Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 84 of 425
Found at i:24201540 original size:16 final size:16
Alignment explanation
Indices: 24201521--24201591 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
24201511 GTTTGGTTCA
*
24201521 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
24201537 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
24201553 CTGTATTTGAATAGAG
1 CTGTAATGGAATAGAG
24201569 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
24201585 CTGTAAT
1 CTGTAAT
24201592 AAGTAATTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:24202567 original size:65 final size:65
Alignment explanation
Indices: 24202463--24202585 Score: 219
Period size: 65 Copynumber: 1.9 Consensus size: 65
24202453 AAAAAAAATG
*
24202463 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAATCGTTAACAAACATA
1 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAACAAACATA
* *
24202528 ATCAAAAATTTACCTGTTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAAC
1 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAAC
24202586 TATTAGGGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (65 bp):
ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAACAAACATA
Found at i:24207012 original size:40 final size:40
Alignment explanation
Indices: 24206928--24207112 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
24206918 TCGAATGATG
* *
24206928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
24206967 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
24207008 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
24207047 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
24207086 AACCAGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
24207113 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.29
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:24207064 original size:79 final size:81
Alignment explanation
Indices: 24206928--24207110 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
24206918 TCGAATGATG
* *
24206928 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
24206992 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
24207007 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
24207069 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* * *
24207087 ACCAGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
24207111 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:24207134 original size:79 final size:77
Alignment explanation
Indices: 24206962--24207145 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 77
24206952 GTGCTAAGTG
* * *
24206962 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGG
**
24207027 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* *
24207041 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCAGGCTAAG-CCCGAA
*
24207105 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
24207120 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
24207146 TACGTGATTC
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 29 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCAGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:24209244 original size:15 final size:16
Alignment explanation
Indices: 24209226--24209255 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24209216 ATTTGATCAT
24209226 ATTTTA-TTTAATAAG
1 ATTTTATTTTAATAAG
24209241 ATTTTATTTTAATAA
1 ATTTTATTTTAATAA
24209256 ATTAATAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTATTTTAATAAG
Found at i:24210012 original size:25 final size:25
Alignment explanation
Indices: 24209958--24210013 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
24209948 TTCTTCCTAA
* * *
24209958 ATTTTAATTTTATTTAGTTATTTAT
1 ATTTTAATTTTATTGAATTATTAAT
*
24209983 TTTTTCAA-TTTATTGAATTATTAAT
1 ATTTT-AATTTTATTGAATTATTAAT
24210008 ATTTTA
1 ATTTTA
24210014 TACTAATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.88
26 2 0.08
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (25 bp):
ATTTTAATTTTATTGAATTATTAAT
Found at i:24213051 original size:42 final size:42
Alignment explanation
Indices: 24212932--24213051 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
24212922 TACCGTACCA
* * ** *
24212932 ATGCCATATCCTAGATATGGTCTTACATGTAATCTTGTATTG
1 ATGCCATATCCTAGATATGGTCTTACACGTAGTCTCATATCG
* * * *
24212974 ATTCCAATAGCCTAGTTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAGTCTCATATCG
* *
24213017 ATGCCATATCCCAGATATGGTCTCACACGTAGTCT
1 ATGCCATATCCTAGATATGGTCTTACACGTAGTCT
24213052 TAGTAACCCT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAGTCTCATATCG
Found at i:24217097 original size:17 final size:19
Alignment explanation
Indices: 24217075--24217120 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
24217065 ACATACATAC
24217075 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
24217092 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
24217111 AATACTAATT
1 AATAATAATT
24217121 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:24218635 original size:40 final size:40
Alignment explanation
Indices: 24218553--24218772 Score: 236
Period size: 40 Copynumber: 5.5 Consensus size: 40
24218543 TATTCGAATG
* *
24218553 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
24218593 ATATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
24218633 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
24218673 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * * **
24218713 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
24218752 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGAT-CCGAAG
24218773 ATACTTGGGT
Statistics
Matches: 152, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 16 0.11
40 120 0.79
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:24222683 original size:5 final size:5
Alignment explanation
Indices: 24222669--24222712 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
24222659 AAATGCTCGT
*
24222669 GAAAA AAAAA GAAAA -AAAA G-AAA GAAAA GAAAA GAAAA -AAAA GA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA GA
24222713 GCATATGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
4 12 0.35
5 22 0.65
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:24222695 original size:23 final size:23
Alignment explanation
Indices: 24222669--24222712 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
24222659 AAATGCTCGT
24222669 GAAAAAAAAAGAAAAAAAAGAAA
1 GAAAAAAAAAGAAAAAAAAGAAA
*
24222692 GAAAAGAAAAGAAAAAAAAGA
1 GAAAAAAAAAGAAAAAAAAGA
24222713 GCATATGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (23 bp):
GAAAAAAAAAGAAAAAAAAGAAA
Found at i:24222712 original size:9 final size:9
Alignment explanation
Indices: 24222671--24222710 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
24222661 ATGCTCGTGA
24222671 AAAAAAAAG
1 AAAAAAAAG
24222680 AAAAAAAAG
1 AAAAAAAAG
*
24222689 AAAGAAAAG
1 AAAAAAAAG
24222698 AAAAGAAAA-
1 AAAA-AAAAG
24222707 AAAA
1 AAAA
24222711 GAGCATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:24224314 original size:20 final size:18
Alignment explanation
Indices: 24224281--24224317 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
24224271 TGTGATGTTT
24224281 ATATGCTTAATTTAATTA
1 ATATGCTTAATTTAATTA
24224299 ATATGACTTAAATTTAATT
1 ATATG-CTT-AATTTAATT
24224318 CATGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 3 0.18
20 9 0.53
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (18 bp):
ATATGCTTAATTTAATTA
Found at i:24229069 original size:55 final size:53
Alignment explanation
Indices: 24228914--24229120 Score: 153
Period size: 53 Copynumber: 3.8 Consensus size: 53
24228904 TTTCTTTTTA
* * * *
24228914 AACTTACCAGTGCCATGTCTTGACATGGTATTACGTGATATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATG
* * * * ** *
24228967 AACTCACCATTGCCATGCCTTGGCATGGTCTTACTTGGGATCTTTGCCTTATCG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-G
** * * * * * *
24229021 TAGTTTATCAATGTCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-G
* * * * * * *
24229076 AACTTACAAATGCCATGCCTTGGCAAGGTCTTACTTGGTATCCTT
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
24229121 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 36, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
53 43 0.37
54 35 0.30
55 38 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATG
Found at i:24231680 original size:381 final size:381
Alignment explanation
Indices: 24230897--24232424 Score: 3002
Period size: 381 Copynumber: 4.0 Consensus size: 381
24230887 AAGCAGGTGC
24230897 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
1 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
24230962 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
66 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
24231027 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
131 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
24231092 TAGAAACTACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGA
196 TAGAAA-TACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGA
24231157 ATTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACAT
260 ATTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACAT
24231222 TTAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
325 TTAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
24231279 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
1 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
24231344 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
66 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
24231409 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
131 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
24231474 TAGAAATACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGAA
196 TAGAAATACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGAA
24231539 TTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACATT
261 TTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACATT
24231604 TAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
326 TAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
24231660 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
1 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
24231725 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
