAACATGGTTTCGGCCTTGACATG
65 CCATGTCTAGGACATGGCATCGAACTTGACATA
** * *
45927502 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCGATATATGAGAG-TCAGTGCAAA
1 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCT-AGTGTAAG
45927566 ACCATGTCTAGGACATGGCAT
64 ACCATGTCTAGGACATGGCAT
45927587 AGGCATTTTA
Statistics
Matches: 152, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
96 36 0.24
97 3 0.02
98 110 0.72
99 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (97 bp):
TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTAAGAC
CATGTCTAGGACATGGCATCGAACTTGACATA
Found at i:45928824 original size:21 final size:21
Alignment explanation
Indices: 45928784--45928822 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45928774 GCCGTGTGAG
45928784 CCACACGGGCGTGTCGCCCTT
1 CCACACGGGCGTGTCGCCCTT
*
45928805 CCACACGGGTGTGT-GCCC
1 CCACACGGGCGTGTCGCCC
45928823 CTGTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.10, C:0.41, G:0.31, T:0.18
Consensus pattern (21 bp):
CCACACGGGCGTGTCGCCCTT
Found at i:45942383 original size:26 final size:27
Alignment explanation
Indices: 45942319--45942397 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 27
45942309 TTTTGTGTAA
45942319 ATTAAGATAATTAGAAATTTAAATTAT
1 ATTAAGATAATTAGAAATTTAAATTAT
* * *
45942346 ATTATGAAAATTA-AAATTTTAATT-T
1 ATTAAGATAATTAGAAATTTAAATTAT
*
45942371 AGTTAAGATAATTAGAAATCTAAATTA
1 A-TTAAGATAATTAGAAATTTAAATTA
45942398 ATAGGTTAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.05
26 20 0.48
27 20 0.48
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTAAGATAATTAGAAATTTAAATTAT
Found at i:45943703 original size:54 final size:54
Alignment explanation
Indices: 45943502--45943896 Score: 286
Period size: 54 Copynumber: 7.3 Consensus size: 54
45943492 GTATGAGAAA
* ** * *
45943502 GTTGCGGTCTTAAATTGGCAA-CTGCAAGATTTAG-AAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAGCAACCAGCAAGATTCAGAAAATCTTGTAAGTATAAG
* * * * **
45943554 GCTGGGATCTTAAAT-GGCGAGCCA-CAAGATTCTTAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAGC-AACCAGCAAGATTCAGAAAATCTTGTAAGTATAAG
* *** * * * **
45943607 GTAATTTGGGATCTTAAATCAATGAGCAACAAGGTTTGGAAAATCTTGTAAGTATAAG
1 G----TTGCGATCTTAAATCAGCAACCAGCAAGATTCAGAAAATCTTGTAAGTATAAG
* *
45943665 GTTGAGATCTTAAATCAGCAACCAGTAAGATTCAGAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAGCAACCAGCAAGATTCAGAAAATCTTGTAAGTATAAG
* * * * *
45943719 GTTTCGATCTTAAGTCAGTGAGCCA-CAAGATTC-GATAAACCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCAG-CAACCAGCAAGATTCAGA-AAATCTTGTAAGTATAAG
** * *
45943773 GTTGCGATCTTAAATCGAAAAATC-GCAAGATTCAGAAAATCCTGTAAGTATAAG
1 GTTGCGATCTTAAATC-AGCAACCAGCAAGATTCAGAAAATCTTGTAAGTATAAG
*** * * * * *
45943827 GCAACGATCTTAAATC-GACTAGCTGCAAGATTCAAAAAATTTTGTAAG-AGTAAG
1 GTTGCGATCTTAAATCAG-CAACCAGCAAGATTCAGAAAATCTTGTAAGTA-TAAG
45943881 GTTGCGATCTTAAATC
1 GTTGCGATCTTAAATC
45943897 GGAAAATCGT
Statistics
Matches: 269, Mismatches: 57, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
51 3 0.01
52 20 0.07
53 25 0.09
54 173 0.64
55 7 0.03
57 15 0.06
58 26 0.10
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (54 bp):
GTTGCGATCTTAAATCAGCAACCAGCAAGATTCAGAAAATCTTGTAAGTATAAG
Found at i:45943826 original size:162 final size:162
Alignment explanation
Indices: 45943525--45943895 Score: 378
Period size: 162 Copynumber: 2.3 Consensus size: 162
45943515 ATTGGCAACT
* * * * *
45943525 GCAAGATTTAG-AAATCTTGTAAGTATAAGGCTGGGATCTTAAATGGCGAGCCACAAGATTCTTA
1 GCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATAGCGAGCCACAAGATTCATA
* * ** * ** *
45943589 AAATCTTGTAAGTATAAGGTAATTTGGGATCTTAAATCAATGAGCAACAAGGTTTGGAAAATCTT
66 AAACCTTGTAAGTATAAGG--A-TTGCGATCTTAAATCAAAAAGCAACAAGATTCAGAAAATCCT
**
45943654 GTAAGTATAAGGTTGA-GATCTTAAATC-AGCAACCA
128 GTAAGTATAAGG-CAACGATCTTAAATCGA-CAACCA
* * * *
45943689 GTAAGATTCAGAAAATCTTGTAAGTATAAGGTTTCGATCTTAAGTCAGTGAGCCACAAGATTCGA
1 GCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-AGCGAGCCACAAGATTC-A
* *
45943754 T-AAACCTTGTAAGTATAAGG-TTGCGATCTTAAATCGAAAAATC-GCAAGATTCAGAAAATCCT
64 TAAAACCTTGTAAGTATAAGGATTGCGATCTTAAATC-AAAAAGCAACAAGATTCAGAAAATCCT
* * *
45943816 GTAAGTATAAGGCAACGATCTTAAATCGACTAGCT
128 GTAAGTATAAGGCAACGATCTTAAATCGACAACCA
* *
45943851 GCAAGATTCAAAAAATTTTGTAAG-AGTAAGGTTGCGATCTTAAAT
1 GCAAGATTCAGAAAATCTTGTAAGTA-TAAGGTTGCGATCTTAAAT
45943896 CGGAAAATCG
Statistics
Matches: 171, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
161 2 0.01
162 92 0.54
163 5 0.03
164 9 0.05
165 29 0.17
166 33 0.19
167 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (162 bp):
GCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATAGCGAGCCACAAGATTCATA
AAACCTTGTAAGTATAAGGATTGCGATCTTAAATCAAAAAGCAACAAGATTCAGAAAATCCTGTA
AGTATAAGGCAACGATCTTAAATCGACAACCA
Found at i:45943897 original size:54 final size:54
Alignment explanation
Indices: 45943502--45943949 Score: 264
Period size: 54 Copynumber: 8.3 Consensus size: 54
45943492 GTATGAGAAA
* * * * *
45943502 GTTGCGGTCTTAAATTGGCAA-CTGCAAGATT-TAGAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCGACAAGCTGCAAGATTCAAAAAATCTTGTAAGTATAAG
* * * * ** **
45943554 GCTGGGATCTTAAAT-GGCGAGCCACAAGATTCTTAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCGACAAGCTGCAAGATTCAAAAAATCTTGTAAGTATAAG
* * ** ** * ***
45943607 GTAATTTGGGATCTTAAATCAATGAGCAACAAGGTTTGGAAAATCTTGTAAGTATAAG
1 G----TTGCGATCTTAAATCGACAAGCTGCAAGATTCAAAAAATCTTGTAAGTATAAG
* * * * *
45943665 GTTGAGATCTTAAATC-AGCAACCAGTAAGATTCAGAAAATCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCGA-CAAGCTGCAAGATTCAAAAAATCTTGTAAGTATAAG
* * ** ** * * *
45943719 GTTTCGATCTTAAGTC-AGTGAGCCACAAGATTCGATAAACCTTGTAAGTATAAG
1 GTTGCGATCTTAAATCGA-CAAGCTGCAAGATTCAAAAAATCTTGTAAGTATAAG
** * *
45943773 GTTGCGATCTTAAATCGA-AAAATCGCAAGATTCAGAAAATCCTGTAAGTATAAG
1 GTTGCGATCTTAAATCGACAAGCT-GCAAGATTCAAAAAATCTTGTAAGTATAAG
*** * *
45943827 GCAACGATCTTAAATCGACTAGCTGCAAGATTCAAAAAATTTTGTAAG-AGTAAG
1 GTTGCGATCTTAAATCGACAAGCTGCAAGATTCAAAAAATCTTGTAAGTA-TAAG
* * * *** * *
45943881 GTTGCGATCTTAAATCGGAAAATC-GTAAGATAGGAAAAATCCTATAAGTATAAG
1 GTTGCGATCTTAAATC-GACAAGCTGCAAGATTCAAAAAATCTTGTAAGTATAAG
*
45943935 GTTGGGATCTTAAAT
1 GTTGCGATCTTAAAT
45943950 TAGTGAGCCG
Statistics
Matches: 308, Mismatches: 74, Indels: 26
0.75 0.18 0.06
Matches are distributed among these distances:
51 4 0.01
52 20 0.06
53 23 0.07
54 209 0.68
55 8 0.03
57 13 0.04
58 31 0.10
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (54 bp):
GTTGCGATCTTAAATCGACAAGCTGCAAGATTCAAAAAATCTTGTAAGTATAAG
Found at i:45943973 original size:108 final size:108
Alignment explanation
Indices: 45943536--45943982 Score: 375
Period size: 108 Copynumber: 4.1 Consensus size: 108
45943526 CAAGATTTAG
* * *** ** * ** *
45943536 AAATCTTGTAAGTATAAGGCTGGGATCTTAAAT-GGCGAGCCACAAGATTCTTAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
** * ** * * *
45943600 GTATAAGGTAATTTGGGATCTTAAATCAATGAGCAACAAGGTTTGGA
66 GTATAAGG----TTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
* ** * * *
45943647 AAATCTTGTAAGTATAAGGTTGAGATCTTAAATC-AGCAACCAGTAAGATTCAGAAAATCTTGTA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATC-GCAAGATTCAGAAAATCCTGTA
* * * *
45943711 AGTATAAGGTTTCGATCTTAAGTCAGTGAGCCACAAGATTCGAT
65 AGTATAAGGTTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
*
45943755 AAACCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
** * * *
45943820 GTATAAGGCAACGATCTTAAATCGACT-AGCTGCAAGATTCAAA
66 GTATAAGGTTACGATCTTAAATC-AGTGAGCCGCAAGATTCGAA
* * * *
45943863 AAATTTTGTAAG-AGTAAGGTTGCGATCTTAAATCGGAAAATCGTAAGA-T-AGGAAAAATCCTA
1 AAATCTTGTAAGTA-TAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCA-G-AAAATCCTG
** * * *
45943925 TAAGTATAAGGTTGGGATCTTAAATTAGTGAGCCGTAAGACTCGAA
63 TAAGTATAAGGTTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
45943971 AAATCTTGTAAG
1 AAATCTTGTAAG
45943983 CAATGAATTG
Statistics
Matches: 277, Mismatches: 51, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
106 1 0.00
107 5 0.02
108 204 0.74
109 6 0.02
111 34 0.12
112 27 0.10
