Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 67 of 218
Found at i:20110802 original size:33 final size:32
Alignment explanation
Indices: 20110740--20110800 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
20110730 AAATTATTAA
*
20110740 TTTTTAAATTATTTTTAAAGATATTAAAATAT
1 TTTTTAAATTATATTTAAAGATATTAAAATAT
*
20110772 TTTTTAAAATTATATTTAAA-ATTTTAAAA
1 TTTTT-AAATTATATTTAAAGATATTAAAA
20110801 ATTAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (32 bp):
TTTTTAAATTATATTTAAAGATATTAAAATAT
Found at i:20115622 original size:25 final size:24
Alignment explanation
Indices: 20115586--20115728 Score: 96
Period size: 25 Copynumber: 5.8 Consensus size: 24
20115576 CTCTTTTATA
*
20115586 AGCTTCCTGATATATGGCTCTTTGG
1 AGCTTCCCGATATATGGCTCTTT-G
*
20115611 AGCTTCCCGATAT-TGGCTCGCTTG
1 AGCTTCCCGATATATGGCTC-TTTG
* *
20115635 AACTTCCCTAT-TATGGCTCTTATG
1 AGCTTCCCGATATATGGCTCTT-TG
* * * **
20115659 AGCTTCCTGTTATATAGCTCGAATG
1 AGCTTCCCGATATATGGCTC-TTTG
*
20115684 AGCTTCCC-ATTACATGGCTCATATT-
1 AGCTTCCCGA-TATATGGCTC-T-TTG
*
20115709 AGCTTCCCGTTATATGGCTC
1 AGCTTCCCGATATATGGCTC
20115729 GAGAGAGAGC
Statistics
Matches: 89, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
23 2 0.02
24 31 0.35
25 55 0.62
26 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (24 bp):
AGCTTCCCGATATATGGCTCTTTG
Found at i:20115662 original size:48 final size:48
Alignment explanation
Indices: 20115598--20115730 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 48
20115588 CTTCCTGATA
* **
20115598 TATGGCTCTT-TGGAGCTTCCCGATAT-TGGCTCGCTTGAACTTCCCTAT
1 TATGGCTCTTAT-GAGCTTCCCGTTATATGGCTCGAATGAACTTCCC-AT
* * *
20115646 TATGGCTCTTATGAGCTTCCTGTTATATAGCTCGAATGAGCTTCCCAT
1 TATGGCTCTTATGAGCTTCCCGTTATATGGCTCGAATGAACTTCCCAT
* *
20115694 TACATGGCTCATATTAGCTTCCCGTTATATGGCTCGA
1 T--ATGGCTCTTATGAGCTTCCCGTTATATGGCTCGA
20115731 GAGAGAGCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 25 0.35
49 16 0.23
50 30 0.42
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (48 bp):
TATGGCTCTTATGAGCTTCCCGTTATATGGCTCGAATGAACTTCCCAT
Found at i:20115664 original size:24 final size:23
Alignment explanation
Indices: 20115598--20115665 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
20115588 CTTCCTGATA
*
20115598 TATGGCTCTTTGGAGCTTCCCGA-
1 TATGGCTCTTT-GAGCTTCCCTAT
* *
20115621 TATTGGCTCGCTTGAACTTCCCTAT
1 TA-TGGCTC-TTTGAGCTTCCCTAT
20115646 TATGGCTCTTATGAGCTTCC
1 TATGGCTCTT-TGAGCTTCC
20115666 TGTTATATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.08
24 29 0.81
25 4 0.11
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (23 bp):
TATGGCTCTTTGAGCTTCCCTAT
Found at i:20122508 original size:256 final size:256
Alignment explanation
Indices: 20122127--20123154 Score: 949
Period size: 256 Copynumber: 4.0 Consensus size: 256
20122117 AAAACCGAAG
* * * * * *
20122127 AAAACCCTCTGTTGAAACCCA-TATGTAGTAGTGATGAA-TGAAGAGATTAAATAAGGGAT-AGT
1 AAAACCCTCTGTT-AAA-CCAGTCTCTAATAGGGATGAATTG-AGAGATTTAATTAGGGATGA-T
* * * * * * * * * **
20122189 GATAGGATGCCAAGTCTTAAACTGTTTTACC-AGAAATAAATTATGAGCAGCCGCTTCTTCTCCT
62 GATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGTAGCTACTTCTTCTCCT
* * * * *
20122253 CAAATACAAGTTGCAGATTTTGTTGGAGATGGAATCAAGTTTACTCTTTAATCGAAAGAGAAAGG
127 CAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAAG
* * * * *
20122318 GTTATCAT-AACCCTTAGAAAAAACCGTTTTCCAACT-TGGTTGAATGCAAAGCTTTGAAGATCC
192 GTTATC-TCAACCCTTAGAGAAATCCGATTTCCAACTCTGG-TGAATGGAAAGATTTGAAGATCC
20122381 AA
255 AA
* * * *
20122383 AAAACCCTATGTTGAACCTGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGGTC
1 AAAACCCTCTGTTAAACCAGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGATC
*
20122448 GGCTACCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGTAGCTACTTCTTCTCCTCAAA
66 GGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGTAGCTACTTCTTCTCCTCAAA
* *
20122513 TACAAGTTACAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATAGAAAGAGAAAAGGTTA
131 TACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAAGGTTA
*
20122578 TCTCAACCCTTTA-AGAAATCCAATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCC-A
196 TCTCAACCC-TTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCCAA
* * * * * *
20122638 AGAACCCTCTGTTTATACCCA-TCTCTAATAGGGATAAATAGATAGATTTAATTAAGGATGATGA
1 AAAACCCTCTG-TTA-AACCAGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGA
* * * * * * * *
20122702 TCGGCGGTCAAGTCTCAACTAGATTTT-CATACAAATAGA-TTCGAAGCT-TCTACTTCTTCCCC
64 TCGGCTGCCAAGTCTCAACCAGTTTTTCCA-AGAAATAGATTTTG-AG-TAGCTACTTCTTCTCC
* * * * * *
20122764 TCAAATACAAGTTGCAAATTTTGTTGGTGATGAAATCAAATTCATTTCTCAAT-AAAAGAGAAAA
126 TCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAA
** * * * * * * *
20122828 TTTTATCTCAACCTTTTGAGAAATCTGATTTCCAAATCTCGTGAATGGAAAGGTTTGAATAT-CA
191 GGTTATCTCAACCCTTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCCA
20122892 A
256 A
* *
20122893 AGATAACCCTCTCTTAAAACCAGTCTCTAATGGGGATGAA-TGTAGAGATTTAATTAGGGATGAT
1 A-A-AACCCTCTGTT-AAACCAGTCTCTAATAGGGATGAATTG-AGAGATTTAATTAGGGATGAT
* ** * * *
20122957 GATCGGCTGCCAAGTCTAAACCAAG--TTGACAAGAAATAGATTCTGAGTGGCTACTTCTTTTCC
62 GATCGGCTGCCAAGTCTCAACC-AGTTTTTCCAAGAAATAGATTTTGAGTAGCTACTTCTTCTCC
* * * * * * *
20123020 TCATATACAACTAGCAGATTTTATTGGAGATGGAATCAAATTCACTCCTAAATCGAAAGAGAAAG
126 TCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAA
* * * ** * ** * * * *
20123085 GGTCATCTCAACACTTTA-AAAAATTTGTTTTAGAACTTTGGTGAATAGAAAGCTTTAAAGATCC
191 GGTTATCTCAAC-CCTTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCC
20123149 AA
255 AA
20123151 AAAA
1 AAAA
20123155 AAAATCCAAT
Statistics
Matches: 628, Mismatches: 118, Indels: 52
0.79 0.15 0.07
Matches are distributed among these distances:
254 5 0.01
255 133 0.21
256 354 0.56
257 126 0.20
258 10 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (256 bp):
AAAACCCTCTGTTAAACCAGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGATC
GGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGTAGCTACTTCTTCTCCTCAAA
TACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAAGGTTA
TCTCAACCCTTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCCAA
Found at i:20123240 original size:104 final size:104
Alignment explanation
Indices: 20123053--20123254 Score: 271
Period size: 104 Copynumber: 1.9 Consensus size: 104
20123043 TTGGAGATGG
* *
20123053 AATCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATTTGTTTTAG
1 AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAC
**
20123118 AACTTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
66 AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
* * * * * * *
20123157 AATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAAAAATTTGTTTTC
1 AATCAAATTCACTCCTAAATCGAAAGAGAA-AGAGTCATCTCAACACTTTAAAAAATTTGTTTTA
* *
20123221 CAACTCAGGTGAATGGAAAGCTTTGAAGATCCAA
65 CAACTCAGGTGAATAGAAAGCTTTAAAGATCCAA
20123255 GATAACCCTA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 83 0.99
105 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (104 bp):
AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAC
AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
Found at i:20123490 original size:361 final size:360
Alignment explanation
Indices: 20122796--20123508 Score: 880
Period size: 361 Copynumber: 2.0 Consensus size: 360
20122786 GTTGGTGATG
* * * * *
20122796 AAATCAAATTCATTTCTCAATAAAAGAGAAAATTTTATCTCAACCTTTTGAGAAATCTGATTTCC
1 AAATCAAATTCACTCCTCAATAAAAGAGAAAATGTTATCTCAACCCTTTGAAAAATCTGATTTCC
* * * * *
20122861 AAATCTCGTGAATGGAAAGGTTTGAATATCAAAGATAACCCTCTCTTAAAACCAGTCTCTAATGG
66 AAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTAAAACCAGTCTCTAATAG
* * *
20122926 GGATGAATGTAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTAAACCAAGTTGACAAGA
131 GGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAAGTCTAAACCAAGTTGACAAGA
* * * * **
20122991 AATAGATTCTGAGTGGCTACTTCTTTTCCTCATATACAACTAGCAGATTTTATTGGAGATGGAAT
196 AATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATAGCAGATTTTATTGGAGATAAAAT
* * *
20123056 CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATTTGTTTTAGAAC
261 CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATCTGATTTACAAC
*
20123121 TTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAA
326 TCTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAA
* * * * *
20123156 AAATCCAATTCACTCCTCAATCGAAAGAGAATAA-GTTATCTTAACCCTTTGAAAAATTTGTTTT
1 AAATCAAATTCACTCCTCAAT-AAAAGAGAA-AATGTTATCTCAACCCTTTGAAAAATCTGATTT
* * * * *
20123220 CCAACTCAGGTGAATGGAAAGCTTTGAAGATCCAAGATAACCCTATGTT-GAACACA-TCTCTAA
64 CCAAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTAAAAC-CAGTCTCTAA
* * **
20123283 TAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACT-ACAAGGTCTCAACCAATTTTTC
128 TAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAA-GTCTAAACCAA-GTTGA
* * *
20123347 CATGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCA-ATTTTTTTTGGAGA
191 CAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATAGCAGA-TTTTATTGGAGA
* * * * * *
20123411 TAAAATCAATTTCACTCCTCAATTGAAAGAGGAAGGGTTATCTCAA-ACCTTTAAGAAATCTGAT
255 TAAAATCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACA-CTTTAAAAAATCTGAT
* * *
20123475 TTCCAACTCTGGTGAATCGAAAGCTTTGAAGATC
319 TTACAACTCTGGTGAATAGAAAGCTTTAAAGATC
20123509 AAGGAAAACC
Statistics
Matches: 297, Mismatches: 49, Indels: 13
0.83 0.14 0.04
Matches are distributed among these distances:
359 3 0.01
360 79 0.27
361 213 0.72
362 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (360 bp):
AAATCAAATTCACTCCTCAATAAAAGAGAAAATGTTATCTCAACCCTTTGAAAAATCTGATTTCC
AAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTAAAACCAGTCTCTAATAG
GGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAAGTCTAAACCAAGTTGACAAGA
AATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATAGCAGATTTTATTGGAGATAAAAT
CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATCTGATTTACAAC
TCTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAA
Found at i:20123707 original size:258 final size:257
Alignment explanation
Indices: 20123155--20123910 Score: 804
Period size: 258 Copynumber: 2.9 Consensus size: 257
20123145 ATCCAAAAAA
* * * * * *
20123155 AAAATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAA-AAATTTGTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAA-AGGGTTATCTCAAACCTTT-AAGAAATCTGAT
* * *
20123218 TTCCAACTCAGGTGAATGGAAAGCTTTGAAGATCCAAGATAACCCTATGTTG-AACACATCTCTA
64 TTCCAACTCTGGTGAATGGAAAGCTTTGAAGAT-CAAGAAAACCCTATGTTGAAACCCATCTCTA
* * * * **
20123282 ATAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTACAAGGTCTCAACCAATTTTTC
128 ATAGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGAC
* * **
20123347 CATGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTTTTGGAGAT
193 AAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
* * *
20123412 AAAATCAATTTCACTCCTCAATTGAAAGAGGAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
* * * *
20123477 CCAACTCTGGTGAATCGAAAGCTTTGAAGATCAAGGAAAACCCTCTATTGAAACCCATATCTAAT
66 CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAA-GAAAACCCTATGTTGAAACCCATCTCTAAT
* * *
20123542 AAAGG-TGAATGGAGAGATTTAATTAGGAATGATAATCGGCTACCAA-GTCTGC-ACTAACTTGA
130 -AGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTA-CAAGGTCT-CAACCAACTTGA
* * * *
20123604 CAAAGAAATAGATTTTGAGCT-GCTACTTCTTCTCGTAAAATACAAGTTGCAGA-TTTTACTGGT
192 CAAAGAAATAGATTCTGAG-TGGCTACTTCTTCTCCTAAAATACAAATTGCA-ATTTTTACTGGA
20123667 GAT
255 GAT
** * * * *
20123670 GTAATCAAATTCACTTCTTAATCGGAAGAGAAAGGGTTATCTC-AACACTTTGAGAAATCTGATT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAAC-CTTTAAGAAATCTGATT
* * *
20123734 TCCAACTCTGGTGAATGGAAAGCTTTGAAGATCTAAGAAAACCATATGTTGAAACCTATCTCTTA
65 TCCAACTCTGGTGAATGGAAAGCTTTGAAGATC-AAGAAAACCCTATGTTGAAACCCATCTCTAA
* * * * *
20123799 TAGGGAAGAATGGAGTGATTTAATTAGGTAAT-ATGATCGACTGTCAA-GTCTCAA-CAAGTTTG
129 TAGGGATGAATGGAGAGATTTAATTAGG-AATGATAATCGACT-ACAAGGTCTCAACCAA-CTTG
* * * * *
20123861 AC-AAGAAATAGATTCTAAGCGGCTATTTTTTATCCTCAAAA-AC-AATTGCA
191 ACAAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCT-AAAATACAAATTGCA
20123911 TATTGTAACA
Statistics
Matches: 416, Mismatches: 65, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
256 12 0.03
257 129 0.31
258 261 0.63
259 14 0.03
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (257 bp):
AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAAGAAAACCCTATGTTGAAACCCATCTCTAATA
GGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGACAAA
GAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
Found at i:20127505 original size:258 final size:257
Alignment explanation
Indices: 20127031--20127915 Score: 865
Period size: 258 Copynumber: 3.4 Consensus size: 257
20127021 AGAGGTTACA
* * * *