66 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
24231790 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
131 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
* *
24231855 TGGAAATACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTAGAA
196 TAGAAATACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGAA
24231920 TTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACATT
261 TTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACATT
24231985 TAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
326 TAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
24232041 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
1 AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
*
24232106 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAAAATATAATCC
66 AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
*
24232171 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATTAGGCAAGGTATTGAGTAGCC
131 ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
24232236 TAGAAATACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGAA
196 TAGAAATACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGAA
24232301 TTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACATT
261 TTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACATT
*
24232366 TAAATATGCCGAAATCATAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
326 TAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
24232422 AGT
1 AGT
24232425 GGGACGTGGA
Statistics
Matches: 1139, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
381 938 0.82
382 201 0.18
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (381 bp):
AGTTTGAGTGCACCAATTCAACAAGAACATTGACTAAGCTTGATGATCAAATGAGCCAATTGATG
AGCATGATGGGTGATATCAAAAGGAAAATTAGCTCAGGCATTCCCAGTAACACAGAATATAATCC
ACGAAGGGAAGGTAAAGAGCATGTGAAAGCTATAACACTCAGATCAGGCAAGGTATTGAGTAGCC
TAGAAATACCTACTCTGAAGGTGACTGTGGATAATACTGATGAACCTCAAGACAGTTCCCTGGAA
TTAGAAGATAGACTTGAATAAAAAGAGGAGAATGCACCATTGGCTGAAGTAGGAAAAGAGACATT
TAAATATGCCGAAATCACAAAAGTCTCATTTCCATCAAGATTAGAAGAAAGACAGA
Found at i:24238592 original size:40 final size:40
Alignment explanation
Indices: 24238533--24238740 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
24238523 CAATTGAATG
* * * *
24238533 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
24238573 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
24238613 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
24238653 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
24238693 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
24238733 ATATCCGG
1 ATATCCGG
24238741 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:24238671 original size:80 final size:80
Alignment explanation
Indices: 24238535--24238740 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
24238525 ATTGAATGAT
* * ** * * *
24238535 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
24238599 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
24238615 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
24238680 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
24238695 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
24238741 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:24246475 original size:40 final size:40
Alignment explanation
Indices: 24246416--24246623 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
24246406 CAATTGAATG
* * * *
24246416 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
24246456 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
24246496 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
24246536 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
24246576 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
24246616 ATATCCGG
1 ATATCCGG
24246624 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:24246554 original size:80 final size:80
Alignment explanation
Indices: 24246418--24246623 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
24246408 ATTGAATGAT
* * ** * * *
24246418 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
24246482 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
24246498 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
24246563 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
24246578 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
24246624 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:24250447 original size:24 final size:24
Alignment explanation
Indices: 24250411--24250456 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24250401 ATGATATATC
24250411 AGCTTGTAAGAGCTTACTATTTTT
1 AGCTTGTAAGAGCTTACTATTTTT
**
24250435 AGCTTGTGGGAGCTTACTATTT
1 AGCTTGTAAGAGCTTACTATTT
24250457 CAGCTCATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.43
Consensus pattern (24 bp):
AGCTTGTAAGAGCTTACTATTTTT
Found at i:24251947 original size:30 final size:30
Alignment explanation
Indices: 24251892--24252022 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
24251882 ATAGTGAATC
*
24251892 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
24251921 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
24251951 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
24251979 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
24252009 CGCACACTTAGTGC
1 CGCACACTTAGTGC
24252023 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:24252002 original size:58 final size:58
Alignment explanation
Indices: 24251891--24252022 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
24251881 TATAGTGAAT
* * * * *
24251891 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
24251950 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
24252008 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
24252023 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:24257135 original size:47 final size:46
Alignment explanation
Indices: 24257074--24257376 Score: 214
Period size: 47 Copynumber: 6.5 Consensus size: 46
24257064 GACGAGGACT
*
24257074 AGTGTAAGA-TATGTCTGGGACATGCATCAGCCAC-ATTGAGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCACGATTGAG-TAGCC
* * * *
24257120 AGCGTAAGACCATGTCTGGGACATGGCATTGGCGTA-GAGATGAGT-GCC
1 AGTGTAAGACCATGTCTGGGACAT-GCA-TCGC-CACGA-TTGAGTAGCC
* *
24257168 AGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGA-TGATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATC-GCCACGATTGA-G-TAGCC
* * * * * *
24257215 AGTGTAAG-TCGTGTCTGGGACATGCATCGACTAAG-TTGCGT-GCT
1 AGTGTAAGACCATGTCTGGGACATGCATCG-CCACGATTGAGTAGCC
* * *
24257259 AGTGTAAGA-CATGTCTAGGACATGCATCGACACGTATACTCGAG-AGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGCCACG-AT--T-GAGTAGCC
* *
24257307 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATGGAGATAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATC-GCCACGATTGAG-TAGCC
24257356 AGTGTAAGACCATGTCTGGGA
1 AGTGTAAGACCATGTCTGGGA
24257377 TATGGCAGCG
Statistics
Matches: 203, Mismatches: 28, Indels: 49
0.73 0.10 0.17
Matches are distributed among these distances:
43 2 0.01
44 31 0.15
45 4 0.02
46 18 0.09
47 62 0.31
48 30 0.15
49 41 0.20
50 11 0.05
51 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGCCACGATTGAGTAGCC
Found at i:24257139 original size:94 final size:94
Alignment explanation
Indices: 24257030--24257336 Score: 328
Period size: 94 Copynumber: 3.3 Consensus size: 94
24257020 AGAGCTAGTA
* * * *
24257030 TAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAG-GACTAGTGTAAGATATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAGATGAGTG-CTAGTGTAAGACATGTCTAGGA
*
24257094 CATGCATCAGCCAC-ATTGAGATAGCCAGCG
65 CATGCATC-GCCACGATTGAGATAGCCAGTG
* * *
24257124 TAAGACCATGTCTGGGACATGGCATTGGC-GTAGAGATGAGTGCCAGTGTAAGACATGTCTAGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCACTA-AGATGAGTGCTAGTGTAAGACATGTCTAGGA
*
24257188 CATGCATCGGCCTCGA-TGATGATAGCCAGTG
65 CATGCATC-GCCACGATTGA-GATAGCCAGTG
* * * *
24257219 TAAG-TCGTGTCTGGGACAT-GCATC-G-ACTAAGTTGCGTGCTAGTGTAAGACATGTCTAGGAC
1 TAAGACCATGTCTGGGACATGGCATCGGCACTAAGATGAGTGCTAGTGTAAGACATGTCTAGGAC
* *
24257280 ATGCATCGACACGTATACTCGAG--AGCTAGTG
66 ATGCATCGCCACG-AT--T-GAGATAGCCAGTG
24257311 TAAGACCATGTCTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
24257337 AGCCTCGATG
Statistics
Matches: 180, Mismatches: 21, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
90 4 0.02
91 37 0.21
92 14 0.08
93 19 0.11
94 88 0.49
95 18 0.10
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACTAAGATGAGTGCTAGTGTAAGACATGTCTAGGAC
ATGCATCGCCACGATTGAGATAGCCAGTG
Found at i:24259274 original size:39 final size:39
Alignment explanation
Indices: 24259156--24259338 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
24259146 TCGTTCAAAC
* * ** * **
24259156 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
24259196 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
24259236 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
24259275 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
24259314 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
24259339 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:24267084 original size:39 final size:39
Alignment explanation
Indices: 24266966--24267148 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
24266956 TCGTTCAAAC
* * ** * **
24266966 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
24267006 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
24267046 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
24267085 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
24267124 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
24267149 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:24291104 original size:52 final size:52
Alignment explanation
Indices: 24291009--24291110 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
24290999 GAAACCAATT
* * **
24291009 ACATGTATCACATCTATAATGAACTCGGACCAACTCAGCGAGCTCAGATGAC
1 ACATGTATCACATCCATAATGAACTAGGACCAACTCAAAGAGCTCAGATGAC
* *
24291061 ACATGTATCACATCCATTATGAACTAGGACCAACTCAAAGAGCTCGGATG
1 ACATGTATCACATCCATAATGAACTAGGACCAACTCAAAGAGCTCAGATG
24291111 CTCACATCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (52 bp):
ACATGTATCACATCCATAATGAACTAGGACCAACTCAAAGAGCTCAGATGAC
Found at i:24291136 original size:44 final size:45
