Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 64
Found at i:9595967 original size:17 final size:18
Alignment explanation
Indices: 9595939--9595973 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9595929 GAAAGTCAAC
9595939 GGTCACGGTCAACGGTCG
1 GGTCACGGTCAACGGTCG
*
9595957 GGTCA-GGTCAATGGTCG
1 GGTCACGGTCAACGGTCG
9595974 ATTCGGGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.20
Consensus pattern (18 bp):
GGTCACGGTCAACGGTCG
Found at i:9600427 original size:5 final size:5
Alignment explanation
Indices: 9600417--9600446 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9600407 GGAAATTTGA
9600417 AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT
9600447 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:9605085 original size:28 final size:28
Alignment explanation
Indices: 9605045--9605098 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
9605035 AGGAGTGGAT
* *
9605045 AGCTATTGAAGATAAGGTTGGAATTTGA
1 AGCTATTGAAGATAAGGCTGAAATTTGA
9605073 AGCTATTGAAGATAAGGCTGAAATTT
1 AGCTATTGAAGATAAGGCTGAAATTT
9605099 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCTATTGAAGATAAGGCTGAAATTTGA
Found at i:9613413 original size:18 final size:18
Alignment explanation
Indices: 9613390--9613439 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
9613380 GACTTTAGTA
*
9613390 AAAAAAGATGAAATAAAG
1 AAAAAAGATGAAAAAAAG
*
9613408 AAAAAAGATAAAAAAAAG
1 AAAAAAGATGAAAAAAAG
9613426 ATAAAAATGATGAA
1 A-AAAAA-GATGAA
9613440 TTTCCAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 17 0.63
19 5 0.19
20 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (18 bp):
AAAAAAGATGAAAAAAAG
Found at i:9613422 original size:11 final size:11
Alignment explanation
Indices: 9613408--9613432 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9613398 TGAAATAAAG
9613408 AAAAAAGATAA
1 AAAAAAGATAA
9613419 AAAAAAGATAA
1 AAAAAAGATAA
9613430 AAA
1 AAA
9613433 TGATGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAAAGATAA
Found at i:9619970 original size:3 final size:3
Alignment explanation
Indices: 9619962--9619996 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
9619952 TATTATCAAT
9619962 ATA ATA ATA ATA ATA ATA ATA ATAA ATA A-A ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT
9619997 TAAAACCCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9620591 original size:122 final size:122
Alignment explanation
Indices: 9620275--9620693 Score: 590
Period size: 122 Copynumber: 3.4 Consensus size: 122
9620265 CTTGAAAAAT
* *
9620275 AATCCGGAAATAATATGGTGTTGAATACGACACTGCTCATCCATGTTGAAGAGTCTTGGCCGCTT
1 AATCCGGAAATAATATGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGTCTTGGCCGCTT
9620340 TTAGATAAATTGTTTACTGAAGATGACATTGTTCCTTCTCATTGAGGAAATT-GGTC
66 TTAGATAAATTGTTTACTGAAGATGACATTGTTCCTTCTCATTGAGGAAATTGGGTC
* * * * *
9620396 AATCCGGAAATAATCTGGTATTGACGACGGCATTGCTCATCCATGTTGAAGAGTCTTGGCCACTT
1 AATCCGGAAATAATATGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGTCTTGGCCGCTT
*
9620461 TCAGATAAATTGTTTACTGAAGATGACATTGTTCCTTCTCATTGAGGAAATTGGGTC
66 TTAGATAAATTGTTTACTGAAGATGACATTGTTCCTTCTCATTGAGGAAATTGGGTC
* * * * *
9620518 AATCCAGAAATAATATGGTATTGAAGATGACACTGCTCATTCATGTTGAAGATTCTTGGCTGCTT
1 AATCCGGAAATAATATGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGTCTTGGCCGCTT
* * * * * * *
9620583 TTAAATAAATTGTTTACTGAATATGACACTGTTTCTTCTCATTAAAGAAATCGGGTC
66 TTAGATAAATTGTTTACTGAAGATGACATTGTTCCTTCTCATTGAGGAAATTGGGTC
* * * **
9620640 AATCCGAAAATAAT-CGTGTGTTGAAGACGACACTGCTCATATATGTTGAAGAGT
1 AATCCGGAAATAATATG-GTATTGAAGACGACACTGCTCATCCATGTTGAAGAGT
9620694 TCTGGCACTG
Statistics
Matches: 262, Mismatches: 34, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
121 110 0.42
122 152 0.58
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (122 bp):
AATCCGGAAATAATATGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGTCTTGGCCGCTT
TTAGATAAATTGTTTACTGAAGATGACATTGTTCCTTCTCATTGAGGAAATTGGGTC
Found at i:9623816 original size:20 final size:19
Alignment explanation
Indices: 9623740--9623808 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 19
9623730 AGTTTTCTTT
9623740 TTTCTTTTGC-TTCATTTTC
1 TTTCTTTT-CTTTCATTTTC
*
9623759 TCTTCTTTT-TTTCTTTTTC
1 T-TTCTTTTCTTTCATTTTC
*
9623778 TATT-TTATTTTTTCATTTTC
1 T-TTCTT-TTCTTTCATTTTC
9623798 TTTCATTTTCT
1 TTTC-TTTTCT
9623809 CTTCTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
18 2 0.05
19 16 0.40
20 20 0.50
21 2 0.05
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.74
Consensus pattern (19 bp):
TTTCTTTTCTTTCATTTTC
Found at i:9623819 original size:48 final size:48
Alignment explanation
Indices: 9623732--9623831 Score: 143
Period size: 48 Copynumber: 2.1 Consensus size: 48
9623722 CTTCTTTAAG
*
9623732 TTTTCTTTTTTCTTTTGCTTCATTTTCTCTTCTTTTTTTC-TTTTTCTA
1 TTTTATTTTTTCTTTTGCTTCATTTTCTCTTCTTTTTTTCATTTTT-TA
9623780 TTTTATTTTTTCATTTT-CTTTCATTTTCTCTTC-TTTTTTCATTTTTTA
1 TTTTATTTTTTC-TTTTGC-TTCATTTTCTCTTCTTTTTTTCATTTTTTA
9623828 TTTT
1 TTTT
9623832 CTTCTCAACA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
48 25 0.52
49 23 0.48
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.76
Consensus pattern (48 bp):
TTTTATTTTTTCTTTTGCTTCATTTTCTCTTCTTTTTTTCATTTTTTA
Found at i:9625413 original size:20 final size:19
Alignment explanation
Indices: 9625388--9625436 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
9625378 GTCATAAATG
9625388 AATGATAAAAGAATATAATA
1 AATGATAAAAGAATATAA-A
*
9625408 AATGAT-AAAGAATATGAA
1 AATGATAAAAGAATATAAA
9625426 AATGTATAAAA
1 AATG-ATAAAA
9625437 TGATTGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 12 0.46
20 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (19 bp):
AATGATAAAAGAATATAAA
Found at i:9628397 original size:468 final size:468
Alignment explanation
Indices: 9627521--9628459 Score: 1860
Period size: 468 Copynumber: 2.0 Consensus size: 468
9627511 TCCTAACCCA
9627521 TTTAGGCATAAATGGATCGAGTTCAATTCGAGGGAGTTCATTTCCTTATACCTATACAAGGAAAA
1 TTTAGGCATAAATGGATCGAGTTCAATTCGAGGGAGTTCATTTCCTTATACCTATACAAGGAAAA
*
9627586 AATTCCTACGAAGGTATAAGGTATGTGTAACCCAGGATTATTTGCTAAAACTCATATGAAGAATA
66 AATTCCTACGAAGGTATAAGGTATGTGTAACCCAGGATTAATTGCTAAAACTCATATGAAGAATA
9627651 AATTCTTACGAAAGTAAAGCGTTCACCCCCACTTACTTGGGATGAAACTTGGGTATAAAGCTTAT
131 AATTCTTACGAAAGTAAAGCGTTCACCCCCACTTACTTGGGATGAAACTTGGGTATAAAGCTTAT
9627716 TTTATGTAAATGCACGTGATGTGTGAGGAGAAACATACAAGCCTTTGACTAAAAAAGGAAAAGAA
196 TTTATGTAAATGCACGTGATGTGTGAGGAGAAACATACAAGCCTTTGACTAAAAAAGGAAAAGAA
9627781 AAACTCTCAACAGAAACTTTGACACATTTGAAAACAAAAGTTAAAAAATTAGTATGGCAATAAAA
261 AAACTCTCAACAGAAACTTTGACACATTTGAAAACAAAAGTTAAAAAATTAGTATGGCAATAAAA
9627846 AAGAAATTAAAACTTCAATAAATATATCTTAACCTAACAATAGACTGAAACCCATAATTTCCACC
326 AAGAAATTAAAACTTCAATAAATATATCTTAACCTAACAATAGACTGAAACCCATAATTTCCACC
9627911 ACAACGACAATATATAAGCAACTGACAACCTGACTCTCTAAAAAGTCTCCAGCAGAATCGCCGAG
391 ACAACGACAATATATAAGCAACTGACAACCTGACTCTCTAAAAAGTCTCCAGCAGAATCGCCGAG
9627976 CTGTCACAACTAT
456 CTGTCACAACTAT
9627989 TTTAGGCATAAATGGATCGAGTTCAATTCGAGGGAGTTCATTTCCTTATACCTATACAAGGAAAA
1 TTTAGGCATAAATGGATCGAGTTCAATTCGAGGGAGTTCATTTCCTTATACCTATACAAGGAAAA
*
9628054 AATTCCTACGAAGGTATAAGGTATGTGTACCCCAGGATTAATTGCTAAAACTCATATGAAGAATA
66 AATTCCTACGAAGGTATAAGGTATGTGTAACCCAGGATTAATTGCTAAAACTCATATGAAGAATA
9628119 AATTCTTACGAAAGTAAAGCGTTCACCCCCACTTACTTGGGATGAAACTTGGGTATAAAGCTTAT
131 AATTCTTACGAAAGTAAAGCGTTCACCCCCACTTACTTGGGATGAAACTTGGGTATAAAGCTTAT
9628184 TTTATGTAAATGCACGTGATGTGTGAGGAGAAACATACAAGCCTTTGACTAAAAAAGGAAAAGAA
196 TTTATGTAAATGCACGTGATGTGTGAGGAGAAACATACAAGCCTTTGACTAAAAAAGGAAAAGAA
9628249 AAACTCTCAACAGAAACTTTGACACATTTGAAAACAAAAGTTAAAAAATTAGTATGGCAATAAAA
261 AAACTCTCAACAGAAACTTTGACACATTTGAAAACAAAAGTTAAAAAATTAGTATGGCAATAAAA
9628314 AAGAAATTAAAACTTCAATAAATATATCTTAACCTAACAATAGACTGAAACCCATAATTTCCACC
326 AAGAAATTAAAACTTCAATAAATATATCTTAACCTAACAATAGACTGAAACCCATAATTTCCACC
9628379 ACAACGACAATATATAAGCAACTGACAACCTGACTCTCTAAAAAGTCTCCAGCAGAATCGCCGAG
391 ACAACGACAATATATAAGCAACTGACAACCTGACTCTCTAAAAAGTCTCCAGCAGAATCGCCGAG
9628444 CTGTCACAACTAT
456 CTGTCACAACTAT
9628457 TTT
1 TTT
9628460 TATGTCTAAA
Statistics
Matches: 469, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
468 469 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (468 bp):
TTTAGGCATAAATGGATCGAGTTCAATTCGAGGGAGTTCATTTCCTTATACCTATACAAGGAAAA
AATTCCTACGAAGGTATAAGGTATGTGTAACCCAGGATTAATTGCTAAAACTCATATGAAGAATA
AATTCTTACGAAAGTAAAGCGTTCACCCCCACTTACTTGGGATGAAACTTGGGTATAAAGCTTAT
TTTATGTAAATGCACGTGATGTGTGAGGAGAAACATACAAGCCTTTGACTAAAAAAGGAAAAGAA
AAACTCTCAACAGAAACTTTGACACATTTGAAAACAAAAGTTAAAAAATTAGTATGGCAATAAAA
AAGAAATTAAAACTTCAATAAATATATCTTAACCTAACAATAGACTGAAACCCATAATTTCCACC
ACAACGACAATATATAAGCAACTGACAACCTGACTCTCTAAAAAGTCTCCAGCAGAATCGCCGAG
CTGTCACAACTAT
Found at i:9634637 original size:245 final size:244
Alignment explanation
Indices: 9634220--9634866 Score: 881
Period size: 245 Copynumber: 2.6 Consensus size: 244
9634210 CATTGGCCGT
* * * *
9634220 AGAGGATCGTTCTCAGCCTGCCTTGTCTTGTCGGGATGGCCACACAGTTGTCTAACATACTTCCT
1 AGAGGATCATTCTCAGCCTGCCTTGTCTTGTCGGGATGGTCACGCAGTTGTCTAACAGACTTCCT
*
9634285 TTTTCATTTTTTTCTTTTTCTGATCGTTAGTTCCATTGCA-TAGACCTTTGGAACAAATTATGGG
66 TTTTCATTTTTTTCTTTTTCTGATCGTTAGTTCCATTGCATTA-TCCTTTGGAACAAATTATGGG
* * *
9634349 TGATTTTGCCTATGGTATTGTTAAAGGCAATGAGCAGATGAATGGCTTGAAACTTGAC-AAATAC
130 AGATTTTGCCTATGGTATTGTTAAAGGCAATGAACACATGAATGGCTTGAAACTTG-CTAAATAC
* *
9634413 GAGTTTAGAATTTTCAATTTTATTTTTCTTAAATAAGAACTTAATTGGTT-GC
194 GAGTTTAGAATTTTCAATTTTACTCTTCTTAAATAAGAACTTAATT--TTCGC
* * * *
9634465 AGAGGATCATTCTCAGCCTGCATTGTCTTGCCGGGATGGTCACGCAGTTGTCTGACAGACTTTCT
1 AGAGGATCATTCTCAGCCTGCCTTGTCTTGTCGGGATGGTCACGCAGTTGTCTAACAGACTTCCT
*
9634530 TTTTCATTTTTTTCCTTTTT-TGATCAG-TAGTTCCATTGAATTATCCTTTGGAACAAATTATGG
66 TTTTCATTTTTTT-CTTTTTCTGATC-GTTAGTTCCATTGCATTATCCTTTGGAACAAATTATGG
* *
9634593 GAGATTTTGCCTATGGTATTGTTAAAGGTAATGAACACATGAATGGCTTGAAACTTGCTAAATAT
129 GAGATTTTGCCTATGGTATTGTTAAAGGCAATGAACACATGAATGGCTTGAAACTTGCTAAATAC
* * * * *
9634658 GAGTTTATAATTTTCAATTTTGCTCTTCTTAAATAAGGACTTCATTTTCCGT
194 GAGTTTAGAATTTTCAATTTTACTCTTCTTAAATAAGAACTTAATTTT-CGC
* * * *
9634710 AGAGGATCATTCTCAGCCTGCCTTGTCTAGTTGGGATGGTCGCGCAATTGTCTAACAGACTTCCT
1 AGAGGATCATTCTCAGCCTGCCTTGTCTTGTCGGGATGGTCACGCAGTTGTCTAACAGACTTCCT
* *** * * *
9634775 TTTTCATTTTTTTCTTTTTCTGATCGTTAATTATTTTGCATTGTCTTTTGGAAAAAAATTATGGG
66 TTTTCATTTTTTTCTTTTTCTGATCGTTAGTTCCATTGCATTATCCTTTGG-AACAAATTATGGG
*
9634840 AGATTTTGCCTATGGTATTGTTGAAGG
130 AGATTTTGCCTATGGTATTGTTAAAGG
9634867 AAATTGATGA
Statistics
Matches: 354, Mismatches: 39, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
243 2 0.01
244 8 0.02
245 297 0.84
246 47 0.13
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.40
Consensus pattern (244 bp):
AGAGGATCATTCTCAGCCTGCCTTGTCTTGTCGGGATGGTCACGCAGTTGTCTAACAGACTTCCT
TTTTCATTTTTTTCTTTTTCTGATCGTTAGTTCCATTGCATTATCCTTTGGAACAAATTATGGGA
GATTTTGCCTATGGTATTGTTAAAGGCAATGAACACATGAATGGCTTGAAACTTGCTAAATACGA
GTTTAGAATTTTCAATTTTACTCTTCTTAAATAAGAACTTAATTTTCGC
Found at i:9635394 original size:24 final size:24
Alignment explanation
Indices: 9635339--9635393 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
9635329 TATAAAGTTC
*
9635339 TTTC-TTTTCTTTTCTTTTCAAGT
1 TTTCATTTTCTTTTATTTTCAAGT
9635362 TTTCATTTTCATTTTATTTT-AAGT