20127031 CAGATTTTATTTGAGATTGAATAAAATTCACACCAT-AATCAAAAGAGAAAAGGGTTATCTCAAC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCC-TCAATCAAAAGAG-AAAGGGTTATCTCAAC
* * * * * * * * *
20127095 CCTTTGAAAAATCCATTTTCCAAATTCGATGAATGTAAAGTTTTGAAGATCCAA-AAACACCCTT
64 CTTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAACTTTTGAAGATACAAGAAA-ACCCTT
* * *** * * * * *
20127159 TGTCGAATTTCGTCTCTAATAGGGATGAATGGAGAGATTTTACTAGGGATTATGACCGACTGTCA
128 TATTGAAACCCGTCTCTAATAGGGATGAATAGAGAGA-TTTAATAGGAATGATGATCGACTGTCA
* * ** *
20127224 AGTCTTAACCAATTTTTCCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCTAATACAAGTT
192 AGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAAGTT
20127289 G
257 G
* *
20127290 CAGATTTTGTTAGAGATTGAATCAAATTCACTCCTCAATCGAAAA-AGAAAGGGTTATCTCAATC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATC-AAAAGAGAAAGGGTTATCTCAACC
* * *
20127354 TTTTGAGAAATCCAATTACCAACTCCGGTGAATGGAAACTTTTGAAGATACAAGAAAACTCTTTC
65 TTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAACTTTTGAAGATACAAGAAAACCCTTTA
* * * **
20127419 TTGAACCCCATATCTAATAGGGATGAATAGAGAGATTTAATACGGAATGATGATCGACTACCAAG
130 TTGAAACCCGTCTCTAATAGGGATGAATAGAGAGATTTAATA-GGAATGATGATCGACTGTCAAG
* * * * *
20127484 TCTCAACTAGCTTAACCAAGAAATAGATTATGAGCTGCTACTTATTCTCCTAAAATACATGTTG
194 TCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAAGTTG
* * * ** * *
20127548 CAGATCTTGTTGGTGATAGAATCAAATTCACTCCTCCCTCAAAAGACAAAAGGTTATCTCAA-CT
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGAGAAAGGGTTATCTCAACCT
* * * ** * *
20127612 CTTTAAGAAATTCAATTTCCAACTCCAGTGAATGGAAA-TATTTGATA-ATTTAAGCAAACCCTC
66 -TTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAACT-TTTGA-AGATACAAGAAAACCCTT
* * * *
20127675 TATTGAAACCTGTCTCAAATAGGGATGAATTGAGAGATTTAATTAGGGAA-GATGATC-AGTTGT
128 TATTGAAACCCGTCTCTAATAGGGATGAATAGAGAGATTTAA-TA-GGAATGATGATCGA-CTGT
* * * * * * ** * *
20127738 GAGGTCTCAACCAGTTTGACTAAGAAATATATTTTGAACTAATACTTCTTCTCTTCAAATAC-AG
190 CAAGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAAG
20127802 ATTG
255 -TTG
* * ** *
20127806 CAG-TTTTTTTGGAGATTGAATCAAATTCACTCCTTAATTGAAAGAAAAAGGGTTATCTCAACCT
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGAGAAAGGGTTATCTCAACCT
* *
20127870 TTTGAGAAATCTAATTTCCAACTCCGGTGAATAGAAAGC-TTTGAAG
66 TTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAA-CTTTTGAAG
20127916 TTCTAAAAAA
Statistics
Matches: 512, Mismatches: 99, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
256 1 0.00
257 99 0.19
258 362 0.71
259 46 0.09
260 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (257 bp):
CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGAGAAAGGGTTATCTCAACCT
TTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAACTTTTGAAGATACAAGAAAACCCTTTAT
TGAAACCCGTCTCTAATAGGGATGAATAGAGAGATTTAATAGGAATGATGATCGACTGTCAAGTC
TCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAAGTTG
Found at i:20128283 original size:317 final size:317
Alignment explanation
Indices: 20127701--20128289 Score: 695
Period size: 317 Copynumber: 1.9 Consensus size: 317
20127691 AAATAGGGAT
* * * *
20127701 GAATTGAGAGATTTAATTAGGGAAGATGATCAGTTGTGAGGTCTCAACCAGTTTGACTAAGAAAT
1 GAATGGAGAGATTTAATTAGGGAAGATGATCAGCTGTGAAGTCTCAACCAGTTTGACCAAGAAAT
* * * * * *
20127766 ATATTTTGAACTAATACTTCTTCTCTTCAAATACAGATTGCAGTTTTTTTGGAGATTGAATCAAA
66 AGATTCTGAACTAATACTTCTTCTCTTCAAATACAGATTGCAGTGTTATTAGAGATGGAATCAAA
* * * * * *
20127831 TTCACTCCTTAATTGAAAGAAAAAGGGTTATCTCAACCTTTTGAGAAATCTAATTTCCAACTCCG
131 TTCACTCCTCAATTGAAAGAAAAAGGGTTACCTCAACCCTTTGAGAAATCCAATCTCCAAATCCG
* * ** * *
20127896 GTGAATAGAAAGCTTTGAAGTTCTAAAAAAAACCATCTGTTGAAACCTATCTCTAATATCGATAA
196 ATGAATAGAAAGCTTTAAAAATCTAAAAAAAACCATCTATTGAAACATATCTCTAATATCGATAA
20127961 ATGGAGAGATTTGAAGATCCAGGAAAACCATATGTTGAATTCGTCTCTAGTAGGAAG
261 ATGGAGAGATTTGAAGATCCAGGAAAACCATATGTTGAATTCGTCTCTAGTAGGAAG
* * * *
20128018 GAATGGAGAGATTTGATTAGGGATGATGATCGGCTGCT-AAGTCTCAACCAGTTTGTCCAAGAAA
1 GAATGGAGAGATTTAATTAGGGAAGATGATCAGCTG-TGAAGTCTCAACCAGTTTGACCAAGAAA
** ** * *
20128082 TAGATTCTGAGTTGTTTCTTCTTCT-TCTCAAATACA-AGTTGCAGATGTTATTATAGATGGAAT
65 TAGATTCTGAACTAATACTTCTTCTCT-TCAAATACAGA-TTGCAG-TGTTATTAGAGATGGAAT
* * *
20128145 CAAATTCATTCCTCAATTGAAATAGAAAA-GGTTACCTCAACCCTTTGAGAAATCCAATCTCTAA
127 CAAATTCACTCCTCAATTGAAAGA-AAAAGGGTTACCTCAACCCTTTGAGAAATCCAATCTCCAA
* * * * * *
20128209 ATCTGATGAAT-GATAAGGTTTAAAAATC-CAAGAAAACCCTCTATTGAAACATGTCTCTAATAT
191 ATCCGATGAATAGA-AAGCTTTAAAAATCTAAAAAAAACCATCTATTGAAACATATCTCTAATAT
* *
20128272 GGATGAATGGAGAGATTT
255 CGATAAATGGAGAGATTT
20128290 AGTTAGGGGT
Statistics
Matches: 223, Mismatches: 43, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
316 2 0.01
317 134 0.60
318 83 0.37
319 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (317 bp):
GAATGGAGAGATTTAATTAGGGAAGATGATCAGCTGTGAAGTCTCAACCAGTTTGACCAAGAAAT
AGATTCTGAACTAATACTTCTTCTCTTCAAATACAGATTGCAGTGTTATTAGAGATGGAATCAAA
TTCACTCCTCAATTGAAAGAAAAAGGGTTACCTCAACCCTTTGAGAAATCCAATCTCCAAATCCG
ATGAATAGAAAGCTTTAAAAATCTAAAAAAAACCATCTATTGAAACATATCTCTAATATCGATAA
ATGGAGAGATTTGAAGATCCAGGAAAACCATATGTTGAATTCGTCTCTAGTAGGAAG
Found at i:20128510 original size:258 final size:258
Alignment explanation
Indices: 20128003--20128535 Score: 666
Period size: 258 Copynumber: 2.1 Consensus size: 258
20127993 TGTTGAATTC
* * * * * *
20128003 GTCTCTAGTAGGAAGGAATGGAGAGATTTGATTAGGGATGATGATCGGCTGCTAAGTCTCAACCA
1 GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCCAAGTCTCAAACA
* *
20128068 GTTTGTCCAAGAAATAGATTCTGAGTTGTTTCTTCTTCTTCTCAAATACAAGTTGCAGATGTTAT
66 GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATGTTAT
* * *
20128133 TATAGATGGAATCAAATTCATTCCTCAATTGAAATAGAAAAGGTTACCTCAACCCTTTGAGAAAT
131 TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
* *
20128198 CCAATCTCTAAATCTGATGAATGATAAGGTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
196 CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
* * * * *
20128261 GTCTCTAATATGGATGAATGGAGAGATTT-AGTTAGGGGTGATGATCAGTTTCCAATTCTCAAAC
1 GTCTCTAATAGGGATGAATGGAGAGATTTGA-TTAGGGATGATGATCAGCTGCCAAGTCTCAAAC
* *
20128325 AGTTTGACCAAGAAATAGATTCTGAGCTT-TTACTTCTTCTTCTCAAATACAAGTTGTAGATTTT
65 AGTTTGACCAAGAAATAGATTCTGAG-TTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATGTT
* * * *
20128389 GTTAGAGATGGGATTCAAATTCACTCCTTAATTGAAAGAG-AAAGTGTTATCTCAACCCTTTGA-
129 ATTAGAGAT-GGAATCAAATTCACTCCTCAATTGAAAGAGAAAAG-GTTACCTCAACCCTTTGAG
* * * * * *
20128452 AAGTTCCATTTTC-AAA-CTTCGATGAATGAAAAGCTTTGAATATCTAAGAAAA-CCTCTATTGA
192 AA-ATCCAATCTCTAAATC-T-GATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGA
*
20128514 AACTT
254 AACAT
*
20128519 GTCTTTAATAGGGATGA
1 GTCTCTAATAGGGATGA
20128536 TGATCGGCTA
Statistics
Matches: 235, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
257 2 0.01
258 154 0.66
259 79 0.34
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (258 bp):
GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCCAAGTCTCAAACA
GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATGTTAT
TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
Found at i:20129022 original size:9 final size:9
Alignment explanation
Indices: 20129010--20129035 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20129000 CTTCTTCATC
20129010 TTCCTCTTT
1 TTCCTCTTT
20129019 TTCCTCTTT
1 TTCCTCTTT
20129028 TTCCTCTT
1 TTCCTCTT
20129036 CTTCATCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (9 bp):
TTCCTCTTT
Found at i:20129026 original size:15 final size:15
Alignment explanation
Indices: 20128999--20129063 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
20128989 TTTTTGTTCT
*
20128999 TCTTCTTCATCTTCC
1 TCTTTTTCATCTTCC
*
20129014 TCTTTTTCCTCTTTTTCC
1 TCTTTTTCATC---TTCC
* *
20129032 TCTTCTTCATCTCCC
1 TCTTTTTCATCTTCC
*
20129047 TCTTTTTCTTCTTCC
1 TCTTTTTCATCTTCC
20129062 TC
1 TC
20129064 ATCATCATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 26 0.67
18 13 0.33
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTTTTTCATCTTCC
Found at i:20129035 original size:24 final size:24
Alignment explanation
Indices: 20128999--20129066 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
20128989 TTTTTGTTCT
* * * *
20128999 TCTTCTTCATCTTCCTCTTTTTCC
1 TCTTTTTCATCTTCCTCATCTCCC
* *
20129023 TCTTTTTCCTCTTCTTCATCTCCC
1 TCTTTTTCATCTTCCTCATCTCCC
*
20129047 TCTTTTTCTTCTTCCTCATC
1 TCTTTTTCATCTTCCTCATC
20129067 ATCATCATCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.57
Consensus pattern (24 bp):
TCTTTTTCATCTTCCTCATCTCCC
Found at i:20129057 original size:18 final size:18
Alignment explanation
Indices: 20128996--20129291 Score: 90
Period size: 18 Copynumber: 16.9 Consensus size: 18
20128986 GGCTTTTTGT
*
20128996 TCTTCTTCTTCATCTTCC
1 TCTTTTTCTTCATCTTCC
* * *
20129014 TCTTTTTCCTCTTTTTCC
1 TCTTTTTCTTCATCTTCC
*
20129032 TC---TTCTTCATCTCCC
1 TCTTTTTCTTCATCTTCC
20129047 TCTTTTTC-T--TCTTCC
1 TCTTTTTCTTCATCTTCC
* ** * * *
20129062 TCATCATCATCATCATCA
1 TCTTTTTCTTCATCTTCC
* ** * * *
20129080 TCATCATCATCATCATCA
1 TCTTTTTCTTCATCTTCC
* * * *
20129098 TCATCTTCTTCTTCTTCA
1 TCTTTTTCTTCATCTTCC
*
20129116 TCTTTTTCTTCTTCTT--
1 TCTTTTTCTTCATCTTCC
* *
20129132 T-TTTCTTCTTCTTCTTCT
1 TCTTT-TTCTTCATCTTCC
* * *
20129150 TCTTCTTCTTCTTCTTCT
1 TCTTTTTCTTCATCTTCC
* * *
20129168 TCTTCTTCTTCTTCTTCG
1 TCTTTTTCTTCATCTTCC
* * *
20129186 TCTTCTTCTTCTTCTTCT
1 TCTTTTTCTTCATCTTCC
* *
20129204 TCTTCTTCTTCTTCTT-C
1 TCTTTTTCTTCATCTTCC
* * *
20129221 TTTTTCTTCTTCTTCTTCT
1 TCTTT-TTCTTCATCTTCC
* * **
20129240 TCTTCTTCTTCTTCTTTT
1 TCTTTTTCTTCATCTTCC
* *
20129258 TCTTTTTCTTCTTCTTCT
1 TCTTTTTCTTCATCTTCC
* *
20129276 TCTTCTTCTTCTTCTT
1 TCTTTTTCTTCATCTT
20129292 TTCGTGTAAC
Statistics
Matches: 233, Mismatches: 33, Indels: 24
0.80 0.11 0.08
Matches are distributed among these distances:
15 24 0.10
16 13 0.06
17 4 0.02
18 187 0.80
19 5 0.02
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTTTTTCTTCATCTTCC
Found at i:20129068 original size:3 final size:3
Alignment explanation
Indices: 20129062--20129102 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
20129052 TTCTTCTTCC
20129062 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
20129103 TTCTTCTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:20129107 original size:3 final size:3
Alignment explanation
Indices: 20129101--20129291 Score: 314
Period size: 3 Copynumber: 64.3 Consensus size: 3
20129091 ATCATCATCA
* *
20129101 TCT TCT TCT TCT TCA TCT TTT TCT TCT TCT T-T T-T TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
20129147 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCG TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
20129195 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
20129243 TCT TCT TCT TCT TTT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
20129291 T
1 T
20129292 TTCGTGTAAC
Statistics
Matches: 175, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
2 4 0.02
3 171 0.98
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:20141347 original size:528 final size:524
Alignment explanation
Indices: 20140343--20141937 Score: 2173
Period size: 528 Copynumber: 3.0 Consensus size: 524
20140333 CCAAGCCTTA
* * * * *
20140343 AGGGGGAATCGCAAATGTAGTACATGTATAGGTCAATCTATTTTGAAGGAAAAATTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
* * * * * *
20140408 TTTGGTTGTAACAATGCTATTTGGAAGAGGAAATATGGAGAAGGTGGACGAA-AGACTCATTGTG
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGA-ACTCTTTTTA
* * *
20140472 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATATCAAG-AAAAGGCAATGCCTACC
130 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACC
* * * * *
20140536 TCAAATGTCAAATCCCAATTATGTTTACCTTTGATTTGATACAAATTGCCTTGATATTTCTTCAA
195 TCAAGTGTC-AATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAA
* * * *
20140601 ATACAAAGCGTTGCGATGCCCCTAGTCTTGTTCTCAAGGCTGCTATTAGCACTTCACTTTGACAT
259 ATACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACAT
* * *
20140666 TCCTTATACCTTTTGGTAGCATTTGTTGCTTTCTCGAACAGGTTTCGGCACATATGGGAAGGGTT
323 TGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTT
* * *
20140731 TTCTTTTGAATCATTTGTTTATATTATTATAGACTTGAAACTAACCTTACCCTCTTAAGCAATGA
387 TTCTTTTGAATCATTTG-TTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGA
* * * * *
20140796 TGTATCTAGAACATTGGGCTTTTGAAATTCTTATCTTGCTACCAGGATTGAAGCCAAATTTATAA
451 TGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAA
20140861 ATAACTTTG
516 ATAACTTTG
* ** *
20140870 AGGGGGAATCGTAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGGTAATTTGAAAGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
* *
20140935 TTTGGTTGTAACAATGTTATTTCGTAGTGGAAATAGGGAGAAGGTGGACGAAGAACTCTTTTTAG
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTAG
* *
20141000 CTAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTTGATGCCTACCT
131 CCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACCT
20141065 CAAGTGTCGAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAA
196 CAAGTGTC-AATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAA
*
20141130 TACAAAGCGTTGTGATGTCCCTAGTCTTGTTCTCAAAGCTGCCATTGGTACTTCACTTTGACATT
260 TACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACATT
* * **
20141195 GCTTATACCTTTTGGTAGCCTTTGCTGCTTTCTCTAACAAGTTTCGGCACATATATGAATGGTTT
324 GCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTTT
* *
20141260 TCTTTTAAATCATTTAGTTATATTATTACAGACTTGAAATTAGCCTTACCCTTTTAAGCAATGAT
388 TCTTTTGAATCATTT-GTTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGAT
* * *
20141325 GTGTCTAGAATATTGAGCTTTTGAAATTCTTGTTTTGCTGCCAGGATTGATGCCAAAATTATAAA
452 GTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAAA
20141390 TAACTTTG
517 TAACTTTG
* * *
20141398 AGGGGGAATCACAAATGCAATACGTGTATAGGTCAATCTTTTTCGAAGGACAATTTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
*
20141463 TTTGGTTGTAACAATGTTATTTCGAAGTGAAAATATGGAGAAGGTGGACGAAAGACTCATTGTAA
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGAC----GA---A--G-AA
* * * *
20141528 CCAAGCTAATATTAATATTTCCCAAGCTAATATTAATATTTCTTCATCAACAGCTTGATATTTCA
121 -C--TCT--T-TT--TA---GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCA
* *
20141593 AGAAAAAGGTCGATGCGTACCTTAAGTGTCAAGTCCCAGTTATG--T---TTTGGTTTGATACAA
175 AGAAAAA-GTCGATGCCTACCTCAAGTGTCAA-TCCCAGTTATGTTTACCTTTGGTTTGATACAA
* * *
20141653 ATCGTCTTGATATTTCTTCAAATACAAAGTGTTGTGATGCACCTAGTCTTGTTCTCAAGGTTGCC
238 ATAGTCTTGATATTTCTTCAAATACAAAGCGTTGTGATGC-CCTAGTCTTGTTCTCAAGGCTGCC
* * *
20141718 ATTGGTACTTTACTTTGACATTGCGTATACCTTTCGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
302 ATTGGTACTTCACTTTGACATTGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
*
20141783 TCGGCACATATGGGAAGGATTTTC--TTGAGTCATTTTGTTATATTATTACAGACTTGAAATTAG
367 TCGGCACATATGGGAAGG-TTTTCTTTTGAATCA-TTTGTTATATTATTACAGACTTGAAATTAG
* *
20141846 CCTTACCCTCTTAAGAAATAATGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCA
430 CCTTACCCTCTTAAGCAATGATGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCA
20141911 GGATTGATGCCAAATTTATAAATAACT
495 GGATTGATGCCAAATTTATAAATAACT
20141938 ACTTCGTTGG
Statistics
Matches: 948, Mismatches: 91, Indels: 42
0.88 0.08 0.04
Matches are distributed among these distances:
527 155 0.16
528 419 0.44
529 1 0.00
532 2 0.00
535 1 0.00
537 1 0.00
538 2 0.00
539 1 0.00
541 2 0.00
543 120 0.13
544 8 0.01
545 153 0.16
546 2 0.00
548 1 0.00
549 50 0.05
550 30 0.03
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (524 bp):
AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTAG
CCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACCT
CAAGTGTCAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAAT
ACAAAGCGTTGTGATGCCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACATTGC
TTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAAGGTTTTCT
TTTGAATCATTTGTTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGATGTGT
CTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAAATAAC
TTTG
Found at i:20141582 original size:27 final size:21
Alignment explanation
Indices: 20141528--20141569 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20141518 CTCATTGTAA
20141528 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
20141549 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
20141570 TTCATCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
CCAAGCTAATATTAATATTTC
Found at i:20144921 original size:19 final size:19
Alignment explanation
Indices: 20144899--20144953 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
20144889 CCACTGTCAC
20144899 CCACCGTAATAAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
20144918 CCACCATAATTAAATTTGT
1 CCACCGTAATAAAATTTGT
* *
20144937 CCACCGAAATCAAATTT
1 CCACCGTAATAAAATTT
20144954 TTTATTAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (19 bp):
CCACCGTAATAAAATTTGT
Found at i:20145512 original size:16 final size:16
Alignment explanation
Indices: 20145491--20145540 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
20145481 TGGGATGGAA
20145491 AGGGAGTAAAAGTTTT
1 AGGGAGTAAAAGTTTT
***
20145507 AGGGAG--AAAGTGGG
1 AGGGAGTAAAAGTTTT
*
20145521 AGGGAGTAAAAATTTT
1 AGGGAGTAAAAGTTTT
20145537 AGGG
1 AGGG
20145541 GAAAATAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 4
0.69 0.19 0.11
Matches are distributed among these distances:
14 11 0.44
16 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.40, T:0.22
Consensus pattern (16 bp):
AGGGAGTAAAAGTTTT
Found at i:20146251 original size:17 final size:17
Alignment explanation
Indices: 20146231--20146277 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
20146221 CACATTTTAT
20146231 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
20146248 ATTATTTAGT-TATATTGA
1 ATTATTTA-TAT-TATTGA
20146266 A-TATTTATATTA
1 ATTATTTATATTA
20146278 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.11
17 16 0.59
18 8 0.30
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:20148434 original size:2 final size:2
Alignment explanation
Indices: 20148427--20148456 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20148417 TGACAACCTA
20148427 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
20148457 TACAATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20157601 original size:76 final size:76
Alignment explanation
Indices: 20157518--20157671 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
20157508 AATACTTATA
*
20157518 ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATTAACATAAATAATATGTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATCAACATAAATAATATGTATCTTTATTAGGT
* *
20157583 TCATGATTCAC
66 TCACGATTAAC
* *
20157594 ATTTTTTAAAATCTAGCGGTAAGAAATTTAAATATCAACATAAATAATATTTATCTTTATTAGGT
1 ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATCAACATAAATAATATGTATCTTTATTAGGT
20157659 TCACGATTAAC
66 TCACGATTAAC
20157670 AT
1 AT
20157672 AAATTATTGT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (76 bp):
ATTTTTTAAAATCTAGCAGTAAGAAATTTAAATATCAACATAAATAATATGTATCTTTATTAGGT
TCACGATTAAC
Found at i:20158293 original size:16 final size:17
Alignment explanation
Indices: 20158265--20158298 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
20158255 TGACAATTCA
20158265 TTCCAATCTATTTATTT
1 TTCCAATCTATTTATTT
20158282 TTCCAA-CTATTTATTT
1 TTCCAATCTATTTATTT
20158298 T
1 T
20158299 CTCCCCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (17 bp):
TTCCAATCTATTTATTT
Found at i:20165483 original size:22 final size:23
Alignment explanation
Indices: 20165452--20165494 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
20165442 AAAAAAAATC
*
20165452 TGCTAATTTTATTTTTGTTTTTA
1 TGCTAATTTTATTGTTGTTTTTA
*
20165475 TGCT-ATTTTCTTGTTGTTTT
1 TGCTAATTTTATTGTTGTTTT
20165495 CTCCTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.70
Consensus pattern (23 bp):
TGCTAATTTTATTGTTGTTTTTA
Found at i:20166099 original size:22 final size:23
Alignment explanation
Indices: 20166074--20166133 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
20166064 TATATATGGC
*
20166074 AAATATA-TTTTTTCACTATTCA
1 AAATATATTTTTTTCAATATTCA
*
20166096 AAATTTATTTTTTTCAATATTC-
1 AAATATATTTTTTTCAATATTCA
20166118 --ATAT-TTTTTTTCAATA
1 AAATATATTTTTTTCAATA
20166134 GCCAATAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 12 0.35
20 3 0.09
22 6 0.18
23 13 0.38
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (23 bp):
AAATATATTTTTTTCAATATTCA
Found at i:20184260 original size:23 final size:23
Alignment explanation
Indices: 20184229--20184294 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
20184219 TATTGGATTT
20184229 ATATATTTTAAAATTTTATAAAAA
1 ATAT-TTTTAAAATTTTATAAAAA
* *
20184253 ATATTTTTAAAACTTTTTTAAAAT
1 ATATTTTTAAAA-TTTTATAAAAA
* *
20184277 A-ATTTTTACATTTTTATA
1 ATATTTTTAAAATTTTATA
20184295 TTTTTATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 6 0.17
23 16 0.44
24 14 0.39
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTTTTAAAATTTTATAAAAA
Found at i:20184364 original size:16 final size:15
Alignment explanation
Indices: 20184345--20184375 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
20184335 CACTATCCCT
20184345 TTTTTAGTAAATTTTA
1 TTTTTA-TAAATTTTA
20184361 TTTTTATAAATTTTA
1 TTTTTATAAATTTTA
20184376 ATAAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTTTTATAAATTTTA
Found at i:20186029 original size:32 final size:33
Alignment explanation
Indices: 20185954--20186042 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 33
20185944 CTATTCAAAC
* * *
20185954 AATAACAACAAAATAGTAGCAATACAATAGTGA
1 AATAACAACAAAATAGTAGAAAAACAATAGTAA
* *
20185987 AATGATAACAAAATAGT-GAAAAACAATAAG-AA
1 AATAACAACAAAATAGTAGAAAAACAAT-AGTAA
* *
20186019 AATAACAACAAAATAATATAAAAA
1 AATAACAACAAAATAGTAGAAAAA
20186043 AAGCAAGAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
32 23 0.51
33 22 0.49
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.17
Consensus pattern (33 bp):
AATAACAACAAAATAGTAGAAAAACAATAGTAA
Found at i:20187658 original size:25 final size:25
Alignment explanation
Indices: 20187630--20187681 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
20187620 GCCGTATGTT
20187630 TGTTTCTTCTGATTCTGAATGTCCA
1 TGTTTCTTCTGATTCTGAATGTCCA
20187655 TGTTTCTTCTGATTCTGAATGTCCA
1 TGTTTCTTCTGATTCTGAATGTCCA
20187680 TG
1 TG
20187682 GACCATCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.17, T:0.48
Consensus pattern (25 bp):
TGTTTCTTCTGATTCTGAATGTCCA
Found at i:20194807 original size:6 final size:6
Alignment explanation
Indices: 20194798--20194829 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
20194788 AGGAGAAGGA
20194798 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GG
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GG
20194830 GTCACGGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.69, T:0.16
Consensus pattern (6 bp):
GGAGGT
Found at i:20194808 original size:18 final size:18
Alignment explanation
Indices: 20194787--20194826 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20194777 CGGAGAGGAA
20194787 GAGGAGAAGGAGGAGGTG
1 GAGGAGAAGGAGGAGGTG
* * *
20194805 GAGGTGGAGGTGGAGGTG
1 GAGGAGAAGGAGGAGGTG
20194823 GAGG
1 GAGG
20194827 TGGGTCACGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.65, T:0.10
Consensus pattern (18 bp):
GAGGAGAAGGAGGAGGTG
Found at i:20199473 original size:82 final size:82
Alignment explanation
Indices: 20199385--20199547 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
20199375 ACCATAAACA
*
20199385 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTTAACTTGAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
20199450 TAATAAAATAACTCTAG
66 TAATAAAATAACTCTAG
20199467 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
1 TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
20199532 TAATAAAATAACTCTA
66 TAATAAAATAACTCTA
20199548 TATCCTAGAG
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (82 bp):
TAATTAAAATAACTACTAAAACACTCTCAATCACTCTGAACTTGAATGAAATAAAAGCTTAAAAG
TAATAAAATAACTCTAG
Found at i:20202055 original size:5 final size:5
Alignment explanation
Indices: 20202047--20202073 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
20202037 AAATAAAAGA
20202047 AATCT AATCT AATCT AATCT AATCT AA
1 AATCT AATCT AATCT AATCT AATCT AA
20202074 AAATATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (5 bp):
AATCT
Found at i:20202381 original size:16 final size:16
Alignment explanation
Indices: 20202360--20202390 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20202350 GAGATTAAAA
*
20202360 AATTAAATTAATTAAT
1 AATTAAATCAATTAAT
20202376 AATTAAATCAATTAA
1 AATTAAATCAATTAA
20202391 ATTAGTATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAATCAATTAAT
Found at i:20203907 original size:17 final size:17
Alignment explanation
Indices: 20203885--20203917 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
20203875 ATATTTTTTA
20203885 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
20203902 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
20203918 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:20216860 original size:28 final size:28
Alignment explanation
Indices: 20216817--20216872 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
20216807 ACGTATTCCC
20216817 AATTCATAAATGTCAGCTTGTGTGAGCA
1 AATTCATAAATGTCAGCTTGTGTGAGCA
*
20216845 AATTCATAAATTTCAGCTTGTGTGAGCA
1 AATTCATAAATGTCAGCTTGTGTGAGCA
20216873 CTATAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (28 bp):
AATTCATAAATGTCAGCTTGTGTGAGCA
Found at i:20221161 original size:20 final size:21
Alignment explanation
Indices: 20221132--20221180 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
20221122 TATAAACAAT
20221132 TATAT-ATATATTAGGTCGAA