Alignment explanation
Indices: 24291068--24291251 Score: 214
Period size: 44 Copynumber: 4.1 Consensus size: 45
24291058 GACACATGTA
*
24291068 TCACATCCATTATGAAC-TAGGACCAACTCAAAGAGCTCGGATGC-
1 TCACATCCATAATGAACTTA-GACCAACTCAAAGAGCTCGGATGCT
* *
24291112 TCACATCCATAATGAACTCAGACCAACTCAACGAGCTCGGATGCT
1 TCACATCCATAATGAACTTAGACCAACTCAAAGAGCTCGGATGCT
** * * * * *
24291157 TCACATATATCACGGACTTGGACCAACTCAATGAGCTCGGATGC-
1 TCACATCCATAATGAACTTAGACCAACTCAAAGAGCTCGGATGCT
* *
24291201 TCACATCCATAATGAACTTGGACCAACTCAACA-AGTTCGGATGCT
1 TCACATCCATAATGAACTTAGACCAACTCAA-AGAGCTCGGATGCT
24291246 TCACAT
1 TCACAT
24291252 AAATCACAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
44 75 0.64
45 43 0.36
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (45 bp):
TCACATCCATAATGAACTTAGACCAACTCAAAGAGCTCGGATGCT
Found at i:24291225 original size:89 final size:89
Alignment explanation
Indices: 24291087--24291258 Score: 290
Period size: 89 Copynumber: 1.9 Consensus size: 89
24291077 TTATGAACTA
*
24291087 GGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACGAGCTCGG
1 GGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACAAGCTCGG
*
24291152 ATGCTTCACATATATCACGGACTT
66 ATGCTTCACATAAATCACGGACTT
* ** *
24291176 GGACCAACTCAATGAGCTCGGATGCTCACATCCATAATGAACTTGGACCAACTCAACAAGTTCGG
1 GGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACAAGCTCGG
24291241 ATGCTTCACATAAATCAC
66 ATGCTTCACATAAATCAC
24291259 AAATATCAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.21
Consensus pattern (89 bp):
GGACCAACTCAAAGAGCTCGGATGCTCACATCCATAATGAACTCAGACCAACTCAACAAGCTCGG
ATGCTTCACATAAATCACGGACTT
Found at i:24291739 original size:20 final size:18
Alignment explanation
Indices: 24291702--24291752 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
24291692 CTATAGCAAC
24291702 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
24291719 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
24291739 TTACAACTTTACAA
1 TCACAA-TTTACAA
24291753 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:24294132 original size:12 final size:12
Alignment explanation
Indices: 24294115--24294149 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
24294105 CCTCACACGC
24294115 CCGTGTGCTAGG
1 CCGTGTGCTAGG
24294127 CCGTGTGCTAGG
1 CCGTGTGCTAGG
24294139 CCGTGTGCTAG
1 CCGTGTGCTAG
24294150 CATGGTCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.26, G:0.40, T:0.26
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:24294171 original size:13 final size:13
Alignment explanation
Indices: 24294153--24294192 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
24294143 GTGCTAGCAT
24294153 GGTCAAGCCACAC
1 GGTCAAGCCACAC
*
24294166 GGTCAAGCCACAT
1 GGTCAAGCCACAC
24294179 GGTCAAGCCACAC
1 GGTCAAGCCACAC
24294192 G
1 G
24294193 CCTGTGTGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.35, G:0.25, T:0.10
Consensus pattern (13 bp):
GGTCAAGCCACAC
Found at i:24296416 original size:39 final size:40
Alignment explanation
Indices: 24296318--24296498 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 40
24296308 CGAATGATGT
* * * * *
24296318 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTAATAAAC
* * * * *
24296358 CCAGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTAATAAAC
** *
24296398 CCGGGCTAA-TCCCGAAGGCCCT-GTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAAC
* ***
24296436 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATA-AAC
**
24296476 CCGGGCTTCGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
24296499 TGAGCGAGTC
Statistics
Matches: 111, Mismatches: 24, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
38 22 0.20
39 20 0.18
40 60 0.54
41 9 0.08
ACGTcount: A:0.25, C:0.26, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTAATAAAC
Found at i:24296440 original size:38 final size:39
Alignment explanation
Indices: 24296382--24296455 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 39
24296372 GAAGGCATTC
* *
24296382 GTGCGAGTTAATAAATCCGGGCTAA-TCCCGAAGGCCCT
1 GTGCAAGTTAATAAACCCGGGCTAAGTCCCGAAGGCCCT
* *
24296420 GTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGC
1 GTGCAAGTTAATAAACCCGGGCTAAGTCCCGAAGGC
24296456 ATTCGTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 21 0.68
39 10 0.32
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.20
Consensus pattern (39 bp):
GTGCAAGTTAATAAACCCGGGCTAAGTCCCGAAGGCCCT
Found at i:24298931 original size:20 final size:20
Alignment explanation
Indices: 24298906--24298946 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24298896 CTAAACTGAT
* *
24298906 AACTTAGGAAATTTTTGAAA
1 AACTTAGAAAATTTTTCAAA
24298926 AACTTAGAAAATTTTTCAAA
1 AACTTAGAAAATTTTTCAAA
24298946 A
1 A
24298947 TAAATGGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (20 bp):
AACTTAGAAAATTTTTCAAA
Found at i:24318344 original size:9 final size:10
Alignment explanation
Indices: 24318307--24318344 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
24318297 TTATGGATTT
24318307 TATAATAATAA
1 TATAA-AATAA
24318318 TACTAAAATAA
1 TA-TAAAATAA
24318329 TATAAAATAA
1 TATAAAATAA
24318339 -ATAAAA
1 TATAAAA
24318345 CTCAAGAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.23
10 8 0.31
11 9 0.35
12 3 0.12
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (10 bp):
TATAAAATAA
Found at i:24318383 original size:26 final size:26
Alignment explanation
Indices: 24318354--24318405 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24318344 ACTCAAGAGA
24318354 TAGAAGAGTAGATTAAATCAAATCTT
1 TAGAAGAGTAGATTAAATCAAATCTT
24318380 TAGAAGAGTAGATTAAATCAAATCTT
1 TAGAAGAGTAGATTAAATCAAATCTT
24318406 GATTATGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (26 bp):
TAGAAGAGTAGATTAAATCAAATCTT
Found at i:24325893 original size:1 final size:1
Alignment explanation
Indices: 24325887--24325911 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
24325877 AGTTCACATG
24325887 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
24325912 GCCCACCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24327238 original size:40 final size:40
Alignment explanation
Indices: 24327193--24327358 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
24327183 CGGAATATAA
*
24327193 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
24327233 CCGGATA-GATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
24327272 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
24327312 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
24327351 CCGGATAT
1 CCGGATAT
24327359 CATTCAATTT
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 46 0.46
40 54 0.53
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:24327257 original size:39 final size:39
Alignment explanation
Indices: 24327209--24327318 Score: 132
Period size: 39 Copynumber: 2.8 Consensus size: 39
24327199 TTAATCACGT
* *
24327209 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGA-TAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGCAACTA
* * *
24327248 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAGCAACTA
*
24327288 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
24327319 TAATTTCCAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 32 0.52
40 29 0.48
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAGCAACTA
Found at i:24328203 original size:17 final size:19
Alignment explanation
Indices: 24328180--24328225 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
24328170 AAGAAGCATG
24328180 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
24328198 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
24328216 AATCATGCTC
1 AATCATGCTC
24328226 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:24340095 original size:29 final size:29
Alignment explanation
Indices: 24340063--24340165 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
24340053 GTGACGAGAT
* *
24340063 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
24340092 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
24340121 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
24340150 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
24340166 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:24342421 original size:28 final size:28
Alignment explanation
Indices: 24342352--24342452 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
24342342 GACAAGATTG
* * * *
24342352 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
24342382 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24342410 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
24342439 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
24342453 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24350318 original size:28 final size:28
Alignment explanation
Indices: 24350249--24350349 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
24350239 GACAAGATTG
* * * *
24350249 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
24350279 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24350307 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
24350336 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
24350350 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24354724 original size:24 final size:24
Alignment explanation
Indices: 24354692--24354740 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
24354682 TCAAGGGACA
24354692 TATATGAGCTCATAACAATAAAAT
1 TATATGAGCTCATAACAATAAAAT
*
24354716 TATATGAGCTCATAACAATAGAAT
1 TATATGAGCTCATAACAATAAAAT
24354740 T
1 T
24354741 GCCATATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (24 bp):
TATATGAGCTCATAACAATAAAAT
Found at i:24355164 original size:25 final size:23
Alignment explanation
Indices: 24355136--24355189 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
24355126 ACTTCCAGAT
* *
24355136 AGCCATATATCGAGAAGTTCAAGCG
1 AGCCATAT-T-GAGAAGCTCAAGAG
*
24355161 AGCCATATTGGGAAGCTCAAGAG
1 AGCCATATTGAGAAGCTCAAGAG
24355184 AGCCAT
1 AGCCAT
24355190 TAATTAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
24 1 0.04
25 8 0.31
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (23 bp):
AGCCATATTGAGAAGCTCAAGAG
Found at i:24355204 original size:25 final size:25
Alignment explanation
Indices: 24355109--24355231 Score: 85
Period size: 25 Copynumber: 4.9 Consensus size: 25