1 TTTCATTTTC-TTTTATTTTCAAGT
9635386 TTT-ATTTT
1 TTTCATTTT
9635394 TAAACATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.31
24 12 0.41
25 8 0.28
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.71
Consensus pattern (24 bp):
TTTCATTTTCTTTTATTTTCAAGT
Found at i:9641924 original size:24 final size:24
Alignment explanation
Indices: 9641896--9641945 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
9641886 TATGACACGA
*
9641896 TCTGACGTGGCAGTCTCTAGAAGG
1 TCTGACGTGGCAATCTCTAGAAGG
*
9641920 TCTGACGTGGCAATTTCTAGAAGG
1 TCTGACGTGGCAATCTCTAGAAGG
9641944 TC
1 TC
9641946 CAGTCAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (24 bp):
TCTGACGTGGCAATCTCTAGAAGG
Found at i:9643821 original size:40 final size:40
Alignment explanation
Indices: 9643735--9643858 Score: 124
Period size: 41 Copynumber: 3.0 Consensus size: 40
9643725 TAATTTATCT
* ** *
9643735 ATACATTAGTGGCGTTTGTATACAAA-TTCAGCTAAAGAGTC
1 ATACTTTAGTGGCGTTT-TATACAAACGCCA-CTAAAGACTC
*
9643776 ATACTTTAGTGGCGTTTTATACAAACGCCACTATAGACTC
1 ATACTTTAGTGGCGTTTTATACAAACGCCACTAAAGACTC
* * ** *
9643816 GTACTTTTGTGGAATTTTTATACAAACGCCGCTAAAGACTC
1 ATACTTTAGTGG-CGTTTTATACAAACGCCACTAAAGACTC
9643857 AT
1 AT
9643859 TGGTGTTTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 26 0.38
41 43 0.62
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (40 bp):
ATACTTTAGTGGCGTTTTATACAAACGCCACTAAAGACTC
Found at i:9649716 original size:23 final size:23
Alignment explanation
Indices: 9649674--9649765 Score: 139
Period size: 23 Copynumber: 4.0 Consensus size: 23
9649664 CACCACAGCT
*
9649674 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
9649697 CATAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
9649720 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
9649743 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
9649766 TATAAGGTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:9651388 original size:24 final size:20
Alignment explanation
Indices: 9651331--9651408 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
9651321 TTTCCCTTGA
*
9651331 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
9651351 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
9651374 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
9651395 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
9651409 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:9654880 original size:23 final size:23
Alignment explanation
Indices: 9654854--9654922 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
9654844 CACCACAGCT
*
9654854 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
9654877 CGTAGAATTGCACCGTAGTGTCG
1 CGTAGAAATGCACCGAAGTGCCA
* *
9654900 CATAGAAATGCACCAAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
9654923 TATAAGGTTG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:9656054 original size:21 final size:19
Alignment explanation
Indices: 9656024--9656073 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
9656014 CTCAAAGATC
9656024 TATCA-CATAACTTCTCTTTA
1 TATCATCATAACTT-TC-TTA
9656044 TATTCAT-ATAA-TTTCTTA
1 TA-TCATCATAACTTTCTTA
9656062 TATCATCATAAC
1 TATCATCATAAC
9656074 ATAGCATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
17 4 0.15
18 9 0.35
19 2 0.08
20 4 0.15
21 7 0.27
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (19 bp):
TATCATCATAACTTTCTTA
Found at i:9659112 original size:43 final size:43
Alignment explanation
Indices: 9659047--9659136 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 43
9659037 ACTTCATTCA
9659047 GGTA-CATCTCTAACTGACTGCACAGAATATAGAACAATTGTT
1 GGTAGCATCTCTAACTGACTGCACAGAATATAGAACAATTGTT
9659089 GGTAGCATCTCTAACTGACTGCACAGAATATAGAACAATTGTT
1 GGTAGCATCTCTAACTGACTGCACAGAATATAGAACAATTGTT
9659132 GGTAG
1 GGTAG
9659137 TTACAGTATC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 4 0.09
43 43 0.91
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTAGCATCTCTAACTGACTGCACAGAATATAGAACAATTGTT
Found at i:9659935 original size:52 final size:54
Alignment explanation
Indices: 9659857--9659963 Score: 173
Period size: 52 Copynumber: 2.0 Consensus size: 54
9659847 TTATAATATT
* *
9659857 CTTGTGATTAGTTGTAATTCCCTAACTCTAGGCTAGTCTCCTA-TT-TATGTGC
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGTGC
*
9659909 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTTTCCTATTTCTATGTGC
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGTGC
9659963 C
1 C
9659964 CCATCTTATG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 40 0.80
53 2 0.04
54 8 0.16
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (54 bp):
CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGTGC
Found at i:9660240 original size:21 final size:21
Alignment explanation
Indices: 9660214--9660277 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
9660204 TGATTTATTA
*
9660214 TTATGGATTTAAAGTTTTTTG
1 TTATGGATTTCAAGTTTTTTG
9660235 TTATGGATTTCAAGTTTGTTT-
1 TTATGGATTTCAAGTTT-TTTG
* *
9660256 TTATGGATGTCAATTTTTTTG
1 TTATGGATTTCAAGTTTTTTG
9660277 T
1 T
9660278 ATAATGCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 3 0.08
21 32 0.84
22 3 0.08
ACGTcount: A:0.20, C:0.03, G:0.19, T:0.58
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTTTTG
Found at i:9660493 original size:44 final size:43
Alignment explanation
Indices: 9660445--9660536 Score: 121
Period size: 44 Copynumber: 2.1 Consensus size: 43
9660435 TTTTATATTC
* * * *
9660445 ACAAACATCATTATATGACATAACATTTAGCGGCATTTTTGGG
1 ACAAACACCACTATATGACAGAACATTTAGCAGCATTTTTGGG
* *
9660488 AACAAACACCACTATATGTCAGAACATTTAGCAGCGTTTTTGGG
1 -ACAAACACCACTATATGACAGAACATTTAGCAGCATTTTTGGG
9660532 ACAAA
1 ACAAA
9660537 ATGTCACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 5 0.12
44 37 0.88
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.28
Consensus pattern (43 bp):
ACAAACACCACTATATGACAGAACATTTAGCAGCATTTTTGGG
Found at i:9662179 original size:20 final size:20
Alignment explanation
Indices: 9662143--9662180 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9662133 ATCCTATTCT
**
9662143 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
9662163 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
9662181 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:9668741 original size:16 final size:16
Alignment explanation
Indices: 9668720--9668753 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9668710 TTACTATTCA
*
9668720 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
9668736 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
9668752 CG
1 CG
9668754 ATCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:9673885 original size:39 final size:38
Alignment explanation
Indices: 9673831--9673913 Score: 139
Period size: 39 Copynumber: 2.2 Consensus size: 38
9673821 ATATTCTCTC
9673831 AATTTAGTCATACTTTAAATAAATTAAAATAAATTTAA
1 AATTTAGTCATACTTTAAATAAATTAAAATAAATTTAA
* *
9673869 TAATTTAGTCCTACTTTTAATAAATTAAAATAAATTTAA
1 -AATTTAGTCATACTTTAAATAAATTAAAATAAATTTAA
9673908 AATTTA
1 AATTTA
9673914 ATAAATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 6 0.14
39 36 0.86
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (38 bp):
AATTTAGTCATACTTTAAATAAATTAAAATAAATTTAA
Found at i:9676196 original size:18 final size:17
Alignment explanation
Indices: 9676173--9676262 Score: 63
Period size: 18 Copynumber: 4.9 Consensus size: 17
9676163 TTTTGAAATT
9676173 TAATTTTTATATTCATTA
1 TAATTTTTATATT-ATTA
* *
9676191 TAATTTGTATATTATAAA
1 TAATTTTTATATTAT-TA
* *
9676209 TTAAGTTTTTAGATTAATTC
1 -TAA-TTTTTATATT-ATTA
*
9676229 CAATTCTTTATATTATTTA
1 TAATT-TTTATATTA-TTA
*
9676248 TAATTCTTATATTAT
1 TAATTTTTATATTAT
9676263 AAATTTTATT
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
17 3 0.05
18 24 0.44
19 18 0.33
20 8 0.15
21 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (17 bp):
TAATTTTTATATTATTA
Found at i:9676275 original size:13 final size:14
Alignment explanation
Indices: 9676241--9676277 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
9676231 ATTCTTTATA
9676241 TTATTTAT-AATTC
1 TTATTTATAAATTC
9676254 TTATATTATAAATT-
1 TTAT-TTATAAATTC
9676268 TTATTTATAA
1 TTATTTATAA
9676278 TCACTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:9677297 original size:15 final size:16
Alignment explanation
Indices: 9677277--9677306 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9677267 TATTTTGTTA
9677277 ATAAAAATA-AAAATC
1 ATAAAAATATAAAATC
9677292 ATAAAAATATAAAAT
1 ATAAAAATATAAAAT
9677307 AACATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAAATATAAAATC
Found at i:9677797 original size:20 final size:21
Alignment explanation
Indices: 9677763--9677817 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
9677753 GACTCTGGAT
*
9677763 TTTAGGTTATAAAATTTATAG
1 TTTAGGTTATAAAATTTAGAG
9677784 TTTAGGTT-TAAAATTTAGAG
1 TTTAGGTTATAAAATTTAGAG
9677804 TTTAGAGTGTATAA
1 TTTAG-GT-TATAA
9677818 TACGTAGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.53
21 10 0.33
22 1 0.03
23 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (21 bp):
TTTAGGTTATAAAATTTAGAG
Found at i:9679683 original size:2 final size:2
Alignment explanation
Indices: 9679676--9679702 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9679666 TGCTAGGGTG
9679676 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9679703 CAACATTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9686883 original size:36 final size:36
Alignment explanation
Indices: 9686843--9686959 Score: 117
Period size: 36 Copynumber: 3.1 Consensus size: 36
9686833 CTCAAGATTA
9686843 TTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAG
1 TTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAG
* * * * ** **
9686879 TTTTTACTCGAAACAAGAAGATTTATTTCACTCAAGATTG
1 TTTTT-CT--TAA-AACAAGATTTGTCTCACTTGAGACAG
*
9686919 TTTTTCTTAAAACAAGATTTGTCTCTCTTGAGACAG
1 TTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAG
9686955 TTTTT
1 TTTTT
9686960 AATTAAAAAA
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
36 28 0.47
37 4 0.07
39 4 0.07
40 24 0.40
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (36 bp):
TTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAG
Found at i:9686912 original size:76 final size:77
Alignment explanation
Indices: 9686785--9686960 Score: 257
Period size: 76 Copynumber: 2.3 Consensus size: 77
9686775 CAAAAAAAAA
** * * *
9686785 TTGTCTCACTTGAGATTG-TTTTACTCGAAAGAAGACATAATCATTTGACTCAAGATTATTTTTC
1 TTGTCTCACTTGAGACAGTTTTTACTCGAAACAAGACAGAATCATTTCACTCAAGATTATTTTTC
9686849 TTAAAACAAGAT
66 TTAAAACAAGAT
* * *
9686861 TTGTCTCACTTGAGACAGTTTTTACTCGAAACAAGA-AGATTTATTTCACTCAAGATTGTTTTTC
1 TTGTCTCACTTGAGACAGTTTTTACTCGAAACAAGACAGAATCATTTCACTCAAGATTATTTTTC
9686925 TTAAAACAAGAT
66 TTAAAACAAGAT
*
9686937 TTGTCTCTCTTGAGACAGTTTTTA
1 TTGTCTCACTTGAGACAGTTTTTA
9686961 ATTAAAAAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
76 74 0.82
77 16 0.18
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (77 bp):
TTGTCTCACTTGAGACAGTTTTTACTCGAAACAAGACAGAATCATTTCACTCAAGATTATTTTTC
TTAAAACAAGAT
Found at i:9687045 original size:22 final size:22
Alignment explanation
Indices: 9687020--9687084 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 22
9687010 ATCTCGCTTG
9687020 AGATAGTTTCCCTCGAAACAGA