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (108 bp):
AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGAAAAATCGCAAGATTCAGAAAATCCTGTAA
GTATAAGGTTACGATCTTAAATCAGTGAGCCGCAAGATTCGAA
Found at i:45948319 original size:40 final size:40
Alignment explanation
Indices: 45948273--45948390 Score: 157
Period size: 40 Copynumber: 3.0 Consensus size: 40
45948263 CGGGATTTAA
45948273 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
45948313 CCGGATATAATC-CCTAGCATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* * *
45948353 CCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTA
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTA
45948391 ATTCGGTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.02
40 63 0.97
41 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:45954279 original size:40 final size:40
Alignment explanation
Indices: 45954233--45954382 Score: 214
Period size: 40 Copynumber: 3.8 Consensus size: 40
45954223 TCGGGATTTA
45954233 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
*
45954273 CCGGATAT-AGAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* * * *
45954312 CCGGATATAATC-GCTAGCATAAATGCCTTCGGGTCATAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
45954352 CCGGATATAGCAACTCGCACGAATGCCTTCG
1 CCGGATATAACAACTCGCACAAATGCCTTCG
45954383 ATCTTAGTCC
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.41
40 57 0.59
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:45956750 original size:42 final size:42
Alignment explanation
Indices: 45956648--45956816 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 42
45956638 AGCTCGTACA
* * * *** *
45956648 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCA
1 ATGCCAATGTCCCAGACATGGTCTTAAACAAAATCAAATA-CG
* *
45956691 ATGCCATTGTCCCAGACAAGGTCTTAAACAAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTAAACAAAATCAAATACG
**
45956733 ATGCCAATGTCCCAGACATGGTCTTAAACGTAACTCTCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTAAAC--AA-AATCAAATACG
* * * * *
45956777 ATGCCAACGTCCTAGACGTGATCTTACACAAAATCAAATA
1 ATGCCAATGTCCCAGACATGGTCTTAAACAAAATCAAATA
45956817 TCGAAAATCC
Statistics
Matches: 102, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 6 0.06
42 30 0.29
43 32 0.31
44 28 0.27
45 6 0.06
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTAAACAAAATCAAATACG
Found at i:45962165 original size:46 final size:46
Alignment explanation
Indices: 45962115--45962290 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
45962105 TATTTGGGCA
45962115 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45962161 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
45962206 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45962254 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45962291 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, 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 64 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45962270 original size:93 final size:93
Alignment explanation
Indices: 45962111--45962283 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
45962101 TGGATATTTG
* *
45962111 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
45962176 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
45962204 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
45962269 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
45962284 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:45965270 original size:14 final size:14
Alignment explanation
Indices: 45965193--45965270 Score: 75
Period size: 14 Copynumber: 5.4 Consensus size: 14
45965183 GTATCTTGGG
* *
45965193 TTTCTTTATCCTGA
1 TTTCTTTATTCGGA
*
45965207 TCTCTTTATTCTGGA
1 TTTCTTTATTC-GGA
*
45965222 TTTCTTTATTCGGG
1 TTTCTTTATTCGGA
* *
45965236 TTTCTCTATCTTGGA
1 TTTCTTTAT-TCGGA
*
45965251 TTTCTTTATTCGGT
1 TTTCTTTATTCGGA
45965265 TTTCTT
1 TTTCTT
45965271 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
14 28 0.55
15 23 0.45
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (14 bp):
TTTCTTTATTCGGA
Found at i:45967693 original size:46 final size:46
Alignment explanation
Indices: 45967643--45967818 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
45967633 TATTTGGGCA
45967643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
45967689 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * *
45967736 TCCGAGCTCGATGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
45967782 CCCGACCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45967819 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 64 0.60
47 30 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:45967798 original size:93 final size:93
Alignment explanation
Indices: 45967639--45967811 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
45967629 TGGATATTTG
* * * *
45967639 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
45967704 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
45967732 GGCATCCGAGCTCGATGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGACCTCATTGAG
1 GGCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
45967797 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
45967812 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGATGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:45975872 original size:42 final size:41
Alignment explanation
Indices: 45975772--45975940 Score: 146
Period size: 43 Copynumber: 4.0 Consensus size: 41
45975762 AGCTCGTACA
* * * * *
45975772 ATGCCAATGTCCCAGACGTGGTTTTATATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
* *
45975815 ATGCCACTATCCCAGACAAGGTCTTACACGAAATCAAATACG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCAAATACG
*
45975857 ATGCCGATGTCCCAGACGTGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCC-ATGTCCCAGACATGGTCTTACACG-AAA--TCAAATACG
*
45975901 ATGCCAACGTCCCA-A-ATGTGATCTTACACGAAATCAAATA
1 ATGCC-ATGTCCCAGACATG-G-TCTTACACGAAATCAAATA
45975941 TCGAAAATTC
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
41 6 0.06
42 30 0.29
43 40 0.38
44 23 0.22
45 6 0.06
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:45975926 original size:44 final size:44
Alignment explanation
Indices: 45975836--45975935 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
45975826 CCAGACAAGG
* * * *
45975836 TCTTACACGAAA--TCAAATACGATGCCGATGTCCCAGACGTGG
1 TCTTACACGAAATCTCAAATACGATGCCAACGTCCCAAACGTGA
*
45975878 TCTTACACGTAAATCTCAAAT-CGATGCCAACGTCCCAAATGTGA
1 TCTTACACG-AAATCTCAAATACGATGCCAACGTCCCAAACGTGA
45975922 TCTTACACGAAATC
1 TCTTACACGAAATC
45975936 AAATATCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
42 9 0.18
43 8 0.16
44 27 0.54
45 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (44 bp):
TCTTACACGAAATCTCAAATACGATGCCAACGTCCCAAACGTGA
Found at i:45978620 original size:30 final size:30
Alignment explanation
Indices: 45978556--45978620 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
45978546 AAACTTATTT
45978556 TATTT-TTAATTTTGTTATTATTTTAAAGG
1 TATTTGTTAATTTTGTTATTATTTTAAAGG
* * * *
45978585 CATTTGTTAATTTTTTTATTATTTTAGATG
1 TATTTGTTAATTTTGTTATTATTTTAAAGG
45978615 TATTTG
1 TATTTG
45978621 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.63
Consensus pattern (30 bp):
TATTTGTTAATTTTGTTATTATTTTAAAGG
Found at i:45979625 original size:34 final size:34
Alignment explanation
Indices: 45979582--45979649 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
45979572 TTAAACTTTT
45979582 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
1 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
45979616 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
1 GTACATTTTTCAATTTAGTCCCTATTATCATGTA
45979650 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.18, G:0.09, T:0.47
Consensus pattern (34 bp):
GTACATTTTTCAATTTAGTCCCTATTATCATGTA
Found at i:45979634 original size:17 final size:17
Alignment explanation
Indices: 45979582--45979634 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
45979572 TTAAACTTTT
45979582 GTACATTTTTCAATTTA
1 GTACATTTTTCAATTTA
* * * *