24355099 GTGGCTCCGA
*
24355109 AGAGCCATTAATTAGGAA-CTTCCAG
1 AGAGCCATTAATTAGGAAGC-TCAAG
* * *
24355134 ATAGCCA-T-ATATCGAGAAGTTCAAG
1 AGAGCCATTAAT-TAG-GAAGCTCAAG
* *
24355159 CGAGCCA-T-ATTGGGAAGCTCAAG
1 AGAGCCATTAATTAGGAAGCTCAAG
*
24355182 AGAGCCATTAATTAGGAAGCTCATGAA
1 AGAGCCATTAATTAGGAAGCTCA--AG
* *
24355209 AGAGCCTTTAATTGGGAAGCTCA
1 AGAGCCATTAATTAGGAAGCTCA
24355232 CAAAGAGACA
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
23 17 0.22
24 6 0.08
25 33 0.42
27 22 0.28
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (25 bp):
AGAGCCATTAATTAGGAAGCTCAAG
Found at i:24355247 original size:27 final size:24
Alignment explanation
Indices: 24355167--24355247 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 24
24355157 AGCGAGCCAT
*
24355167 ATTGGGAAGCTCAAGAGAGCCATTA
1 ATTGGGAAGCTCAAAAGAG-CATTA
* *
24355192 ATTAGGAAGCTCATGAAAGAGCCTTTA
1 ATTGGGAAGCTCA--AAAGAG-CATTA
24355219 ATTGGGAAGCTCACAAAGAGACATATA
1 ATTGGGAAGCTCA-AAAGAG-CAT-TA
24355246 AT
1 AT
24355248 GGGGTGCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 12 0.26
26 8 0.17
27 26 0.57
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (24 bp):
ATTGGGAAGCTCAAAAGAGCATTA
Found at i:24355342 original size:24 final size:25
Alignment explanation
Indices: 24355305--24355360 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
24355295 CAACCAGTCA
* * *
24355305 GGATGCTCCGAAGAGCTAT-TAATG
1 GGATGCTCCGAAGAACCATATAACG
24355329 GGATGCT-CGCAAGAACCATATAACG
1 GGATGCTCCG-AAGAACCATATAACG
24355354 GGATGCT
1 GGATGCT
24355361 TGAGAGGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.52
25 11 0.41
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (25 bp):
GGATGCTCCGAAGAACCATATAACG
Found at i:24359592 original size:41 final size:43
Alignment explanation
Indices: 24359454--24359610 Score: 178
Period size: 44 Copynumber: 3.7 Consensus size: 43
24359444 CATAGGATTC
* *
24359454 CGATATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
* * * *
24359497 CGATTTGTGATTTACGTGTAAGGCCATGTTTGGGAC-GTCAGCAT
1 CGATATGTGA-TTACGTGTAAGACCATGTCTGGGACAGT-GGCAT
* * *
24359541 TG-TATTTGATT-CGTGTAAGACCTTGTCT-GGACAGTGGCAT
1 CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
*
24359581 CGATATGTGATTACATGTAAGACCATGTCT
1 CGATATGTGATTACGTGTAAGACCATGTCT
24359611 AGAACTTTGG
Statistics
Matches: 92, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
40 9 0.10
41 24 0.26
42 17 0.18
43 15 0.16
44 27 0.29
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:24364317 original size:47 final size:47
Alignment explanation
Indices: 24364245--24364611 Score: 518
Period size: 47 Copynumber: 7.8 Consensus size: 47
24364235 GATAATTGTG
* * *
24364245 ATGTGAATTCATGCATTTGTGTGATAAGGCCGAATGGCCAATGTGGTGA
1 ATGTGAA--CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
24364294 ATATGAACATGTATTTATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
24364341 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
24364388 ATATGAACATGCATATATGTGATAAGGCCGAATGGCCTATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
24364435 ATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATAA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
24364482 ATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * *
24364529 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
24364576 ATATGAAAATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGC
24364612 TAGTGTGAAA
Statistics
Matches: 286, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 280 0.98
49 6 0.02
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:24364387 original size:25 final size:25
Alignment explanation
Indices: 24364312--24364387 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
24364302 ATGTATTTAT
24364312 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
24364337 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
24364359 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
24364384 GTGA
1 GTGA
24364388 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:24364575 original size:25 final size:25
Alignment explanation
Indices: 24364500--24364575 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
24364490 ATGCATATAT
24364500 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
24364525 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
24364547 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
24364572 GTGA
1 GTGA
24364576 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:24364619 original size:94 final size:94
Alignment explanation
Indices: 24364254--24364611 Score: 581
Period size: 94 Copynumber: 3.8 Consensus size: 94
24364244 GATGTGAATT
* * *
24364254 CATGCATTTGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATTTATGTGATAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
24364319 GGCCGAATGGCCAATGTGATGAATGTGAG
66 GGCCGAATGGCCAATGTGATGAATGTGAG
24364348 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
* *
24364413 GGCCGAATGGCCTATGTGATGAATGTGAA
66 GGCCGAATGGCCAATGTGATGAATGTGAG
* * * * * * *
24364442 CATGTATATATGTGATGAGGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGATAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
24364507 GGCCGAATGGCCAATGTGATGAATGTGAG
66 GGCCGAATGGCCAATGTGATGAATGTGAG
* *
24364536 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAAATGCATATATGTGGTAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
*
24364601 AGCCGAATGGC
66 GGCCGAATGGC
24364612 TAGTGTGAAA
Statistics
Matches: 240, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 240 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (94 bp):
CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAA
GGCCGAATGGCCAATGTGATGAATGTGAG
Found at i:24364619 original size:141 final size:141
Alignment explanation
Indices: 24364254--24364611 Score: 572
Period size: 141 Copynumber: 2.5 Consensus size: 141
24364244 GATGTGAATT
* *
24364254 CATGCATTTGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATTTATGTGATAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
* *
24364319 GGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTG
66 GGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTG
*
24364384 GTGAATATGAA
131 ATGAATATGAA
* * * * *
24364395 CATGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGTATATATGTGATGA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
24364460 GGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTG
66 GGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTG
* *
24364525 ATGAATGTGAG
131 ATGAATATGAA
* * *
24364536 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAAATGCATATATGTGGTAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
*
24364601 AGCCGAATGGC
66 GGCCGAATGGC
24364612 TAGTGTGAAA
Statistics
Matches: 196, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
141 196 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (141 bp):
CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
GGCCGAATGGCCAATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTG
ATGAATATGAA
Found at i:24364666 original size:141 final size:140
Alignment explanation
Indices: 24364254--24364653 Score: 456
Period size: 141 Copynumber: 2.8 Consensus size: 140
24364244 GATGTGAATT
* *
24364254 CATGCATTTGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATTTATGTGATAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
* * * *
24364319 GGCCGAATGGCCAATGTGATGAATGT-GAG-CA-TGCATATGTGTGATAAGGCCGAATGGCCAAT
66 GGCCGAATGGCCAATGTGATAAATGTAGAGTGATTGCGTATAT-TG-T--GGCCGAATGGCCAAT
*
24364381 GTGGTGAATATGAA
127 GTGATGAATATGAA
* * * * *
24364395 CATGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACATGTATATATGTGATGA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
* *
24364460 GGCCGAATGGCCAATGTGATAAATGT-GAG-CA-TGCATATATGTGATAAGGCCGAATGGCCAAT
66 GGCCGAATGGCCAATGTGATAAATGTAGAGTGATTGCGTATAT-TG-T--GGCCGAATGGCCAAT
* *
24364522 GTGATGAATGTGAG
127 GTGATGAATATGAA
* * *
24364536 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAAAATGCATATATGTGGTAA
1 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
* * *
24364601 AGCCGAATGGCTAGTGTGA-AATATGTAG-GTGATGTGCGTATATTGTGGCCGAA
66 GGCCGAATGGCCAATGTGATAA-ATGTAGAGTGAT-TGCGTATATTGTGGCCGAA
24364654 CTACCAAATG
Statistics
Matches: 229, Mismatches: 25, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
140 9 0.04
141 207 0.90
142 3 0.01
143 2 0.01
144 8 0.03
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.28
Consensus pattern (140 bp):
CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAA
GGCCGAATGGCCAATGTGATAAATGTAGAGTGATTGCGTATATTGTGGCCGAATGGCCAATGTGA
TGAATATGAA
Found at i:24364888 original size:37 final size:37
Alignment explanation
Indices: 24364774--24364881 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
24364764 GGAAATATAT
24364774 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
24364811 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
24364848 TCCGGG-ATAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTA-AGACCCGATGACTACGTGTGGAGATT
24364882 ACGTCCGAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
36 1 0.02
37 65 0.98
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:24366444 original size:17 final size:16
Alignment explanation
Indices: 24366424--24366478 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
24366414 TATTATCCAT
24366424 TATATTATTTTTATTA
1 TATATTATTTTTATTA
24366440 T-TA-TATATTTTACTTA
1 TATATTAT-TTTTA-TTA
*
24366456 TAAATTATATTTTATTA
1 TATATTAT-TTTTATTA
24366473 TATATT
1 TATATT
24366479 TTATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 3 0.09
15 7 0.21
16 5 0.15
17 9 0.27
18 9 0.27
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTATTTTTATTA
Found at i:24366457 original size:30 final size:28
Alignment explanation
Indices: 24366422--24366497 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 28
24366412 CTTATTATCC
24366422 ATTATATTATTTTTATTATTATATATTTT
1 ATTATATTATTTTT-TTATTATATATTTT
*
24366451 ACTTATAAATTA-TATTTTATTATATATTTT
1 A-TTAT--ATTATTTTTTTATTATATATTTT
24366481 ATATATATATATTTTTT
1 AT-TATAT-TATTTTTT
24366498 ATTTTCTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
28 2 0.05
29 4 0.10
30 26 0.67
31 3 0.08
32 4 0.10
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (28 bp):
ATTATATTATTTTTTTATTATATATTTT