1 AGATAGTTTCCCTCGAAACAGA
** **
9687042 AGAT--TTTGTCTCG---CTTA
1 AGATAGTTTCCCTCGAAACAGA
9687059 AGATAGTTTCCCTCGAAACAGA
1 AGATAGTTTCCCTCGAAACAGA
9687081 AGAT
1 AGAT
9687085 TTTGTCTAGC
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
17 6 0.20
19 7 0.23
20 7 0.23
22 10 0.33
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (22 bp):
AGATAGTTTCCCTCGAAACAGA
Found at i:9687054 original size:39 final size:39
Alignment explanation
Indices: 9687000--9687518 Score: 718
Period size: 39 Copynumber: 13.3 Consensus size: 39
9686990 ATTGTTTTAA
9687000 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9687039 AGAAGATTTTGTCTCGCTTAAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
9687078 AGAAGATTTTGTCTAGCTTGAGATAGTTTCCCTCGAAAT
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
9687117 AGAAGATTTTATCTCGCTTAAGATAGTGTCCCTCAAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9687156 TA-AATATTTTATCTCGCTTGAGATTA-TTTCCCTCGAAAT
1 -AGAAGATTTTATCTCGCTTGAGA-TAGTTTCCCTCGAAAC
* *
9687195 AGAAGATTTTATTTTGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9687234 AGAAGATTTTGTCTCGCTTGATATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9687273 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9687312 AGAAGATTTTGTCTCGTTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
9687351 AGAAGACTTTGTCTCGCTTGAGAAAGTTTCTCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
9687390 AGAACATTTTTTCTCGCTTGAGATAGTTTCCCTCGAAAT
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
9687429 AGAAGATTTTATCTCGCTTGAGATAGTTTCTCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * * *
9687468 AAAATACTTTATCTCGCTTGAGATAGTTTCTCTCAAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
9687507 AAAAGATTTTAT
1 AGAAGATTTTAT
9687519 AAGAAACTAA
Statistics
Matches: 428, Mismatches: 48, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
38 3 0.01
39 422 0.99
40 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.36
Consensus pattern (39 bp):
AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:9691019 original size:125 final size:125
Alignment explanation
Indices: 9690878--9691127 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 125
9690868 GAGCAATGAG
*
9690878 TTGAACAACCAATTTTTTTAACAAGTACGAGTCGAGCAAAAATTTAATGAGCTTAGCAAACAACG
1 TTGAACAACAAATTTTTTTAACAAGTACGAGTCGAGCAAAAATTTAATGAGCTTAGCAAACAACG
9690943 AATAGAGTCGAGTCGAGTCGAGCAACAAAAATTTTTAATGAGCACGAATTGAGCACTGCC
66 AATAGAGTCGAGTCGAGTCGAGCAACAAAAATTTTTAATGAGCACGAATTGAGCACTGCC
9691003 TTGAACAACAAATTTTTTTAACAAGTACGAGTCGAGCAAAAATTTAATGAGCTTAGCAAACAACG
1 TTGAACAACAAATTTTTTTAACAAGTACGAGTCGAGCAAAAATTTAATGAGCTTAGCAAACAACG
9691068 AATAGAGTCGAGTCGAGTCGAGCAACAAAAATTTTTAATGAGCACGAATTGAGCACTGCC
66 AATAGAGTCGAGTCGAGTCGAGCAACAAAAATTTTTAATGAGCACGAATTGAGCACTGCC
9691128 CAACTCACAA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (125 bp):
TTGAACAACAAATTTTTTTAACAAGTACGAGTCGAGCAAAAATTTAATGAGCTTAGCAAACAACG
AATAGAGTCGAGTCGAGTCGAGCAACAAAAATTTTTAATGAGCACGAATTGAGCACTGCC
Found at i:9693773 original size:20 final size:20
Alignment explanation
Indices: 9693737--9693774 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9693727 ATCCTATTCC
**
9693737 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
9693757 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
9693775 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:9697222 original size:107 final size:108
Alignment explanation
Indices: 9697036--9697250 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 108
9697026 TCGTTATGGA
9697036 AGAAAACGTGATCGATATCACATTTTTCCTTACCAGAGGTGATATCAAAATCAGTTGTTATCTCT
1 AGAAAACGTGATCGATATCACATTTTTCCTTACCAGAGGTGATATCAAAATCAGTTGTTATCTCT
9697101 TATTCAATTAAACACTAGCA-ATTTTGTGAATTTAACCAAGTG
66 TATTCAATTAAACACTAGCATATTTTGTGAATTTAACCAAGTG
9697143 AGAAAACGTGATCGATATCACATTTTTCCTTACCAGAGGTGATATCAAAATCAGTTGTTATCTCT
1 AGAAAACGTGATCGATATCACATTTTTCCTTACCAGAGGTGATATCAAAATCAGTTGTTATCTCT
9697208 TATTCAATTAAACACTAGCATATTTTGTGAATTTAACCAAGTG
66 TATTCAATTAAACACTAGCATATTTTGTGAATTTAACCAAGTG
9697251 TTGATCATGA
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 85 0.79
108 22 0.21
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (108 bp):
AGAAAACGTGATCGATATCACATTTTTCCTTACCAGAGGTGATATCAAAATCAGTTGTTATCTCT
TATTCAATTAAACACTAGCATATTTTGTGAATTTAACCAAGTG
Found at i:9697458 original size:54 final size:54
Alignment explanation
Indices: 9697389--9697523 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
9697379 AGCCATAGCT
* * * *
9697389 GGATGAATGTATTGTCAAATGTTTTACAAACATATGGGCAGAAGCCACACGAAA
1 GGATGAATGTGTTGTCAAATGTTTTACAAACATATGAGCAAAAACCACACGAAA
* * * * * *
9697443 GGATGAATGTGTTGTCAAATATTTTACTAGCATCTGAGCAAAAACCACATGAGA
1 GGATGAATGTGTTGTCAAATGTTTTACAAACATATGAGCAAAAACCACACGAAA
*
9697497 TGATGAATGTGTTGTCAAATGTTTTAC
1 GGATGAATGTGTTGTCAAATGTTTTAC
9697524 GAACCAGTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (54 bp):
GGATGAATGTGTTGTCAAATGTTTTACAAACATATGAGCAAAAACCACACGAAA
Found at i:9698556 original size:74 final size:74
Alignment explanation
Indices: 9698433--9698582 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 74
9698423 ATCCACAAAT
* * *
9698433 TGTTTTCAAAAAGCCTTCAGGATCTTTTTGATATTTAAAGCCTCAGGGTCATCTGTAAGACCTAC
1 TGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATAATTAAAGCCTCAGGGTCATCTCTAAGACCTAC
*
9698498 AATGCATGA
66 AATGCAAGA
* * *
9698507 TGTTTTCAAAAAGCTTTCGGGAGCTTTTTGATAATTAAAGCCTCCGGGTCATCTCTAAGACCTAC
1 TGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATAATTAAAGCCTCAGGGTCATCTCTAAGACCTAC
*
9698572 AGTGCAAGA
66 AATGCAAGA
9698581 TG
1 TG
9698583 ATAAGACCTC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (74 bp):
TGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATAATTAAAGCCTCAGGGTCATCTCTAAGACCTAC
AATGCAAGA
Found at i:9698682 original size:116 final size:116
Alignment explanation
Indices: 9698473--9698693 Score: 325
Period size: 116 Copynumber: 1.9 Consensus size: 116
9698463 ATATTTAAAG
* ** * * *
9698473 CCTCAGGGTCATCTGTAAGACCTACAATGCATGATGTTTTCAAAAAGCTTTCGGGAGCTTTTTGA
1 CCTCAGGGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGA
* *
9698538 TAATTAAAGCCTCCGGGTCATCTCTAAGACCTACAGTGCAAGATGATAAGA
66 TAATTAAAGCCTCCGGGTCACCTATAAGACCTACAGTGCAAGATGATAAGA
* *
9698589 CCTCAGGGCCATCCATAAGACCTGCACTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGA
1 CCTCAGGGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGA
* * *
9698654 TATTTAAAGCCTCCGGGTCCCCTATAAGACCTCCAGTGCA
66 TAATTAAAGCCTCCGGGTCACCTATAAGACCTACAGTGCA
9698694 GGATATTTTC
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
116 92 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (116 bp):
CCTCAGGGCCATCCATAAGACCTACAATGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGA
TAATTAAAGCCTCCGGGTCACCTATAAGACCTACAGTGCAAGATGATAAGA
Found at i:9698950 original size:116 final size:118
Alignment explanation
Indices: 9698754--9699193 Score: 645
Period size: 120 Copynumber: 3.7 Consensus size: 118
9698744 TCTTAAATCT
*
9698754 TCCAGGTCATCTGTAAGACCTACAGTGCAAGATG-AT-AATACCTCAGGGCCATCCATAAGACCT
1 TCCAGGTCATCTGTAAGACCTACAGTGCAAGATGTATCAAGACCTCAGGGCCATCCATAAGACCT
* *
9698817 ACAGTACAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCC
66 ACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCC
* *
9698870 TCCAGGTCATCTGTAAGACCTACAGTGCAAGATG-AT-AAGCCCTTAGGGCCATCCATAAGACCT
1 TCCAGGTCATCTGTAAGACCTACAGTGCAAGATGTATCAAGACCTCAGGGCCATCCATAAGACCT
*
9698933 ACAGTGCATGATGTTTTCAAAAATGCCTTCGGGAGCTTTTTGATATTTAAAGCC
66 ACAGTGCAGGATGTTTTCAAAAA-GCCTTCGGGAGCTTTTTGATATTTAAAGCC
* * *
9698987 TCCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAGACCTCAGGGCCATCCATAAGACC
1 TCCAGGTCATCTGTAAGACCTACAGTGCAAGATG-TATCAAGACCTCAGGGCCATCCATAAGACC
* * * *
9699052 TATAGTGGAGGATGTGTTCAAACAAGCCTTCGGGAGCTTTTTGATATTTCAAAGAC
65 TACAGTGCAGGATGTTTTCAAA-AAGCCTTCGGGAGCTTTTTGATATTT-AAAGCC
* * * * * *
9699108 TTCGGGTCATCTGTAAGACCTATAGCGCATGATGTTTCAAGACCTCAGGGCCATCCATAAGACCT
1 TCCAGGTCATCTGTAAGACCTACAGTGCAAGATGTATCAAGACCTCAGGGCCATCCATAAGACCT
9699173 ACAGTGCAGGATGTTTTCAAA
66 ACAGTGCAGGATGTTTTCAAA
9699194 TGATATTTTA
Statistics
Matches: 296, Mismatches: 22, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
116 81 0.27
117 61 0.21
119 1 0.00
120 115 0.39
121 38 0.13
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (118 bp):
TCCAGGTCATCTGTAAGACCTACAGTGCAAGATGTATCAAGACCTCAGGGCCATCCATAAGACCT
ACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCC
Found at i:9699466 original size:3 final size:3
Alignment explanation
Indices: 9699453--9699545 Score: 113
Period size: 3 Copynumber: 32.0 Consensus size: 3
9699443 TATTTTCAAT
* *
9699453 TTA TT- TTA TTA TTA TTA TTA TAA TTA TTA TTA ATA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* *
9699498 TTA TTA TAA GTA TTA TTA TTA TTA TTA -TA TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9699543 TTA
1 TTA
9699546 ATAAATAAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
2 8 0.10
3 66 0.86
4 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9699502 original size:34 final size:30
Alignment explanation
Indices: 9699457--9699548 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 30
9699447 TTCAATTTAT
9699457 TTTATTATTATTATTATAATTATTATTAATA
1 TTTA-TATTATTATTATAATTATTATTAATA
* *
9699488 TTATATATTATTATTATAAGTATTATTATTA
1 TT-TATATTATTATTATAATTATTATTAATA
9699519 TTATTATATTA-TATTAT-ATTATTATTAATA
1 -T-TTATATTATTATTATAATTATTATTAATA
9699549 AATAAATTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
30 11 0.20
31 32 0.59
32 10 0.19
33 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
TTTATATTATTATTATAATTATTATTAATA
Found at i:9700041 original size:21 final size:20
Alignment explanation
Indices: 9700005--9700045 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
9699995 CTGCGAAATA
*
9700005 AAGGAGAGATCGACAACAAC
1 AAGGAGAGAACGACAACAAC
9700025 AAGGAGAAGAACGACAACAAC
1 AAGGAG-AGAACGACAACAAC
9700046 GAGCACCCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.54, C:0.20, G:0.24, T:0.02
Consensus pattern (20 bp):
AAGGAGAGAACGACAACAAC
Found at i:9703378 original size:13 final size:13
Alignment explanation
Indices: 9703355--9703422 Score: 88
Period size: 13 Copynumber: 5.5 Consensus size: 13
9703345 GTCACAACCC
9703355 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
9703368 TACCTGACCCGTT
1 GACCCGACCCGTT
9703381 GACCCGACCC---
1 GACCCGACCCGTT
9703391 GACCCGACCCGTT
1 GACCCGACCCGTT
*
9703404 GACTCGACCCGTT
1 GACCCGACCCGTT
9703417 GACCCG
1 GACCCG
9703423 TTGACCGTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
10 10 0.22
13 36 0.78
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:9703391 original size:36 final size:36
Alignment explanation
Indices: 9703351--9703422 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
9703341 ACCGGTCACA
*
9703351 ACCCGACCCGACCCGTTTAC-CTGACCCGTTGACCCG
1 ACCCGACCCGACCCGTTGACTC-GACCCGTTGACCCG
9703387 ACCCGACCCGACCCGTTGACTCGACCCGTTGACCCG
1 ACCCGACCCGACCCGTTGACTCGACCCGTTGACCCG
9703423 TTGACCGTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.17, C:0.47, G:0.21, T:0.15
Consensus pattern (36 bp):
ACCCGACCCGACCCGTTGACTCGACCCGTTGACCCG
Found at i:9705451 original size:13 final size:13
Alignment explanation