1 TATATCATATATTAGGTCGAA
20221152 TATATCTATATATTAGGTCGAA
1 TATATC-ATATATTAGGTCGAA
20221174 TATATCA
1 TATATCA
20221181 GAAATATTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.19
21 1 0.04
22 21 0.78
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (21 bp):
TATATCATATATTAGGTCGAA
Found at i:20221164 original size:22 final size:22
Alignment explanation
Indices: 20221136--20221179 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20221126 AACAATTATA
20221136 TATATATTAGGTCGAATATATC
1 TATATATTAGGTCGAATATATC
20221158 TATATATTAGGTCGAATATATC
1 TATATATTAGGTCGAATATATC
20221180 AGAAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (22 bp):
TATATATTAGGTCGAATATATC
Found at i:20227043 original size:16 final size:17
Alignment explanation
Indices: 20227011--20227045 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20227001 TTTCTACTTA
*
20227011 ACATGTTTAAGTTCATT
1 ACATGATTAAGTTCATT
20227028 ACATGATTAA-TTCATT
1 ACATGATTAAGTTCATT
20227044 AC
1 AC
20227046 TTACACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (17 bp):
ACATGATTAAGTTCATT
Found at i:20230625 original size:14 final size:14
Alignment explanation
Indices: 20230606--20230635 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20230596 TTTTTGAATT
20230606 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
20230620 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
20230634 TT
1 TT
20230636 ATTCAAGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:20230859 original size:18 final size:19
Alignment explanation
Indices: 20230825--20230860 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20230815 AATAATTTTC
20230825 AAAATTCTAAATATTTATT
1 AAAATTCTAAATATTTATT
20230844 AAAATTCTAAAT-TTTAT
1 AAAATTCTAAATATTTAT
20230861 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTCTAAATATTTATT
Found at i:20230871 original size:24 final size:24
Alignment explanation
Indices: 20230835--20230883 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
20230825 AAAATTCTAA
* *
20230835 ATATTTATTAAAATTCTAAATTTT
1 ATATTTATTAAAATTATAAAATTT
20230859 ATATTT-TTAAAAATTATAAAATTT
1 ATATTTATT-AAAATTATAAAATTT
20230883 A
1 A
20230884 AAAAAAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATTTATTAAAATTATAAAATTT
Found at i:20233724 original size:35 final size:36
Alignment explanation
Indices: 20233685--20233752 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
20233675 ATTAGGTTAC
*
20233685 TTATTTTTT-AAATTTTAAACTAAATTAAATTACTG
1 TTATTTTTTAAAACTTTAAACTAAATTAAATTACTG
* *
20233720 TTATTTTTTAAAACTTTACATTAAATTAAATTA
1 TTATTTTTTAAAACTTTAAACTAAATTAAATTA
20233753 TTAAAGGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (36 bp):
TTATTTTTTAAAACTTTAAACTAAATTAAATTACTG
Found at i:20233992 original size:21 final size:21
Alignment explanation
Indices: 20233966--20234005 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
20233956 AAAAAAATCA
*
20233966 ATTTTCATTTTAG-TTTGTTTT
1 ATTTTC-TTATAGATTTGTTTT
20233987 ATTTTCTTATAGATTTGTT
1 ATTTTCTTATAGATTTGTT
20234006 CCAATGGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.68
Consensus pattern (21 bp):
ATTTTCTTATAGATTTGTTTT
Found at i:20250886 original size:21 final size:21
Alignment explanation
Indices: 20250845--20250887 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20250835 AATAAAGTAG
**
20250845 ATTATATATTATTTTTATAGT
1 ATTATATATTAGATTTATAGT
20250866 ATTATATATTACGATTT-TAGT
1 ATTATATATTA-GATTTATAGT
20250887 A
1 A
20250888 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATATATTAGATTTATAGT
Found at i:20250921 original size:10 final size:10
Alignment explanation
Indices: 20250903--20250975 Score: 50
Period size: 10 Copynumber: 7.9 Consensus size: 10
20250893 ATATAAGAAT
*
20250903 AATTATATTG
1 AATTATATTA
*
20250913 AATTTTATTA
1 AATTATATTA
20250923 AATTATA-T-
1 AATTATATTA
* *
20250931 ATTTTTATTA
1 AATTATATTA
*
20250941 AATTATATTT
1 AATTATATTA
20250951 AA-TA-ATT-
1 AATTATATTA
*
20250958 -ATTATTTTA
1 AATTATATTA
20250967 AATTATATT
1 AATTATATT
20250976 TTATAGCATT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 10 0.21
9 4 0.09
10 30 0.64
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (10 bp):
AATTATATTA
Found at i:20251076 original size:120 final size:120
Alignment explanation
Indices: 20250852--20251410 Score: 1000
Period size: 120 Copynumber: 4.7 Consensus size: 120
20250842 TAGATTATAT
* *
20250852 ATTAT-TTTTATAGTATTATATATTACGATTTTAGTAAATTCATATAAGAATAATT-ATATT--G
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
20250913 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
20250968 ATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
20251033 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
20251088 ATTATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
20251153 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATTATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
20251208 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
** *
20251273 AATTTTATTAAATTATATATTTTTATTAGTTTATATTTAATAATAATCATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
20251328 ATTATATTTTATAGTATTATATGTTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
20251393 AATTTTATTAAATTATAT
66 AATTTTATTAAATTATAT
20251411 TTAATAATAA
Statistics
Matches: 426, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
116 5 0.01
117 47 0.11
118 5 0.01
120 369 0.87
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:20251087 original size:26 final size:25
Alignment explanation
Indices: 20251049--20251227 Score: 85
Period size: 26 Copynumber: 7.3 Consensus size: 25
20251039 ATTAAATTAT
*
20251049 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
20251075 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
* *
20251101 ATATTA---TATATTATGATTTTAGTA
1 ATATTATTTTAAATTAT-A-TTTAATA
*
20251125 A-ATTCA-TATAAGA--ATATTTAATA
1 ATATT-ATTTTAA-ATTATATTTAATA
* ** *
20251148 TTAAGAATTTT--ATTA-AATT-AT-
1 AT-ATTATTTTAAATTATATTTAATA
*
20251169 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
20251195 ATTATTATTTTAAATTATATTTTATA
1 A-TATTATTTTAAATTATATTTAATA
*
20251221 GTATTAT
1 ATATTAT
20251228 ATATTATGAT
Statistics
Matches: 114, Mismatches: 20, Indels: 39
0.66 0.12 0.23
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 10 0.09
23 17 0.15
24 13 0.11
25 17 0.15
26 39 0.34
27 12 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:20251113 original size:22 final size:24
Alignment explanation
Indices: 20251088--20251134 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
20251078 ATTATTTTAA
20251088 ATTAT-ATTTTA-TAATATT-ATAT
1 ATTATGATTTTAGTAA-ATTCATAT
20251110 ATTATGATTTTAGTAAATTCATAT
1 ATTATGATTTTAGTAAATTCATAT
20251134 A
1 A
20251135 AGAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTATGATTTTAGTAAATTCATAT
Found at i:20251658 original size:45 final size:44
Alignment explanation
Indices: 20251570--20251661 Score: 141
Period size: 45 Copynumber: 2.1 Consensus size: 44
20251560 TTACAACATT
20251570 ATTCCATTCAACCAAACACAAGAATACTATTACGCCTCCATTCC
1 ATTCCATTCAACCAAACACAAGAATACTATTACGCCTCCATTCC
* *
20251614 ATTCCATTCAACCAAACA-ATTGAATTACTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACACA-AGAA-TACTATTACGCCTCCATTCC
20251659 ATT
1 ATT
20251662 ACAGCGAACC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 22 0.50
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.30
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAAGAATACTATTACGCCTCCATTCC
Found at i:20253675 original size:18 final size:20
Alignment explanation
Indices: 20253652--20253688 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
20253642 CAACAACAAT
20253652 AAAAATAAA-AA-ATAATAC
1 AAAAATAAATAATATAATAC
20253670 AAAAATAAATAATATAATA
1 AAAAATAAATAATATAATA
20253689 ATCATAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATAAATAATATAATAC
Found at i:20253762 original size:6 final size:6
Alignment explanation
Indices: 20253743--20253883 Score: 70
Period size: 6 Copynumber: 23.5 Consensus size: 6
20253733 ATATATGTAT
** * * *** * *
20253743 ATAATA ATGGTA ATAATA ATATTA ATAGTA ATGGCA TTAATA ATAATT
1 ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA
* * * * ** * **
20253791 CTAATA ATAATG TTAAAA ATAGCA ATAA-A ACTAATA ACAATA CCAATA
1 ATAATA ATAATA ATAATA ATAATA ATAATA A-TAATA ATAATA ATAATA
* *
20253839 ATGATA ATAATA ATAATA ATAATA ATAATGA A-AATA ACAATA ATA
1 ATAATA ATAATA ATAATA ATAATA ATAAT-A ATAATA ATAATA ATA
20253884 GGACTAAATT
Statistics
Matches: 99, Mismatches: 32, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
5 4 0.04
6 91 0.92
7 4 0.04
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (6 bp):
ATAATA
Found at i:20253847 original size:15 final size:15
Alignment explanation
Indices: 20253829--20253882 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 15
20253819 AACTAATAAC
*
20253829 AATACCAATAATGAT
1 AATAACAATAATGAT
*
20253844 AAT---AATAATAAT
1 AATAACAATAATGAT
* *
20253856 AATAATAATAATGAA
1 AATAACAATAATGAT
20253871 AATAACAATAAT
1 AATAACAATAAT
20253883 AGGACTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 11 0.34
15 21 0.66
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (15 bp):
AATAACAATAATGAT
Found at i:20253849 original size:9 final size:9
Alignment explanation
Indices: 20253835--20253883 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
20253825 TAACAATACC
*
20253835 AATAATGAT
1 AATAATAAT
20253844 AATAATAAT
1 AATAATAAT
20253853 AATAATAAT
1 AATAATAAT
20253862 AATAATGAA-
1 AATAAT-AAT
*
20253871 AATAACAAT
1 AATAATAAT
20253880 AATA
1 AATA
20253884 GGACTAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
8 2 0.06
9 32 0.89
10 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (9 bp):
AATAATAAT
Found at i:20253883 original size:21 final size:21
Alignment explanation
Indices: 20253793--20253883 Score: 78
Period size: 21 Copynumber: 4.3 Consensus size: 21
20253783 TAATAATTCT
** * *
20253793 AATAATAATGTTAAAAATAGC
1 AATAATAATAATAACAATAAC
*
20253814 AATAA-AACTAATAACAATACC
1 AATAATAA-TAATAACAATAAC
* * *
20253835 AATAATGATAATAATAATAAT
1 AATAATAATAATAACAATAAC
20253856 AATAATAATAATGAA-AATAAC
1 AATAATAATAAT-AACAATAAC
20253877 AATAATA
1 AATAATA
20253884 GGACTAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.04
21 52 0.91
22 3 0.05
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (21 bp):
AATAATAATAATAACAATAAC
Found at i:20254361 original size:18 final size:17
Alignment explanation
Indices: 20254338--20254371 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
20254328 AGGCTGAACC
20254338 CCCCCTCTCTCTATCTCA
1 CCCCCTCTCTCT-TCTCA
*
20254356 CCCCCTTTCTCTTCTC
1 CCCCCTCTCTCTTCTC
20254372 CGGCCTAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.06, C:0.56, G:0.00, T:0.38
Consensus pattern (17 bp):
CCCCCTCTCTCTTCTCA
Found at i:20255662 original size:128 final size:128
Alignment explanation
Indices: 20255501--20256005 Score: 771
Period size: 128 Copynumber: 3.9 Consensus size: 128
20255491 CTGCAACTCC
* * *
20255501 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTA
* * * *
20255566 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTCTGTCTGCTTCACTTCTGCTT
66 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
* * * *
20255629 AGGGAAATAAGACTTGATGTGATTTGCTTTACTGCAACTTCAAAAAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTA
*
20255694 ATCCGCTCCACTGCAACTTCAGTGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
66 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
* * * *
20255757 AGGGAGATAAGACTTGATGCGATATGCTTTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTA
* * *
20255822 ATCCGCTCCACTGCAACTTCAGAGAAATAGGATTTGTTTCTTCTGTCTGCTCCACTACTGCTT
66 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
* *
20255885 AGGGAGATAAGGCTTGATGCGATCTT-CTCTACTGCAAGTTCAAAGAGATAAGATCTGTGGTTTT
1 AGGGAGATAAGACTTGATGCGAT-TTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTT
* *
20255949 CATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTCTT-TCGTCTGCTCCACT
65 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCT-GTCTGCTCCACT
20256006 GTAACTTCAA
Statistics
Matches: 343, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
127 1 0.00
128 341 0.99
129 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (128 bp):
AGGGAGATAAGACTTGATGCGATTTGCTCTACTGCAACTTCAAAGAGATAAGATCTGTGGTTTTA
ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
Found at i:20255844 original size:44 final size:44
Alignment explanation
Indices: 20255472--20255978 Score: 185
Period size: 44 Copynumber: 11.9 Consensus size: 44
20255462 AATGAGATTC
* * *
20255472 GTGGTTTTAGTCTGCTCCACTGCAACTCCAGGGAGATAAGA-C-
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* *** *
20255514 -TGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* * * *