Found at i:24366478 original size:12 final size:13
Alignment explanation
Indices: 24366461--24366490 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
24366451 ACTTATAAAT
24366461 TATATTTTAT-TA
1 TATATTTTATATA
24366473 TATATTTTATATA
1 TATATTTTATATA
24366486 TATAT
1 TATAT
24366491 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATTTTATATA
Found at i:24366491 original size:17 final size:16
Alignment explanation
Indices: 24366422--24366499 Score: 73
Period size: 14 Copynumber: 5.3 Consensus size: 16
24366412 CTTATTATCC
24366422 ATTATAT-TAT-TTTT
1 ATTATATATATATTTT
24366436 ATTAT-TATATATTTT
1 ATTATATATATATTTT
* *
24366451 ACTTATAAAT-TATATT
1 A-TTATATATATATTTT
24366467 -TTAT-TATATATTTT
1 ATTATATATATATTTT
24366481 A-TATATATATATTTT
1 ATTATATATATATTTT
24366496 -TTAT
1 ATTAT
24366500 TTTCTGTAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
13 3 0.06
14 20 0.38
15 18 0.35
16 9 0.17
17 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATATATATATTTT
Found at i:24366647 original size:17 final size:17
Alignment explanation
Indices: 24366625--24366657 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24366615 TATTTTATTT
24366625 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
24366642 ATATTTTATTATATAT
1 ATATTTTATTACATAT
24366658 TATTCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:24366712 original size:14 final size:12
Alignment explanation
Indices: 24366613--24366726 Score: 67
Period size: 12 Copynumber: 9.1 Consensus size: 12
24366603 TTTATTTCAT
24366613 TATATTTTATT-
1 TATATTTTATTA
24366624 TATATTTTATTACATA
1 TATATTTTA-T---TA
24366640 TCATATTTTATTA
1 T-ATATTTTATTA
*
24366653 TATATTATTCCTTA
1 TATATT-TT-ATTA
24366667 TAGTA-TTT-TT-
1 TA-TATTTTATTA
*
24366677 TCT-TTTTATTA
1 TATATTTTATTA
*
24366688 TATATTATATTA
1 TATATTTTATTA
24366700 TATACTTCTTATTA
1 TATA-TT-TTATTA
*
24366714 TATATTTTTTTA
1 TATATTTTATTA
24366726 T
1 T
24366727 TACTTATCAT
Statistics
Matches: 82, Mismatches: 6, Indels: 29
0.70 0.05 0.25
Matches are distributed among these distances:
9 4 0.05
10 3 0.04
11 13 0.16
12 23 0.28
13 11 0.13
14 15 0.18
15 3 0.04
16 2 0.02
17 8 0.10
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:24366726 original size:26 final size:25
Alignment explanation
Indices: 24366682--24366731 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
24366672 TTTTTTCTTT
24366682 TTATTATATATTATATTATATACTTC
1 TTATTATATATTATATTAT-TACTTC
* *
24366708 TTATTATATATTTTTTTATTACTT
1 TTATTATATATTATATTATTACTT
24366732 ATCATATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTATATATTATATTATTACTTC
Found at i:24379049 original size:44 final size:44
Alignment explanation
Indices: 24378992--24379075 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
24378982 GATCCAAGAT
24378992 GATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGAA
1 GATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGAA
* * *
24379036 GATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGAT
1 GATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAAGAT
24379076 GATATTTGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (44 bp):
GATTTGACATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGAA
Found at i:24379440 original size:27 final size:30
Alignment explanation
Indices: 24379407--24379471 Score: 93
Period size: 28 Copynumber: 2.3 Consensus size: 30
24379397 AACATATGGT
*
24379407 TTATATATTTTTATTTCAT-T-ATATTTTA
1 TTATATATTTTTATTACATATCATATTTTA
24379435 TT-TATA-TTTTATTACATATCATATTTTA
1 TTATATATTTTTATTACATATCATATTTTA
24379463 TTATATATT
1 TTATATATT
24379472 ATTCCTTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 10 0.31
27 5 0.16
28 12 0.38
29 4 0.12
30 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (30 bp):
TTATATATTTTTATTACATATCATATTTTA
Found at i:24379460 original size:17 final size:17
Alignment explanation
Indices: 24379438--24379470 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24379428 TATTTTATTT
24379438 ATATTTTATTACATATC
1 ATATTTTATTACATATC
*
24379455 ATATTTTATTATATAT
1 ATATTTTATTACATAT
24379471 TATTCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTTTATTACATATC
Found at i:24379526 original size:14 final size:12
Alignment explanation
Indices: 24379407--24379540 Score: 78
Period size: 12 Copynumber: 10.3 Consensus size: 12
24379397 AACATATGGT
24379407 TTATATATTTTTA
1 TTATATA-TTTTA
24379420 TTTCATTATATTTTA
1 -TT-A-TATATTTTA
24379435 TT-TATATTTTA
1 TTATATATTTTA
24379446 TTACATATCATATTTTA
1 -T---TAT-ATATTTTA
*
24379463 TTATATATTATTCC
1 TTATATATT-TT-A
24379477 TTATAGTATTTT-
1 TTATA-TATTTTA
*
24379489 TT-TCT-TTTTA
1 TTATATATTTTA
*
24379499 TTATATATTATA
1 TTATATATTTTA
24379511 TTATATACTTCTTA
1 TTATATA-TT-TTA
*
24379525 TTATATATTTTT
1 TTATATATTTTA
24379537 TTAT
1 TTAT
24379541 TACTTATCAT
Statistics
Matches: 98, Mismatches: 6, Indels: 34
0.71 0.04 0.25
Matches are distributed among these distances:
9 4 0.04
10 3 0.03
11 12 0.12
12 25 0.26
13 9 0.09
14 20 0.20
15 11 0.11
16 6 0.06
17 8 0.08
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:24379540 original size:26 final size:25
Alignment explanation
Indices: 24379496--24379545 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
24379486 TTTTTTCTTT
24379496 TTATTATATATTATATTATATACTTC
1 TTATTATATATTATATTAT-TACTTC
* *
24379522 TTATTATATATTTTTTTATTACTT
1 TTATTATATATTATATTATTACTT
24379546 ATCATATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTATATATTATATTATTACTTC
Found at i:24383170 original size:29 final size:29
Alignment explanation
Indices: 24383134--24383196 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
24383124 GATTACTCCA
24383134 TGAG-TAAGTGATTTGGTATTATGGACAT
1 TGAGATAAGTGATTTGGTATTATGGACAT
24383162 TGAGATAAGTGATTTGGTATTATGGACAT
1 TGAGATAAGTGATTTGGTATTATGGACAT
24383191 TGAGAT
1 TGAGAT
24383197 CAATGTTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.30, C:0.03, G:0.29, T:0.38
Consensus pattern (29 bp):
TGAGATAAGTGATTTGGTATTATGGACAT
Found at i:24383640 original size:48 final size:48
Alignment explanation
Indices: 24383584--24383725 Score: 284
Period size: 48 Copynumber: 3.0 Consensus size: 48
24383574 GACCCAAGGG
24383584 GTAAGTCAATGAGAAGAATGAGTAAGAGATTATGTTATGAGTTGATGC
1 GTAAGTCAATGAGAAGAATGAGTAAGAGATTATGTTATGAGTTGATGC
24383632 GTAAGTCAATGAGAAGAATGAGTAAGAGATTATGTTATGAGTTGATGC
1 GTAAGTCAATGAGAAGAATGAGTAAGAGATTATGTTATGAGTTGATGC
24383680 GTAAGTCAATGAGAAGAATGAGTAAGAGATTATGTTATGAGTTGAT
1 GTAAGTCAATGAGAAGAATGAGTAAGAGATTATGTTATGAGTTGAT
24383726 ACAGGTATGT
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.30
Consensus pattern (48 bp):
GTAAGTCAATGAGAAGAATGAGTAAGAGATTATGTTATGAGTTGATGC
Found at i:24384945 original size:31 final size:31
Alignment explanation
Indices: 24384910--24385004 Score: 145
Period size: 31 Copynumber: 3.1 Consensus size: 31
24384900 CATGGGCGTC
*
24384910 TGTGACCACACGGCCTACCTACACGGGCGTG
1 TGTGACCACACGGCCTACCTACACGGACGTG
* **
24384941 TGTGACCACACAGCCTACCTACACGGATTTG
1 TGTGACCACACGGCCTACCTACACGGACGTG
*
24384972 TGTGACCACACGGGCTACCTACACGGACGTG
1 TGTGACCACACGGCCTACCTACACGGACGTG
24385003 TG
1 TG
24385005 ACCCTGTTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.22, C:0.33, G:0.26, T:0.19
Consensus pattern (31 bp):
TGTGACCACACGGCCTACCTACACGGACGTG
Found at i:24388026 original size:43 final size:43
Alignment explanation
Indices: 24387978--24388060 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
24387968 ACAGCCATCA
* *
24387978 CATCCACAATGAACTCGGACCACTCAACGAGCTCGGATGCTCG
1 CATCCACAATGAACTCAGACCACCCAACGAGCTCGGATGCTCG
* * *
24388021 CATCCATAATGAGCTTAGACCACCCAACGAGCTCGGATGC
1 CATCCACAATGAACTCAGACCACCCAACGAGCTCGGATGC
24388061 CACATATCTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (43 bp):
CATCCACAATGAACTCAGACCACCCAACGAGCTCGGATGCTCG
Found at i:24389547 original size:29 final size:30
Alignment explanation
Indices: 24389504--24389583 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
24389494 GGGATGTTAC
*
24389504 AATCAAATTATGAAAAGGGATGGTGACGAT
1 AATCAAATAATGAAAAGGGATGGTGACGAT
* *
24389534 AATC-AATAATGAAAAGTGATGGTGACGAC
1 AATCAAATAATGAAAAGGGATGGTGACGAT
* *
24389563 CATCGAAAT-ATTAAAAGGGAT
1 AATC-AAATAATGAAAAGGGAT
24389584 AGCTTCCACT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 25 0.60
30 14 0.33
31 3 0.07
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (30 bp):
AATCAAATAATGAAAAGGGATGGTGACGAT
Found at i:24389613 original size:30 final size:30
Alignment explanation
Indices: 24389579--24389644 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
24389569 AATATTAAAA
*
24389579 GGGATAGCTTCCACTATCAAATTATGAAAT
1 GGGATAGCTTCCACTATCAAATTATGAAAG
*
24389609 GGGATAGCTTCTACTATCAAATTATGAAAG
1 GGGATAGCTTCCACTATCAAATTATGAAAG
24389639 GGGATA
1 GGGATA
24389645 TGTTAACCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (30 bp):
GGGATAGCTTCCACTATCAAATTATGAAAG
Found at i:24392226 original size:12 final size:12
Alignment explanation
Indices: 24392193--24392231 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
24392183 TCTAAATGAA
24392193 TTCATTTCACATT
1 TTCATTTC-CATT
* *
24392206 TCCAATTCCATT
1 TTCATTTCCATT
24392218 TTCATTTCCATT
1 TTCATTTCCATT
24392230 TT
1 TT
24392232 GTGAAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.54
Consensus pattern (12 bp):
TTCATTTCCATT
Found at i:24398650 original size:29 final size:29
Alignment explanation
Indices: 24398566--24398664 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 29
24398556 CGATCACGTG
** * *
24398566 CACTTAGTGCCATGTGATTT-AAGCCCACA
1 CACTTAGTGCCAT-ACATTTCAAGCTCGCA
* * * * *
24398595 CACATAGTGCCATATAGTCCAAACTCGCA
1 CACTTAGTGCCATACATTTCAAGCTCGCA
24398624 CACTTAGTGCCATACATTTCAAGCTCGCA
1 CACTTAGTGCCATACATTTCAAGCTCGCA
* *
24398653 AACTCAGTGCCA
1 CACTTAGTGCCA
24398665 ATCTCGTCAC
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
28 2 0.04
29 52 0.96
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (29 bp):
CACTTAGTGCCATACATTTCAAGCTCGCA
Found at i:24398707 original size:43 final size:43
Alignment explanation
Indices: 24398660--24398749 Score: 171
Period size: 43 Copynumber: 2.1 Consensus size: 43
24398650 GCAAACTCAG
24398660 TGCCAATCTCGTCACCGTACACATTTACTTCTCGCACACTTAA
1 TGCCAATCTCGTCACCGTACACATTTACTTCTCGCACACTTAA
*
24398703 TGCCAATCTCGTCACCGTACACATTTACTTCTCGCACACTTAG