Indices: 9705428--9705464 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9705418 GTCACAAACC
9705428 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
9705441 TACCTGACCCGTT
1 GACCCGACCCGTT
9705454 GACCCGACCCG
1 GACCCGACCCG
9705465 ACCCGTTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:9705464 original size:31 final size:31
Alignment explanation
Indices: 9705426--9705488 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
9705416 CGGTCACAAA
* *
9705426 CCGACCCGACCCGTTTAC-CTGACCCGTTGAC
1 CCGACCCGACCCGTTGACTC-GACCCGGTGAC
9705457 CCGACCCGACCCGTTGACTCGACCCGGTGAC
1 CCGACCCGACCCGTTGACTCGACCCGGTGAC
9705488 C
1 C
9705489 GTTGACCGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (31 bp):
CCGACCCGACCCGTTGACTCGACCCGGTGAC
Found at i:9705467 original size:18 final size:18
Alignment explanation
Indices: 9705446--9705482 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9705436 CCGTTTACCT
9705446 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
*
9705464 GACCCGTTGACTCGACCC
1 GACCCGTTGACCCGACCC
9705482 G
1 G
9705483 GTGACCGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.46, G:0.24, T:0.14
Consensus pattern (18 bp):
GACCCGTTGACCCGACCC
Found at i:9710417 original size:20 final size:21
Alignment explanation
Indices: 9710383--9710428 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
9710373 CACTCTGGAT
*
9710383 TTTAGGTTATAAAATTTATAG
1 TTTAGGTTATAAAATTTAGAG
9710404 TTTAGGTT-TAAAATTTAGAG
1 TTTAGGTTATAAAATTTAGAG
9710424 TTTAG
1 TTTAG
9710429 AGTGTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (21 bp):
TTTAGGTTATAAAATTTAGAG
Found at i:9710913 original size:64 final size:64
Alignment explanation
Indices: 9710837--9710964 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
9710827 TCGATCTCGT
*
9710837 GAACCGTCGGGTCACCCCAAGTTCGTGGAACAGAATCTTGACCGTATAATACAGGCAACATGAG
1 GAACCGTCGGGTCACCCCAAGTTCGTGGAACAGAATATTGACCGTATAATACAGGCAACATGAG
9710901 GAACCGTCGGGTCACCCCAAGTTCGTGGAACAGAATATTGACCGTATAATACAGGCAACATGAG
1 GAACCGTCGGGTCACCCCAAGTTCGTGGAACAGAATATTGACCGTATAATACAGGCAACATGAG
9710965 CTCTTGCTGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.32, C:0.24, G:0.25, T:0.19
Consensus pattern (64 bp):
GAACCGTCGGGTCACCCCAAGTTCGTGGAACAGAATATTGACCGTATAATACAGGCAACATGAG
Found at i:9712772 original size:15 final size:17
Alignment explanation
Indices: 9712747--9712778 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9712737 AAAATAATAT
9712747 ATATAATTTAT-TAAAA
1 ATATAATTTATCTAAAA
9712763 ATAT-ATTTATCTAAAA
1 ATATAATTTATCTAAAA
9712779 TATCAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTATCTAAAA
Found at i:9712943 original size:3 final size:3
Alignment explanation
Indices: 9712937--9712974 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9712927 TTATATATTT
9712937 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9712975 TAAATATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9714358 original size:6 final size:6
Alignment explanation
Indices: 9714347--9714411 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
9714337 TTTTTCCCTG
** * * *
9714347 TAATAT TAATAT TTGTAAT T-AT-T TATTAT TTAATAA TAATAA TAATAT
1 TAATAT TAATAT TAAT-AT TAATAT TAATAT -TAATAT TAATAT TAATAT
9714395 TAATAT TAATAT TAATA
1 TAATAT TAATAT TAATA
9714412 ATTATAATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 2 0.04
5 1 0.02
6 38 0.79
7 7 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (6 bp):
TAATAT
Found at i:9714383 original size:3 final size:3
Alignment explanation
Indices: 9714377--9714443 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
9714367 ATTTATTATT
* * * *
9714377 TAA TAA TAA TAA TAA TAT TAA TAT TAA TAT TAA TAA TTA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
9714424 TAA -AA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
9714444 ATCAAAAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:9714725 original size:20 final size:20
Alignment explanation
Indices: 9714702--9714763 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
9714692 TTGAACAAGC
9714702 TCTTCTCATTATGAACTTTT
1 TCTTCTCATTATGAACTTTT
**
9714722 TCTTCCTC-TTCA-G-A-TAAGT
1 TCTT-CTCATT-ATGAACT-TTT
9714741 TCTTCTCATTATGAACTTTT
1 TCTTCTCATTATGAACTTTT
9714761 TCT
1 TCT
9714764 GGAAAAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
18 5 0.16
19 9 0.29
20 12 0.39
21 5 0.16
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (20 bp):
TCTTCTCATTATGAACTTTT
Found at i:9718257 original size:24 final size:24
Alignment explanation
Indices: 9718225--9718307 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
9718215 CTTACTGGTG
9718225 ATGATTTATAGACTATGACTGATAT
1 ATGA-TTATAGACTATGACTGATAT
* ** * *
9718250 ATGATTATTGGTTTTCACTGATAT
1 ATGATTATAGACTATGACTGATAT
* * *
9718274 ATGATAACGATTACTATGACTGATAT
1 ATGATTA-TA-GACTATGACTGATAT
9718300 ATGATTAT
1 ATGATTAT
9718308 TGGTTTTCAC
Statistics
Matches: 41, Mismatches: 15, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
24 21 0.51
25 4 0.10
26 16 0.39
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (24 bp):
ATGATTATAGACTATGACTGATAT
Found at i:9718290 original size:50 final size:50
Alignment explanation
Indices: 9718236--9718336 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
9718226 TGATTTATAG
9718236 ACTATGACTGATATATGATTATTGGTTTTCACTGATATATGATAACGATT
1 ACTATGACTGATATATGATTATTGGTTTTCACTGATATATGATAACGATT
9718286 ACTATGACTGATATATGATTATTGGTTTTCACTGATATATGATAACGATT
1 ACTATGACTGATATATGATTATTGGTTTTCACTGATATATGATAACGATT
9718336 A
1 A
9718337 TTACGGATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.42
Consensus pattern (50 bp):
ACTATGACTGATATATGATTATTGGTTTTCACTGATATATGATAACGATT
Found at i:9718319 original size:24 final size:24
Alignment explanation
Indices: 9718242--9718328 Score: 104
Period size: 24 Copynumber: 3.5 Consensus size: 24
9718232 ATAGACTATG
9718242 ACTGATATATGATTATTGGTTTTC
1 ACTGATATATGATTATTGGTTTTC
** * *
9718266 ACTGATATATGA-TAACGATTACTATG
1 ACTGATATATGATTATTGGTT--T-TC
9718292 ACTGATATATGATTATTGGTTTTC
1 ACTGATATATGATTATTGGTTTTC
9718316 ACTGATATATGAT
1 ACTGATATATGAT
9718329 AACGATTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.10
24 26 0.51
25 2 0.04
26 13 0.25
27 5 0.10
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (24 bp):
ACTGATATATGATTATTGGTTTTC
Found at i:9718325 original size:26 final size:26
Alignment explanation
Indices: 9718246--9718325 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
9718236 ACTATGACTG
9718246 ATATATGATTATTGGTTTTCACTGAT
1 ATATATGATTATTGGTTTTCACTGAT
* ** ** * *
9718272 ATATGATAACGATT-ACTATGACTG--
1 ATAT-ATGATTATTGGTTTTCACTGAT
9718296 ATATATGATTATTGGTTTTCACTGAT
1 ATATATGATTATTGGTTTTCACTGAT
9718322 ATAT
1 ATAT
9718326 GATAACGATT
Statistics
Matches: 36, Mismatches: 14, Indels: 8
0.62 0.24 0.14
Matches are distributed among these distances:
23 6 0.17
24 10 0.28
26 14 0.39
27 6 0.17
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (26 bp):
ATATATGATTATTGGTTTTCACTGAT
Found at i:9719503 original size:113 final size:111
Alignment explanation
Indices: 9719363--9719653 Score: 345
Period size: 111 Copynumber: 2.6 Consensus size: 111
9719353 ATAATCATGC
* * *
9719363 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTAAACAAGATCTTCTCATTATGAACTT-TTCTTCCTCTTCAGATGAGTTCTTCTCATTA
* * * *
9719428 TGAACTTTCTCTGGAAAAGTTGATCCATCGAACGATGAATTCAAGGAA
65 TGAACTTCCTATGGAAAAGTTGATCCATCGAACAATGAATTC-ACGAA
*
9719476 AAAGGTTAAACAAGATCTTCTCATTATGAAC--TTCTTCCTTCTTCAGATGAGTTATTCTCATTA
1 AAAGGTTAAACAAGATCTTCTCATTATGAACTTTTCTTCC-TCTTCAGATGAGTTCTTCTCATTA
* * * * ** * *
9719539 TGAACTTCCTATGGTAATGTTGATGCATTGAGTAATGGATTCACGCA
65 TGAACTTCCTATGGAAAAGTTGATCCATCGAACAATGAATTCACGAA
* * * *
9719586 AAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCTT-TCATTA
1 AAAGGTTAAACAAGATCTTCTCATTATGAACTT-TTCTTCCTCTTCAGATGAGTTCTTCTCATTA
9719650 TGAA
65 TGAA
9719654 TTCACGCAAA
Statistics
Matches: 153, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
110 38 0.25
111 64 0.42
112 15 0.10
113 36 0.24
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (111 bp):
AAAGGTTAAACAAGATCTTCTCATTATGAACTTTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTTCCTATGGAAAAGTTGATCCATCGAACAATGAATTCACGAA
Found at i:9719664 original size:76 final size:77
Alignment explanation
Indices: 9719577--9719730 Score: 301
Period size: 76 Copynumber: 2.0 Consensus size: 77
9719567 TGAGTAATGG
9719577 ATTCACGCAAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTC
1 ATTCACGCAAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTC
9719642 TT-TCATTATGA
66 TTCTCATTATGA
9719653 ATTCACGCAAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTC
1 ATTCACGCAAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTC
9719718 TTCTCATTATGA
66 TTCTCATTATGA
9719730 A
1 A
9719731 CTCTTCCGGC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 67 0.87
77 10 0.13
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.42
Consensus pattern (77 bp):
ATTCACGCAAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTC
TTCTCATTATGA
Found at i:9719792 original size:187 final size:188
Alignment explanation
Indices: 9719475--9719842 Score: 519
Period size: 187 Copynumber: 2.0 Consensus size: 188
9719465 AATTCAAGGA
*
9719475 AAAAGGTTAAACAAGATCTTCTCATTATGAACTTCTTCCTTCTTCAGATGAGTTATTCTCATTAT
1 AAAAGGTTAAACAAGATCTTCTCATTATGAACTTCTTCCCTCTTCAGATGAGTTATTCTCATTAT
* * * * * * *
9719540 GAACTTCCTATGGTAATGTTGATGCATTGAGTAATGGATTCACGCAAAAGGTTAAACAGGTTCTT
66 GAACTTCCTACGGCAATGCTGATCCATCGAGTAATGAATTCACGCAAAAGGTTAAACAAGTTCTT
* *
9719605 CTTATTATGAACTTCTTCTTCC-TCTTTAGATGAGTTCTT-TCATTATGAATTCACGC
131 CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTCACGC
* * * * *
9719661 AAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCTTCTCATT
1 AAAAGGTTAAACAAGATCTTCTCATTATGAACTTCTTC--CCTCTTCAGATGAGTTATTCTCATT
* * *
9719726 ATGAAC-TCTTCCGGCAATGCTGATCCATCGAGTAATGAATTCTA-GCAAAAGGTTGAACAAGTT
64 ATGAACTTCCTACGGCAATGCTGATCCATCGAGTAATGAATTC-ACGCAAAAGGTTAAACAAGTT
9719789 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
128 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
9719843 CTCTTTCGGA
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
186 35 0.22
187 69 0.43
188 45 0.28
189 10 0.06
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (188 bp):
AAAAGGTTAAACAAGATCTTCTCATTATGAACTTCTTCCCTCTTCAGATGAGTTATTCTCATTAT
GAACTTCCTACGGCAATGCTGATCCATCGAGTAATGAATTCACGCAAAAGGTTAAACAAGTTCTT
CTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTCACGC
Found at i:9719876 original size:112 final size:111
Alignment explanation
Indices: 9719649--9719992 Score: 492
Period size: 112 Copynumber: 3.1 Consensus size: 111
9719639 TTCTTTCATT
* * * *
9719649 ATGAATTCACGCAAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCC-TCTTTAGATG
1 ATGAATTCA-GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* *
9719713 AGTTCTTCTCATTATGAACTCTTCCGGCAATGCTGATCCATCGAGTA
65 AGTTCTTCTCATTATGAACTCTTCCGGAAATACTGATCCATCGAGTA
9719760 ATGAATTCTAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 ATGAATTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * *
9719825 AGTTCTTCTCATTATGAACTCTTTCGGAAATATTGATCCATCGAGTG
65 AGTTCTTCTCATTATGAACTCTTCCGGAAATACTGATCCATCGAGTA
*
9719872 ATGAATTCGAGCAAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATG
1 ATGAATTC-AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATG
* * * ** *
9719937 AGTTCTTCTCATTATGAACTTCCTCTGGTAATGTTGATCCATTGAGTA
65 AGTTCTTCTCATTATGAAC-TCTTCCGGAAATACTGATCCATCGAGTA
*
9719985 ATGGATTC
1 ATGAATTC
9719993 GAATATTTGC
Statistics
Matches: 211, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
111 49 0.23
112 134 0.64
113 28 0.13
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (111 bp):
ATGAATTCAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGA
GTTCTTCTCATTATGAACTCTTCCGGAAATACTGATCCATCGAGTA
Found at i:9719913 original size:299 final size:301
Alignment explanation
Indices: 9719363--9719954 Score: 806
Period size: 299 Copynumber: 2.0 Consensus size: 301
9719353 ATAATCATGC
*
9719363 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTA
1 AAAGGTTAAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTA
* *
9719428 TGAACTTTCTCTGGAAAAGTTGATCCATCGAACGATGAATTCAAGGAAAAAGGTTAAACAAGATC
66 TGAACTTTCTCTGGAAAAGCTGATCCATCGAACAATGAATTCAAGGAAAAAGGTTAAACAAGATC
* *
9719493 TTCTCATTATGAACTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTCCTATGGTAATG
131 TTCTCATTATGAACTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTCCTATGGAAATA
* * * *
9719558 TTGATGCATTGAGTAATGGATTCACGCAAAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTC
196 TTGATCCATCGAGTAATGAATTCACGCAAAAGGTTAAACAAGTTCTTCTTATTATGAACTTCTTC
*
9719623 TTCC-TCTTTAGATGAGTTCTT-TCATTATGAATTCACGCA
261 TTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTCACGCA
* * * * * *
9719662 AAAGGTTAAACAGGTTCTTCTTATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCTTCTCATTA
1 AAAGGTTAAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTA
* * ** * * * *
9719727 TGAACTCTTC-C-GGCAATGCTGATCCATCGAGTAATGAATTCTA-GCAAAAGGTTGAACAAGTT
66 TGAACT-TTCTCTGGAAAAGCTGATCCATCGAACAATGAATTCAAGGAAAAAGGTTAAACAAGAT
* *
9719789 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-T-CTTTCGG
130 CTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTCCTAT-GG
* *
9719852 AAATATTGATCCATCGAGTGATGAATTCGA-GCAAAAGGTTGAACAAGTTCTT-TTCATTATGAA
191 AAATATTGATCCATCGAGTAATGAATTC-ACGCAAAAGGTTAAACAAGTTCTTCTT-ATTATGAA
9719915 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
254 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
9719955 CTTCCTCTGG
Statistics
Matches: 256, Mismatches: 28, Indels: 16
0.85 0.09 0.05
Matches are distributed among these distances:
297 30 0.12
298 30 0.12
299 129 0.50
300 57 0.22
301 10 0.04
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (301 bp):
AAAGGTTAAACAAGCTCTTCTCATTATGAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTA
TGAACTTTCTCTGGAAAAGCTGATCCATCGAACAATGAATTCAAGGAAAAAGGTTAAACAAGATC
TTCTCATTATGAACTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTTCCTATGGAAATA
TTGATCCATCGAGTAATGAATTCACGCAAAAGGTTAAACAAGTTCTTCTTATTATGAACTTCTTC
TTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTCACGCA
Found at i:9733834 original size:3 final size:3
Alignment explanation
Indices: 9733828--9733873 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
9733818 ATTTATTATT
*
9733828 TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA -AA TAA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9733874 ATCAAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9733862 original size:25 final size:25
Alignment explanation
Indices: 9733832--9733886 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
9733822 ATTATTTAAT
9733832 AATAATAATAATAAT-AATAAAATAA
1 AATAATAATAATAATAAATAAAA-AA
* *
9733857 AATAATTATAATAATAAATCAAAAA
1 AATAATAATAATAATAAATAAAAAA
9733882 AATAA
1 AATAA
9733887 AAAATGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (25 bp):
AATAATAATAATAATAAATAAAAAA
Found at i:9733880 original size:22 final size:22
Alignment explanation
Indices: 9733829--9733874 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
9733819 TTTATTATTT
9733829 AATAATAATAATAATAATAATAA
1 AATAA-AATAATAATAATAATAA
*
9733852 AATAAAATAATTATAATAATAA
1 AATAAAATAATAATAATAATAA
9733874 A
1 A
9733875 TCAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (22 bp):
AATAAAATAATAATAATAATAA
Found at i:9743090 original size:36 final size:36
Alignment explanation
Indices: 9743049--9743166 Score: 92
Period size: 36 Copynumber: 3.2 Consensus size: 36
9743039 ACTCAAGATT
9743049 GTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACA
1 GTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACA
** * * * ** **
9743085 GTTTTTACCCGAAACAAGAAGATTTATTTCACTCAAGATT
1 GTTTTT---CTTAA-AACAAGATTTGTCTCACTTGAGACA
* * *
9743125 GTTTTTCTTAAAACAATATTTGTCTCTCTTGAGACG
1 GTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACA
9743161 GTTTTT
1 GTTTTT
9743167 AATTAAAAAA
Statistics
Matches: 58, Mismatches: 20, Indels: 8
0.67 0.23 0.09
Matches are distributed among these distances:
36 28 0.48
37 3 0.05
39 3 0.05
40 24 0.41
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (36 bp):
GTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACA
Found at i:9743119 original size:76 final size:77
Alignment explanation
Indices: 9742990--9743167 Score: 234
Period size: 76 Copynumber: 2.3 Consensus size: 77
9742980 TCCAAAAAAA
* ** * * *
9742990 ATTTGTCTCACTTGAGACTG-TTTTACTGGAAAAAATACATAATCATTTGACTCAAGATTGTTTT
1 ATTTGTCTCACTTGAGACAGTTTTTACCCGAAAAAAGACAGAATCATTTCACTCAAGATTGTTTT
9743054 TCTTAAAACAAG
66 TCTTAAAACAAG
* * *
9743066 ATTTGTCTCACTTGAGACAGTTTTTACCCGAAACAAGA-AGATTTATTTCACTCAAGATTGTTTT
1 ATTTGTCTCACTTGAGACAGTTTTTACCCGAAAAAAGACAGAATCATTTCACTCAAGATTGTTTT
*
9743130 TCTTAAAACAAT
66 TCTTAAAACAAG
* *
9743142 ATTTGTCTCTCTTGAGACGGTTTTTA
1 ATTTGTCTCACTTGAGACAGTTTTTA
9743168 ATTAAAAAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 76 0.85
77 13 0.15
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (77 bp):
ATTTGTCTCACTTGAGACAGTTTTTACCCGAAAAAAGACAGAATCATTTCACTCAAGATTGTTTT
TCTTAAAACAAG
Found at i:9743252 original size:22 final size:22
Alignment explanation
Indices: 9743227--9743291 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 22
9743217 ATCTCGCTTG
9743227 AGATAGTTTCCCTCGAAACAGA
1 AGATAGTTTCCCTCGAAACAGA
** *
9743249 AGAT--TTTGTCTC---ACTTGA
1 AGATAGTTTCCCTCGAAAC-AGA
9743267 -GATAGTTTCCCTCGAAACAGA
1 AGATAGTTTCCCTCGAAACAGA
9743288 AGAT
1 AGAT
9743292 TTTGTCTCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 14
0.60 0.12 0.28
Matches are distributed among these distances:
17 5 0.17
18 2 0.07
19 6 0.20
20 6 0.20
21 2 0.07
22 9 0.30
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (22 bp):
AGATAGTTTCCCTCGAAACAGA
Found at i:9743266 original size:39 final size:39
Alignment explanation
Indices: 9743207--9743647 Score: 589
Period size: 39 Copynumber: 11.3 Consensus size: 39
9743197 ATTGTTTTGA
*
9743207 AGAACATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9743246 AGAAGATTTTGTCTCACTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
9743285 AGAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * *
9743324 AAAAGATTTTGTCTAGGTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
9743363 AGAAGATTTTATCTCACTTAAGATAGTTTCCCTCAAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9743402 TA-AATATTTTATCTCGCTTGAGATTA-TTTCCCTCGACAC
1 -AGAAGATTTTATCTCGCTTGAGA-TAGTTTCCCTCGAAAC
* * *
9743441 GGAAGATTTTATTTCGCTTGATATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* *
9743480 ATAAGATTTTGTCTCGCTTGAGATAGTTTCCCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * *
9743519 AGAAGACTTTGTCTCGCTTGAGATAGTTTCCCTCAAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
9743558 AGAAGATTTTATCTCGCTTGAGATAGTTTCTCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
* * * * * *
9743597 AAAATACTTTATCTCACTTGAGACAGTTTCTCTCGAAAC
1 AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
*
9743636 AAAAGATTTTAT
1 AGAAGATTTTAT
9743648 AAGAAACTAA
Statistics
Matches: 355, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
38 2 0.01
39 350 0.99
40 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (39 bp):
AGAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAC
Found at i:9744064 original size:44 final size:43
Alignment explanation
Indices: 9743906--9744064 Score: 104
Period size: 44 Copynumber: 3.6 Consensus size: 43
9743896 CATTTTGCTC
* * * ** * *
9743906 GATTCTATCACAGAAGGAAGTAGATCAGCATCGAGATCTTATTT
1 GATTCCATCACAGAAGGAGGTAGATCAACATC-ATTTTTTGTTT
* * * * * *
9743950 GATTCCACCACAGAAGGAGGTGGATCGACAT-TTTTATTTCGCTC
1 GATTCCATCACAGAAGGAGGTAGATCAACATCATTT-TTT-GTTT
* * * * *
9743994 AAATCCATCGCAGAAGGAGTTGGATCAACATCAATTTTTTGTTT
1 GATTCCATCACAGAAGGAGGTAGATCAACATC-ATTTTTTGTTT
*
9744038 GATTCTATCACAGAAGGAGGTAGATCA
1 GATTCCATCACAGAAGGAGGTAGATCA
9744065 GCACCAACAT
Statistics
Matches: 83, Mismatches: 28, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 74 0.89
45 3 0.04
46 3 0.04
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
GATTCCATCACAGAAGGAGGTAGATCAACATCATTTTTTGTTT
Found at i:9748167 original size:41 final size:41
Alignment explanation
Indices: 9748120--9748217 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
9748110 TACAAAAACG
*
9748120 CCGCTACAGAGCCATATTTTAGTGGCATTTTCAAAAAAATA
1 CCGCTACAGAACCATATTTTAGTGGCATTTTCAAAAAAATA
9748161 CCGCTACAGAACCATATTTTAGTGGCATTTTCAAAAAAATA
1 CCGCTACAGAACCATATTTTAGTGGCATTTTCAAAAAAATA
9748202 CCGCTACAGAACCATA
1 CCGCTACAGAACCATA
9748218 CTATAATGCT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (41 bp):
CCGCTACAGAACCATATTTTAGTGGCATTTTCAAAAAAATA
Found at i:9749645 original size:14 final size:13
Alignment explanation
Indices: 9749616--9749656 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
9749606 CTGTATGTCC
9749616 CCACCAGCACCAA
1 CCACCAGCACCAA
*
9749629 CCACCATCACGCAA
1 CCACCAGCAC-CAA
9749643 CCACCAGCACCAA
1 CCACCAGCACCAA
9749656 C
1 C
9749657 AAATCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.37, C:0.54, G:0.07, T:0.02
Consensus pattern (13 bp):
CCACCAGCACCAA
Found at i:9755715 original size:196 final size:196
Alignment explanation
Indices: 9755374--9755738 Score: 534
Period size: 196 Copynumber: 1.9 Consensus size: 196
9755364 GTTTTGGGAC
*
9755374 ATTTTCTGGTGAAACAACCACCAGATTTGGACTCAGTGTGTCAAAGCAAGTCCCTAGCTACAATT
1 ATTTTCCGGTGAAACAACCACCAGATTTGGACTCAGTGTGTCAAAGCAAGTCCCTAGCTACAATT
* * * * *
9755439 TGAGAATAAATGGCTGCCAGTTCCAAAGGCCGACGATGGTCGATAATGATGAGAACATGCAATTA
66 TGAGAATAAACGGCTACCAGTTCCAAAGGCCGACGATGGTCAACAATGATGAGAACAGGCAATTA
9755504 TATCGTTTTAAATTTAATAATAATAAAATATTATTTTATCGGAAAAGAGTCATTGAGTTATGATA
131 TATCGTTTTAAATTTAATAATAATAAAATATTATTTTATCGGAAAAGAGTCATTGAGTTATGATA
9755569 T
196 T
** * * * *
9755570 ATTTTCCGGTGAAACAATTACCATATTTGGACTCAGTGTGTCAAAGCGAGTCCCTAGGTATAATT
1 ATTTTCCGGTGAAACAACCACCAGATTTGGACTCAGTGTGTCAAAGCAAGTCCCTAGCTACAATT
* * * * ***
9755635 TG-GGATAAAACGGCTACCAGTTTCGAAGGCCGACGATGGTCAACAATGATGAGAATAGGTGGTT
66 TGAGAAT-AAACGGCTACCAGTTCCAAAGGCCGACGATGGTCAACAATGATGAGAACAGGCAATT
*
9755699 ATATCTTTTTAAATTTAATAATAATAAAATATTATTTTAT
130 ATATCGTTTTAAATTTAATAATAATAAAATATTATTTTAT
9755739 TATTTGTTTT
Statistics
Matches: 148, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
195 3 0.02
196 145 0.98
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (196 bp):
ATTTTCCGGTGAAACAACCACCAGATTTGGACTCAGTGTGTCAAAGCAAGTCCCTAGCTACAATT