20255557 GTGGTTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-T
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* ** * * ** * *
20255600 G-GTTTTTTCTGTCTGCTTCACTTCTGCTT-AGGGAAATAAGA-CT
1 GTG-GTTTT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* * * * ** * *
20255643 -T-GATGTGATTTGCTTTACTGCAACTTCAAAAAGATAAGATCT
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* * *
20255685 GTGGTTTTAATCCGCTCCACTGCAACTTCAGTGAGATAGGAT-T
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* ** * ** *
20255728 G-GTTTCTTCTGTCTGCTCCACTACTGCTT-AGGGAGATAAGA-CT
1 GTGGTT-TT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* *** * ** *
20255771 -T-GATGCGATATGCTTTACTGTAACTTCAGAGAGATAAGATCT
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* * *
20255813 GTGGTTTTAATCCGCTCCACTGCAACTTCAGAGAAATAGGAT-T
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* ** * ** * *
20255856 -TGTTTCTTCTGTCTGCTCCACTACTGCTT-AGGGAGATAAG-GCT
1 GTGGTT-TT-AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* *** * * * *
20255899 -T-GATGCGATCTTCTCTACTGCAAGTTCAAAGAGATAAGATCT
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
* *
20255941 GTGGTTTTCATCCGCTCCACTGCAACTTCA-AGGAGATA
1 GTGGTTTTAATCTGCTCCACTGCAACTTCAGA-GAGATA
20255979 GGATTGGTTT
Statistics
Matches: 317, Mismatches: 121, Indels: 52
0.65 0.25 0.11
Matches are distributed among these distances:
40 36 0.11
41 62 0.20
42 17 0.05
43 49 0.15
44 153 0.48
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (44 bp):
GTGGTTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT
Found at i:20256061 original size:128 final size:127
Alignment explanation
Indices: 20255501--20256068 Score: 764
Period size: 128 Copynumber: 4.4 Consensus size: 127
20255491 CTGCAACTCC
*
20255501 AGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * *
20255566 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTCTGTCTGCTTCACTTCTGCTT
66 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCCAC-TCTGCTT
* * * * * *
20255629 AGGGAAATAAGACTTGATGTGATTTGCTTTACTGCAACTTCAAAAAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
*
20255694 ATCCGCTCCACTGCAACTTCAGTGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTT
66 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCCACT-CTGCTT
* * *
20255757 AGGGAGATAAGACTTGATGCGATATGCTTTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* *
20255822 ATCCGCTCCACTGCAACTTCAGAGAAATAGGATTTGTTTCTTCTGTCTGCTCCACTACTGCTT
66 ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCCACT-CTGCTT
* * * * *
20255885 AGGGAGATAAGGCTTGATGCGATCTTCTCTACTGCAAGTTCAAAGAGATAAGATCTGTGGTTTTC
1 AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* *
20255950 ATCCGCTCCACTGCAACTTCA-AGGAGATAGGATTGGTTTCTT-TCGTCTGCTCCACTGTAACTT
66 ATCCGCTCCACTGCAACTTCAGA-GAGATAGGATTGGTTTCTTCT-GTCTGCTCCACTCT-GCTT
* * * * * ** *
20256013 CAAGGAGACAAGACTGGATGCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCT
1 -AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
20256069 ACAATCTTCA
Statistics
Matches: 391, Mismatches: 44, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
127 4 0.01
128 357 0.91
129 30 0.08
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (127 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
ATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTCTGCTT
Found at i:20256189 original size:131 final size:131
Alignment explanation
Indices: 20256033--20256762 Score: 1090
Period size: 131 Copynumber: 5.6 Consensus size: 131
20256023 AGACTGGATG
* *
20256033 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
* * *
20256098 AGGGAGAT-AGAACTGATGGCTTAAATCTGCTTTCTACTATCTCGAGAAGATAAGATTCGTCGTC
66 AGGGAGATAAG-ACTGGTGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCGCCGTC
20256162 TT
130 TT
* * *
20256164 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAACCTTCAACCTACTCTACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
* * * * *
20256229 AGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCTTACTACCT-TAGGAAGATAAGATTCGTCGTC
66 AGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGA-GAAGATAAGATTCGCCGTC
20256293 TT
130 TT
* * * *
20256295 TGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCAATTTTCAACCTACTCTACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
* * *
20256360 AGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCT
66 AGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCGCCGTCT
20256425 T
131 T
* * * **
20256426 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAAACTTCAA-CTACTTTACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
* * * *
20256490 AGAGAGATAAGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCACCGTCT
66 AGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCGCCGTCT
20256555 T
131 T
*
20256556 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTACTCCACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
* * *
20256621 AGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCTACTATCTTTGA-AAGATAAGATTCGCCATC
66 AGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTATC-TCGAGAAGATAAGATTCGCCGTC
20256685 TT
130 TT
* *
20256687 CGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTTCACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
20256752 AGGGAGATAAG
66 AGGGAGATAAG
20256763 GCATGATATG
Statistics
Matches: 544, Mismatches: 50, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
130 123 0.23
131 417 0.77
132 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (131 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTC
AGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCGCCGTCT
T
Found at i:20256544 original size:392 final size:393
Alignment explanation
Indices: 20256033--20256760 Score: 1183
Period size: 392 Copynumber: 1.9 Consensus size: 393
20256023 AGACTGGATG
* *
20256033 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTACTCCACTGCTGCTC
* * **
20256098 AGGGAGATAGAACTGATGGCTTAAATCTGCTTTCTACTATCTCGAGAAGATAAGATTCGTCGTCT
66 AGAGAGATAGAACTGATGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCACCGTCT
* *
20256163 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAACCTTCAACCTACTCTACTGCTGCT
131 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAACCTTCAACCTACTCCACTGCTGCT
* * * *
20256228 CAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCTTACTACCTTAGGAAGATAAGATTCGTCGTC
196 CAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCTACTACCTTAGAAAGATAAGATTCGCCATC
* *
20256293 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCAATTTTCAACCTAC-TCTACTGCTG
261 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCAATCTTCAACCTACTTC-ACTGCTG
20256357 CTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCG
325 CTCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCG
20256422 TCTT
390 TCTT
* **
20256426 CGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAAACTTCAA-CTACTTTACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTACTCCACTGCTGCTC
* * *
20256490 AGAGAGATA-AGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCACCGTC
66 AGAGAGATAGA-ACTGATGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCACCGTC
* *
20256554 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTACTCCACTGCTGC
130 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAACCTTCAACCTACTCCACTGCTGC
* *
20256619 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCTACTATCTTTGAAAGATAAGATTCGCCAT
195 TCAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCTACTACCTTAGAAAGATAAGATTCGCCAT
* *
20256684 CTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTTCACTGCTG
260 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCAATCTTCAACCTACTTCACTGCTG
20256749 CTCAGGGAGATA
325 CTCAGGGAGATA
20256761 AGGCATGATA
Statistics
Matches: 307, Mismatches: 26, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
391 1 0.00
392 259 0.84
393 47 0.15
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (393 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAACTTCAACCTACTCCACTGCTGCTC
AGAGAGATAGAACTGATGGCTTAAATCTGCTTCCTACTATCTCGAGAAGATAAGATTCACCGTCT
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAACCTTCAACCTACTCCACTGCTGCT
CAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCCTACTACCTTAGAAAGATAAGATTCGCCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCAATCTTCAACCTACTTCACTGCTGC
TCAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGT
CTT
Found at i:20256617 original size:261 final size:262
Alignment explanation
Indices: 20256033--20256762 Score: 1124
Period size: 261 Copynumber: 2.8 Consensus size: 262
20256023 AGACTGGATG
* * *
20256033 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTACTCCACTGCTGCTC
* * * * *
20256098 AGGGAGATAGAACTGATGGCTTAAATCTGCTTTCTACTATCTCGAGAAGATAAGATTCGTCGTCT
66 AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCT
* * *
20256163 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAACCTTCAACCTACTCTACTGCTGCT
131 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAACTTCAACCTACTTTACTGCTGCT
* * * **
20256228 CAGGGAGATAAGGCTGGTGGCTTAAATCTGCTTCTTACTACCTTAGGAAGATAAGATTCGTCGTC
196 CAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCGTC
20256293 TT
261 TT
* * *
20256295 TGATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCAAT-TTTCAACCTACTCTACTGCTGCT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTT-AACCTACTCCACTGCTGCT
*
20256359 CAGGGAGATAGGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTC
65 CAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTC
* *
20256424 TTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAAACTTCAA-CTACTTTACTGCTGC
130 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAACTTCAACCTACTTTACTGCTGC
* * * *
20256488 TCAGAGAGATAAGATTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCACCGT
195 TCAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCGT
20256553 CTT
260 CTT
20256556 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTACTCCACTGCTGCTC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTACTCCACTGCTGCTC
** * *
20256621 AGGGAGATAAGG-CTGGTGGCTTAAATCTGCTTCCTACTATCTTTGAAAGATAAGATTCGCCATC
66 AGGGAGAT-AGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTC
* * *
20256685 TTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGCAATCTTCAACCTACTTCACTGCTGC
130 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAACTTCAACCTACTTTACTGCTGC
20256750 TCAGGGAGATAAG
195 TCAGGGAGATAAG
20256763 GCATGATATG
Statistics
Matches: 424, Mismatches: 40, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
261 233 0.55
262 191 0.45
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (262 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAACCTACTCCACTGCTGCTC
AGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCGCCGTCT
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAACTTCAACCTACTTTACTGCTGCT
CAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTCAGGAAGATAAGATTCACCGTC
TT
Found at i:20256730 original size:44 final size:44
Alignment explanation
Indices: 20256035--20256762 Score: 281
Period size: 44 Copynumber: 16.7 Consensus size: 44
20256025 ACTGGATGCG
*
20256035 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * *
20256079 ACCTACTCCACTGCTGCTTAGGGAGAT-AGAACTG--ATGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAT--CTTCA
* * * * *
20256122 ATCTGCTTTCTACTA-T-C-TCGAGAAGATAAGAT-TCGTC-GTCTTCG
1 ATCTGC--TCCACTACTGCTTAG-GGAGATAAGATCT-G-CAATCTTCA
* *
20256166 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAACCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * * **** *
20256210 ACCTACTCTACTGCTGCTCAGGGAGATAAG-GCTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * **
20256253 ATCTGCTTCTTACTAC--CTTAGGAAGATAAGAT-TCGTC-GTCTTTG
1 ATCTGC-TC-CACTACTGCTTAGGGAGATAAGATCT-G-CAATCTTCA
* *
20256297 ATCTGCTCCACTACTGCTTAGGGAGATAAAATCTGCAATTTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * * **** *
20256341 ACCTACTCTACTGCTGCTCAGGGAGATAGGAT-TGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* ** *
20256384 ATCTGCTTCCTACTA-T-C-TCGGGAAGATAAGAT-TCGCCGTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCT-GCAATCTTCA
* * *
20256428 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAAACTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* ** * * * **** *
20256472 A-CTACTTTACTGCTGCTCAGAGAGATAAGAT-TGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * *
20256514 ATCTGCTTCCTACTA-T-C-TCGGGAAGATAAGAT-T-CACCGTCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGG-AGATAAGATCTGCA--ATCTTCA
*
20256558 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * **** *
20256602 ACCTACTCCACTGCTGCTCAGGGAGATAAG-GCTGGTGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* ** * *
20256645 ATCTGCTTCCTACTA-T-CTTTGAAAGATAAGAT-TCGCCATCTTCG