45979599 GTCCCTATTATC-ATGTA
1 GTACAT-TTTTCAATTTA
45979616 GTACATTTTTCAATTTA
1 GTACATTTTTCAATTTA
45979633 GT
1 GT
45979635 CCCTATTATC
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.49
Consensus pattern (17 bp):
GTACATTTTTCAATTTA
Found at i:45979658 original size:34 final size:34
Alignment explanation
Indices: 45979583--45979661 Score: 131
Period size: 34 Copynumber: 2.3 Consensus size: 34
45979573 TAAACTTTTG
*
45979583 TACATTTTTCAATTTAGTCCCTATTATCATGTAG
1 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
45979617 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
1 TACATTTTTCAATTTAGTCCCTATTATCATGTAA
**
45979651 TTTATTTTTCA
1 TACATTTTTCA
45979662 CCATATAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.27, C:0.16, G:0.06, T:0.51
Consensus pattern (34 bp):
TACATTTTTCAATTTAGTCCCTATTATCATGTAA
Found at i:45988347 original size:29 final size:29
Alignment explanation
Indices: 45988310--45988387 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
45988300 AAAATAGTAG
* *
45988310 TTAAACTAATTAAATTACTTAAACTAAAA
1 TTAACCTAATTAAATTAATTAAACTAAAA
* *
45988339 TTAACCTAATTGAATTAATTAATCTAAAA
1 TTAACCTAATTAAATTAATTAAACTAAAA
* *
45988368 -TAACCCAATGAAATTAATTA
1 TTAACCTAATTAAATTAATTA
45988388 GTCTAAGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 17 0.40
29 25 0.60
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.35
Consensus pattern (29 bp):
TTAACCTAATTAAATTAATTAAACTAAAA
Found at i:45988382 original size:28 final size:30
Alignment explanation
Indices: 45988317--45988393 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 30
45988307 TAGTTAAACT
* * *
45988317 AATT-AAATTACTTAAACTAAAATTAACCT
1 AATTGAAATTAATTAATCTAAAATTAACCC
45988346 AATTG-AATTAATTAATCTAAAA-TAACCC
1 AATTGAAATTAATTAATCTAAAATTAACCC
*
45988374 AA-TGAAATTAATTAGTCTAA
1 AATTGAAATTAATTAATCTAA
45988394 GGTAACTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.05
28 21 0.50
29 19 0.45
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.34
Consensus pattern (30 bp):
AATTGAAATTAATTAATCTAAAATTAACCC
Found at i:46006967 original size:10 final size:10
Alignment explanation
Indices: 46006949--46006981 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
46006939 AGCTACAAAT
*
46006949 AAGCTAAAGA
1 AAGCCAAAGA
46006959 AAGCCAAAGA
1 AAGCCAAAGA
46006969 AAGCCAAAGA
1 AAGCCAAAGA
46006979 AAG
1 AAG
46006982 AATGCACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.61, C:0.15, G:0.21, T:0.03
Consensus pattern (10 bp):
AAGCCAAAGA
Found at i:46011570 original size:46 final size:47
Alignment explanation
Indices: 46011501--46011633 Score: 164
Period size: 46 Copynumber: 2.9 Consensus size: 47
46011491 ATAATCTCAC
* * * *
46011501 CCATAA-TGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
*
46011547 CCAT-ATTAAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
* * *
46011593 CCATAAGTGAACTCGAAACACAACTCAATGAGTTCGGATGC
1 CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGC
46011634 CTCATAATTC
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 41 0.54
47 34 0.45
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGTAAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
Found at i:46011626 original size:47 final size:47
Alignment explanation
Indices: 46011501--46011678 Score: 191
Period size: 47 Copynumber: 3.8 Consensus size: 47
46011491 ATAATCTCAC
* * *
46011501 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCGCAT
* *
46011547 CCATATTAAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCGCAT
* * * **
46011593 CCATAAGTGAACTCGAAACACAACTCAATGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACACAACTCAACGAGTTCGGATGCTTC-GCAT
* * * *
46011642 TC-TCACGAACTCGGACCACAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGAT
46011679 CTCAATTTCC
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
46 43 0.39
47 62 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:46018955 original size:39 final size:40
Alignment explanation
Indices: 46018910--46019077 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
46018900 CGGGGTTTAG
* * *
46018910 CCGGATATAACCACTTGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
46018949 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
46018989 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
46019029 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
46019070 CCGGATAT
1 CCGGATAT
46019078 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:46019060 original size:41 final size:40
Alignment explanation
Indices: 46018933--46019077 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
46018923 CTTGCACAAG
* * * * *
46018933 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
46018973 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
46019013 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
46019054 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46019078 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:46021183 original size:26 final size:26
Alignment explanation
Indices: 46021154--46021205 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
46021144 ACCAATGAAA
*
46021154 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46021180 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
46021206 CTTTCACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:46021232 original size:104 final size:103
Alignment explanation
Indices: 46020915--46021271 Score: 592
Period size: 103 Copynumber: 3.5 Consensus size: 103
46020905 TAGCCGTTAT
** *
46020915 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
46020980 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
*
46021018 TGGTGGATATCGCACTTAGCACCACCAATGAATTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46021083 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
46021121 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
46021185 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * *
46021225 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCAC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCAC
46021272 ACAACAACCC
Statistics
Matches: 241, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
103 173 0.72
104 67 0.28
105 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:46021645 original size:29 final size:29
Alignment explanation
Indices: 46021612--46021675 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46021602 TAATCCACCA
46021612 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46021641 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46021671 CCCAA
1 CCCAA
46021676 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46021649 original size:30 final size:30
Alignment explanation
Indices: 46021619--46021675 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46021609 CCACCCAACT
46021619 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46021648 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46021676 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46027975 original size:37 final size:37
Alignment explanation
Indices: 46027925--46027995 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
46027915 TTTAATTTAC
* *
46027925 AAGTATATAGTTATTTGTTATGTGAACAAAAATGAAT
1 AAGTATATAGTTATTTGATACGTGAACAAAAATGAAT
* * *
46027962 AAGTGTATGGTTATTTGATACGTGTACAAAAATG
1 AAGTATATAGTTATTTGATACGTGAACAAAAATG
46027996 TAACAGCCCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (37 bp):
AAGTATATAGTTATTTGATACGTGAACAAAAATGAAT
Found at i:46028873 original size:30 final size:30
Alignment explanation
Indices: 46028816--46028873 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46028806 TTTTCGAGCA
* **
46028816 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
46028846 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
46028874 ACGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:46029284 original size:47 final size:47
Alignment explanation
Indices: 46029213--46029473 Score: 225
Period size: 47 Copynumber: 5.6 Consensus size: 47
46029203 TGATTTGTGT
*