TGAGAATAAACGGCTACCAGTTCCAAAGGCCGACGATGGTCAACAATGATGAGAACAGGCAATTA
TATCGTTTTAAATTTAATAATAATAAAATATTATTTTATCGGAAAAGAGTCATTGAGTTATGATA
T
Found at i:9761221 original size:19 final size:19
Alignment explanation
Indices: 9761199--9761238 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9761189 CTCTGAAATT
9761199 TGATATCATTTT-TGATCTC
1 TGATATC-TTTTCTGATCTC
*
9761218 TGATTTCTTTTCTGATCTC
1 TGATATCTTTTCTGATCTC
9761237 TG
1 TG
9761239 CTCTGATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.55
Consensus pattern (19 bp):
TGATATCTTTTCTGATCTC
Found at i:9765693 original size:20 final size:21
Alignment explanation
Indices: 9765659--9765713 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
9765649 ACACTCTGAT
*
9765659 TTTAGGTTATAAAATTTATAG
1 TTTAGGTTATAAAATTTAGAG
9765680 TTTAGGTT-TAAAATTTAGAG
1 TTTAGGTTATAAAATTTAGAG
9765700 TTTAGAGTGTATAA
1 TTTAG-GT-TATAA
9765714 TACGTAGGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 16 0.53
21 10 0.33
22 1 0.03
23 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (21 bp):
TTTAGGTTATAAAATTTAGAG
Found at i:9771452 original size:33 final size:34
Alignment explanation
Indices: 9771410--9771475 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
9771400 TTGATACATG
* *
9771410 AAAACTTTGGGCGCTTCTCT-TTTTTCATAAGCC
1 AAAAATTTGGGCACTTCTCTGTTTTTCATAAGCC
*
9771443 AAAAATTTGGGCATTTCTCTGTTTTTCATAAGC
1 AAAAATTTGGGCACTTCTCTGTTTTTCATAAGC
9771476 ATCCACCAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 17 0.59
34 12 0.41
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (34 bp):
AAAAATTTGGGCACTTCTCTGTTTTTCATAAGCC
Found at i:9772758 original size:12 final size:12
Alignment explanation
Indices: 9772732--9772767 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
9772722 GAAGCTGAAG
*
9772732 CGAGAG-AGCAG
1 CGAGAGAAGCAA
9772743 CGAGAGAAGCAA
1 CGAGAGAAGCAA
9772755 CGAGAGAAGCAA
1 CGAGAGAAGCAA
9772767 C
1 C
9772768 AATTCAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.44, C:0.19, G:0.36, T:0.00
Consensus pattern (12 bp):
CGAGAGAAGCAA
Found at i:9776911 original size:30 final size:30
Alignment explanation
Indices: 9776877--9776943 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
9776867 CATCACCCAA
9776877 ATAATGTATCATCTCCCATACCACTTATAT
1 ATAATGTATCATCTCCCATACCACTTATAT
* * *
9776907 ATAATGTATCATCTCCCATATCACTTGTCT
1 ATAATGTATCATCTCCCATACCACTTATAT
9776937 ATAATGT
1 ATAATGT
9776944 CTCACCATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (30 bp):
ATAATGTATCATCTCCCATACCACTTATAT
Found at i:9781033 original size:26 final size:26
Alignment explanation
Indices: 9780970--9781033 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
9780960 ATACTTTAAA
*
9780970 CTTTGATATCTG--TTAAGATCTCTG
1 CTTTGATTTCTGATTTAAGATCTCTG
* * *
9780994 ATTT-ATGTTATGATTTATGATCTCTG
1 CTTTGAT-TTCTGATTTAAGATCTCTG
9781020 CTTTGATTTCTGAT
1 CTTTGATTTCTGAT
9781034 ATCTCTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
23 2 0.07
24 6 0.20
26 20 0.67
27 2 0.07
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (26 bp):
CTTTGATTTCTGATTTAAGATCTCTG
Found at i:9785368 original size:27 final size:24
Alignment explanation
Indices: 9785332--9785382 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
9785322 TCGATTTTTT
9785332 TTTTCAGTTATCGGTTTTTTGGATCGG
1 TTTTCAGTTAT---TTTTTTGGATCGG
*
9785359 TTTTCGGTTATTTTTTTGGATCGG
1 TTTTCAGTTATTTTTTTGGATCGG
9785383 ATTGAATCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 13 0.57
27 10 0.43
ACGTcount: A:0.10, C:0.10, G:0.25, T:0.55
Consensus pattern (24 bp):
TTTTCAGTTATTTTTTTGGATCGG
Found at i:9786885 original size:175 final size:174
Alignment explanation
Indices: 9786555--9786924 Score: 607
Period size: 175 Copynumber: 2.1 Consensus size: 174
9786545 AAGACTTACT
* *
9786555 GATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAATTTTGGAAATTCCTT
1 GATGGCCCAAAGGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTCCTT
* *
9786620 TCTTACTTTTCAAATTTTTATTTTTTGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCA
66 TCTTACTTTTCAAATTTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCA
*
9786685 TTTTTCGAAAATCATGTGAAAACATCCTACCCAAAGGTCTTATG
131 TTTTTCGAAAATCATGTGAAAACATCCTACCCAAAGGTCATATG
* *
9786729 GATGGCCCAAATGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTGCTT
1 GATGGCCCAAAGGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTCCTT
* **
9786794 TCTTACTTTTCAAAATTTTCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATCGTTTTCTC
66 TCTTACTTTTC-AAATTTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTC
* *
9786859 ATTTTTTGAAAATCATGTGAAAACATCCTGCCCAAAGGTCATATG
130 ATTTTTCGAAAATCATGTGAAAACATCCTACCCAAAGGTCATATG
9786904 GAT-GCCCTAAAGGACTTATCA
1 GATGGCCC-AAAGGACTTATCA
9786925 TCTTGCTCGA
Statistics
Matches: 181, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
174 76 0.42
175 105 0.58
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (174 bp):
GATGGCCCAAAGGACTTATCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATTCCTT
TCTTACTTTTCAAATTTTCATTTTCTGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCA
TTTTTCGAAAATCATGTGAAAACATCCTACCCAAAGGTCATATG
Found at i:9786967 original size:42 final size:41
Alignment explanation
Indices: 9786913--9787004 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 41
9786903 GGATGCCCTA
* *
9786913 AAGGACTTATCATCTTGCTCGAAAGGCTTA-TAGATGACCCG
1 AAGGACTTATCATCATGCTCGAAAGACTTACT-GATGACCCG
* * *
9786954 AAGGATTTAATCATCATGTTCGAAAGACTTACTGATGGCCCG
1 AAGGACTT-ATCATCATGCTCGAAAGACTTACTGATGACCCG
*
9786996 AAGAACTTA
1 AAGGACTTA
9787005 CCAATTATAG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
41 8 0.19
42 33 0.79
43 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (41 bp):
AAGGACTTATCATCATGCTCGAAAGACTTACTGATGACCCG
Found at i:9787981 original size:3 final size:3
Alignment explanation
Indices: 9787971--9788021 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
9787961 CATCCACCAC
9787971 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9788017 ATT AT
1 ATT AT
9788022 ATATATATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9788108 original size:23 final size:23
Alignment explanation
Indices: 9788081--9788132 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
9788071 CCCAACAATA
9788081 CAAACCTGGACCCAGACCAAACC
1 CAAACCTGGACCCAGACCAAACC
* *
9788104 CAAACCTGTACCTAGACCAAACC
1 CAAACCTGGACCCAGACCAAACC
*
9788127 TAAACC
1 CAAACC
9788133 CTAACCTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.40, G:0.10, T:0.10
Consensus pattern (23 bp):
CAAACCTGGACCCAGACCAAACC
Found at i:9788139 original size:23 final size:23
Alignment explanation
Indices: 9788081--9788150 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
9788071 CCCAACAATA
* *
9788081 CAAACCTGGACCCAGACCAAACC
1 CAAACCTGAACCTAGACCAAACC
*
9788104 CAAACCTGTACCTAGACCAAACC
1 CAAACCTGAACCTAGACCAAACC
*
9788127 TAAACCCT-AACCTA-ACTCAAACC
1 CAAA-CCTGAACCTAGAC-CAAACC
9788150 C
1 C
9788151 TAACACATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.88
24 3 0.08
ACGTcount: A:0.40, C:0.41, G:0.07, T:0.11
Consensus pattern (23 bp):
CAAACCTGAACCTAGACCAAACC
Found at i:9790691 original size:19 final size:21
Alignment explanation
Indices: 9790656--9790699 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
9790646 CACTCTGGAT
*
9790656 TTTAGGTTATAAAATTTATAG
1 TTTAGGTTATAAAATTTAGAG
9790677 TTTAGGTT-T-AAATTTAGAG
1 TTTAGGTTATAAAATTTAGAG
9790696 TTTA
1 TTTA
9790700 TAGTGTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (21 bp):
TTTAGGTTATAAAATTTAGAG
Found at i:9794878 original size:25 final size:25
Alignment explanation
Indices: 9794837--9794898 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
9794827 TTAATAAACT
* *
9794837 TAATAAAAAAA-TTAAAACAAATAA
1 TAATAAAAAAAGTAAAAACAAAGAA
*
9794861 TAATAAAAAAAGTAAAAACATAGAA
1 TAATAAAAAAAGTAAAAACAAAGAA
*
9794886 TAAAAATAAAAAG
1 TAATAA-AAAAAG
9794899 AACATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 11 0.34
25 15 0.47
26 6 0.19
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (25 bp):
TAATAAAAAAAGTAAAAACAAAGAA
Found at i:9796735 original size:39 final size:39
Alignment explanation
Indices: 9796655--9796977 Score: 470
Period size: 39 Copynumber: 8.3 Consensus size: 39
9796645 AAGAAAAATA
** * *
9796655 ATCTCAAATGAGATAAAA-GTTCTATTTCGA-TGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
9796692 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTAAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* *
9796731 ATCTCAAGCGAGATAAAATATTATGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
9796770 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* *
9796809 GTCTCAAGCGAGATAAAATCTTCTATTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* * * * *
9796848 ATCTCAAGCAAGATAAAATATTATATTTTGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
* * *
9796887 ATCTCAAGCGAGATAGAATATTATGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
*
9796926 ATCTCAAGTGAGATAAAATCTTCTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
9796965 ATCTCAAGCGAGA
1 ATCTCAAGCGAGA
9796978 CGTTGATCCC
Statistics
Matches: 258, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
37 16 0.06
38 10 0.04
39 232 0.90
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCGAGTGAAACT
Found at i:9797495 original size:58 final size:59
Alignment explanation
Indices: 9797458--9797657 Score: 154
Period size: 52 Copynumber: 3.5 Consensus size: 59
9797448 GTTTTCAGTT
9797458 ATCATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTCTTTGGAAATA
1 ATCATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTCTTTGGAAATA
* ** * * *
9797517 ATCATCAAGAAACCCCTGAAAACCAGGCTT-AGTT-TCTAAAA-A-CTCATTT-G-AA-A
1 ATCATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTC-TTTGGAAATA
* * * * * *
9797570 A-CATCAAGAAACCCCTAAATATTAGGCTT-AGTTCCTTTTAAAA-A-TTCATTGAAAATC
1 ATCATCAAGAAACCCCTAAAAAATAGGCTTAACTT-C-TTTAAAATATTTCTTTGGAAATA
* *
9797627 ATAATCAAGAAACCCCT-GAAAATCAGGCTTA
1 ATCATCAAGAAACCCCTAAAAAAT-AGGCTTA
9797658 GTTTCTATAA
Statistics
Matches: 112, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
52 28 0.25
53 2 0.02
54 4 0.04
55 12 0.11
56 6 0.05
57 10 0.09
58 23 0.21
59 27 0.24
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (59 bp):
ATCATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTCTTTGGAAATA
Found at i:9797523 original size:59 final size:56
Alignment explanation
Indices: 9797458--9797670 Score: 186
Period size: 59 Copynumber: 3.8 Consensus size: 56
9797448 GTTTTCAGTT
*
9797458 ATCATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTCTTTGGAAATA
1 ATCATCAAGAAACCCCTAAAAAATAGGCTT-AGTTCTTTAAAA-A-TTCTTTGGAAATA
* ** * *
9797517 ATCATCAAGAAACCCCTGAAAACCAGGCTTAGTT-TCTAAAAACTCATTT-G-AA-A
1 ATCATCAAGAAACCCCTAAAAAATAGGCTTAGTTCTTTAAAAATTC-TTTGGAAATA
* * * * *
9797570 A-CATCAAGAAACCCCTAAATATTAGGCTTAGTTCCTTTTAAAAATTCATTGAAAATC
1 ATCATCAAGAAACCCCTAAAAAATAGGCTTAGTT-C-TTTAAAAATTCTTTGGAAATA
* * *
9797627 ATAATCAAGAAACCCCT-GAAAATCAGGCTTAGTTTCTATAAAAA
1 ATCATCAAGAAACCCCTAAAAAAT-AGGCTTAG-TTCTTTAAAAA
9797671 AATCTTTTGA
Statistics
Matches: 124, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
52 28 0.23
53 2 0.02
54 4 0.03
55 12 0.10
56 6 0.05
57 17 0.14
58 26 0.21
59 29 0.23