1 ATCTGC-TCC-ACTACTGCTTAGGGAGATAAGATCT-GCAATCTTCA
*
20256689 ATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * *
20256733 ACCTACTTCACTGCTGCTCAGGGAGATAAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG
20256763 GCATGATATG
Statistics
Matches: 489, Mismatches: 146, Indels: 98
0.67 0.20 0.13
Matches are distributed among these distances:
41 2 0.00
42 35 0.07
43 139 0.28
44 276 0.56
45 34 0.07
46 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
Found at i:20257750 original size:5 final size:5
Alignment explanation
Indices: 20257740--20257779 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
20257730 GGCCTCTCCT
*
20257740 TTTTC TTTTC TTTTC TTTTC TTTTTC TTTTC GTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTT
20257780 TGCAAGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:20257764 original size:16 final size:16
Alignment explanation
Indices: 20257740--20257780 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
20257730 GGCCTCTCCT
20257740 TTTTC-TTTTCTTTTC
1 TTTTCTTTTTCTTTTC
20257755 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCTTTTC
*
20257771 GTTTCTTTTT
1 TTTTCTTTTT
20257781 GCAAGTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTC
Found at i:20257764 original size:21 final size:21
Alignment explanation
Indices: 20257738--20257779 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
20257728 TTGGCCTCTC
*
20257738 CTTTTTCTTTTCTTTTCTTTT
1 CTTTTTCTTTTCGTTTCTTTT
20257759 CTTTTTCTTTTCGTTTCTTTT
1 CTTTTTCTTTTCGTTTCTTTT
20257780 TGCAAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (21 bp):
CTTTTTCTTTTCGTTTCTTTT
Found at i:20260568 original size:8 final size:9
Alignment explanation
Indices: 20260547--20260571 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20260537 AAACATGAAA
20260547 AAAAATAAG
1 AAAAATAAG
20260556 AAAAATAAG
1 AAAAATAAG
20260565 AAAAATA
1 AAAAATA
20260572 TATGTATATA
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAATAAG
Found at i:20262332 original size:9 final size:9
Alignment explanation
Indices: 20262320--20262344 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20262310 GATGATGTAT
20262320 TTATTATTG
1 TTATTATTG
20262329 TTATTATTG
1 TTATTATTG
20262338 TTATTAT
1 TTATTAT
20262345 AGCATTTGCA
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:20262733 original size:98 final size:98
Alignment explanation
Indices: 20262621--20262815 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
20262611 TAAAAATAAT
* *
20262621 AAGGAAATATTCCGAGTTTGGGATTTTAAAAGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
20262686 AAATTTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
20262719 AAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGGGATTCTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
20262784 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
20262816 TTTATTGTAC
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGGGATTCTAAAAGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:20274432 original size:44 final size:44
Alignment explanation
Indices: 20274283--20274700 Score: 205
Period size: 44 Copynumber: 9.5 Consensus size: 44
20274273 TCGCATCTAG
* * **
20274283 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGCAAAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-CAA
* * ** * ** *
20274327 GTTTTATC-CTCCTGAAATTGCAGT-GAGGCAGGCTGAAGATGGCAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCGAC-AA
20274373 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
* * * *
20274417 TCCTATCTCCCTGAAGTTGCATTGGAGC-GAATTAAAACC-TCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCCGAC-AA
* * * * ** * *
20274461 TCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T--CGCATATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
* * **
20274501 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAGCAAAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-CAA
** * ** *
20274545 GTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGGCTGAAGATGGCAAA
1 -TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCGAC-AA
* *
20274591 TCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAAGCCGACAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
** * * ** ** * *
20274635 TCCCATCTCTCTGAAATTATAGTGGAGTGGATTAAAACC-TCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA-A
*
20274679 TCTTATCTCTCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAG
20274701 AGTGTGACAG
Statistics
Matches: 281, Mismatches: 70, Indels: 45
0.71 0.18 0.11
Matches are distributed among these distances:
40 21 0.07
41 7 0.02
42 2 0.01
43 13 0.05
44 112 0.40
45 110 0.39
46 16 0.06
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGACAA
Found at i:20274550 original size:45 final size:45
Alignment explanation
Indices: 20274281--20274619 Score: 233
Period size: 45 Copynumber: 7.7 Consensus size: 45
20274271 GATCGCATCT
*
20274281 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
* * * **
20274326 AGTTTTATC-CTCCTGAAATTGCAGT-GAGGCAGGCTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCAAAGCA
* * **
20274371 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGA-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGCAAAGCA
* * * **
20274416 A-TCCTATCTCCCTGAAGTTGCATTGGAGC-GAATTAA--AACCTCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAGCAA-AGCA
* * * * * * *
20274459 AATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-T-CGCATA--T
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
*
20274499 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGCAAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
* **
20274544 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGGCTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGCAAAGCA
* *
20274589 AATCTTATCTCCTTGAAGTTGCAGTGGAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCA
20274620 AATTAAAGCC
Statistics
Matches: 228, Mismatches: 43, Indels: 46
0.72 0.14 0.15
Matches are distributed among these distances:
40 20 0.09
41 7 0.03
42 2 0.01
43 16 0.07
44 54 0.24
45 117 0.51
46 12 0.05
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAAAGCA
Found at i:20274671 original size:218 final size:218
Alignment explanation
Indices: 20274269--20274702 Score: 715
Period size: 218 Copynumber: 2.0 Consensus size: 218
20274259 GTGAAGATAA
* *
20274269 CAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAAGCAAGTTTTAT
1 CAGATCGCATATAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAAGCAAGTCTTAT
20274334 CCTCCTGAAATTGCAGTGAGGCAGGCTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
66 CCTCCTGAAATTGCAGTGAGGCAGGCTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* * * * *
20274399 GCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCATTGGAGCGAATTAAAACCTCAAATCT
131 GCAAATTAAAGCCGACAATCCCATCTCCCTGAAATTACAGTGGAGCGAATTAAAACCTCAAATCT
20274464 TATCTCTCTGAAGTTACAGAGAG
196 TATCTCTCTGAAGTTACAGAGAG
* *
20274487 CAGATCGCATATAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGCAAAGCAAGTCTTAT
1 CAGATCGCATATAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAAGCAAGTCTTAT
* *
20274552 CCTCCTGAAGTTGCAGTGAGGCAGGCTGAAGATGGCAAATCTTATCTCCTTGAAGTTGCAGTGGA
66 CCTCCTGAAATTGCAGTGAGGCAGGCTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
* * * * *
20274617 GCAAATTAAAGCCGACAATCCCATCTCTCTGAAATTATAGTGGAGTGGATTAAAACCTCAGATCT
131 GCAAATTAAAGCCGACAATCCCATCTCCCTGAAATTACAGTGGAGCGAATTAAAACCTCAAATCT
*
20274682 TATCTCTCTGAAGTTGCAGAG
196 TATCTCTCTGAAGTTACAGAG
20274703 TGTGACAGCC
Statistics
Matches: 199, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
218 199 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (218 bp):
CAGATCGCATATAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTAAGCAAAGCAAGTCTTAT
CCTCCTGAAATTGCAGTGAGGCAGGCTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGA
GCAAATTAAAGCCGACAATCCCATCTCCCTGAAATTACAGTGGAGCGAATTAAAACCTCAAATCT
TATCTCTCTGAAGTTACAGAGAG
Found at i:20276572 original size:80 final size:78
Alignment explanation
Indices: 20276302--20276598 Score: 323
Period size: 80 Copynumber: 3.7 Consensus size: 78
20276292 TGAATGATGT
* * * * * **
20276302 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTT
* *
20276366 GTGCGAGATACTAATT
64 GTGCGAGTTACTAA-A
* **
20276382 CTGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTTG
20276446 TGCGAGTTACTAAA
65 TGCGAGTTACTAAA
* *
20276460 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
20276525 GTGCGAGTTACTATAA
64 GTGCGAGTTACTA-AA
* * * *
20276541 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTT-AAGTCCGAAGG
20276599 TACGTGATTT
Statistics
Matches: 191, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
79 76 0.40
80 113 0.59
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:20276572 original size:120 final size:118
Alignment explanation
Indices: 20276354--20276598 Score: 316
Period size: 120 Copynumber: 2.1 Consensus size: 118
20276344 GGACTAAGAT
* *
20276354 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
** *
20276419 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
20276473 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * *
20276538 TAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
20276592 CCGAAGG
1 CCGAAGG
20276599 TACGTGATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
119 51 0.46
120 57 0.52
121 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:20276579 original size:40 final size:40
Alignment explanation
Indices: 20276301--20276565 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
20276291 TTGAATGATG
* * * *
20276301 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20276341 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20276381 TCTGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20276420 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20276460 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20276500 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20276541 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20276566 AACGAGTAGC
Statistics
Matches: 199, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 34 0.17
40 155 0.78
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20278029 original size:45 final size:45
Alignment explanation
Indices: 20277965--20278074 Score: 143
Period size: 45 Copynumber: 2.4 Consensus size: 45
20277955 GATCGCATCT
*
20277965 AGTCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACT-AAGCAAAGCA
1 AGTCTTATCTCCCTGAAGTTGAAGTGAG-GCAGACTGAAG-AAAGCA
* **
20278010 AGTCTTATCTTCCTGAAGTTGAAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCTCCCTGAAGTTGAAGTGAGGCAGACTGAAGAAAGCA
*
20278055 AATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTT
20278075 ATGGCGGAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
45 53 0.93
46 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
AGTCTTATCTCCCTGAAGTTGAAGTGAGGCAGACTGAAGAAAGCA
Found at i:20279637 original size:9 final size:9
Alignment explanation
Indices: 20279623--20279647 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20279613 GATGATGTAT
20279623 TTATTATTG
1 TTATTATTG
20279632 TTATTATTG
1 TTATTATTG
20279641 TTATTAT
1 TTATTAT
20279648 AGCATTTGCA
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:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:20280043 original size:98 final size:98
Alignment explanation
Indices: 20279922--20280118 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
20279912 TTAAAAATAA
* * *
20279922 TAAAGGAAATATTTCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
20279987 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCCTTTAAAG
*
20280020 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
20280085 TTAAATCTTGGATAAGTGGATGTTCCTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCCTTTAAAG
20280118 T
1 T
20280119 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCCTTTAAAG
Found at i:20280561 original size:3 final size:3
Alignment explanation
Indices: 20280553--20280618 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
20280543 GCAATAAAAC
* * * *
20280553 TAA TAA TAA TAC CAG TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
20280601 TAA TGAA -AA TAA CAA TAA
1 TAA T-AA TAA TAA TAA TAA
20280619 CAGGACTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:20281916 original size:19 final size:19
Alignment explanation
Indices: 20281892--20281928 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
20281882 GCTCAAGCAA
20281892 TTTATCTTTAGATTAGGTC
1 TTTATCTTTAGATTAGGTC
20281911 TTTATCTTTAGATTAGGT
1 TTTATCTTTAGATTAGGT
20281929 TGGATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.08, G:0.16, T:0.54
Consensus pattern (19 bp):
TTTATCTTTAGATTAGGTC