46029213 GCCAGTGTAAGACATGTCTGGGACATG-ATTCGGC-CATAGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCA-TCGGCTCAGAGTATGAGA
* * *
46029259 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAG-ACGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCAGAGTATGAGA
* * * *
46029307 GCCAGTGTAAGACATGTTTGGGACATGCACCGGCCTCGACAG-A-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTC-AGAGTATGAGA
* * * *
46029354 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGT-TG-TA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAGAGTATGAGA
* ** * *
46029399 -CTAGTGTAAGACATGTCTGGGACATGCATTAGCAC-GCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAGAG--TATGAGA
*
46029446 GCCAATGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
46029474 GCAACGACAA
Statistics
Matches: 175, Mismatches: 26, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
43 2 0.01
44 28 0.16
45 6 0.03
46 23 0.13
47 61 0.35
48 35 0.20
49 20 0.11
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCAGAGTATGAGA
Found at i:46029372 original size:94 final size:92
Alignment explanation
Indices: 46029211--46029471 Score: 250
Period size: 94 Copynumber: 2.8 Consensus size: 92
46029201 GGTGATTTGT
* *
46029211 GTGCCAGTGTAAGACATGTCTGGGACATG-ATTCGGCCATAGTATGAGAGCCAGTGTAAGACCAT
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCCGGCCACAGTATGAGAGCCAGTGTAAGACCAT
*
46029275 GTCTGGGACATGGCATCGGC-ACAGAGACGA
66 GTCTGGGACA-CGCATCGGCTA-AGAG--GA
* *
46029305 GTGCCAGTGTAAGACATGTTTGGGACATGCA-CCGGCCTCGACAG-A-GATAGCCAGTGTAAGA-
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCCGG-C-C-ACAGTATGAGAGCCAGTGTAAGAC
* **
46029366 CGTGTCTGGGACACGCATCGGCTAAGAGTT
63 CATGTCTGGGACACGCATCGGCTAAGAGGA
* * ** * *
46029396 GTACTAGTGTAAGACATGTCTGGGACATGCAT-TAG-CACGCGTATATGAGAGCCAATGTAAGAC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCCGGCCAC-AG--TATGAGAGCCAGTGTAAGAC
46029459 CATGTCTGGGACA
63 CATGTCTGGGACA
46029472 TGGCAACGAC
Statistics
Matches: 138, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
87 2 0.01
88 2 0.01
91 30 0.22
92 14 0.10
93 24 0.17
94 44 0.32
95 17 0.12
96 2 0.01
97 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (92 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCCGGCCACAGTATGAGAGCCAGTGTAAGACCAT
GTCTGGGACACGCATCGGCTAAGAGGA
Found at i:46031012 original size:95 final size:95
Alignment explanation
Indices: 46030849--46031127 Score: 382
Period size: 95 Copynumber: 2.9 Consensus size: 95
46030839 ACTGGTGGTG
* * * *
46030849 GATACCTCACCGATGGCTAAGATCATGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAACA
1 GATACCTTACAGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
* *
46030914 TCGTGTAATAGTTAATGTCTC-TTTTTACTA
66 TCGTGTAATGGTTAATGTCTCAATTTT-CTA
* * * *
46030944 GATACCTTACTGATGGCTAAGATCCTGCATATATTACGGATTCTTCACAGCTCGTGTGAGCAGCA
1 GATACCTTACAGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
46031009 TCGTGTAATGGTTAATGTCTCAATTTTCTA
66 TCGTGTAATGGTTAATGTCTCAATTTTCTA
* * * * * *
46031039 GATACCTTACAGATGGTTAAGATTCTGCATGTGTTGCAAATTCTTCATAGCTCGTGTGAGGAGCA
1 GATACCTTACAGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
*
46031104 TTGTGTAATGGTTAATGTC-CAATT
66 TCGTGTAATGGTTAATGTCTCAATT
46031128 CACAGCTCAT
Statistics
Matches: 163, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
94 5 0.03
95 154 0.94
96 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (95 bp):
GATACCTTACAGATGGCTAAGATCCTGCATATATTGCAGATTCTTCATAGCTCGTGTGAGCAGCA
TCGTGTAATGGTTAATGTCTCAATTTTCTA
Found at i:46032379 original size:25 final size:24
Alignment explanation
Indices: 46032288--46032380 Score: 62
Period size: 25 Copynumber: 3.8 Consensus size: 24
46032278 TACCCGTCAT
*
46032288 TGGCTCACATGAGCTTCCTAATT-A
1 TGGCTCACATGAGCTTCC-CATTAA
**
46032312 TGGCTCTTATGAGCTTCCCATTATA
1 TGGCTCACATGAGCTTCCCATTA-A
** * ** * *
46032337 CAGCCCGGATAAGTTTCCCATTACA
1 TGGCTCACATGAGCTTCCCATTA-A
46032362 TGGCTCACATGAGCTTCCC
1 TGGCTCACATGAGCTTCCC
46032381 GTTTTATGGC
Statistics
Matches: 49, Mismatches: 18, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
23 3 0.06
24 16 0.33
25 30 0.61
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCATTAA
Found at i:46032742 original size:17 final size:17
Alignment explanation
Indices: 46032698--46032743 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
46032688 GAAATACATG
*
46032698 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
46032713 GAAAT-ACTGATATAAT
1 GAAATGAATGATATAAT
46032729 GAAATGAATGATATA
1 GAAATGAATGATATA
46032744 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.02, G:0.20, T:0.30
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:46038176 original size:17 final size:17
Alignment explanation
Indices: 46038154--46038187 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46038144 CTTAGGCTTA
46038154 TATCGGTCCACTAGGTC
1 TATCGGTCCACTAGGTC
46038171 TATCGGTCCACTAGGTC
1 TATCGGTCCACTAGGTC
46038188 AACTTGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (17 bp):
TATCGGTCCACTAGGTC
Found at i:46041221 original size:27 final size:27
Alignment explanation
Indices: 46041188--46041267 Score: 133
Period size: 27 Copynumber: 3.0 Consensus size: 27
46041178 AAAACTGTGA
*
46041188 CGAAATACCCCCATAGGGTAAAATGAC
1 CGAAATACCCCCATAGGGTAAAATAAC
* *
46041215 CTAAATACCCCCATAAGGTAAAATAAC
1 CGAAATACCCCCATAGGGTAAAATAAC
46041242 CGAAATACCCCCATAGGGTAAAATAA
1 CGAAATACCCCCATAGGGTAAAATAA
46041268 TCGAGATAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.16
Consensus pattern (27 bp):
CGAAATACCCCCATAGGGTAAAATAAC
Found at i:46041328 original size:27 final size:27
Alignment explanation
Indices: 46041283--46041353 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
46041273 ATAGCCTTAG
* * * *
46041283 GGTAAAATGATTGTATTACCTCTGTAA
1 GGTAAAATGACTATTTTACCCCTGTAA
46041310 GGTAAAATGACTATTTTACCCCTGTAA
1 GGTAAAATGACTATTTTACCCCTGTAA
46041337 GGTAAAATGACTGATTT
1 GGTAAAATGACT-ATTT
46041354 GCCCTACGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAAAATGACTATTTTACCCCTGTAA
Found at i:46041746 original size:34 final size:34
Alignment explanation
Indices: 46041708--46041794 Score: 120
Period size: 34 Copynumber: 2.6 Consensus size: 34
46041698 TATACTGATT
*
46041708 CTGAAATGGGCTTAGGCCCAGACTGCTACTGCTA
1 CTGAAATGGGCTAAGGCCCAGACTGCTACTGCTA
* * * *
46041742 CTGAAATGGGCTCAGACCTAGACTGCTACTGTTA
1 CTGAAATGGGCTAAGGCCCAGACTGCTACTGCTA
*
46041776 CTGAAATGGTCTAAGGCCC
1 CTGAAATGGGCTAAGGCCC
46041795 TAATTGAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (34 bp):
CTGAAATGGGCTAAGGCCCAGACTGCTACTGCTA
Found at i:46048812 original size:25 final size:26
Alignment explanation
Indices: 46048730--46048852 Score: 149
Period size: 26 Copynumber: 4.7 Consensus size: 26
46048720 AACACGTTAG
* *
46048730 GAAAAAAAGCCTTTATGGCGTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* * *
46048756 GAAAGAAAGCTTTTTTGGCATAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
*
46048782 GAAAGAAAGCCTTTGT-GCTTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* *
46048807 GGAAGAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
*
46048833 GAAAGAAATTCCTTTGTGGC
1 GAAAGAAA-GCCTTTGTGGC
46048853 AAACTCTGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
25 23 0.28
26 50 0.60
27 10 0.12
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGGCGTAATAT
Found at i:46048813 original size:51 final size:51
Alignment explanation
Indices: 46048730--46048850 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 51
46048720 AACACGTTAG
* * * *
46048730 GAAAAAAAGCCTTTATGGCGTAATATGAAAGAAAGCTTTTTTGGC-ATAATAT
1 GAAAGAAAGCCTTTGT-GCGTAATATGAAAGAAAGCCTTTGTGGCGA-AATAT
* *
46048782 GAAAGAAAGCCTTTGTGCTTAATATGGAAGAAAGCCTTTGTGGCGAAATAT
1 GAAAGAAAGCCTTTGTGCGTAATATGAAAGAAAGCCTTTGTGGCGAAATAT
*
46048833 GAAAGAAATTCCTTTGTG
1 GAAAGAAA-GCCTTTGTG
46048851 GCAAACTCTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
51 37 0.62
52 23 0.38
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (51 bp):
GAAAGAAAGCCTTTGTGCGTAATATGAAAGAAAGCCTTTGTGGCGAAATAT
Found at i:46050647 original size:64 final size:64