1 TGCCAATCTCGTCACCGTACACATTTACTTCTCGCACACTTAA
24398746 TGCC
1 TGCC
24398750 GAAAGCAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.23, C:0.36, G:0.11, T:0.30
Consensus pattern (43 bp):
TGCCAATCTCGTCACCGTACACATTTACTTCTCGCACACTTAA
Found at i:24401139 original size:76 final size:75
Alignment explanation
Indices: 24400965--24401174 Score: 188
Period size: 76 Copynumber: 2.7 Consensus size: 75
24400955 TAGGGAAAAT
* * * * * * *
24400965 CAGTCATTTTACCTTACAGGGGTATTACAATCATTTTACCTTATAGGGGTATTACAGTCATTTTA
1 CAGTCATTTTACCCTATAGGGATATTTCAGTCATTTTACCCTAT-GGGGTATT----TCA-GTTA
24401030 TCCTACAGGGGTATTA
60 TCCTACAGGGGTATTA
* * *
24401046 CAGTTATTTTACCCTATAGGGATATTAT-AGTCATTTTGCCGTATAGGGGTATTTCAGTTATCCT
1 CAGTCATTTTACCCTATAGGGATATT-TCAGTCATTTTACCCTAT-GGGGTATTTCAGTTATCCT
** *
24401110 ATGGGGGTATTT
64 ACAGGGGTATTA
* * * *
24401122 CGGTCATTTTATCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGTATTT
1 CAGTCATTTTACCCTATAGGGATATTTCAGTCATTTTACCCTATGGGGTATTT
24401175 TGGTCATTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
75 10 0.09
76 51 0.47
77 3 0.03
81 44 0.41
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (75 bp):
CAGTCATTTTACCCTATAGGGATATTTCAGTCATTTTACCCTATGGGGTATTTCAGTTATCCTAC
AGGGGTATTA
Found at i:24401252 original size:156 final size:157
Alignment explanation
Indices: 24400967--24401254 Score: 359
Period size: 156 Copynumber: 1.8 Consensus size: 157
24400957 GGGAAAATCA
*
24400967 GTCATTTTACCTTACAGGGGTATTACAATCATTTTACCTTATAGGGGTATTACAGTCATTTTATC
1 GTCATTTTACCTTACAGGGGTATTACAATCATTTTACCCTATAGGGGTATTACAGTCATTTTATC
* * *
24401032 CTACAGGGGTATTACAGTTATTTTACCCTATAGGGATATTATAGTCATTTTGCCGTATAGGGGTA
66 CTACAGGGGTATTACAGTAATTTTACCCTATAGGGATATTATAGTCATTTTACCCTATAGGGGTA
24401097 TTTCAGTTATCCTATGGGGGTATTTCG
131 TTTCAGTTATCCTATGGGGGTATTTCG
* * ** ***
24401124 GTCATTTTATCC-TATAGGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTTGGTCATTTTA-
1 GTCATTTTA-CCTTACAGGGGTATTACAATCATTTTACCCTATAGGGGTATTACAGTCATTTTAT
* ** * * * *
24401186 CCGTA-TGAGGGTATTTTAGTAATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGG
65 CC-TACAG-GGGTATTACAGTAATTTTACCCTATAGGGATATTATAGTCATTTTACCCTATAGGG
24401250 GTATT
128 GTATT
24401255 GTGGTCATTA
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
155 3 0.03
156 71 0.65
157 34 0.31
158 2 0.02
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (157 bp):
GTCATTTTACCTTACAGGGGTATTACAATCATTTTACCCTATAGGGGTATTACAGTCATTTTATC
CTACAGGGGTATTACAGTAATTTTACCCTATAGGGATATTATAGTCATTTTACCCTATAGGGGTA
TTTCAGTTATCCTATGGGGGTATTTCG
Found at i:24401259 original size:27 final size:27
Alignment explanation
Indices: 24400966--24401263 Score: 245
Period size: 27 Copynumber: 11.3 Consensus size: 27
24400956 AGGGAAAATC
* * *
24400966 AGTCATTTTACCTTACAGGGGTATTAC
1 AGTCATTTTACCCTATAGGGGTATTAT
* * *
24400993 AATCATTTTACCTTATAGGGGTATTAC
1 AGTCATTTTACCCTATAGGGGTATTAT
* * *
24401020 AGTCATTTTATCCTACAGGGGTATTAC
1 AGTCATTTTACCCTATAGGGGTATTAT
* *
24401047 AGTTATTTTACCCTATAGGGATATTAT
1 AGTCATTTTACCCTATAGGGGTATTAT
* *
24401074 AGTCATTTTGCCGTATAGGGGTA-T-T
1 AGTCATTTTACCCTATAGGGGTATTAT
* * *
24401099 --TCA-GTTATCCTATGGGGGTATT-T
1 AGTCATTTTACCCTATAGGGGTATTAT
* *
24401122 CGGTCATTTTATCCTATAGGGGTATT-T
1 -AGTCATTTTACCCTATAGGGGTATTAT
* *
24401149 CGGTCATTTTACCCTAT-GGGGTATTTT
1 -AGTCATTTTACCCTATAGGGGTATTAT
* * *
24401176 GGTCATTTTACCGTAT-GAGGGTATTTT
1 AGTCATTTTACCCTATAG-GGGTATTAT
* * *
24401203 AGTAATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATAGGGGTATTAT
* *
24401230 GGTCATTTTACCCTATAGGGGTATTGT
1 AGTCATTTTACCCTATAGGGGTATTAT
*
24401257 GGTCATT
1 AGTCATT
24401264 ATTTCATCCC
Statistics
Matches: 232, Mismatches: 31, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
22 12 0.05
23 5 0.02
25 1 0.00
26 28 0.12
27 185 0.80
28 1 0.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (27 bp):
AGTCATTTTACCCTATAGGGGTATTAT
Found at i:24404002 original size:19 final size:19
Alignment explanation
Indices: 24403978--24404021 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
24403968 TAGAGAAAGA
24403978 AAGGAATCAGATTTAGATC
1 AAGGAATCAGATTTAGATC
*
24403997 AAGGAATCGGATTTAGATC
1 AAGGAATCAGATTTAGATC
24404016 AAGGAA
1 AAGGAA
24404022 AATTGAAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (19 bp):
AAGGAATCAGATTTAGATC
Found at i:24404289 original size:40 final size:40
Alignment explanation
Indices: 24404182--24404321 Score: 122
Period size: 40 Copynumber: 3.4 Consensus size: 40
24404172 CTACGATGTT
* * *
24404182 TGGCACTTAGTGTGC-ATTTCGAGATAGCTTCGGCTATATA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGG-TTTATA
* * ** * *
24404222 TAGCACTTAGTGTGCGA-ATTAAAATAGCTTTGGTTTATA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTTATA
* *
24404261 TGGCACTAAGTGTGCGATACCGAGATAGCTTCAGTTTGATGTGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTT-A--T-A
24404305 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
24404322 GTTCTTAAAG
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
39 20 0.25
40 38 0.48
41 2 0.03
43 1 0.01
44 18 0.23
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (40 bp):
TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTTATA
Found at i:24405377 original size:13 final size:13
Alignment explanation
Indices: 24405359--24405384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24405349 TTTTGAAAGG
24405359 CACACGGGCTAGA
1 CACACGGGCTAGA
24405372 CACACGGGCTAGA
1 CACACGGGCTAGA
24405385 TTTGTGGTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.31, T:0.08
Consensus pattern (13 bp):
CACACGGGCTAGA
Found at i:24406840 original size:20 final size:20
Alignment explanation
Indices: 24406815--24406852 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24406805 CAATATGAAA
24406815 TTCTCAATCAAAATTAAACT
1 TTCTCAATCAAAATTAAACT
24406835 TTCTCAATCAAAATTAAA
1 TTCTCAATCAAAATTAAA
24406853 TTCACATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (20 bp):
TTCTCAATCAAAATTAAACT
Found at i:24414828 original size:20 final size:20
Alignment explanation
Indices: 24414805--24414853 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
24414795 GTGGTCCAAG
24414805 GGACACGCCTATGTGACCTA
1 GGACACGCCTATGTGACCTA
*
24414825 GGACACGCCTGTGTGACCTA
1 GGACACGCCTATGTGACCTA
24414845 GGACACGCC
1 GGACACGCC
24414854 CGTACTAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (20 bp):
GGACACGCCTATGTGACCTA
Found at i:24422719 original size:27 final size:27
Alignment explanation
Indices: 24422696--24423004 Score: 183
Period size: 27 Copynumber: 11.4 Consensus size: 27
24422686 AGAATTACTG
24422696 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* * * *
24422723 AAATA-CCGTCGATTAGCAAACTTACCA
1 AAATACCCTTGGTTTA-CAAAATTACCA
* * * * *
24422750 AAATACCCCTAGTTTATAAAATTATCG
1 AAATACCCTTGGTTTACAAAATTACCA
** * * *
24422777 AAATACCCACGACTTT-TAAAATTAACA
1 AAATACCCTTG-GTTTACAAAATTACCA
** **
24422804 AAATACCCTTAATTTTTAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
* * * * *
24422831 AAATACCCCTGATTTAGAAAATTATCG
1 AAATACCCTTGGTTTACAAAATTACCA
* ** *
24422858 AAATACCCTTGATTTGGAAAATTACAA
1 AAATACCCTTGGTTTACAAAATTACCA
* * *
24422885 AAATACCCCTGATTTACAAAATTACAA
1 AAATACCCTTGGTTTACAAAATTACCA
* * *
24422912 AAATACCCTTGACTTTTA-AAAATTGCTA
1 AAATACCCTTG--GTTTACAAAATTACCA
* * * *
24422940 AAATACCATTGGTTTGCAATATTACCG
1 AAATACCCTTGGTTTACAAAATTACCA
** * *
24422967 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTTGGTTTACAAAATTACCA
*
24422994 AAACACCCTTG
1 AAATACCCTTG
24423005 TAGGGTGAAA
Statistics
Matches: 221, Mismatches: 54, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
26 13 0.06
27 176 0.80
28 28 0.13
29 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTACCA
Found at i:24422829 original size:81 final size:81
Alignment explanation
Indices: 24422739--24422919 Score: 224
Period size: 81 Copynumber: 2.2 Consensus size: 81
24422729 CGTCGATTAG
* * *
24422739 CAAACTTACCAAAATACCCCT-AGTTTATAAAATTATCGAAATACCCACGACTTT-TAAAATTA-
1 CAAAATTACCAAAATACCCCTGA-TTTAGAAAATTATCGAAATACCCACGA-TTTGGAAAATTAC
* *
24422801 ACAAAATACCCTTAATTTT
64 A-AAAATACCCCTAATTTA
* **
24422820 TAAAATTACCAAAATACCCCTGATTTAGAAAATTATCGAAATACCCTTGATTTGGAAAATTACAA
1 CAAAATTACCAAAATACCCCTGATTTAGAAAATTATCGAAATACCCACGATTTGGAAAATTACAA
*
24422885 AAATACCCCTGATTTA
66 AAATACCCCTAATTTA
*
24422901 CAAAATTACAAAAATACCC
1 CAAAATTACCAAAATACCC
24422920 TTGACTTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 3 0.03
81 81 0.94
82 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.29
Consensus pattern (81 bp):
CAAAATTACCAAAATACCCCTGATTTAGAAAATTATCGAAATACCCACGATTTGGAAAATTACAA
AAATACCCCTAATTTA
Found at i:24423304 original size:41 final size:41
Alignment explanation
Indices: 24423242--24423364 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
24423232 GGAGGAAGAA
* *
24423242 ATTGAGGATCGCATGGCTGCTTGACAACCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
* *
24423283 ATTGAGGATCGCATAGTTGCTTGACGACTGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
* * * *
24423324 GTTAAGGATCACATGGTTGCTTGACGACCGTGTATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
24423365 GTGGGTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
Found at i:24426202 original size:41 final size:41
Alignment explanation
Indices: 24426157--24426319 Score: 263
Period size: 41 Copynumber: 4.0 Consensus size: 41
24426147 CGGAGGAAGA
* *
24426157 AATTGAGGATCGCATGGTTGCTTAATGATCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
24426198 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
* * *
24426239 GATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAGC
1 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
* *
24426280 GATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCAC
1 AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCAC
24426320 TAGTGGGTTT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 114 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACC
Found at i:24431476 original size:137 final size:136
Alignment explanation
Indices: 24431230--24431515 Score: 491
Period size: 137 Copynumber: 2.1 Consensus size: 136
24431220 CATTGGCCCT
** *
24431230 AAGCCCATTCAGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
*
24431295 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