Found at i:20286002 original size:23 final size:23
Alignment explanation
Indices: 20285976--20286021 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
20285966 TGCATTAATG
20285976 TAAATAGCTATTT-AAATAAAAAA
1 TAAATA-CTATTTGAAATAAAAAA
* *
20285999 TAAATATTTTTTGAAATAAAAAA
1 TAAATACTATTTGAAATAAAAAA
20286022 ATATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAATACTATTTGAAATAAAAAA
Found at i:20286794 original size:13 final size:13
Alignment explanation
Indices: 20286776--20286801 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20286766 AATATAATTT
20286776 TATATTTTTTTAA
1 TATATTTTTTTAA
20286789 TATATTTTTTTAA
1 TATATTTTTTTAA
20286802 AAAATACGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATATTTTTTTAA
Found at i:20287446 original size:22 final size:22
Alignment explanation
Indices: 20287421--20287465 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
20287411 AATATTATAG
20287421 TTTTGTATGAATATTGCAATTT
1 TTTTGTATGAATATTGCAATTT
*
20287443 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTGCAATTT
20287465 T
1 T
20287466 GTAATTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (22 bp):
TTTTGTATGAATATTGCAATTT
Found at i:20287453 original size:92 final size:88
Alignment explanation
Indices: 20287248--20287468 Score: 251
Period size: 83 Copynumber: 2.5 Consensus size: 88
20287238 ATTTTAAATT
* * * *
20287248 TTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATTATTT
1 TTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATATTT
* *
20287312 TATAATTAAATTTGTATTTATAG
66 TATAATGAAATTTATATTTATAG
*
20287335 -TTT-TA-G-AT-TAGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAAT-TTT
1 TTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATATTT
*
20287394 TGT-ATGAATATTGTAATAATATTATAG
66 TATAATGAA-ATT-T-AT-AT-TTATAG
*
20287421 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTA
1 TTTTGTATGAATATTGTAA-TTTTTTGTATGAATATTGTAATTTTGTA
20287469 ATTTTGTAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 19
0.79 0.07 0.13
Matches are distributed among these distances:
81 4 0.04
82 18 0.16
83 35 0.31
84 2 0.02
85 4 0.04
86 9 0.08
87 3 0.03
88 2 0.02
89 1 0.01
90 2 0.02
91 4 0.04
92 28 0.25
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (88 bp):
TTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATATTT
TATAATGAAATTTATATTTATAG
Found at i:20287469 original size:8 final size:8
Alignment explanation
Indices: 20287456--20287484 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
20287446 TGTATGAATA
20287456 TTGTAATT
1 TTGTAATT
20287464 TTGTAATT
1 TTGTAATT
20287472 TTGTAATT
1 TTGTAATT
20287480 TTGTA
1 TTGTA
20287485 TGAATATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (8 bp):
TTGTAATT
Found at i:20287500 original size:27 final size:25
Alignment explanation
Indices: 20287464--20287592 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 25
20287454 TATTGTAATT
20287464 TTGTAATTTTGTAATTTTGTATGAATA
1 TTGT-ATTTT-TAATTTTGTATGAATA
* *
20287491 TTATA-TTTT--TTTTGTATGAATG
1 TTGTATTTTTAATTTTGTATGAATA
*
20287513 TTGTAATATTATAATTTTGTATGAATA
1 TTGT-AT-TTTTAATTTTGTATGAATA
*
20287540 TTGTA--ATT--TTTTGTATGAATA
1 TTGTATTTTTAATTTTGTATGAATA
*
20287561 TTGTAATTTTGTAATTTTGCATGAATA
1 TTGT-ATTTT-TAATTTTGTATGAATA
20287588 TTGTA
1 TTGTA
20287593 ATGTGAGGAT
Statistics
Matches: 82, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
21 17 0.21
22 16 0.20
23 2 0.02
24 2 0.02
25 7 0.09
26 3 0.04
27 35 0.43
ACGTcount: A:0.29, C:0.01, G:0.14, T:0.56
Consensus pattern (25 bp):
TTGTATTTTTAATTTTGTATGAATA
Found at i:20287502 original size:57 final size:56
Alignment explanation
Indices: 20287421--20287579 Score: 206
Period size: 49 Copynumber: 2.9 Consensus size: 56
20287411 AATATTATAG
*
20287421 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTAA
1 TTTTGTATGAATATTG-TATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTAA
* * * *
20287478 TTTTGTATGAATATTATA-TTTTTT-T-TG--TA-TG-AATGTTGTAATATTATAA
1 TTTTGTATGAATATTGTATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTAA
*
20287527 TTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTAATTTTG
1 TTTTGTATGAATATTGTATTTTTTTGTATGAATATTGTAATTTTGTAATTTTG
20287580 CATGAATATT
Statistics
Matches: 86, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
49 32 0.37
50 8 0.09
51 3 0.03
52 2 0.02
53 2 0.02
54 3 0.03
55 8 0.09
56 13 0.15
57 15 0.17
ACGTcount: A:0.28, C:0.01, G:0.14, T:0.57
Consensus pattern (56 bp):
TTTTGTATGAATATTGTATTTTTTTGTATGAATATTGTAATTTTGTAATTTTGTAA
Found at i:20287591 original size:19 final size:19
Alignment explanation
Indices: 20287224--20287573 Score: 195
Period size: 19 Copynumber: 18.5 Consensus size: 19
20287214 TTTAGATTAG
*
20287224 AATTTTGTATGAATATTTT
1 AATTTTGTATGAATATTGT
*
20287243 AAATTTTTTGTATGAATATTAT
1 -AA--TTTTGTATGAATATTGT
*
20287265 AATTTTTTTATGAATATTGT
1 AA-TTTTGTATGAATATTGT
*
20287285 AATGTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
*
20287304 AATTATTTTAT-AATTAAATTTGT
1 AATT-TTGTATGAA-T--A-TTGT
* * *
20287327 -ATTTATAGTTTTAGAT-TAGT
1 AATTT-T-GTATGA-ATATTGT
20287347 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
*
20287368 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
20287387 AAATTTTTGTATGAATATTGT
1 -AA-TTTTGTATGAATATTGT
*
20287408 -A------AT-AATATTAT
1 AATTTTGTATGAATATTGT
* *
20287419 AGTTTTGTATGAATATTGC
1 AATTTTGTATGAATATTGT
20287438 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
20287460 AATTTTG--T-AATTTTGT
1 AATTTTGTATGAATATTGT
*
20287476 AATTTTGTATGAATATTAT
1 AATTTTGTATGAATATTGT
* *
20287495 -ATTTTTTTTG--TA-TG-
1 AATTTTGTATGAATATTGT
* *
20287509 AATGTTG--T-AATATTAT
1 AATTTTGTATGAATATTGT
20287525 AATTTTGTATGAATATTGT
1 AATTTTGTATGAATATTGT
20287544 AATTTTTTGTATGAATATTGT
1 AA--TTTTGTATGAATATTGT
20287565 AATTTTGTA
1 AATTTTGTA
20287574 ATTTTGCATG
Statistics
Matches: 257, Mismatches: 32, Indels: 83
0.69 0.09 0.22
Matches are distributed among these distances:
11 7 0.03
12 2 0.01
13 1 0.00
14 2 0.01
15 6 0.02
16 22 0.09
17 1 0.00
18 12 0.05
19 71 0.28
20 33 0.13
21 48 0.19
22 40 0.16
23 9 0.04
24 2 0.01
25 1 0.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:20287835 original size:38 final size:38
Alignment explanation
Indices: 20287790--20287863 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
20287780 CATATAAAGT
20287790 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
*
20287828 TTATAAAAAAATTAAAAATCATTTTATTAAAAGTTT
1 TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTT
20287864 GGGTTTTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (38 bp):
TTATAAAAAAATTAAAAATCATTTCATTAAAAGTTTAA
Found at i:20288016 original size:15 final size:15
Alignment explanation
Indices: 20287975--20288016 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
20287965 GTTAACTTAT
*
20287975 TTAATTTTTATATAA
1 TTAAATTTTATATAA
*
20287990 TGTAACTTTTATATAA
1 T-TAAATTTTATATAA
20288006 TTAAATTTTAT
1 TTAAATTTTAT
20288017 TTGATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTAAATTTTATATAA
Found at i:20289416 original size:26 final size:26
Alignment explanation
Indices: 20289380--20289439 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
20289370 AGTACAATTG
*
20289380 GGGGAGATCCATGGGATGAGCAAGAA
1 GGGGAGGTCCATGGGATGAGCAAGAA
20289406 GGGGAGGTCCATGGGATGAGCAAGAA
1 GGGGAGGTCCATGGGATGAGCAAGAA
20289432 GGGGAGGT
1 GGGGAGGT
20289440 ATGGAGATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.30, C:0.10, G:0.48, T:0.12
Consensus pattern (26 bp):
GGGGAGGTCCATGGGATGAGCAAGAA
Found at i:20289675 original size:6 final size:6
Alignment explanation
Indices: 20289664--20289710 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
20289654 GCATCATGCA
* * *
20289664 CCAGAG CCAGAG CCAGGG CCAGAG CCAGAG CCAGAG CGAGAG GCAGA
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGA
20289711 ACTACATTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.32, C:0.30, G:0.38, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:20292895 original size:19 final size:19
Alignment explanation
Indices: 20292873--20293215 Score: 128
Period size: 19 Copynumber: 18.5 Consensus size: 19
20292863 ATTACAAAAT
*
20292873 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
*
20292892 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
*
20292914 TACAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
20292930 TACAACATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
20292945 -A-AAAAATATAATATTCA
1 TACAAAATTACAATATTCA
*
20292962 TACAAAATTACAA-AAT--
1 TACAAAATTACAATATTCA
*
20292978 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
20292993 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* *
20293011 TACAAAACTATAATATT-A
1 TACAAAATTACAATATTCA
*
20293029 TTACAATATT-C-ATA--CA
1 -TACAAAATTACAATATTCA
*
20293045 -A-AAAATTTATAATATTCA
1 TACAAAA-TTACAATATTCA
20293063 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
20293082 TACAAAAAATTACTA-ATCCAA
1 TAC--AAAATTACAATATTC-A
*
20293103 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
20293126 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
20293146 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
20293165 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
*
20293185 TACAAAAAATTTAAAATATTCA
1 TAC--AAAA-TTACAATATTCA
20293207 TACAAAATT
1 TACAAAATT
20293216 CTAAACTATA
Statistics
Matches: 240, Mismatches: 40, Indels: 88
0.65 0.11 0.24
Matches are distributed among these distances:
13 7 0.03
14 14 0.06
15 6 0.03
16 23 0.10
17 5 0.02
18 9 0.04
19 75 0.31
20 37 0.15
21 21 0.09
22 36 0.15
23 5 0.02
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:20292919 original size:49 final size:49
Alignment explanation
Indices: 20292865--20293079 Score: 310
Period size: 49 Copynumber: 4.3 Consensus size: 49
20292855 ACATAAAAAT
20292865 TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCA
1 TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCA
* *
20292914 TACAAAATTATAATATTACAACATTCATACAAAAAAATAT--AATATTCA
1 TACAAAATTACAATATTACAATATTCATACAAAAAAAT-TGCAATATTCA
*
20292962 TACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCA
1 TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCA
* **
20293011 TACAAAACTATA-ATATTATTACAATATTCATACAAAAAATTTATAATATTCA
1 TACAAAA-T-TACA-A-TATTACAATATTCATACAAAAAAATTGCAATATTCA
20293063 TACAAAATTACAATATT
1 TACAAAATTACAATATT
20293080 CATACAAAAA
Statistics
Matches: 149, Mismatches: 9, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
47 1 0.01
48 43 0.29
49 55 0.37
50 6 0.04
51 5 0.03
52 39 0.26
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (49 bp):
TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCA
Found at i:20292967 original size:97 final size:101
Alignment explanation
Indices: 20292865--20293079 Score: 366
Period size: 97 Copynumber: 2.2 Consensus size: 101
20292855 ACATAAAAAT
20292865 TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAA-T-T-ATAA
1 TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAA
20292927 TATTACAACATTCATACAAAAAA-ATATAATATTCA
66 TATTACAACATTCATACAAAAAATATATAATATTCA
* *
20292962 TACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAT
1 TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAA
* *
20293027 TATTACAATATTCATACAAAAAATTTATAATATTCA
66 TATTACAACATTCATACAAAAAATATATAATATTCA
20293063 TACAAAATTACAATATT
1 TACAAAATTACAATATT
20293080 CATACAAAAA
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
97 55 0.50
98 1 0.01
99 1 0.01
100 25 0.23
101 27 0.25
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (101 bp):
TACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATAATAA
TATTACAACATTCATACAAAAAATATATAATATTCA
Found at i:20293058 original size:22 final size:21
Alignment explanation
Indices: 20293028--20293213 Score: 133
Period size: 22 Copynumber: 9.0 Consensus size: 21
20293018 CTATAATATT
*
20293028 ATTACAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
20293049 ATTTATAATATTCATAC--AAA
1 A-TTATAATATTCATACAAAAA
*
20293069 ATTACAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
**
20293090 ATTACTAATCCAAAACTATA-AATACAA
1 ATTA-TAAT---ATTC-ATACAA-A-AA
*
20293117 ATT-T-A-ATT-ATA-AAATA
1 ATTATAATATTCATACAAAAA
* *
20293133 ATTACAATATTCATAC--AAC
1 ATTATAATATTCATACAAAAA
*
20293152 ATTACAATATTCATA-AAAAA
1 ATTATAATATTCATACAAAAA
20293172 ATTATAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
*
20293193 ATTTAAAATATTCATACAAAA
1 A-TTATAATATTCATACAAAA
20293214 TTCTAAACTA
Statistics
Matches: 132, Mismatches: 14, Indels: 37
0.72 0.08 0.20
Matches are distributed among these distances:
16 4 0.03
17 1 0.01
18 6 0.05
19 33 0.25
20 24 0.18
21 14 0.11
22 35 0.27
24 1 0.01
25 5 0.04
26 4 0.03
27 5 0.04
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTATAATATTCATACAAAAA
Found at i:20293073 original size:41 final size:41
Alignment explanation
Indices: 20293028--20293213 Score: 170
Period size: 41 Copynumber: 4.5 Consensus size: 41
20293018 CTATAATATT
20293028 ATTACAATATTCATACAAAAAATTTATAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAA
* * *
20293069 ATTACAATATTCATACAAAAAATTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTC-ATAC-AAAA
* * * *
20293111 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAA-AATTATAATATTCATACAAAA
20293152 ATTACAATATTCATA-AAAAAATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATAC-AAAA
*
20293193 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
20293214 TTCTAAACTA
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
39 19 0.16
40 12 0.10
41 38 0.33
42 30 0.26
43 14 0.12
44 3 0.03
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
Found at i:20293214 original size:83 final size:84
Alignment explanation
Indices: 20293033--20293214 Score: 198
Period size: 83 Copynumber: 2.2 Consensus size: 84
20293023 ATATTATTAC
*
20293033 AATATTCATACAAAA-AATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
1 AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
* *
20293097 ATCCAAAACTATAAATACA
66 ATCCAAAACAAAAAATACA
* * *
20293116 AAT-TTAATTATAAAATAA-TTACAATATTCATACAACATTACAATATTCATA-AAAAAATTA-T
1 AATATTCA-TACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACT
* *
20293177 AATATTC-ATACAAAAAATTTA-A
65 -A-ATCCAAAACAAAAAA--TACA
20293199 AATATTCATACAAAAT
1 AATATTCATACAAAAT
20293215 TCTAAACTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
81 1 0.01
82 20 0.24
83 54 0.66
84 7 0.09
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.32
Consensus pattern (84 bp):
AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAATATTCATACAAAAAATTACTA
ATCCAAAACAAAAAATACA
Found at i:20293422 original size:14 final size:13
Alignment explanation
Indices: 20293380--20293423 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
20293370 TTATAAACTT
*
20293380 TCTTCTTCTTCT-
1 TCTTCTCCTTCTC
20293392 TCTTCTCCTTCTCC
1 TCTTCTCCTTCT-C
20293406 TCTTCTCCTTTCTC
1 TCTTCTCC-TTCTC
20293420 TCTT
1 TCTT
20293424 TTTTTTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 11 0.39
14 13 0.46
15 4 0.14
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTCTCCTTCTC
Found at i:20294252 original size:3 final size:3
Alignment explanation
Indices: 20294244--20294280 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
20294234 TTTTCTACGG
20294244 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20294281 CAGACAACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:20298354 original size:14 final size:14
Alignment explanation
Indices: 20298335--20298363 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20298325 ACTTTTCTCA
20298335 GGGCTGCATCACTT
1 GGGCTGCATCACTT
20298349 GGGCTGCATCACTT
1 GGGCTGCATCACTT
20298363 G
1 G
20298364 TAACTTGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (14 bp):
GGGCTGCATCACTT
Found at i:20300884 original size:26 final size:25
Alignment explanation
Indices: 20300786--20300885 Score: 71
Period size: 26 Copynumber: 3.9 Consensus size: 25
20300776 TCCGGTTTTT
* *
20300786 AATAAACACAAAAAAATATTTTAAA
1 AATAAAAATAAAAAAATATTTTAAA
*
20300811 AATAAAAAATAAAAAAATATTTTTAA
1 AAT-AAAAATAAAAAAATATTTTAAA
* ***
20300837 AGT-ATTTTAAAATTTAAA-A-TTTAAA
1 AATAAAAATAAAA---AAATATTTTAAA
20300862 AATAAAAATAAAAAAATATATTTA
1 AATAAAAATAAAAAAATAT-TTTA
20300886 TTATATTCGG
Statistics
Matches: 55, Mismatches: 12, Indels: 15
0.67 0.15 0.18
Matches are distributed among these distances:
23 3 0.05
24 7 0.13
25 10 0.18
26 32 0.58
27 3 0.05
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (25 bp):
AATAAAAATAAAAAAATATTTTAAA
Found at i:20300994 original size:32 final size:31
Alignment explanation
Indices: 20300957--20301065 Score: 107
Period size: 31 Copynumber: 3.5 Consensus size: 31
20300947 TTTTTTAAAT
20300957 GGGCCTTATTTTTTTGCCAAAGCCCATATTTC
1 GGGCC-TATTTTTTTGCCAAAGCCCATATTTC
** **
20300989 GGGCCTATATTTTTACCCGAACCCTCCCATATTTC
1 GGGCCTAT-TTTTTTGCC-AA--AGCCCATATTTC
20301024 GGG---ATTTTTTTGCCAAAGCCCATATTTC
1 GGGCCTATTTTTTTGCCAAAGCCCATATTTC
*
20301052 GGGCCTATATTTTT
1 GGGCCTATTTTTTT
20301066 ACCCGAACCC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
28 13 0.21
30 2 0.03
31 17 0.28
32 14 0.23
33 2 0.03
35 13 0.21
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (31 bp):
GGGCCTATTTTTTTGCCAAAGCCCATATTTC
Found at i:20301024 original size:35 final size:35
Alignment explanation
Indices: 20300979--20301090 Score: 139
Period size: 35 Copynumber: 3.4 Consensus size: 35
20300969 TTTGCCAAAG
20300979 CCCATATTTCGGGCCTATATTTTTACCCGAACCCT
1 CCCATATTTCGGGCCTATATTTTTACCCGAACCCT
** **
20301014 CCCATATTTCGGG---AT-TTTTTTGCC-AA--AG
1 CCCATATTTCGGGCCTATATTTTTACCCGAACCCT
20301042 CCCATATTTCGGGCCTATATTTTTACCCGAACCCT
1 CCCATATTTCGGGCCTATATTTTTACCCGAACCCT
20301077 CCCATATTTCGGGC
1 CCCATATTTCGGGC
20301091 GGGCCGTCGG
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
28 13 0.21
30 2 0.03
31 9 0.15
32 9 0.15
33 2 0.03
35 27 0.44
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (35 bp):
CCCATATTTCGGGCCTATATTTTTACCCGAACCCT
Found at i:20301063 original size:63 final size:63
Alignment explanation
Indices: 20300964--20301089 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
20300954 AATGGGCCTT
20300964 ATTTTTTTGCCAAAGCCCATATTTCGGGCCTATATTTTTACCCGAACCCTCCCATATTTCGGG
1 ATTTTTTTGCCAAAGCCCATATTTCGGGCCTATATTTTTACCCGAACCCTCCCATATTTCGGG
20301027 ATTTTTTTGCCAAAGCCCATATTTCGGGCCTATATTTTTACCCGAACCCTCCCATATTTCGGG
1 ATTTTTTTGCCAAAGCCCATATTTCGGGCCTATATTTTTACCCGAACCCTCCCATATTTCGGG
20301090 CGGGCCGTCG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.37
Consensus pattern (63 bp):
ATTTTTTTGCCAAAGCCCATATTTCGGGCCTATATTTTTACCCGAACCCTCCCATATTTCGGG
Found at i:20315263 original size:19 final size:20
Alignment explanation
Indices: 20315239--20315284 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
20315229 AAAAAATAAA
*
20315239 TCAAAATAATTATTAAAA-T
1 TCAAAATAATTATAAAAATT
*
20315258 TCAAAATATTTATAAAAATT
1 TCAAAATAATTATAAAAATT
20315278 TCAAAAT
1 TCAAAAT
20315285 TCATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (20 bp):
TCAAAATAATTATAAAAATT
Found at i:20315331 original size:21 final size:20
Alignment explanation
Indices: 20315289--20315349 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
20315279 CAAAATTCAT
*
20315289 ATTTTTAAGAAAAATTATAAA
1 ATTTTTAA-AAAAATTAAAAA
*
20315310 ATTTTTAAAAAATTCTAAAAA
1 ATTTTTAAAAAAAT-TAAAAA
* * *
20315331 ATATATAAAAAAGTTAAAA
1 ATTTTTAAAAAAATTAAAA
20315350 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (20 bp):
ATTTTTAAAAAAATTAAAAA
Found at i:20325408 original size:17 final size:17
Alignment explanation
Indices: 20325386--20325454 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 17
20325376 CCAAATAAGT
20325386 AATAAATAATAAAATAA
1 AATAAATAATAAAATAA
20325403 AATAAAGTAAT-AAATAA
1 AATAAA-TAATAAAATAA
* * *
20325420 AGTAAAGAAAAAAATAAA
1 AATAAATAATAAAAT-AA
20325438 AATAAAT-A-AAAATAA
1 AATAAATAATAAAATAA
20325453 AA
1 AA
20325455 ATTGAGTTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.09
16 7 0.16
17 22 0.50
18 11 0.25
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AATAAATAATAAAATAA
Found at i:20325455 original size:17 final size:17
Alignment explanation
Indices: 20325378--20325455 Score: 57
Period size: 21 Copynumber: 4.1 Consensus size: 17
20325368 ATTAATATCC
*
20325378 AAATAAGTAATAAATAATA
1 AAATAAATAA-AAATAA-A
20325397 AAATAAAATAAAGTAATAAA
1 AAAT-AAATAAA--AATAAA
* *
20325417 TAAAGTAAAGAAAAAAATAA
1 -AAA-TAAATAAAAATA-AA
20325437 AAATAAATAAAAATAAA
1 AAATAAATAAAAATAAA
20325454 AA
1 AA
20325456 TTGAGTTGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
17 4 0.08
18 10 0.21
19 11 0.23
20 8 0.17
21 14 0.29
22 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATAAATAAAAATAAA
Found at i:20325456 original size:12 final size:11
Alignment explanation
Indices: 20325386--20325454 Score: 70
Period size: 12 Copynumber: 6.2 Consensus size: 11
20325376 CCAAATAAGT
20325386 AATAAATAATAA
1 AATAAA-AATAA
20325398 AAT-AAAATAA
1 AATAAAAATAA
*
20325408 AGTAATAAATAA
1 AATAA-AAATAA
* *
20325420 AGTAAAGAAAAA
1 AATAAA-AATAA
20325432 AATAAAAAT-A
1 AATAAAAATAA
20325442 AATAAAAATAA
1 AATAAAAATAA
20325453 AA
1 AA
20325455 ATTGAGTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
10 17 0.35
11 9 0.18
12 23 0.47
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:20329514 original size:16 final size:16
Alignment explanation
Indices: 20329477--20329516 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
20329467 TTGATAAAAT
* *
20329477 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
20329493 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
20329509 TAAAATTA
1 TAAAATTA
20329517 TTAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:20329549 original size:59 final size:63
Alignment explanation
Indices: 20329483--20329619 Score: 153
Period size: 66 Copynumber: 2.2 Consensus size: 63
20329473 AAATTAAAAC
*
20329483 TAATTGTTATTAAAAT-T-A-A-TTG-TTAGTAAAATTATTAAATTATTAATTG-TTAATTGTAT
1 TAATTGTTATTAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTG--T
**
20329542 TAATTGTTGTAACAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGTATTAATTG
1 TAATTG-T-TATTAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTG-ATTAATTG
20329607 T
63 T
20329608 TAATTG-TATTAA
1 TAATTGTTATTAA
20329620 TTGTTGTAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
59 6 0.09
60 1 0.02
61 7 0.11
62 1 0.02
63 5 0.08
64 1 0.02
65 3 0.05
66 33 0.52
68 7 0.11
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (63 bp):
TAATTGTTATTAAAATCTAACATTTGATTAGTAAAATTATCAAATTATTAATTGATTAATTGT
Found at i:20329601 original size:9 final size:9
Alignment explanation
Indices: 20329589--20329623 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
20329579 ATTATCAAAT
20329589 TATTAATTG
1 TATTAATTG
20329598 TATTAATTG
1 TATTAATTG
20329607 --TTAATTG
1 TATTAATTG
20329614 TATTAATTG
1 TATTAATTG
20329623 T
1 T
20329624 TGTAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.29
9 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:20329607 original size:75 final size:74
Alignment explanation
Indices: 20329511--20329650 Score: 262
Period size: 75 Copynumber: 1.9 Consensus size: 74
20329501 ATTGTTAGTA
20329511 AAATTATTAAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGT
1 AAATTATTAAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGT
20329576 AAAATTATC
66 AAAATTATC
*
20329585 AAATTATTAATTGTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAG
1 AAATTATTAAAT-TATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAG
20329650 T
65 T
20329651 TTACATTTTT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
74 11 0.17
75 53 0.83
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (74 bp):
AAATTATTAAATTATTAATTGTTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGT
AAAATTATC
Found at i:20329610 original size:16 final size:16
Alignment explanation
Indices: 20329586--20329624 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
20329576 AAAATTATCA
*
20329586 AATTATTAATTGTATT
1 AATTGTTAATTGTATT
20329602 AATTGTTAATTGTATT
1 AATTGTTAATTGTATT
20329618 AATTGTT
1 AATTGTT
20329625 GTAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTGTATT
Found at i:20330106 original size:9 final size:9
Alignment explanation
Indices: 20330089--20330129 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
20330079 TGAAGAAACC
20330089 TCGTCGTCA
1 TCGTCGTCA
*
20330098 TCATCGTCA
1 TCGTCGTCA
*
20330107 TCGTCCTCA
1 TCGTCGTCA
*
20330116 TCGTCGTAA
1 TCGTCGTCA
20330125 TCGTC
1 TCGTC
20330130 CTTTTTGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.15, C:0.34, G:0.17, T:0.34
Consensus pattern (9 bp):
TCGTCGTCA
Found at i:20332567 original size:7 final size:7
Alignment explanation
Indices: 20332555--20332579 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20332545 CTATTAGCAG
20332555 CTAACTA
1 CTAACTA
20332562 CTAACTA
1 CTAACTA
20332569 CTAACTA
1 CTAACTA
20332576 CTAA
1 CTAA
20332580 ACTATCGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CTAACTA
Found at i:20338995 original size:28 final size:29
Alignment explanation
Indices: 20338964--20339030 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
20338954 CCATTTGTAT
20338964 TATTTTTTAATTT-T-TTTAAAAATATTTA
1 TATTTTTTAATTTATATTTAAAAAT-TTTA
* *
20338992 TATTATTTAATTTAATATTTAATAATTTTA
1 TATTTTTTAATTT-ATATTTAAAAATTTTA
20339022 TATATTTTT
1 TAT-TTTTT
20339031 CTATTTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 12 0.38
30 8 0.25
31 12 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTTTAATTTATATTTAAAAATTTTA
Done.