Alignment explanation
Indices: 46050566--46050749 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
46050556 AGACATTATG
* * *
46050566 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * *
46050630 ATGTAGCTAGGTCGCATGCATGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
46050695 AA
63 AA
* * *
46050697 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
46050750 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 24 0.25
66 20 0.21
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:46053266 original size:2 final size:2
Alignment explanation
Indices: 46053259--46053308 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
46053249 GAGCTTTTTG
*
46053259 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
46053301 CT CT CT CT
1 CT CT CT CT
46053309 TTGCTTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:46054563 original size:80 final size:80
Alignment explanation
Indices: 46054466--46054627 Score: 288
Period size: 80 Copynumber: 2.0 Consensus size: 80
46054456 CACGCCTTGT
*
46054466 ATGTATGATTATATTGGAAACATTGCATGGTGGATCCATTGGATACAGTGGGCATGCCATGGGAT
1 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATACAGTGGGCATGCCATGGGAT
46054531 TTGTGAGTACCCACC
66 TTGTGAGTACCCACC
* *
46054546 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATATAGTTGGCATGCCATGGGAT
1 ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATACAGTGGGCATGCCATGGGAT
*
46054611 TTGTGAGTACTCACC
66 TTGTGAGTACCCACC
46054626 AT
1 AT
46054628 TATTTGTGAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (80 bp):
ATGTATGATTATATTGGAAACATTGCATGGTGGATCAATTGGATACAGTGGGCATGCCATGGGAT
TTGTGAGTACCCACC
Found at i:46061127 original size:93 final size:93
Alignment explanation
Indices: 46061006--46061175 Score: 331
Period size: 93 Copynumber: 1.8 Consensus size: 93
46060996 GTTTCATATC
46061006 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
1 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
46061071 ACTAATACTACTCCTTACCATCCTTCAT
66 ACTAATACTACTCCTTACCATCCTTCAT
*
46061099 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTTATTTATTATCCT
1 ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
46061164 ACTAATACTACT
66 ACTAATACTACT
46061176 TACCATCTTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (93 bp):
ATGGCCTAATGGTATAGTGGCCATAGGGACAATGTTACATTTTATTATCATTGATTTATTATCCT
ACTAATACTACTCCTTACCATCCTTCAT
Found at i:46061867 original size:22 final size:22
Alignment explanation
Indices: 46061834--46061885 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
46061824 CATCAGTGTT
*
46061834 ATCAATGGCAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTGCAA
*
46061856 ATTAGTGGCAGTTTATCTGCAA
1 ATCAGTGGCAGTTTATCTGCAA
46061878 ATCAGTGG
1 ATCAGTGG
46061886 TGGCTTGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTGCAA
Found at i:46064402 original size:49 final size:49
Alignment explanation
Indices: 46064321--46064654 Score: 398
Period size: 49 Copynumber: 6.7 Consensus size: 49
46064311 CGAAGCTATT
* *
46064321 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* * * **
46064370 TAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATC
* * *
46064420 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATC
* * * * * *
46064471 AGGCACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
* ** * *
46064520 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTTATCACAGTTTTC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATC
* * *
46064571 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
*
46064620 TGGTACACGTAGTAGCCTGCACTTAGTATTACACA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACA
46064655 CGTGACTTCA
Statistics
Matches: 235, Mismatches: 45, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
49 110 0.47
50 49 0.21
51 76 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
Found at i:46064553 original size:100 final size:99
Alignment explanation
Indices: 46064321--46064659 Score: 441
Period size: 100 Copynumber: 3.4 Consensus size: 99
46064311 CGAAGCTATT
* * * * * *
46064321 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCTAGTACACG--TAGT
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTATC-AG-GCACGCATAGT
* * **
46064383 AGCCTGCACTTAGTACTACACACGTGACCTAACCATC
64 AGCCTGCACTTAGTACTACACATGCGACC-AATAATC
* *
46064420 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCAGGCACGCATAGTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-AAGTTATCAGGCACGCATAGTA
*
46064485 GCCTGCACTTAGTACTACACATGCGACCAATAATT
65 GCCTGCACTTAGTACTACACATGCGACCAATAATC
* * * *
46064520 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTTATCACAGTTTTCGGGTACGCATAGTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCA-AGTTATCAGGCACGCATAGTA
*
46064585 GCCTGCACTTAGTACTACACATGCGACCAATTATC
65 GCCTGCACTTAGTACTACACATGCGACCAATAATC
*
46064620 TGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA
46064660 CTTCACAATA
Statistics
Matches: 214, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
99 42 0.20
100 136 0.64
101 36 0.17
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (99 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAGTTATCAGGCACGCATAGTAG
CCTGCACTTAGTACTACACATGCGACCAATAATC
Found at i:46065343 original size:30 final size:30
Alignment explanation
Indices: 46065309--46065368 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46065299 CTTTAATACG
46065309 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
46065339 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
46065369 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:46068329 original size:26 final size:26
Alignment explanation
Indices: 46068238--46068329 Score: 114
Period size: 26 Copynumber: 3.5 Consensus size: 26
46068228 AACACGTTAG
*
46068238 GAAAGAAAGCATTTATGGCGTAATAT
1 GAAAGAAAGCCTTTATGGCGTAATAT
* *
46068264 GAAAGAAAGTCC-TTGTGGTGTAATAT
1 GAAAGAAAG-CCTTTATGGCGTAATAT
* *
46068290 GAAATAAAGCCTTTATAGCGTAATAT
1 GAAAGAAAGCCTTTATGGCGTAATAT
*
46068316 AAAAGAAAGCCTTT
1 GAAAGAAAGCCTTT
46068330 GTACGGATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.04
26 52 0.95
27 1 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (26 bp):
GAAAGAAAGCCTTTATGGCGTAATAT
Found at i:46074315 original size:15 final size:15
Alignment explanation
Indices: 46074297--46074338 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
46074287 TCCATAACGG
*
46074297 AGAAATCCAGAATAT
1 AGAAATCCAGAATAA
46074312 AGAAATCCA-ACATAA
1 AGAAATCCAGA-ATAA
46074327 AGAAATCCAGAA
1 AGAAATCCAGAA
46074339 GAAAACATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.57, C:0.17, G:0.12, T:0.14
Consensus pattern (15 bp):
AGAAATCCAGAATAA
Found at i:46078215 original size:40 final size:40
Alignment explanation
Indices: 46078152--46078400 Score: 303
Period size: 40 Copynumber: 6.6 Consensus size: 40
46078142 ATTCGGATTG
*
46078152 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
46078191 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
46078231 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTAC-
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
46078270 -T-A------TAA---CCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
46078299 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
46078339 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
46078379 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
46078401 TACTTGGTTT
Statistics
Matches: 186, Mismatches: 10, Indels: 28
0.83 0.04 0.12
Matches are distributed among these distances:
28 23 0.12
30 1 0.01
31 3 0.02
37 4 0.02
38 1 0.01
39 29 0.16
40 125 0.67
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:46078287 original size:28 final size:28
Alignment explanation
Indices: 46078247--46078305 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
46078237 GGGCCAAGTC
46078247 CCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGAAGGCAATTGTGCGAGTTACTATAA
46078275 CCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGAAGGCAATTGTGCGAGTTACTATAA
46078303 CCG
1 CCG