24431360 CATATGC
130 CATATGC
* * *
24431367 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
1 AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
*
24431432 AGCTCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
24431497 ATATGC
131 ATATGC
24431503 AAGCCCATTTGGG
1 AAGCCCATTTGGG
24431516 GAGACTACTC
Statistics
Matches: 141, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
136 22 0.16
137 119 0.84
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGCAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:24433350 original size:25 final size:26
Alignment explanation
Indices: 24433266--24433374 Score: 148
Period size: 26 Copynumber: 4.2 Consensus size: 26
24433256 CATGAATTTC
*
24433266 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
*
24433292 TTACCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
24433318 TTATCATGGAATATTTACCTAA-TCA
1 TTATCATGAAACATTTACCTAACCCA
* *
24433343 TTATCATGGAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
24433369 TTATCA
1 TTATCA
24433375 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24433366 original size:51 final size:52
Alignment explanation
Indices: 24433266--24433374 Score: 157
Period size: 51 Copynumber: 2.1 Consensus size: 52
24433256 CATGAATTTC
24433266 TTATCATGAAACATTTACCTAAACCATTACCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCATTACCATGAAACATTTACCTAACCCA
* * * * * *
24433318 TTATCATGGAATATTTACCT-AATCATTATCATGGAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAAACCATTACCATGAAACATTTACCTAACCCA
24433369 TTATCA
1 TTATCA
24433375 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 33 0.65
52 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.34
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAAACCATTACCATGAAACATTTACCTAACCCA
Found at i:24438260 original size:12 final size:12
Alignment explanation
Indices: 24438243--24438285 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
24438233 AGTACTACCT
24438243 CGGCCTCGACCA
1 CGGCCTCGACCA
24438255 CGGCCTCGACCA
1 CGGCCTCGACCA
24438267 CGGCCTCGACCA
1 CGGCCTCGACCA
24438279 CGGCCTC
1 CGGCCTC
24438286 TTCCCCGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.14, C:0.51, G:0.26, T:0.09
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:24439792 original size:137 final size:136
Alignment explanation
Indices: 24439546--24439831 Score: 482
Period size: 137 Copynumber: 2.1 Consensus size: 136
24439536 CATTGGGCCT
** *
24439546 AAGCCCATTCAGGCAACAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGCAACAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
*
24439611 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
24439676 CATATGC
130 CATATGC
* * * *
24439683 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGAGCCTT
1 AAGCCCATTTGGGCAACAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
*
24439748 AGCTCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
24439813 ATATGC
131 ATATGC
24439819 AAGCCCATTTGGG
1 AAGCCCATTTGGG
24439832 GAGACTACTC
Statistics
Matches: 140, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
136 22 0.16
137 118 0.84
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGCAACAGTGATACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGAGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:24441598 original size:14 final size:14
Alignment explanation
Indices: 24441581--24441625 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
24441571 CATGAATTTC
24441581 TTACCATGAAACAT
1 TTACCATGAAACAT
24441595 TTACC-T-AAACCA-
1 TTACCATGAAA-CAT
*
24441607 TTATCATGAAACAT
1 TTACCATGAAACAT
24441621 TTACC
1 TTACC
24441626 TAACCCATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 7 0.28
13 6 0.24
14 12 0.48
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (14 bp):
TTACCATGAAACAT
Found at i:24441621 original size:26 final size:26
Alignment explanation
Indices: 24441585--24441690 Score: 158
Period size: 26 Copynumber: 4.1 Consensus size: 26
24441575 AATTTCTTAC
*
24441585 CATGAAACATTTACCTAAACCATTAT
1 CATGAAACATTTACCTAACCCATTAT
24441611 CATGAAACATTTACCTAACCCATTAT
1 CATGAAACATTTACCTAACCCATTAT
* * *
24441637 CATGGAATATTTACCTAATCCATTAT
1 CATGAAACATTTACCTAACCCATTAT
* *
24441663 CATGGAATATTTACCTAACCCATTAT
1 CATGAAACATTTACCTAACCCATTAT
24441689 CA
1 CA
24441691 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
CATGAAACATTTACCTAACCCATTAT
Found at i:24442278 original size:40 final size:40
Alignment explanation
Indices: 24442200--24442403 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
24442190 CGGAATTTAA
* ** *
24442200 CCGGATATAACCACAAGCAC-AATTGCCTTTGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
* *
24442240 CCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
24442280 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
24442320 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
24442360 CCGGATATAACCACTAGCA-AAATTGCCTTCGGGACTTAGC
1 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
24442400 CCGG
1 CCGG
24442404 TTATCATTCA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 146 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:24442334 original size:80 final size:80
Alignment explanation
Indices: 24442200--24442403 Score: 320
Period size: 80 Copynumber: 2.5 Consensus size: 80
24442190 CGGAATTTAA
* * * *
24442200 CCGGATATAACCACAAGCACAATTGCCTTTGGGTCTTAGCCCGGGTATAGCAACTCGCACGAATG
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
24442265 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAGC
* *
24442280 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAAT
1 CCGGATATAACCACTAGCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAAT
24442344 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAGC
* *
24442360 CCGGATATAACCACTAGCAAAATTGCCTTCGGGACTTAGCCCGG
1 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAGCCCGG
24442404 TTATCATTCA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 2 0.02
80 108 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (80 bp):
CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATG
CCTTCGGGTCTTAGC
Found at i:24448697 original size:39 final size:39
Alignment explanation
Indices: 24448626--24448777 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
24448616 GAATGTTCGA
*
24448626 GTGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
24448664 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
24448703 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
24448742 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
24448778 GGTTACCATA
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
38 17 0.16
39 71 0.68
40 17 0.16
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:24448793 original size:40 final size:39
Alignment explanation
Indices: 24448627--24448807 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
24448617 AATGTTCGAG
* *
24448627 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
24448665 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
24448704 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
24448743 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
24448783 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
24448808 TGTTTTGAAC
Statistics
Matches: 127, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
38 16 0.13
39 71 0.56
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:24456764 original size:39 final size:39
Alignment explanation
Indices: 24456710--24456823 Score: 192
Period size: 39 Copynumber: 2.9 Consensus size: 39
24456700 GAATGTTCGA
24456710 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
*
24456749 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
* *
24456788 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
24456824 GGTTACCATA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 54 0.76
40 17 0.24
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
Found at i:24456839 original size:40 final size:40
Alignment explanation
Indices: 24456717--24456853 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 40
24456707 CGAGTGATAT
* *** *
24456717 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
24456756 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
24456795 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
24456835 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
24456854 TGTTTTGAAC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 47 0.54
40 40 0.46
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:24459539 original size:22 final size:20
Alignment explanation
Indices: 24459505--24459558 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
24459495 CTGTGTGGTC
*
24459505 ACACACGCCTGTGTTGCTTGGG
1 ACACAC-CC-GTGTGGCTTGGG
24459527 ACACACCCGTGTGGCTTGGG
1 ACACACCCGTGTGGCTTGGG
*
24459547 ACACTCCCGTGT
1 ACACACCCGTGT
24459559 CCTCATCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 22 0.73
21 2 0.07
22 6 0.20
ACGTcount: A:0.15, C:0.31, G:0.30, T:0.24
Consensus pattern (20 bp):
ACACACCCGTGTGGCTTGGG
Found at i:24460962 original size:48 final size:46
Alignment explanation
Indices: 24460819--24460999 Score: 156
Period size: 48 Copynumber: 3.9 Consensus size: 46
24460809 CACATAGTAA
*
24460819 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC-AGA-
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAATAT
* * * * * * *
24460863 GAT-CGAA-GTCGATAGCCCAGCTATGGTCTTACACGATG-TCTCATAT
1 GATGCCAATG-CCATATCCCAGATATGGTCTTACATG-GGATC-AATAT
*
24460909 CGATGCCAATGCCATATCCTAGATATGGTCTTACATGGGATCAAATATT
1 -GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATC-AATA-T
* * * *
24460958 GATGCCAATGCCATGTCTCAAACATGGTCTTACATGGGATCA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCA
24461000 CACATAACCC
Statistics
Matches: 106, Mismatches: 21, Indels: 17
0.74 0.15 0.12
Matches are distributed among these distances:
42 1 0.01
43 27 0.25
44 4 0.04
45 2 0.02
47 5 0.05
48 65 0.61
49 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (46 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCAATAT
Found at i:24467630 original size:44 final size:43
Alignment explanation
Indices: 24467556--24467774 Score: 199
Period size: 43 Copynumber: 5.1 Consensus size: 43
24467546 CAAAAAATTG
* * *