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (56 bp):
ATCATCAAGAAACCCCTAAAAAATAGGCTTAGTTCTTTAAAAATTCTTTGGAAATA
Found at i:9797581 original size:52 final size:52
Alignment explanation
Indices: 9797516--9797669 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 52
9797506 CTTTGGAAAT
*
9797516 AATCATCAAGAAACCCCTGAAAACCAGGCTTAGTTTCTAAAAACTCATTTGAA
1 AATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCA-TTGAA
* * *
9797569 AA-CATCAAGAAACCCCT-AAATATTAGGCTTAGTTCCTTTTAAAAATTCATTGAA
1 AATCATCAAGAAACCCCTGAAA-ATCAGGCTTAG-T--TTCTAAAAACTCATTGAA
9797623 AATCATAATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTATAAAA
1 AATC---ATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTA-AAAA
9797670 AAATCTTTTG
Statistics
Matches: 85, Mismatches: 6, Indels: 17
0.79 0.06 0.16
Matches are distributed among these distances:
51 3 0.04
52 24 0.28
53 3 0.04
54 7 0.08
55 16 0.19
56 4 0.05
57 1 0.01
58 24 0.28
59 3 0.04
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.27
Consensus pattern (52 bp):
AATCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTAAAAACTCATTGAA
Found at i:9797656 original size:110 final size:112
Alignment explanation
Indices: 9797460--9797669 Score: 302
Period size: 110 Copynumber: 1.9 Consensus size: 112
9797450 TTTCAGTTAT
* * *
9797460 CATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTCTTTGGAAATAATCATCAA
1 CATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTCATTGAAAATAATAATCAA
9797525 GAAACCCCTGAAAACCAGGCTTAGTTTCTA-AAAACTCATTTGAAAA
66 GAAACCCCTGAAAACCAGGCTTAGTTTCTATAAAACTCATTTGAAAA
* * * *
9797571 CATCAAGAAACCCCTAAATATTAGGCTT-AGTTCCTTTTAAAA-A-TTCATTGAAAATCATAATC
1 CATCAAGAAACCCCTAAAAAATAGGCTTAACTT-C-TTTAAAATATTTCATTGAAAATAATAATC
*
9797633 AAGAAACCCCTGAAAATCAGGCTTAGTTTCTATAAAA
64 AAGAAACCCCTGAAAACCAGGCTTAGTTTCTATAAAA
9797670 AAATCTTTTG
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
110 49 0.56
111 32 0.36
112 7 0.08
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.29
Consensus pattern (112 bp):
CATCAAGAAACCCCTAAAAAATAGGCTTAACTTCTTTAAAATATTTCATTGAAAATAATAATCAA
GAAACCCCTGAAAACCAGGCTTAGTTTCTATAAAACTCATTTGAAAA
Found at i:9797671 original size:58 final size:57
Alignment explanation
Indices: 9797401--9797689 Score: 209
Period size: 58 Copynumber: 5.1 Consensus size: 57
9797391 AAGGACTTAC
* * ** * *** * *
9797401 TCATCAAGAAACCCTTGAAAATCAAGCTTAGTTTCTTAAAATCTTTCGTTTTCAGTTA
1 TCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAA-AATTCATTGAAAATCA
* ** * * * *
9797459 TCATCAAGAAACCCCTAAAAAAT-AGGCTTAACTTCTTTAAAATATTTCTTTGGAAATAA
1 TCATCAAGAAACCCCT-GAAAATCAGGCTTAGTTTC-TTAAAA-AATTCATTGAAAATCA
* *
9797518 TCATCAAGAAACCCCTGAAAACCAGGCTTAGTTTC-T-AAAAACTCATTTG-AAA--A
1 TCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAAAATTCA-TTGAAAATCA
* * *
9797571 -CATCAAGAAACCCCT-AAATATTAGGCTTAGTTCCTTTTAAAAATTCATTGAAAATCA
1 TCATCAAGAAACCCCTGAAA-ATCAGGCTTAGTTTC-TTAAAAAATTCATTGAAAATCA
* * *
9797628 TAATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTATAAAAAAATCTTTTGAAAAT-A
1 TCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCT-TAAAAAATTC-ATTGAAAATCA
9797686 TCAT
1 TCAT
9797690 GTTGTTTGGG
Statistics
Matches: 186, Mismatches: 30, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
51 3 0.02
52 27 0.15
53 1 0.01
54 4 0.02
55 17 0.09
56 6 0.03
57 3 0.02
58 67 0.36
59 58 0.31
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (57 bp):
TCATCAAGAAACCCCTGAAAATCAGGCTTAGTTTCTTAAAAAATTCATTGAAAATCA
Found at i:9807778 original size:510 final size:510
Alignment explanation
Indices: 9806819--9807785 Score: 1542
Period size: 510 Copynumber: 1.9 Consensus size: 510
9806809 TATGTTAAAT
* *
9806819 TCAAGATTTGACATGAAAGATATGGGATTGGCCGGCACAATTTTGGGCATCCAAATTAAAATGTC
1 TCAAGATTTGACATGAAAGATATGGGATTGGCCGACACAATTTTGGGCATCCAAATTAAAAAGTC
* *
9806884 ATATGAAGGCCTCATATTGGCTCACTCACACTATGTGTACAAGATTCTTGAGAAATTTAACAAGG
66 ATATGAAGGCCTCATATTGGCTCAATCACACTATGTGGACAAGATTCTTGAGAAATTTAACAAGG
*
9806949 ACGATTATAGTATAGCCATAATTCCAATAGATTTTTGGTCACATTTGTCTAAGAACCATGGTGAA
131 ACGATTATAGTATAGCCATAACTCCAATAGATTTTTGGTCACATTTGTCTAAGAACCATGGTGAA
* * *
9807014 AGTGTTCACCAAGTGGAATATGCAATGGTCATAGGCAATCTAATGTATCTAATGAGCTATACTAG
196 AGTGTTCACCAAGTGGAATATACAAGGGTCATAAGCAATCTAATGTATCTAATGAGCTATACTAG
* * * *
9807079 ACCGAATGTCACTTTTACTGTGAGCAGTCTAAGTAGATTTACAAACCATCCAGGGAAAGACCACT
261 ACAGAATATCACTTTTACTGTGAGCAGTCTAAGCAGATTTACAAACAATCCAGGGAAAGACCACT
* * * * *
9807144 AGAAAGAAATAACAAGGATATTGAGATATCTCATATATACTTGAGACTAAGAGTTGCATTATTCC
326 AGAAAGAAATAACAAGGATACTGAGATATCTCAGATATACTCGAGACTAAGAGTTACATTATTAC
* * *
9807209 AAAGATCTTGTCGTCCTAGAAGGATACTCTGATGCTAGTTGGATATCGGATATTCAAGATACTAA
391 AAAGATCATGTCGTCCTAGAAGGATACTCTAATGCCAGTTGGATATCGGATATTCAAGATACTAA
9807274 ATGTACAAGTGGATATGTATTCACTTTGGGAAGAGGAGCTGTGTCATGGAAATCC
456 ATGTACAAGTGGATATGTATTCACTTTGGGAAGAGGAGCTGTGTCATGGAAATCC
* *
9807329 TCAAGATTTGACATGAAAGATATGGGATTGGTCGACACAATTTTGGTCATCCAAATTAAAAAGTC
1 TCAAGATTTGACATGAAAGATATGGGATTGGCCGACACAATTTTGGGCATCCAAATTAAAAAGTC
* * *
9807394 ATCTGAAGGCCTCATGTTGGCTCAATCACACTATGTGGATAAGATTCTTGAGAAATTTAACAAGG
66 ATATGAAGGCCTCATATTGGCTCAATCACACTATGTGGACAAGATTCTTGAGAAATTTAACAAGG
* * * * * * * *
9807459 ATGATTCTGGTATAGTCATAACTCTAATAGATTTTTGTTCACTTTTGTCTGAGAACCATGGTGAA
131 ACGATTATAGTATAGCCATAACTCCAATAGATTTTTGGTCACATTTGTCTAAGAACCATGGTGAA
* * *
9807524 AGTGTTCACCAGGTGGAATATACAAGGGTCATAAGCAGTCTAATGTATCTAATGAGCTGTACTAG
196 AGTGTTCACCAAGTGGAATATACAAGGGTCATAAGCAATCTAATGTATCTAATGAGCTATACTAG
*
9807589 ATCAG-ATATCACTTTTACTGTGAGCAGTCTAAGCAGATTTACAAGCAATCCAGGGAAAGACCAC
261 A-CAGAATATCACTTTTACTGTGAGCAGTCTAAGCAGATTTACAAACAATCCAGGGAAAGACCAC
* * *
9807653 TAGAAAGCAATAATAAGGATACTGAGATATCTCAGATATACTCGAGACTATG-GATTACATTATT
325 TAGAAAGAAATAACAAGGATACTGAGATATCTCAGATATACTCGAGACTAAGAG-TTACATTATT
9807717 ACAAAGATCATGTCGTCCTAGAAGGATACTCTAATGCCAGTTGGATATCGGATATTCAAGATACT
389 ACAAAGATCATGTCGTCCTAGAAGGATACTCTAATGCCAGTTGGATATCGGATATTCAAGATACT
9807782 AAAT
454 AAAT
9807786 ATGTATTCAC
Statistics
Matches: 415, Mismatches: 40, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
509 1 0.00
510 412 0.99
511 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (510 bp):
TCAAGATTTGACATGAAAGATATGGGATTGGCCGACACAATTTTGGGCATCCAAATTAAAAAGTC
ATATGAAGGCCTCATATTGGCTCAATCACACTATGTGGACAAGATTCTTGAGAAATTTAACAAGG
ACGATTATAGTATAGCCATAACTCCAATAGATTTTTGGTCACATTTGTCTAAGAACCATGGTGAA
AGTGTTCACCAAGTGGAATATACAAGGGTCATAAGCAATCTAATGTATCTAATGAGCTATACTAG
ACAGAATATCACTTTTACTGTGAGCAGTCTAAGCAGATTTACAAACAATCCAGGGAAAGACCACT
AGAAAGAAATAACAAGGATACTGAGATATCTCAGATATACTCGAGACTAAGAGTTACATTATTAC
AAAGATCATGTCGTCCTAGAAGGATACTCTAATGCCAGTTGGATATCGGATATTCAAGATACTAA
ATGTACAAGTGGATATGTATTCACTTTGGGAAGAGGAGCTGTGTCATGGAAATCC
Found at i:9822642 original size:21 final size:21
Alignment explanation
Indices: 9822613--9822660 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
9822603 GCTGAAGCTA
*
9822613 AAGCGAGAGAAGCAA-AGAGAG
1 AAGCAAGAGAAG-AAGAGAGAG
*
9822634 CAGCAAGAGAAGAAGAGAGAG
1 AAGCAAGAGAAGAAGAGAGAG
9822655 AAGCAA
1 AAGCAA
9822661 CATTTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.54, C:0.10, G:0.35, T:0.00
Consensus pattern (21 bp):
AAGCAAGAGAAGAAGAGAGAG
Found at i:9826438 original size:34 final size:35
Alignment explanation
Indices: 9826385--9826450 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 35
9826375 GTATCAGAGA
9826385 AAAATTCAAAATTGCAAAATTCGAT-GTCAGGAGC
1 AAAATTCAAAATTGCAAAATTCGATGGTCAGGAGC
* * * *
9826419 AAAATTCGAAGTTGTAAAATTTGATGGTCAGG
1 AAAATTCAAAATTGCAAAATTCGATGGTCAGG
9826451 GTAACTTCAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 21 0.78
35 6 0.22
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (35 bp):
AAAATTCAAAATTGCAAAATTCGATGGTCAGGAGC
Found at i:9830459 original size:2 final size:2
Alignment explanation
Indices: 9830444--9830487 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
9830434 AGCGAACGCA
9830444 AT AT -T AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9830484 AT AT
1 AT AT
9830488 TAGAAAATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9833676 original size:72 final size:72
Alignment explanation
Indices: 9833559--9833703 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
9833549 ATCGATCCAC
9833559 TCGAACCGGTTCTATTTTACCTGACCGATTCAACCCGGACTTAGTCAACTTGTCCGGTCAACCCG
1 TCGAACCGGTTCTATTTTACCTGACCGATTCAACCCGGACTTAGTCAACTTGTCCGGTCAACCCG
9833624 TTAACTT
66 TTAACTT
9833631 TCGAACCGGTTCTATTTTACCTGACCGATTCAACCCGGACTTAGTCAACTTGTCCGGTCAACCCG
1 TCGAACCGGTTCTATTTTACCTGACCGATTCAACCCGGACTTAGTCAACTTGTCCGGTCAACCCG
9833696 TTAACTT
66 TTAACTT
9833703 T
1 T
9833704 GACCATTGAC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (72 bp):
TCGAACCGGTTCTATTTTACCTGACCGATTCAACCCGGACTTAGTCAACTTGTCCGGTCAACCCG
TTAACTT
Found at i:9835758 original size:156 final size:157
Alignment explanation
Indices: 9835474--9835786 Score: 619
Period size: 156 Copynumber: 2.0 Consensus size: 157
9835464 GCTCCGGCTA
9835474 GGGTAATACTTTATGGACCCAAGGTGCTCCATTAGGTTGGCACCTACCCCCTTCGGGCCTATTGT
1 GGGTAATACTTTATGGACCCAAGGTGCTCCATTAGGTTGGCACCTACCCCCTTCGGGCCTATTGT
9835539 AAGTCCTTATGGATGCAGTTATGGGGAACTACATATTGGAGTTCGGTTGGAGGGTTTTACTATGG
66 AAGTCCTTATGGATGCAGTTATGGGGAACTACATATTGGAGTTCGGTTGGAGGGTTTTACTATGG
9835604 TATTTTAAAAACATG-TTTCAATTGTT
131 TATTTTAAAAACATGTTTTCAATTGTT
9835630 GGGTAATACTTTATGGACCCAAGGTGCTCCATTAGGTTGGCACCTACCCCCTTCGGGCCTATTGT
1 GGGTAATACTTTATGGACCCAAGGTGCTCCATTAGGTTGGCACCTACCCCCTTCGGGCCTATTGT
9835695 AAGTCCTTATGGATGCAGTTATGGGGAACTACATATTGGAGTTCGGTTGGAGGGTTTTACTATGG
66 AAGTCCTTATGGATGCAGTTATGGGGAACTACATATTGGAGTTCGGTTGGAGGGTTTTACTATGG
9835760 TATTTTAAAAACATGTTTTCAATTGTT
131 TATTTTAAAAACATGTTTTCAATTGTT
9835787 ACTGTTTTAG
Statistics
Matches: 156, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
156 145 0.93
157 11 0.07
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (157 bp):
GGGTAATACTTTATGGACCCAAGGTGCTCCATTAGGTTGGCACCTACCCCCTTCGGGCCTATTGT
AAGTCCTTATGGATGCAGTTATGGGGAACTACATATTGGAGTTCGGTTGGAGGGTTTTACTATGG
TATTTTAAAAACATGTTTTCAATTGTT
Found at i:9839864 original size:59 final size:59
Alignment explanation
Indices: 9839738--9839864 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 59
9839728 ATAGTTGGGT
* *
9839738 GACCATTTTTGTAACTTTAATAGTCGGAGGACTCTAAAAAAGCAACGACCTATAGTCAGG
1 GACCA-TTTTGTAACTTTAATAGTCAGAGGACTCTAAAAAAGCAACGACCTATACTCAGG
* * * *
9839798 AACCATTTTGTAACTTTCAATAGTCA-AGGGACTC-AACAAAGTAAC-ACCTTATACTCGGG
1 GACCATTTTGTAACTTT-AATAGTCAGA-GGACTCTAAAAAAGCAACGACC-TATACTCAGG
9839857 GACCATTT
1 GACCATTT
9839865 ATATACTTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
58 3 0.05
59 37 0.65
60 17 0.30
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (59 bp):
GACCATTTTGTAACTTTAATAGTCAGAGGACTCTAAAAAAGCAACGACCTATACTCAGG
Found at i:9842341 original size:26 final size:26
Alignment explanation
Indices: 9842287--9842342 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
9842277 GTTAAATTAT
* *
9842287 TAAT-TATTAATTATTACTAATATAC
1 TAATATATTAATTATTAATAATATAA
*
9842312 TAATATATTAATTTTTTAATAA-ATAA
1 TAATATATTAA-TTATTAATAATATAA
9842338 TAATA
1 TAATA
9842343 AAAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 14 0.54
27 8 0.31
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATATATTAATTATTAATAATATAA
Found at i:9842660 original size:2 final size:2
Alignment explanation
Indices: 9842653--9842692 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9842643 AGGAAATGTA
*
9842653 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9842693 CATGATTGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9843680 original size:2 final size:2
Alignment explanation
Indices: 9843673--9843707 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
9843663 CATACTGGAA
9843673 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9843708 ACATCATATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9844358 original size:55 final size:55
Alignment explanation
Indices: 9844293--9844853 Score: 689
Period size: 55 Copynumber: 10.2 Consensus size: 55
9844283 GATGCACATG
* * ** *
9844293 TAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTTAGTGGATTTTCACACA
1 TAGTGTCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * *
9844348 TAGTGTCTATACGGTTATTCATCAACTCATCATGAATTCCGTGGATTTACACACA
1 TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * * *
9844403 TAATGCCTGTACGCTTATTCAACAACTCATGATGAATTCTGTGGATTTGCACATA
1 TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * *
9844458 TAGCGTCTTTACAGTTATTCATCAACTCAAGATGAATTCCGTGGATTTGAACACA
1 TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * *
9844513 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTACACACA
1 TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * * * *
9844568 TAATGTATATATGGTTATTCATTAACTCATAATGAATTCCGTGGATTTACACACA
1 TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
** * **
9844623 TAGTACCTGCT-CGGTTATTCATCAACTCATAATGAATTATGTGGATTTGCACACA
1 TAGTGTCTG-TACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * *
9844678 TAGTGTCTGTACGGTTATTCATCAACTTATGATGAATTTCGTGGATTTGCATACA
1 TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* *
9844733 TAGT-TCCTGTATGGTTATTCATCAACTCAAGATGAATTCCGTGGATTTGCACACA
1 TAGTGT-CTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
*
9844788 TAGTG-CTTGTACGGTTATTCATCAACTCATGATGAATTCCTTGGATTTGCACACA
1 TAGTGTC-TGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
*
9844843 TAGTGCCTGTA
1 TAGTGTCTGTA
9844854 GTACACTTAG
Statistics
Matches: 433, Mismatches: 66, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
54 3 0.01
55 426 0.98
56 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (55 bp):
TAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
Found at i:9851492 original size:55 final size:54
Alignment explanation
Indices: 9851431--9851825 Score: 347
Period size: 55 Copynumber: 7.4 Consensus size: 54
9851421 TTTATTAAGA
* * *
9851431 TGCACACGTAGTGCCTATACGATAGTTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
9851486 TGCACACATAATGCC--TA---TA-CCATCATCTCATGATGAATTTCATGGATT
1 TGCACACATAGTGCCTGTACGTTATTCATCAACTCATGATGAATTCCGTGGATT
* ** * *
9851534 TGCACACATAGTGCTTGTACGGTTATTTTTTAACTCATGATGAATTCAGTGGATT
1 TGCACACATAGTGCCTGTAC-GTTATTCATCAACTCATGATGAATTCCGTGGATT
* ** * * *
9851589 TGCAAACATAGTGTTTGTATGGTTATTCATCAACTTATGATGAATTCTGTGGATT
1 TGCACACATAGTGCCTGTA-CGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
9851644 TTCA-A-ATAGTGCTTGTACGATTTTTCATCAACTCATGATGAATTTCGTGGACT
1 TGCACACATAGTGCCTGTACG-TTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * * * **
9851697 TGTATAGATAGTGTCTATATGGTTATTCATCAACTCATAATGAATTCAATGGATT
1 TGCACACATAGTGCCTGTA-CGTTATTCATCAACTCATGATGAATTCCGTGGATT
* **
9851752 TGTACACATAGTGTTTGTACAGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTAC-GTTATTCATCAACTCATGATGAATTCCGTGGATT
*
9851807 TACACACATAGTGCCTGTA
1 TGCACACATAGTGCCTGTA
9851826 GTACACGTAG
Statistics
Matches: 271, Mismatches: 56, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
48 38 0.14
50 4 0.01
52 1 0.00
53 43 0.16
54 4 0.01
55 180 0.66
56 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (54 bp):
TGCACACATAGTGCCTGTACGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:9851742 original size:163 final size:165
Alignment explanation
Indices: 9851456--9851825 Score: 445
Period size: 163 Copynumber: 2.3 Consensus size: 165
9851446 TATACGATAG
* * * *
9851456 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAATGCCTATAC-------CATCATCT
1 TTCATCAACTCATGATGAATTCCGTGGATTTACACACATAGTGCCTGTACGATTTTTCATCAACT
* * ** * *
9851514 CATGATGAATTTCATGGATTTGCACACATAGTGCTTGTACGGTTATTTTTTAACTCATGATGAAT
66 CATGATGAATTTCATGGACTTGCACACATAGTGCTTATACGGTTATTCATCAACTCATAATGAAT
* **
9851579 TCAGTGGATTTGCAAACATAGTGTTTGTATGGTTA
131 TCAATGGATTTGCAAACATAGTGTTTGTACAGTTA
* * * *
9851614 TTCATCAACTTATGATGAATTCTGTGGATTTTCA-A-ATAGTGCTTGTACGATTTTTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTGGATTTACACACATAGTGCCTGTACGATTTTTCATCAACT
* * * * *
9851677 CATGATGAATTTCGTGGACTTGTATAGATAGTG-TCTATATGGTTATTCATCAACTCATAATGAA
66 CATGATGAATTTCATGGACTTGCACACATAGTGCT-TATACGGTTATTCATCAACTCATAATGAA
* *
9851741 TTCAATGGATTTGTACACATAGTGTTTGTACAGTTA
130 TTCAATGGATTTGCAAACATAGTGTTTGTACAGTTA
9851777 TTCATCAACTCATGATGAATTCCGTGGATTTACACACATAGTGCCTGTA
1 TTCATCAACTCATGATGAATTCCGTGGATTTACACACATAGTGCCTGTA
9851826 GTACACGTAG
Statistics
Matches: 175, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
156 10 0.06
157 1 0.01
158 31 0.18
162 1 0.01
163 120 0.69
164 1 0.01
165 11 0.06
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (165 bp):
TTCATCAACTCATGATGAATTCCGTGGATTTACACACATAGTGCCTGTACGATTTTTCATCAACT
CATGATGAATTTCATGGACTTGCACACATAGTGCTTATACGGTTATTCATCAACTCATAATGAAT
TCAATGGATTTGCAAACATAGTGTTTGTACAGTTA
Found at i:9851835 original size:9 final size:9
Alignment explanation
Indices: 9851823--9851847 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9851813 CATAGTGCCT
9851823 GTAGTACAC
1 GTAGTACAC
9851832 GTAGTACAC
1 GTAGTACAC
9851841 GTAGTAC
1 GTAGTAC
9851848 TGATATACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (9 bp):
GTAGTACAC
Found at i:9854040 original size:40 final size:41
Alignment explanation
Indices: 9853958--9854056 Score: 121
Period size: 40 Copynumber: 2.4 Consensus size: 41
9853948 GCTACAGAAC
* * **
9853958 CATACTATAGTGGCATTTTTAGACAAACGCCGTTAAAAACT
1 CATACTTTAGTGGCGTTTTTAGACAAACGCCGACAAAAACT
*
9853999 CATACTTTAGTGGCGTTTTT-GACAAACGCC-ACAACATACT
1 CATACTTTAGTGGCGTTTTTAGACAAACGCCGACAA-AAACT
*
9854039 CATATTTTAGTGGCGTTT
1 CATACTTTAGTGGCGTTT
9854057 ATTAAATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.04
40 31 0.61
41 18 0.35
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (41 bp):
CATACTTTAGTGGCGTTTTTAGACAAACGCCGACAAAAACT
Found at i:9858704 original size:18 final size:18
Alignment explanation
Indices: 9858663--9858705 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9858653 GTTGATATAT
*
9858663 GCCTCTACCTCATCTTCG
1 GCCTCTACCTCATCTTCA
*
9858681 GTCTCTACCTCATCTTCA
1 GCCTCTACCTCATCTTCA
9858699 GCCTCTA
1 GCCTCTA
9858706 AATCCTCGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.42, G:0.09, T:0.35
Consensus pattern (18 bp):
GCCTCTACCTCATCTTCA
Found at i:9869766 original size:32 final size:32
Alignment explanation
Indices: 9869696--9869784 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
9869686 ATATTCTACG
*
9869696 GAACATATGGATAGAATTACCTATGTCTTCCA
1 GAACATATGGACAGAATTACCTATGTCTTCCA
* *
9869728 GGACATATGGACAGAATTACCTATGTCTTTC-
1 GAACATATGGACAGAATTACCTATGTCTTCCA
9869759 GAAACATATGGAC--AATATACCTATGT
1 G-AACATATGGACAGAAT-TACCTATGT
9869785 TCTAAGGAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
30 3 0.06
31 10 0.20
32 38 0.75
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (32 bp):
GAACATATGGACAGAATTACCTATGTCTTCCA
Found at i:9874006 original size:59 final size:58
Alignment explanation
Indices: 9873882--9874006 Score: 144
Period size: 59 Copynumber: 2.1 Consensus size: 58
9873872 ATAGTTGGGT
* * *
9873882 GACCATTTTGTAACTTTAATAGTCGGAGGACTCAAAAAAGCAACAACATATAGTCAGG
1 GACCATTTTGTAACTTTAAAAGTCAGAGGACTCAAAAAAGCAACAACATATACTCAGG
* * * * * *
9873940 AACCATTTTGTAACTTTCAAAAGTCA-AGGGAGTCAACAAAGCAACACCTTATACTCGGG
1 GACCATTTTGTAACTTT-AAAAGTCAGA-GGACTCAAAAAAGCAACAACATATACTCAGG
9873999 GACCATTT
1 GACCATTT
9874007 ATATACTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 17 0.31
59 38 0.69
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (58 bp):
GACCATTTTGTAACTTTAAAAGTCAGAGGACTCAAAAAAGCAACAACATATACTCAGG
Found at i:9877125 original size:63 final size:62
Alignment explanation
Indices: 9877006--9877125 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 62
9876996 GTCTAAATAA
* * ** * *
9877006 TAATTACTAATTTACTAATAGATAATAAGAAAGATGTTAAATTATTAATTAATAATTATTAC
1 TAATTACTAATTTACTAATAAATAATAAGAAAAATAATAAAATATCAATTAATAATTATTAC
**
9877068 TAATATACTAATTTTTTAATAAATAATAAGAAAAATAATAAAATATCAA-TAATTAATT
1 TAAT-TACTAATTTACTAATAAATAATAAGAAAAATAATAAAATATCAATTAA-TAATT
9877126 TACACCAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
62 7 0.15
63 41 0.85
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (62 bp):
TAATTACTAATTTACTAATAAATAATAAGAAAAATAATAAAATATCAATTAATAATTATTAC
Found at i:9877762 original size:44 final size:44
Alignment explanation
Indices: 9877714--9877810 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
9877704 CAAACATATT
* *
9877714 GCGGCG-TTT-GTATACTAAAATGACGCTATATAACCTGACCTTTA
1 GCGGCGTTTTAGTATAC--AAACGACGCTACATAACCTGACCTTTA
* * *
9877758 GCGGCGTTTTAGTATACAAACGCCGCTACATAACTTGACTTTTA
1 GCGGCGTTTTAGTATACAAACGACGCTACATAACCTGACCTTTA
9877802 GCGGCGTTT
1 GCGGCGTTT
9877811 ATTAGTAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 37 0.80
45 3 0.07
46 6 0.13
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (44 bp):
GCGGCGTTTTAGTATACAAACGACGCTACATAACCTGACCTTTA
Found at i:9880554 original size:60 final size:60
Alignment explanation
Indices: 9880486--9880606 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
9880476 GTGCATCGGT
9880486 GCACTATGAATGGGTACTGATGCACTAAGACCAATTTTGAAGCTACATCGATACACACCG
1 GCACTATGAATGGGTACTGATGCACTAAGACCAATTTTGAAGCTACATCGATACACACCG
9880546 GCACTATGAATGGGTACTGATGCACTAAGACCAATTTTGAAGCTACATCGATACACACCG
1 GCACTATGAATGGGTACTGATGCACTAAGACCAATTTTGAAGCTACATCGATACACACCG
9880606 G
1 G
9880607 TAGGCATCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (60 bp):
GCACTATGAATGGGTACTGATGCACTAAGACCAATTTTGAAGCTACATCGATACACACCG
Found at i:9881422 original size:31 final size:31
Alignment explanation
Indices: 9881384--9881461 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
9881374 GTGTCGAGGG
*
9881384 TTACCTATGTTCTTCGGGACATATGGATTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
9881415 TTACCTATGTTCTTTGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
9881446 TTACCTAGGTTCTTCG
1 TTACCTATGTTCTTCG
9881462 AAATCTATGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:9881471 original size:31 final size:31
Alignment explanation
Indices: 9881384--9881475 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 31
9881374 GTGTCGAGGG
* ** *
9881384 TTACCTATGTTCTTCGGGACATATGGATTGT
1 TTACCTAGGTTCTTCGAAACATATGGACTGT
* * **
9881415 TTACCTATGTTCTTTGGGACATATGGACTGT
1 TTACCTAGGTTCTTCGAAACATATGGACTGT
9881446 TTACCTAGGTTCTTCGAAATC-TATGGACTG
1 TTACCTAGGTTCTTCGAAA-CATATGGACTG
9881476 GTCCTTTGGG
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 53 0.98
32 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (31 bp):
TTACCTAGGTTCTTCGAAACATATGGACTGT
Done.