46078306 GGCTAAGTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (28 bp):
CCGAAGGCAATTGTGCGAGTTACTATAA
Found at i:46078316 original size:68 final size:68
Alignment explanation
Indices: 46078207--46078345 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 68
46078197 GGGCTAAGTC
*
46078207 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTA
46078272 TAA
66 TAA
*
46078275 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTA
46078340 TAA
66 TAA
46078343 CCG
1 CCG
46078346 GGCTAAGTCC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (68 bp):
CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTA
TAA
Found at i:46078381 original size:108 final size:108
Alignment explanation
Indices: 46078167--46078374 Score: 362
Period size: 108 Copynumber: 1.9 Consensus size: 108
46078157 CGGGCTAAGC
* * *
46078167 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
*
46078232 TAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
66 TAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAA
46078275 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
* *
46078340 TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
66 TAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGT
46078375 AGCTATATCC
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (108 bp):
CCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
TAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTTACTATAA
Found at i:46082345 original size:30 final size:30
Alignment explanation
Indices: 46082304--46082360 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
46082294 AAAATCATAT
* * *
46082304 TTTGGCAAAATTATATTTTTTCCCCTATAC
1 TTTGGCAAAATTACACTTTTGCCCCTATAC
*
46082334 TTTGTCAAAATTACACTTTTGCCCCTA
1 TTTGGCAAAATTACACTTTTGCCCCTA
46082361 AGCTCGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTGGCAAAATTACACTTTTGCCCCTATAC
Found at i:46084382 original size:13 final size:13
Alignment explanation
Indices: 46084339--46084384 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
46084329 CTTTATTTTC
46084339 TTTTTATATATAT
1 TTTTTATATATAT
*
46084352 TTTTAATATATAT
1 TTTTTATATATAT
46084365 TTTTTATATATAT
1 TTTTTATATATAT
46084378 TTTTTAT
1 TTTTTAT
46084385 CCAAGAGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTATATATAT
Found at i:46088796 original size:16 final size:16
Alignment explanation
Indices: 46088759--46088789 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46088749 TGAATTACTT
*
46088759 ATTACAGCTCTATTCC
1 ATTATAGCTCTATTCC
46088775 ATTATAGCTCTATTC
1 ATTATAGCTCTATTC
46088790 AGTTATAATC
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:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTATAGCTCTATTCC
Found at i:46101867 original size:27 final size:28
Alignment explanation
Indices: 46101783--46101880 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
46101773 CATGAGATTG
* * *
46101783 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
46101812 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
46101840 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
46101867 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
46101881 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:46101894 original size:29 final size:27
Alignment explanation
Indices: 46101811--46101895 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 27
46101801 TAAATTGTTC
* *
46101811 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
46101839 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
46101866 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
46101895 A
1 A
46101896 TTTTTGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.45
28 22 0.43
29 6 0.12
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:46112486 original size:79 final size:81
Alignment explanation
Indices: 46112377--46112559 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
46112367 TACTCGTTCA
* *
46112377 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
46112440 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
46112457 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
46112520 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
46112536 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
46112560 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:46112559 original size:40 final size:40
Alignment explanation
Indices: 46112356--46112559 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
46112346 CGGAATTTAA
** *
46112356 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46112396 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46112436 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46112475 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46112515 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46112555 CCGGA
1 CCGGA
46112560 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46113290 original size:21 final size:22
Alignment explanation
Indices: 46113248--46113291 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46113238 ATACCACACA
*
46113248 TAATGGCATACATTTTACTAAC
1 TAATGGCATACATATTACTAAC
46113270 TAAT-GCATTACATATTA-TAAC
1 TAATGGCA-TACATATTACTAAC
46113291 T
1 T
46113292 CAATACGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (22 bp):
TAATGGCATACATATTACTAAC
Found at i:46122218 original size:79 final size:82
Alignment explanation
Indices: 46122107--46122291 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
46122097 GCTACTCGTT
* *
46122107 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
46122170 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
46122187 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
46122250 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
46122267 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46122292 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:46122291 original size:40 final size:40
Alignment explanation
Indices: 46122088--46122291 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
46122078 CGGAATTTAA
** *
46122088 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46122128 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
46122168 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
46122207 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
46122247 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
46122287 CCGGA
1 CCGGA
46122292 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:46124462 original size:39 final size:40
Alignment explanation
Indices: 46124337--46124521 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
46124327 GCTACTCGTT
*
46124337 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
46124377 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
46124417 CCAATGCCTTCGGG-CTTAGCCTGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
46124456 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
46124497 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
46124522 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:46124505 original size:79 final size:80
Alignment explanation
Indices: 46124365--46124517 Score: 186
Period size: 79 Copynumber: 1.9 Consensus size: 80
46124355 AGCCCGGTTA
* * * *
46124365 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTC-G
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACCAAAGCCTTCAG
*
46124429 GGCTTAGCCTGGAAT
66 GACTTAGCCTGGAAT
** * *
46124444 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGAATATAGTAAC-TAGCACCAAAGCCTTC
46124507 AGGACTTAGCC
64 AGGACTTAGCC
46124518 CGGACATCAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
78 3 0.05
79 46 0.74
80 13 0.21
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAATATAGTAACTAGCACCAAAGCCTTCAG
GACTTAGCCTGGAAT
Found at i:46127588 original size:21 final size:21
Alignment explanation
Indices: 46127564--46127633 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
46127554 CTCACACATC
46127564 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
* * *
46127585 ATGAGCTCAGATGTCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