24467556 GCGGCGTTTATTTAAAAAA-CACCGCTAAAAGCCATGACTTTTA
1 GCGGCGTTT-GTTAAAAAAGCACCGCTAAAAGTCATGGCTTTTA
* * * *
24467599 GCGGCGTTTGTAAAAAAAAGCGCCGCTAAAAGTAATGACTTTTA
1 GCGGCGTTTGT-TAAAAAAGCACCGCTAAAAGTCATGGCTTTTA
* * **
24467643 GAGGCATTT-TTAAAAAAGTGCCGCTAAAAGTCATGGCTTTTA
1 GCGGCGTTTGTTAAAAAAGCACCGCTAAAAGTCATGGCTTTTA
** *** * *
24467685 GTAGCGTTTGTTGGGAAAGCACCGGTAAAAGCCATGGCTTTTA
1 GCGGCGTTTGTTAAAAAAGCACCGCTAAAAGTCATGGCTTTTA
* ** * *
24467728 ACGGCGTTTGTGCAAAAAGCACCGCTGAAAGTCACGGCTTTTA
1 GCGGCGTTTGTTAAAAAAGCACCGCTAAAAGTCATGGCTTTTA
24467771 GCGG
1 GCGG
24467775 TGCTTTCACT
Statistics
Matches: 140, Mismatches: 33, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
42 35 0.25
43 77 0.55
44 28 0.20
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
GCGGCGTTTGTTAAAAAAGCACCGCTAAAAGTCATGGCTTTTA
Found at i:24467671 original size:42 final size:44
Alignment explanation
Indices: 24467569--24467685 Score: 141
Period size: 42 Copynumber: 2.7 Consensus size: 44
24467559 GCGTTTATTT
* * * *
24467569 AAAAAA-CACCGCTAAAAGCCATGACTTTTAGCGGCGTTTGTAA
1 AAAAAAGCGCCGCTAAAAGTCATGACTTTTAGAGGCATTTGTAA
* *
24467612 AAAAAAGCGCCGCTAAAAGTAATGACTTTTAGAGGCATTT-T-T
1 AAAAAAGCGCCGCTAAAAGTCATGACTTTTAGAGGCATTTGTAA
* *
24467654 AAAAAAGTGCCGCTAAAAGTCATGGCTTTTAG
1 AAAAAAGCGCCGCTAAAAGTCATGACTTTTAG
24467686 TAGCGTTTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 29 0.45
43 7 0.11
44 28 0.44
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.26
Consensus pattern (44 bp):
AAAAAAGCGCCGCTAAAAGTCATGACTTTTAGAGGCATTTGTAA
Found at i:24467797 original size:18 final size:18
Alignment explanation
Indices: 24467765--24467799 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24467755 AAAGTCACGG
* *
24467765 CTTTTAGCGGTGCTTTCA
1 CTTTTAGCAGCGCTTTCA
24467783 CTTTTAGCAGCGCTTTC
1 CTTTTAGCAGCGCTTTC
24467800 CCACAAACGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.26, G:0.20, T:0.43
Consensus pattern (18 bp):
CTTTTAGCAGCGCTTTCA
Found at i:24467904 original size:31 final size:31
Alignment explanation
Indices: 24467869--24467935 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
24467859 CTTCCTGTAT
*
24467869 TAAAATCCAACCAAATACAGAAAATATAGCA
1 TAAAATCCAACCAAAAACAGAAAATATAGCA
* * * *
24467900 TAAAATGCAGCCAAAAACAGTAAATTTAGCA
1 TAAAATCCAACCAAAAACAGAAAATATAGCA
24467931 TAAAA
1 TAAAA
24467936 AAGTACAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.57, C:0.16, G:0.09, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAGAAAATATAGCA
Found at i:24468655 original size:13 final size:14
Alignment explanation
Indices: 24468630--24468658 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24468620 TGATGAATTG
24468630 AATTAAACAATTAT
1 AATTAAACAATTAT
24468644 AATTAAAC-ATTAT
1 AATTAAACAATTAT
24468657 AA
1 AA
24468659 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:24473782 original size:9 final size:9
Alignment explanation
Indices: 24473730--24474044 Score: 95
Period size: 9 Copynumber: 36.1 Consensus size: 9
24473720 TATGTATTAC
24473730 GTAAGTTAAT
1 GTAAGTT-AT
*
24473740 -TAAGTTTT
1 GTAAGTTAT
* *
24473748 GTAACTTTT
1 GTAAGTTAT
* *
24473757 ATAAGTTTT
1 GTAAGTTAT
24473766 GTAAGTTAT
1 GTAAGTTAT
24473775 GTAAGTTAT
1 GTAAGTTAT
* * *
24473784 AATATGATAT
1 -GTAAGTTAT
* *
24473794 -AAATTTAT
1 GTAAGTTAT
*
24473802 GTAAGGTAT
1 GTAAGTTAT
24473811 GTAAGTTAT
1 GTAAGTTAT
*
24473820 GTAAATTAT
1 GTAAGTTAT
* **
24473829 GATATGAAAT
1 G-TAAGTTAT
* *
24473839 AT-ATTTAT
1 GTAAGTTAT
* *
24473847 -TTA-TTAC
1 GTAAGTTAT
24473854 GTAAGTTAT
1 GTAAGTTAT
24473863 GTAAGTTAT
1 GTAAGTTAT
* *
24473872 AT-ATTTAT
1 GTAAGTTAT
24473880 GT-A-TTAT
1 GTAAGTTAT
* *
24473887 GTATGTTTT
1 GTAAGTTAT
*
24473896 GTAAATTAT
1 GTAAGTTAT
24473905 GTAAGTTAT
1 GTAAGTTAT
* *
24473914 GATATGATAT
1 G-TAAGTTAT
* *
24473924 -AAATTTAT
1 GTAAGTTAT
**
24473932 GTAAGGAAT
1 GTAAGTTAT
24473941 GTAAGTTAT
1 GTAAGTTAT
*
24473950 GTAAATTAT
1 GTAAGTTAT
* *
24473959 G-ATA-TCAA
1 GTA-AGTTAT
* *
24473967 ATATATTTAT
1 GTA-AGTTAT
* *
24473977 -TTA-TTAC
1 GTAAGTTAT
24473984 GTAAGTTAT
1 GTAAGTTAT
24473993 GTAAGTTAT
1 GTAAGTTAT
* *
24474002 AT-ATTTAT
1 GTAAGTTAT
24474010 GT-A-TTAT
1 GTAAGTTAT
*
24474017 GTAAGTTTT
1 GTAAGTTAT
*
24474026 GTAAGTTTT
1 GTAAGTTAT
24474035 GTAAGTTAT
1 GTAAGTTAT
24474044 G
1 G
24474045 ATATGATATT
Statistics
Matches: 221, Mismatches: 66, Indels: 37
0.68 0.20 0.11
Matches are distributed among these distances:
7 19 0.09
8 35 0.16
9 149 0.67
10 18 0.08
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:24473874 original size:33 final size:33
Alignment explanation
Indices: 24473837--24473904 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
24473827 ATGATATGAA
* *
24473837 ATATATTTATTTATTACGTAAGTTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAATT
* * *
24473870 ATATATTTATGTATTATGTATGTTTTGTAAATT
1 ATATATTTATGTATTACGTAAGTTATGTAAATT
24473903 AT
1 AT
24473905 GTAAGTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (33 bp):
ATATATTTATGTATTACGTAAGTTATGTAAATT
Found at i:24473914 original size:85 final size:88
Alignment explanation
Indices: 24473766--24473931 Score: 221
Period size: 85 Copynumber: 1.9 Consensus size: 88
24473756 TATAAGTTTT
*
24473766 GTAAGTTATGTAAGTTATAATATGATATAAATTTATGTAAGGTATGTAAGTTATGTAAATTATGA
1 GTAAGTTATGTAAGTTATAATATGATATAAATTTATGTAAGGTATGTAAATTATGTAAATTATGA
*
24473831 TATGAAATATATTTATTTATTAC
66 TATGAAATAAATTTATTTATTAC
* ** * * * *
24473854 GTAAGTTATGTAAGTTAT-ATAT-TTATGTA-TTATGTATGTTTTGTAAATTATGTAAGTTATGA
1 GTAAGTTATGTAAGTTATAATATGATATAAATTTATGTAAGGTATGTAAATTATGTAAATTATGA
*
24473916 TATGATATAAATTTAT
66 TATGAAATAAATTTAT
24473932 GTAAGGAATG
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 42 0.62
86 4 0.06
87 4 0.06
88 18 0.26
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (88 bp):
GTAAGTTATGTAAGTTATAATATGATATAAATTTATGTAAGGTATGTAAATTATGTAAATTATGA
TATGAAATAAATTTATTTATTAC
Found at i:24474004 original size:33 final size:33
Alignment explanation
Indices: 24473967--24474032 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
24473957 ATGATATCAA
*
24473967 ATATATTTATTTATTACGTAAGTTATGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
* *
24474000 ATATATTTATGTATTATGTAAGTTTTGTAAGTT
1 ATATATTTATGTATTACGTAAGTTATGTAAGTT
24474033 TTGTAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (33 bp):
ATATATTTATGTATTACGTAAGTTATGTAAGTT
Found at i:24474060 original size:130 final size:130
Alignment explanation
Indices: 24473758--24474053 Score: 538
Period size: 130 Copynumber: 2.3 Consensus size: 130
24473748 GTAACTTTTA
* *
24473758 TAAGTTTTGTAAGTTATGTAAGTTATAATATGATATAAATTTATGTAAGGTATGTAAGTTATGTA
1 TAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATGTA
*
24473823 AATTATGATATGAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATGTATTATG
66 AATTATGATATCAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATGTATTATG
* *
24473888 TATGTTTTGTAAATTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATGTA
1 TAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATGTA
24473953 AATTATGATATCAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATGTATTATG
66 AATTATGATATCAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATGTATTATG
*
24474018 TAAGTTTTGTAAGTTTTGTAAGTTATGATATGATAT
1 TAAGTTTTGTAAGTTATGTAAGTTATGATATGATAT
24474054 TTATTTAACA
Statistics
Matches: 158, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 158 1.00
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (130 bp):
TAAGTTTTGTAAGTTATGTAAGTTATGATATGATATAAATTTATGTAAGGAATGTAAGTTATGTA
AATTATGATATCAAATATATTTATTTATTACGTAAGTTATGTAAGTTATATATTTATGTATTATG
Found at i:24477437 original size:18 final size:18
Alignment explanation
Indices: 24477403--24477437 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
24477393 TATATTTATT
*
24477403 TAATATATAATTTAAAAA
1 TAATATATAATTAAAAAA
24477421 TAATATA-AATTAAAAAA
1 TAATATATAATTAAAAAA
24477438 CAATCAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATATATAATTAAAAAA
Found at i:24477850 original size:36 final size:36
Alignment explanation
Indices: 24477791--24477881 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
24477781 CATAACTCAT
* *
24477791 AACCCCTAACCCTATAACCCCTATCCCATACCCTTTA
1 AACCCCAAACCATA-AACCCCTATCCCATACCCTTTA
24477828 AACCCCAAACCATAAACCCCTATCCCATACCCTTTA
1 AACCCCAAACCATAAACCCCTATCCCATACCCTTTA
24477864 AACCCCAAACCATAAACC
1 AACCCCAAACCATAAACC
24477882 TCTAAACCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
36 40 0.77
37 12 0.23
ACGTcount: A:0.36, C:0.45, G:0.00, T:0.19
Consensus pattern (36 bp):
AACCCCAAACCATAAACCCCTATCCCATACCCTTTA
Found at i:24477880 original size:7 final size:7
Alignment explanation
Indices: 24477870--24478007 Score: 55
Period size: 7 Copynumber: 18.7 Consensus size: 7
24477860 TTTAAACCCC
24477870 AAACCAT
1 AAACCAT
*
24477877 AAACCTCT
1 AAACC-AT
24477885 AAACCAT
1 AAACCAT
*
24477892 GAAACCTT
1 -AAACCAT
24477900 AAACCAT
1 AAACCAT
24477907 GATTAACCACT
1 -A--AACCA-T
24477918 -AACCACT
1 AAACCA-T
* *
24477925 AACCCCT
1 AAACCAT
*
24477932 AAACCTT
1 AAACCAT
**
24477939 AAACCCC
1 AAACCAT
* *
24477946 AACCCTT
1 AAACCAT
*
24477953 AAACCAA
1 AAACCAT
24477960 AAACCA-
1 AAACCAT
*
24477966 AAATCCCT
1 AAA-CCAT
*
24477974 AAACCTT
1 AAACCAT
*
24477981 AAAACAT
1 AAACCAT
*
24477988 TAACTCAT
1 AAAC-CAT
24477996 AAACCAT
1 AAACCAT
24478003 AAACC
1 AAACC
24478008 CCTTTCCCAT
Statistics
Matches: 98, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
6 3 0.03
7 64 0.65
8 25 0.26
10 5 0.05
11 1 0.01
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.18
Consensus pattern (7 bp):
AAACCAT
Found at i:24477881 original size:14 final size:14
Alignment explanation
Indices: 24477862--24477957 Score: 50
Period size: 15 Copynumber: 6.4 Consensus size: 14
24477852 CCATACCCTT
24477862 TAAACCCCAAACCA
1 TAAACCCCAAACCA
*
24477876 TAAACCTCTAAACCA
1 TAAACC-CCAAACCA
**
24477891 TGAAACCTTAAACCA
1 T-AAACCCCAAACCA
* *
24477906 TGATTAACCACTAACCA
1 T-A--AACCCCAAACCA
*
24477923 CT-AACCCCTAAACCT
1 -TAAACCCC-AAACCA
* *
24477938 TAAACCCCAACCCT
1 TAAACCCCAAACCA
24477952 TAAACC
1 TAAACC
24477958 AAAAACCAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
14 23 0.35
15 28 0.42
16 5 0.08
17 9 0.14
18 1 0.02
ACGTcount: A:0.43, C:0.38, G:0.02, T:0.18
Consensus pattern (14 bp):
TAAACCCCAAACCA
Done.