46127609 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
46127630 ATGA
1 ATGA
46127634 GTTCAGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 15 0.39
22 4 0.11
23 4 0.11
24 11 0.29
25 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:46135046 original size:43 final size:42
Alignment explanation
Indices: 46134999--46135144 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 42
46134989 TCCCAGGTAT
* * *
46134999 GGTCTTACATGTTATC-ATATATCGGTGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCAATA-AT-GATGCCAATGTCCCAGACAG
* * *
46135042 GGTCTTACACGAAATCGAATAATGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATC-AATAATGATGCCAATGTCCCAGACAG
** *
46135085 GGTCTTACATGTAATCACAATACA--ATGCCAATGTCCTGGACAT
1 GGTCTTACATGTAAT--CAATA-ATGATGCCAATGTCCCAGACAG
*
46135128 GGTCTTACGTGTAATCA
1 GGTCTTACATGTAATCA
46135145 CATCTCGGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
43 74 0.85
44 6 0.07
45 5 0.06
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAATAATGATGCCAATGTCCCAGACAG
Found at i:46141225 original size:18 final size:17
Alignment explanation
Indices: 46141195--46141236 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
46141185 TTACATTTCT
*
46141195 CACATGAAAATCCATTAA
1 CACAT-AAAATCCATCAA
46141213 CACATAAACATCCATCAA
1 CACATAAA-ATCCATCAA
46141231 -ACATAA
1 CACATAA
46141237 TCTCATTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.19
Consensus pattern (17 bp):
CACATAAAATCCATCAA
Found at i:46142723 original size:43 final size:43
Alignment explanation
Indices: 46142673--46142829 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
46142663 TATCCCAAAT
* *
46142673 ATGGTCTTTCATGTTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGAC
* * *
46142716 A-GAGTCTTACACT-AAATCGA-ATAACGATGCCAATGTCCCAGAC
1 ATG-GTCTTACA-TGTAATC-ACATATCGATGCCACTGTCCCAGAC
** *
46142759 ATGGTCTTACACATAATCACA-ATCCAATGCCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCACTGTCCCAGAC
*
46142802 ATGGTCTTGCATGTAATCACATATCGAT
1 ATGGTCTTACATGTAATCACATATCGAT
46142830 AACCTAATGT
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
42 3 0.03
43 84 0.91
44 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGAC
Found at i:46145057 original size:24 final size:24
Alignment explanation
Indices: 46145022--46145071 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
46145012 CATAGCCGAA
46145022 GCTATTCCGAATCACACACTAAGT
1 GCTATTCCGAATCACACACTAAGT
* **
46145046 GCTATTCTGAATCGTACACTAAGT
1 GCTATTCCGAATCACACACTAAGT
46145070 GC
1 GC
46145072 CATATATAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (24 bp):
GCTATTCCGAATCACACACTAAGT
Found at i:46147359 original size:10 final size:10
Alignment explanation
Indices: 46147344--46147383 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
46147334 TCGTCCCAAC
46147344 CTCTCATTTT
1 CTCTCATTTT
46147354 CTCTCATTTT
1 CTCTCATTTT
46147364 CT-TCAATTTTT
1 CTCTC-A-TTTT
46147375 CTCTCATTT
1 CTCTCATTT
46147384 CTTCCTCACT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 16 0.59
11 7 0.26
12 2 0.07
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (10 bp):
CTCTCATTTT
Found at i:46149210 original size:48 final size:46
Alignment explanation
Indices: 46149158--46149268 Score: 132
Period size: 47 Copynumber: 2.3 Consensus size: 46
46149148 TCTAAATTTT
* * *
46149158 AGACACAATTATGATATTTGAAGACATATTAAAATGCTGCACTAAATA
1 AGACACAATTAT-AAACTT-AAGACACATTAAAATGCTGCACTAAATA
* * *
46149206 AGACACAATTAATAAACTTAAGACACATTAAAATTCTGTATTAAATA
1 AGACACAATT-ATAAACTTAAGACACATTAAAATGCTGCACTAAATA
46149253 AGACACAATTAATAAA
1 AGACACAATT-ATAAA
46149269 ACTAAATCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
47 40 0.71
48 14 0.25
49 2 0.04
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (46 bp):
AGACACAATTATAAACTTAAGACACATTAAAATGCTGCACTAAATA
Found at i:46149236 original size:47 final size:47
Alignment explanation
Indices: 46149178--46149268 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
46149168 ATGATATTTG
*
46149178 AAGACATATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
1 AAGACACATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
* * *
46149225 AAGACACATTAAAATTCTGTATTAAATAAGACACAATTAATAAA
1 AAGACACATTAAAATGCTGCACTAAATAAGACACAATTAATAAA
46149269 ACTAAATCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (47 bp):
AAGACACATTAAAATGCTGCACTAAATAAGACACAATTAATAAACTT
Found at i:46152356 original size:24 final size:24
Alignment explanation
Indices: 46152301--46152347 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
46152291 TTTTAACTCG
46152301 TTCATTTTCACCTCAATTTTTCCT
1 TTCATTTTCACCTCAATTTTTCCT
46152325 TTCATTTTCACCTCAATTTTTCC
1 TTCATTTTCACCTCAATTTTTCC
46152348 CTTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (24 bp):
TTCATTTTCACCTCAATTTTTCCT
Found at i:46160341 original size:41 final size:41
Alignment explanation
Indices: 46160279--46160401 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
46160269 TAAAAGCCAC
* * *
46160279 CGGTGGATCCACGGTCATTAAGTAACCATGCGATCCTTAAT
1 CGGTGGATCCACGGTCGTTAAGCAACCATGCGATCCTCAAT
*
46160320 CGGTGGATCCACGGTCGTTAAGCAACCATGCGATTCTCAAT
1 CGGTGGATCCACGGTCGTTAAGCAACCATGCGATCCTCAAT
* *
46160361 CTGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGGTCGTTAAGCAACCATGCGATCCTCAAT
46160402 TTCTTCCTCT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CGGTGGATCCACGGTCGTTAAGCAACCATGCGATCCTCAAT
Found at i:46160709 original size:27 final size:27
Alignment explanation
Indices: 46160639--46160979 Score: 265
Period size: 27 Copynumber: 12.7 Consensus size: 27
46160629 TTTCACCCTA
* * * *
46160639 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
46160666 TAAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
46160693 CAAGGGTATTTTTGTAATTTTCCAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
46160720 CAAGGATATTTTAGTAATTTTCCAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * *
46160747 CATGAGTATTTTGGTAATTTTACAAAA
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * * ***
46160774 CGATGGTA-TTTCGATAATTTTACAGGT
1 CAAGGGTATTTTAG-TAATTTTACAAAC
* * *
46160801 CAAGGGTATTTCAGTAATTTTATAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
46160828 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
*
46160855 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
46160882 C-AGGGTATTTTAGTAATTTTGCTAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * **
46160908 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * **
46160935 TAAGGGTA-TTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* *
46160961 CAAAGGTATTTCAGTAATT
1 CAAGGGTATTTTAGTAATT
46160980 CTACCCTACA
Statistics
Matches: 253, Mismatches: 57, Indels: 8
0.80 0.18 0.03
Matches are distributed among these distances:
26 48 0.19
27 202 0.80
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:46160730 original size:54 final size:53
Alignment explanation
Indices: 46160639--46160971 Score: 292
Period size: 54 Copynumber: 6.2 Consensus size: 53
46160629 TTTCACCCTA
* * *
46160639 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTCAGTAATTTTGCAAAC
* * * * * *
46160693 CAAGGGTATTTTTGTAATTTTCCAAATCAAGGATATTTTAGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCAGTAATTTTGCAAAC
* * * * * ***
46160747 CATGAGTATTTTGGTAATTTTACAAAACGATGGTATTTC-GATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTAC-AAACAAGGGTATTTCAG-TAATTTTGCAAAC
** * * * ** *
46160801 CAAGGGTATTTCAGTAATTTTATAAATTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAA-CAAGGGTATTTCAGTAATTTTGCAAAC
* * * *
46160855 CAAGGGTATTTTGGTAATTTTACAAACCAGGGTATTTTAGTAATTTTGCTAAT
1 CAAGGGTATTTTGGTAATTTTACAAACAAGGGTATTTCAGTAATTTTGCAAAC
* ** *
46160908 CGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTA-TTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC-AAGGGTATTTCAGTAATTTTGCAAAC
*
46160961 CAAAGGTATTT
1 CAAGGGTATTT
46160972 CAGTAATTCT
Statistics
Matches: 220, Mismatches: 53, Indels: 13
0.77 0.19 0.05
Matches are distributed among these distances:
53 71 0.32
54 144 0.65
55 5 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (53 bp):
CAAGGGTATTTTGGTAATTTTACAAACAAGGGTATTTCAGTAATTTTGCAAAC
Found at i:46160782 original size:81 final size:80
Alignment explanation
Indices: 46160639--46160979 Score: 303
Period size: 81 Copynumber: 4.2 Consensus size: 80
46160629 TTTCACCCTA
* * * * * ** *
46160639 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGCAAACCAAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAA-TCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *
46160704 TTGTAATTTTCCAAAT
65 TCGTAATTTTACAAAT
* * * * * *
46160720 CAAGGATATTTTAGTAATTTTCCAAATCATGAGTATTTTGGTAATTTTACAAAACGATGGTA-TT
1 CAAGGGTATTTTAGTAATTTTACAAATCA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
**
46160784 TCGATAATTTTACAGGT
65 TCG-TAATTTTACAAAT
* * *
46160801 CAAGGGTATTTCAGTAATTTTATAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTAGTAATTTTACAAATCA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
46160866 TGGTAATTTTACAAA-
65 TCGTAATTTTACAAAT
* * * ** *
46160881 CCAGGGTATTTTAGTAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGTAAACTAAGGGTA--T
1 CAAGGGTATTTTAGTAATTTTACAAATC-AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
** *
46160944 TCAGTAATTTTGTAAAC
65 TC-GTAATTTTACAAAT
* *
46160961 CAAAGGTATTTCAGTAATT
1 CAAGGGTATTTTAGTAATT
46160980 CTACCCTACA
Statistics
Matches: 208, Mismatches: 46, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
78 2 0.01
79 11 0.05
80 73 0.35
81 118 0.57
82 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (80 bp):
CAAGGGTATTTTAGTAATTTTACAAATCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
CGTAATTTTACAAAT
Found at i:46161042 original size:27 final size:27
Alignment explanation
Indices: 46160965--46161044 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
46160955 GTAAACCAAA
*
46160965 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTATAGG
*
46160992 GGCATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTATAGG
* *
46161019 GGTATTTCAGTAATCCTAGCCTATAG
1 GGTATTTCAGTAATTCTACCCTATAG
46161045 ATATGAGATT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTATAGG
Found at i:46164328 original size:16 final size:16
Alignment explanation
Indices: 46164307--46164359 Score: 97
Period size: 16 Copynumber: 3.3 Consensus size: 16
46164297 ATGAATCGCT
46164307 ATTATCAATCCACATG
1 ATTATCAATCCACATG
46164323 ATTATCAATCCACATG
1 ATTATCAATCCACATG
*
46164339 ATTATCAATCCATATG
1 ATTATCAATCCACATG
46164355 ATTAT
1 ATTAT
46164360 ATTTAAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTATCAATCCACATG
Found at i:46169675 original size:6 final size:6
Alignment explanation
Indices: 46169663--46169694 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
46169653 AAGAAATATT
*
46169663 ATCAGA ATTAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
46169695 TAAGTGACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:46169739 original size:31 final size:31
Alignment explanation
Indices: 46169672--46169812 Score: 167
Period size: 31 Copynumber: 4.5 Consensus size: 31
46169662 TATCAGAATT
* * * * * *
46169672 AGAATCAGAATCAGAATCAGAATTAAGTGAC
1 AGAATCAAAATCAGAATTAGTATCAGGTAAC
* *
46169703 AGAATCATAATCAGAATTAATATCAGGTAAC
1 AGAATCAAAATCAGAATTAGTATCAGGTAAC
* * *
46169734 CGAATCAAAATCAGAATCAGTGTCAGGTAAC
1 AGAATCAAAATCAGAATTAGTATCAGGTAAC
46169765 AGAATCAAAATTC-GAATTAGTATCAGGTAAC
1 AGAATCAAAA-TCAGAATTAGTATCAGGTAAC
46169796 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
46169813 GTGAATACAA
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
30 2 0.02
31 89 0.96
32 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (31 bp):
AGAATCAAAATCAGAATTAGTATCAGGTAAC
Found at i:46169749 original size:62 final size:62
Alignment explanation
Indices: 46169672--46169812 Score: 185
Period size: 62 Copynumber: 2.3 Consensus size: 62
46169662 TATCAGAATT
* * * *
46169672 AGAATCAGAATCAGAATCAGAATTAAGTGACAGAATCATAA-TCAGAATTAATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAAGTAACAGAATCAAAATTC-GAATTAATATCAGGTAAC
* ** * *
46169734 CGAATCAAAATCAGAATCAGTGTCAGGTAACAGAATCAAAATTCGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAAGTAACAGAATCAAAATTCGAATTAATATCAGGTAAC
46169796 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
46169813 GTGAATACAA
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 66 0.97
63 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (62 bp):
AGAATCAAAATCAGAATCAGAATCAAGTAACAGAATCAAAATTCGAATTAATATCAGGTAAC
Found at i:46169961 original size:26 final size:26
Alignment explanation
Indices: 46169932--46170012 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
46169922 AGCATGGCTG
*
46169932 CCAGAACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGGCAAAGCCA
* *
46169958 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAAAGCCA
* * *
46169985 ACAGAATCAGATAATGTAGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAAAGCCA
46170012 C
1 C
46170013 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
26 11 0.24
27 29 0.64
28 5 0.11
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAAAGCCA
Found at i:46170095 original size:32 final size:31
Alignment explanation
Indices: 46170026--46170101 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
46170016 ACAGAATACG
* *
46170026 TGGCACAAAGCCATCAATAACTGTAATAACT
1 TGGCACAAAGCCATCAATAACGGTAATAAAT
* * *
46170057 TCGGCACATAGCCATCAGTGACGGTAATATAAT
1 T-GGCACAAAGCCATCAATAACGGTAATA-AAT
*
46170090 TGGCACACAGCC
1 TGGCACAAAGCC
46170102 TTCGGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 1 0.03
32 33 0.89
33 3 0.08
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (31 bp):
TGGCACAAAGCCATCAATAACGGTAATAAAT
Found at i:46170218 original size:22 final size:22
Alignment explanation
Indices: 46170170--46170228 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
46170160 GTAAATACGT
*
46170170 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
46170192 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
46170214 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
46170229 TGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:46170615 original size:27 final size:27
Alignment explanation
Indices: 46170578--46170679 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
46170568 GGTAAAAAGG
* * * *
46170578 GTAATTTTACCCCATAAGGGTATCTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
46170605 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
46170632 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
46170659 GTAATTCTATCCTACAGGGGT
1 GTAATTCTACCCTACAAGGGT
46170680 TATAACACCC
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:46172106 original size:40 final size:40
Alignment explanation
Indices: 46172058--46172324 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
46172048 GCAAACACAT
* *
46172058 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
46172098 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46172138 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46172178 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46172218 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46172258 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46172298 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
46172325 ATCCAATGTT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:46180920 original size:40 final size:40
Alignment explanation
Indices: 46180872--46181138 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
46180862 GCAAACACAT
* *
46180872 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
46180912 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46180952 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
46180992 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46181032 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46181072 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
46181112 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
46181139 ATCCAATGTT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Done.